Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1009
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1861391
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 223269 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:734640 original size:71 final size:71
Alignment explanation
Indices: 734515--734794 Score: 222
Period size: 71 Copynumber: 3.9 Consensus size: 71
734505 GTACTGCATG
* * * * * * * *
734515 TATGTACTGACAAACAGGTCTAGCTGAACAGTACCTATACACATTAGTTCTTGTGGTTTGTCAGT
1 TATGTACTGACAAAAAGTTCTACCCGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTAAGT
734580 TACATA
66 TACATA
* *
734586 TACT-TACTGACAAAAAGTTCTACCCGAATAGTACATGTAGACATTAGTTGTTGTGGTTTGTAAG
1 TA-TGTACTGACAAAAAGTTCTACCCGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTAAG
* *
734650 TTATATG
65 TTACATA
** * ** * * ** *
734657 TATGTACTGACAAACGGTTCTACCTGAACAGTATTTGTAGACATTACTTCCTT-TTGTGCGTTAG
1 TATGTACTGACAAAAAGTTCTACCCGAACAGTACATGTAGACATTAGTT-CTTGTGGTTTGTAAG
* *
734721 TTATATG
65 TTACATA
* ** * * * * * * *
734728 TACGTTTTGACAAACAGTCCTACCTGAACAATACCTATAGACATTAGTTTTTGTGGTTTGTAAGT
1 TATGTACTGACAAAAAGTTCTACCCGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTAAGT
734793 TA
66 TA
734795 AACGGTACAA
Statistics
Matches: 166, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
70 3 0.02
71 160 0.96
72 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (71 bp):
TATGTACTGACAAAAAGTTCTACCCGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTAAGT
TACATA
Found at i:734895 original size:126 final size:131
Alignment explanation
Indices: 734541--735332 Score: 445
Period size: 137 Copynumber: 5.8 Consensus size: 131
734531 GGTCTAGCTG
* * * * * * * * * *
734541 AACAGTACCTATACACATTAGTTCTTGTGGTTTGTCAGTTACATATACTTACTGACAAAAAGTTC
1 AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
* * * *
734606 TACCCGAATAGTACATGTAGACATTAGTTGTTGTGGTTTGTAAGTTATATGTATGTACTGACAAA
66 TACCTGAACAGTAC-TGTAGACATTAGTTCTTGTGGTTTGTAAGTTA-A---ACG-ACTGAC-AA
* *
734671 CGGTTCTACCTG
124 CAG---TA-CTA
** ** * *** * * * ** *
734683 AACAGTATTTGTAGACATTACTTCCTTTTG-TGCGTTAGTTATATGTACGTTTTGACAAACAGTC
1 AACAGTACCTGTAGACATTAGGT-CTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTA
* * * *
734747 CTACCTGAACAATACCTATAGACATTAGTTTTTGTGGTTTGTAAGTTAAACG-GT-AC-A-A-T-
65 CTACCTGAACAGTA-CTGTAGACATTAGTTCTTGTGGTTTGTAAGTTAAACGACTGACAACAGTA
*
734806 CTG
129 CTA
* *
734809 AACAGTACCTGTAGACATTAGGTCTTGTTATTTGTCAGATACATGTACGTACTGACAAACAGTAC
1 AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
* * *
734874 TACATGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAACAGT
66 TACCTGAACAGTAC-TGTAGACATTAGTTCTTGTGGTTTGTAAGTTAAACG-ACTGAC-AACAGT
734939 AAAACTA
128 ---ACTA
** * * * * *
734946 AACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGACAAACAGTAC
1 AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
* * * ** *
735011 TACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCACTTATACGTTTTGTCAAACAGT
66 TACCTGAACAGTA-CTGTAGACATTAGTTCTTGTGGTTTGTAAGTTAAACG-ACTGAC-AACAGT
*
735076 AAAACTG
128 ---ACTA
** * * * * * *
735083 AACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAG-T---TATACGTACTGACAAACAGTAA
1 AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
* * * * *
735144 AACCTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATATGTACGTACTGACAAA
66 TACCTGAACAGTA-CTGTAGACATTAGTTCTTGTGGTTTGTAAGTTA-A---ACG-ACTGAC-AA
*
735209 CAGAACTACCTG
124 CAG---TA-CTA
* * ** * * * * * * * *
735221 AACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGTTATATGAACGTACTTAAAAACAGTTC
1 AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
*
735286 TACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTA
66 TACCTGAACAGTA-CTGTAGACATTAGTTCTTGTGGTTTGTAAGTTA
735333 TCTGTTATAT
Statistics
Matches: 532, Mismatches: 90, Indels: 56
0.78 0.13 0.08
Matches are distributed among these distances:
125 5 0.01
126 92 0.17
128 2 0.00
129 2 0.00
131 1 0.00
132 1 0.00
133 63 0.12
135 2 0.00
136 2 0.00
137 172 0.32
138 39 0.07
139 1 0.00
140 1 0.00
141 1 0.00
142 142 0.27
143 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (131 bp):
AACAGTACCTGTAGACATTAGGTCTTGTGATTTATCAGATACATGTACGTACTGACAAACAGTAC
TACCTGAACAGTACTGTAGACATTAGTTCTTGTGGTTTGTAAGTTAAACGACTGACAACAGTACT
A
Found at i:735044 original size:71 final size:70
Alignment explanation
Indices: 734806--735333 Score: 639
Period size: 71 Copynumber: 7.6 Consensus size: 70
734796 ACGGTACAAT
* * ** * *
734806 CTGAACAGTACCTGTAGACATTAGGTCTTGTTATTTGTCAGATACATGTACGTACTGACAAACAG
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATG-ACGTACTGACAAACAG
734871 TACTAC
65 TACTAC
*
734877 ATGAACAGTA-CATGTAGACATTAGTTCTTGTGGTTTGTCAG-T-TAT-ACGTACTGACAAACAG
1 CTGAACAGTATC-TGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAG
* *
734938 TA-AAA
65 TACTAC
* * *
734943 CTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGACAAACAG
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATAT-GACGTACTGACAAACAG
735008 TACTAC
65 TACTAC
* ** *
735014 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA-CT-TAT-ACGTTTTGTCAAACAGT
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAGT
* *
735076 A-AAA
66 ACTAC
* *
735080 CTGAACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAG-T-TAT-ACGTACTGACAAACAGT
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAGT
**
735142 AAAAC
66 ACTAC
* * *
735147 CTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATATGTACGTACTGACAAACAG
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATG-ACGTACTGACAAACAG
*
735212 AACTAC
65 TACTAC
* ** * *
735218 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGTTATATGAACGTACTTAAAAACAG
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATG-ACGTACTGACAAACAG
*
735283 TTCTAC
65 TACTAC
735289 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
1 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
735334 CTGTTATATA
Statistics
Matches: 396, Mismatches: 48, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
66 95 0.24
67 74 0.19
68 4 0.01
69 8 0.02
70 21 0.05
71 194 0.49
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (70 bp):
CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAGT
ACTAC
Found at i:735059 original size:137 final size:136
Alignment explanation
Indices: 734806--735333 Score: 679
Period size: 137 Copynumber: 3.8 Consensus size: 136
734796 ACGGTACAAT
** * ** * *
734806 CTGAACAGTACCTGTAGACATTAGGTCTTGTTATTTGTCAGATACATGTACGTACTGACAAACAG
1 CTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATG-ACGTACTGACAAACAG
*
734871 TACTACATGAACAGTA-CATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAA
65 TACTACCTGAACAGTATC-TGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAA
734935 CAGTAAAA
129 CAGTAAAA
* *
734943 CTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGACAAACAG
1 CTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATAT-GACGTACTGACAAACAG
* ** *
735008 TACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCACTTATACGTTTTGTCAAAC
65 TACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAAC
735073 AGTAAAA
130 AGTAAAA
*
735080 CTGAACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAG-T-TAT-ACGTACTGACAAACAGT
1 CTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAGT
** * * *
735142 AAAACCTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATATGTACGTACTGACA
66 ACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAG-T-TA--TACGTACTGACA
*
735207 AACAG-AACTAC
127 AACAGTAA--AA
* * ** * *
735218 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGTTATATGAACGTACTTAAAAACAG
1 CTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATG-ACGTACTGACAAACAG
*
735283 TTCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
65 TACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
735334 CTGTTATATA
Statistics
Matches: 339, Mismatches: 40, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
133 57 0.17
134 1 0.00
135 5 0.01
136 3 0.01
137 171 0.50
138 40 0.12
139 1 0.00
140 5 0.01
141 1 0.00
142 55 0.16
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (136 bp):
CTGAACAGTATTTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATATGACGTACTGACAAACAGT
ACTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAACA
GTAAAA
Found at i:735210 original size:204 final size:206
Alignment explanation
Indices: 734806--735333 Score: 686
Period size: 204 Copynumber: 2.6 Consensus size: 206
734796 ACGGTACAAT
* * ** ** * * * *
734806 CTGAACAGTACCTGTAGACATTAGGTCTTGTTATTTGTCAGATACATGTACGTACTGACAAACAG
1 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGCTATAT-AACGTACTTACAAACAG
** *
734871 TACTACATGAACAGTACATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAAC
65 TAAAAC-TGAACAGTATATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAAC
734936 AGTAAAACTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGA
129 AGTAAAACTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGA
*
735001 CAAACAGTACTAC
194 CAAACAGAACTAC
* ** * *
735014 CTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCA-CT-TAT-ACGT-TTTGTCAAACAG
1 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGCTATATAACGTACTT-ACAAACAG
* *
735075 TAAAACTGAACAGTATTTGTAGACGTTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAACA
65 TAAAACTGAACAGTATATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAACA
* * * * *
735140 GTAAAACCTGAACAGTATTTGTAGATATTGGTTCTTGTGGTTTGTCAGTTATATGTACGTACTGA
130 GTAAAA-CTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGA
735205 CAAACAGAACTAC
194 CAAACAGAACTAC
* *
735218 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGTTATATGAACGTACTTAAAAACAG
1 CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGCTATAT-AACGTACTTACAAACAG
** * *
735283 TTCTACCTGAACAGTATCTGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
65 -TAAAACTGAACAGTATATGTAGACATTAGTTCTTGTGGTTTGTCAGTTAT
735334 CTGTTATATA
Statistics
Matches: 280, Mismatches: 32, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
203 63 0.22
204 117 0.42
205 1 0.00
206 5 0.02
207 1 0.00
208 46 0.16
209 47 0.17
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (206 bp):
CTGAACAGTATCTGTAGACATTAGCTCCCGTGGTTTGTCAGCTATATAACGTACTTACAAACAGT
AAAACTGAACAGTATATGTAGACATTAGTTCTTGTGGTTTGTCAGTTATACGTACTGACAAACAG
TAAAACTAAACAGTATTTGTAGACATTAGTTCTTGTGGTTTATCAGTTATATGGACGTACTGACA
AACAGAACTAC
Found at i:736110 original size:112 final size:112
Alignment explanation
Indices: 735980--736345 Score: 368
Period size: 112 Copynumber: 3.4 Consensus size: 112
735970 GTTGTAATTC
* *
735980 ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATCCCGGTATTCTAAGTTTCTGCACCATT
1 ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATCCTGGTATTCTAA-TTTCTGCACCATG
* *
736045 TTG-T-TGTTATATTGTAGATGGTGATATATTGTACTATACTGTTATGT
65 TTGTTATGTTATATTGTGGATGGTGATAAATTGTACTATACTG-TATGT
* * *
736092 ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATTCTGATATTCTAAATTTCTGCATCATG
1 ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATCCTGGTATTCT-AATTTCTGCACCATG
* * ** * * *
736157 TTGTTGTGTTATTTTGTGGATTCTGATAAATTGCACTACA-TGCA---
65 TTGTTATGTTATATTGTGGATGGTGATAAATTGTACTATACTGTATGT
* ** * * *
736201 ATTCTGTTAAATGTTTTTATATCGTACTA-TGTGTTATAT-CTTG-A-T-T--TTTC--CACCCT
1 ATTCTGGT--ATGTTGATATATCGTACTATTTTGTTATATCCTGGTATTCTAATTTCTGCACCAT
736257 GTTGTTATGTTATATTGTGGATGGTGATAAATTGTACTATACTGT-TGT
64 GTTGTTATGTTATATTGTGGATGGTGATAAATTGTACTATACTGTATGT
* **
736305 ATTCTGGTTTGTTTTTATATCGTACTATTTTGTTATATCCT
1 ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATCCT
736346 AGTGTTCTGC
Statistics
Matches: 212, Mismatches: 31, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
101 39 0.18
102 20 0.09
103 13 0.06
104 9 0.04
106 1 0.00
107 1 0.00
108 1 0.00
109 9 0.04
110 9 0.04
111 17 0.08
112 61 0.29
113 5 0.02
114 27 0.13
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (112 bp):
ATTCTGGTATGTTGATATATCGTACTATTTTGTTATATCCTGGTATTCTAATTTCTGCACCATGT
TGTTATGTTATATTGTGGATGGTGATAAATTGTACTATACTGTATGT
Found at i:740064 original size:2 final size:2
Alignment explanation
Indices: 740057--740098 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
740047 ATAAACAAGG
740057 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
740099 TTTTACAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:742589 original size:2 final size:2
Alignment explanation
Indices: 742584--742636 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
742574 AATACAACAC
742584 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
742626 AG AG -G AG AG AG
1 AG AG AG AG AG AG
742637 TACCTTTGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:749403 original size:25 final size:25
Alignment explanation
Indices: 749375--749433 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
749365 CCAAAAAGAG
*
749375 ATAAAAAACA-AAACCAAACGAAATA
1 ATAAAAAACAGAAACAAAACGAAA-A
749400 ATAAAAAA-AGTAAACAAAACGAAAA
1 ATAAAAAACAG-AAACAAAACGAAAA
*
749425 AAAAAAAAC
1 ATAAAAAAC
749434 CCCCAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 16 0.55
26 12 0.41
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (25 bp):
ATAAAAAACAGAAACAAAACGAAAA
Found at i:749406 original size:26 final size:24
Alignment explanation
Indices: 749377--749433 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
749367 AAAAAGAGAT
*
749377 AAAAAACAAAACCAAACGAAATAATA
1 AAAAAACAAAACAAAACGAAA-AA-A
**
749403 AAAAAAGTAAACAAAACGAAAAAA
1 AAAAAACAAAACAAAACGAAAAAA
749427 AAAAAAC
1 AAAAAAC
749434 CCCCAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.26
25 2 0.07
26 18 0.67
ACGTcount: A:0.77, C:0.12, G:0.05, T:0.05
Consensus pattern (24 bp):
AAAAAACAAAACAAAACGAAAAAA
Found at i:749577 original size:43 final size:42
Alignment explanation
Indices: 749518--749884 Score: 428
Period size: 43 Copynumber: 8.6 Consensus size: 42
749508 AAATATTTTT
**
749518 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATT
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAG-AAAAG
* **
749561 ATCTCGTAATTACGAGAGAAGATCTCGTTATTACGAGTAAATT
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAG-AAAAG
* * *
749604 ATCTCGTAATAACGAGAAAAGATCTCGTAATAACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
* * ** *
749646 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAG
1 ATCTCGTAATTACGAG-AAAAGATCTCGTTATTACGAGAAAAG
* * **
749689 ATCTCGTAATAACGAGAAAAGATCTCGTTATTACGAGTTAATT
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAG-AAAAG
* *
749732 ATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
* **
749774 ATCTCGTTATTACGAGTAAATTATCTCGTTATTACGAGAAAAG
1 ATCTCGTAATTACGAG-AAAAGATCTCGTTATTACGAGAAAAG
* **
749817 ATCTCGTTATTACGAGATAATTATCTCGTTATTACGAGAAAAG
1 ATCTCGTAATTACGAGA-AAAGATCTCGTTATTACGAGAAAAG
* * *
749860 ATCTCGTTAGTAAGAGAAAAGATCT
1 ATCTCGTAATTACGAGAAAAGATCT
749885 ACATAAAATG
Statistics
Matches: 283, Mismatches: 37, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
42 58 0.20
43 225 0.80
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (42 bp):
ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
Found at i:749597 original size:64 final size:64
Alignment explanation
Indices: 749518--749884 Score: 513
Period size: 64 Copynumber: 5.7 Consensus size: 64
749508 AAATATTTTT
* ** * ** * *
749518 ATCTCGTAATTACGAG-AAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAGAAG
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAG-AAAAGATCTCGTAATAACGAGAAAAG
*
749582 ATCTCGTTATTACGAGTAAATTATCTCGTAATAACGAGAAAAGATCTCGTAATAACGAGAAAAG
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
*
749646 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
*
749710 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
* * * **
749774 ATCTCGTTATTACGAGTAAATTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGATAATT
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGA-AAAG
** * * *
749839 ATCTCGTTATTACGAG-AAAAGATCTCGTTAGTAAGAGAAAAGATCT
1 ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCT
749885 ACATAAAATG
Statistics
Matches: 280, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
64 245 0.88
65 35 0.12
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (64 bp):
ATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAGAAAAG
Found at i:749704 original size:107 final size:106
Alignment explanation
Indices: 749516--749868 Score: 483
Period size: 107 Copynumber: 3.3 Consensus size: 106
749506 AAAAATATTT
*
749516 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAGAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAA
** * *
749581 GATCTCGTTATTACGAGTAAATTATCTCGTAATAACGAGAAA
66 GATCTCGTTATTACGAG-AAAAGATCTCGTTATTACGAGAAA
** * *
749623 AGATCTCGTAATAACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAA
* * *
749688 GATCTCGTAATAACGAGAAAAGATCTCGTTATTACGAGTTAA
66 GATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAG-AAA
* * ** *
749730 TTATCTCGTAATTACGAGAAAAGATCTCGTAATAACGAG-AAAAGATCTCGTTATTACGAGTAAA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAG-AAA
**
749794 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGATAA
65 AGATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGA-AA
*
749837 TTATCTCGTTATTACGAGAAAAGATCTCGTTA
1 TTATCTCGTAATTACGAGAAAAGATCTCGTTA
749869 GTAAGAGAAA
Statistics
Matches: 215, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
106 34 0.16
107 181 0.84
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (106 bp):
TTATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTAAATTATCTCGTAATTACGAGAAAA
GATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGAAA
Found at i:750867 original size:25 final size:25
Alignment explanation
Indices: 750839--750891 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
750829 TGTCCTGATC
750839 TCGCCGTCTGTCGGAGATTCCGTGG
1 TCGCCGTCTGTCGGAGATTCCGTGG
*
750864 TCGCCGTTTGTCGGAGATTCCGTGG
1 TCGCCGTCTGTCGGAGATTCCGTGG
750889 TCG
1 TCG
750892 TGACAAGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.08, C:0.26, G:0.36, T:0.30
Consensus pattern (25 bp):
TCGCCGTCTGTCGGAGATTCCGTGG
Found at i:758278 original size:2 final size:2
Alignment explanation
Indices: 758271--758319 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
758261 CGGATGACTG
758271 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
758313 GA GA GA G
1 GA GA GA G
758320 CATATCTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:765714 original size:23 final size:23
Alignment explanation
Indices: 765684--765730 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
765674 CTTTTCCCCC
765684 CTTAAGCTATGATAAAAAATCTT
1 CTTAAGCTATGATAAAAAATCTT
*
765707 CTTAAGCTATGATAATAAATCTT
1 CTTAAGCTATGATAAAAAATCTT
765730 C
1 C
765731 AACATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (23 bp):
CTTAAGCTATGATAAAAAATCTT
Found at i:769633 original size:16 final size:16
Alignment explanation
Indices: 769608--769643 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
769598 TGAAACGCTA
769608 TTTTCATACAGAACTG
1 TTTTCATACAGAACTG
*
769624 TTTTCCTACAGAACTG
1 TTTTCATACAGAACTG
769640 TTTT
1 TTTT
769644 TGGCATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (16 bp):
TTTTCATACAGAACTG
Found at i:773974 original size:2 final size:2
Alignment explanation
Indices: 773962--774027 Score: 50
Period size: 2 Copynumber: 33.5 Consensus size: 2
773952 TTGATCGGCT
* *
773962 TA TA TA T- TA TA TA TA GCA TA CTT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
774005 -A TA TA CA TA -A TA -A TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA T-A TA T
774028 CGTTATCACG
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
1 4 0.08
2 43 0.84
3 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:776830 original size:2 final size:2
Alignment explanation
Indices: 776823--776858 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
776813 ATCTTTATTA
776823 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
776859 GTATTGCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:776926 original size:4 final size:4
Alignment explanation
Indices: 776919--776949 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
776909 TTTCTATCAT
776919 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
776950 TTGTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:791947 original size:12 final size:12
Alignment explanation
Indices: 791930--791955 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
791920 GTTTGCCATA
791930 TTTTCAATGAAG
1 TTTTCAATGAAG
791942 TTTTCAATGAAG
1 TTTTCAATGAAG
791954 TT
1 TT
791956 CTAACGGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTCAATGAAG
Found at i:798364 original size:20 final size:20
Alignment explanation
Indices: 798339--798698 Score: 371
Period size: 20 Copynumber: 18.0 Consensus size: 20
798329 TAAGGGCTTT
*
798339 GCCCAGACCCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798359 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798379 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798399 GCCCAGAC-CCCTTGCCTACA
1 GCCCAGACTCCC-TGCCTACA
** *
798419 GCTTAGACTCCCTGCCTACG
1 GCCCAGACTCCCTGCCTACA
798439 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798459 GCCCAGAC-CCCATGCCTACA
1 GCCCAGACTCCC-TGCCTACA
798479 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
* ** * * * *
798499 -ACTGGTGCTCCTCTAACTTTAAA
1 GCCCAG-ACTCC-CT-GC-CTACA
* ** *
798522 TCCTGGATTCACC--CC-ATCA
1 GCCCAGACTC-CCTGCCTA-CA
**
798541 --TTAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
*
798559 GCCCAGACCCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798579 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798599 GCCCAGAC-CCCTTGCCTACA
1 GCCCAGACTCCC-TGCCTACA
** *
798619 GCTTAGACTCCCTGCCTACG
1 GCCCAGACTCCCTGCCTACA
798639 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798659 GCCCAGAC-CCCATGCCTACA
1 GCCCAGACTCCC-TGCCTACA
798679 GCCCAGACTCCCTGCCTACA
1 GCCCAGACTCCCTGCCTACA
798699 ACTGGTGCTC
Statistics
Matches: 288, Mismatches: 32, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.01
17 5 0.02
18 5 0.02
19 16 0.06
20 234 0.81
21 14 0.05
22 1 0.00
23 6 0.02
24 5 0.02
ACGTcount: A:0.21, C:0.47, G:0.15, T:0.17
Consensus pattern (20 bp):
GCCCAGACTCCCTGCCTACA
Found at i:798547 original size:100 final size:100
Alignment explanation
Indices: 798443--798743 Score: 368
Period size: 100 Copynumber: 3.0 Consensus size: 100
798433 CCTACGGCCC
798443 AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACAACTGGTGCT
1 AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACAACTGGTGCT
798508 CCTCTAACTTTAAATCCTGGATTCACCCCATCATT
66 CCTCTAACTTTAAATCCTGGATTCACCCCATCATT
* * ** *
798543 AGACTCCCTGCCTACAGCCCAGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAG-AC
1 AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACA-ACTGGTGC
* * ** *
798607 CCCTTGCCTACAGC-TTAGACTCCCT-GCCT-ACGGCC--C---
65 TCC-T--CTA-A-CTTTA-AAT-CCTGGATTCAC-CCCATCATT
798643 AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACAACTGGTGCT
1 AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACAACTGGTGCT
798708 CCTCTAACTTTAAATCCTGGATTCACCCCATCATT
66 CCTCTAACTTTAAATCCTGGATTCACCCCATCATT
798743 A
1 A
798744 AATTATATTT
Statistics
Matches: 163, Mismatches: 20, Indels: 36
0.74 0.09 0.16
Matches are distributed among these distances:
94 3 0.02
95 7 0.04
96 6 0.04
97 4 0.02
99 3 0.02
100 117 0.72
101 3 0.02
103 4 0.02
104 6 0.04
105 7 0.04
106 3 0.02
ACGTcount: A:0.22, C:0.44, G:0.14, T:0.21
Consensus pattern (100 bp):
AGACTCCCTGCCTACAGCCCAGACCCCATGCCTACAGCCCAGACTCCCTGCCTACAACTGGTGCT
CCTCTAACTTTAAATCCTGGATTCACCCCATCATT
Found at i:798691 original size:200 final size:200
Alignment explanation
Indices: 798343--798743 Score: 784
Period size: 200 Copynumber: 2.0 Consensus size: 200
798333 GGCTTTGCCC
*
798343 AGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACC
1 AGACCCCCTGCCTACAGCCCAGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACC
798408 CCTTGCCTACAGCTTAGACTCCCTGCCTACGGCCCAGACTCCCTGCCTACAGCCCAGACCCCATG
66 CCTTGCCTACAGCTTAGACTCCCTGCCTACGGCCCAGACTCCCTGCCTACAGCCCAGACCCCATG
798473 CCTACAGCCCAGACTCCCTGCCTACAACTGGTGCTCCTCTAACTTTAAATCCTGGATTCACCCCA
131 CCTACAGCCCAGACTCCCTGCCTACAACTGGTGCTCCTCTAACTTTAAATCCTGGATTCACCCCA
798538 TCATT
196 TCATT
*
798543 AGACTCCCTGCCTACAGCCCAGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACC
1 AGACCCCCTGCCTACAGCCCAGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACC
798608 CCTTGCCTACAGCTTAGACTCCCTGCCTACGGCCCAGACTCCCTGCCTACAGCCCAGACCCCATG
66 CCTTGCCTACAGCTTAGACTCCCTGCCTACGGCCCAGACTCCCTGCCTACAGCCCAGACCCCATG
798673 CCTACAGCCCAGACTCCCTGCCTACAACTGGTGCTCCTCTAACTTTAAATCCTGGATTCACCCCA
131 CCTACAGCCCAGACTCCCTGCCTACAACTGGTGCTCCTCTAACTTTAAATCCTGGATTCACCCCA
798738 TCATT
196 TCATT
798743 A
1 A
798744 AATTATATTT
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.21, C:0.45, G:0.14, T:0.19
Consensus pattern (200 bp):
AGACCCCCTGCCTACAGCCCAGACCCCCTGCCTACAGCCCAGACTCCCTGCCTACAGCCCAGACC
CCTTGCCTACAGCTTAGACTCCCTGCCTACGGCCCAGACTCCCTGCCTACAGCCCAGACCCCATG
CCTACAGCCCAGACTCCCTGCCTACAACTGGTGCTCCTCTAACTTTAAATCCTGGATTCACCCCA
TCATT
Found at i:799048 original size:43 final size:43
Alignment explanation
Indices: 798979--799065 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
798969 TATATTAATA
*
798979 AATCTTGGTTTAGGCCATACCAATTTGATTTCTTGGTCTTCTG
1 AATCTTGGTTTAGGCCACACCAATTTGATTTCTTGGTCTTCTG
* * *
799022 AATCTTGGTTTAGGCCACATCTATTTGATTTCTTTGTCTTCTG
1 AATCTTGGTTTAGGCCACACCAATTTGATTTCTTGGTCTTCTG
799065 A
1 A
799066 CTAAGCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (43 bp):
AATCTTGGTTTAGGCCACACCAATTTGATTTCTTGGTCTTCTG
Found at i:807366 original size:41 final size:40
Alignment explanation
Indices: 807320--807401 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 40
807310 TTTACTCTAT
*
807320 TACCAGCATTTTCCAGTTTTCATAAAATTCAGTAGCTTTC
1 TACCAGCATTTTCCAGTTTTCATAAAATGCAGTAGCTTTC
807360 TNACCAGCATTTTCCAGTTTTCATAAAATGCAGTAGCTTTC
1 T-ACCAGCATTTTCCAGTTTTCATAAAATGCAGTAGCTTTC
807401 T
1 T
807402 TTTAATTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (40 bp):
TACCAGCATTTTCCAGTTTTCATAAAATGCAGTAGCTTTC
Found at i:810487 original size:28 final size:28
Alignment explanation
Indices: 810455--810508 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
810445 ACAAGCAAGT
*
810455 ATTAAGAAATAAGTAGTAAGTATTAAGA
1 ATTAAGAAATAACTAGTAAGTATTAAGA
*
810483 ATTAATAAATAACTAGTAAGTATTAA
1 ATTAAGAAATAACTAGTAAGTATTAA
810509 AAAACAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.31
Consensus pattern (28 bp):
ATTAAGAAATAACTAGTAAGTATTAAGA
Found at i:810502 original size:21 final size:21
Alignment explanation
Indices: 810478--810522 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
810468 TAGTAAGTAT
* * *
810478 TAAGAATTAATAAATAACTAG
1 TAAGAATTAAAAAACAACAAG
*
810499 TAAGTATTAAAAAACAACAAG
1 TAAGAATTAAAAAACAACAAG
810520 TAA
1 TAA
810523 TAAGTACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (21 bp):
TAAGAATTAAAAAACAACAAG
Found at i:823855 original size:26 final size:25
Alignment explanation
Indices: 823822--823874 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
823812 GATTGTCATT
* ** *
823822 TTGGGATACTTCAGGGGTTTATCAC
1 TTGGGATAATTCAAAGGTCTATCAC
823847 TTGGAGATAATTCAAAGGTCTATCAC
1 TTGG-GATAATTCAAAGGTCTATCAC
823873 TT
1 TT
823875 AAAGAAGCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (25 bp):
TTGGGATAATTCAAAGGTCTATCAC
Found at i:831977 original size:4 final size:4
Alignment explanation
Indices: 831968--831999 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
831958 CTCTCACTCT
831968 GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA
832000 AATCCATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
GATA
Found at i:839425 original size:40 final size:40
Alignment explanation
Indices: 839370--839591 Score: 410
Period size: 40 Copynumber: 5.5 Consensus size: 40
839360 TACATTAATG
839370 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
1 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
*
839410 TAGGTACATGATACAGTATTATGGAT-GCTGTATCTATATA
1 TAGGTACATGATACAGTATTATGG-TGGTTGTATCTATATA
839450 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
1 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
839490 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
1 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
*
839530 TAGGTACATGATACAGTATTATGGTGGGTGTATCTATATA
1 TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
839570 TAGGTACATGATACAGTATTAT
1 TAGGTACATGATACAGTATTAT
839592 NNNNNNNNNN
Statistics
Matches: 177, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
39 1 0.01
40 175 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (40 bp):
TAGGTACATGATACAGTATTATGGTGGTTGTATCTATATA
Found at i:840636 original size:40 final size:40
Alignment explanation
Indices: 840592--840830 Score: 424
Period size: 40 Copynumber: 6.0 Consensus size: 40
840582 ATGTACATTA
840592 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
* *
840632 ATATATGTACATGATACAGTATTATGATGGTTGTATCTAT
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
*
840672 ATATAAGTACATGATACAGTATTATGGTGGTTGTATCTAT
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
*
840712 ATATAGGTACATGATACAGTATTATGGTGGTTGCATCTAT
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
* *
840752 ATATAGGTACATGATACAGTATTCTGGTGGCTGTATCTAT
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
840792 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTA
1 ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTA
840831 GGAAGCTAAG
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 188 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (40 bp):
ATATAGGTACATGATACAGTATTATGGTGGTTGTATCTAT
Found at i:841190 original size:39 final size:38
Alignment explanation
Indices: 841147--842077 Score: 614
Period size: 39 Copynumber: 23.8 Consensus size: 38
841137 TTAGTAATAT
* * *
841147 TTTGGGATAATGGTATTTATATTAGAGGGAAAGTACTGA
1 TTTGGG-TAATGGTATTTATATTAGAGGGATAGTAATGC
** * * *
841186 TTTGGAAAAATAGTATTTATATAAGAGGGATGGTAATGC
1 TTTGG-GTAATGGTATTTATATTAGAGGGATAGTAATGC
* * *
841225 TTTGCAGTAATGGTATTAATATTAGAGGGATGGTAATGC
1 TTTG-GGTAATGGTATTTATATTAGAGGGATAGTAATGC
*
841264 TTTGCGGTAGTGGTATTTATATTAGAGGGATAGTAATG-
1 TTTG-GGTAATGGTATTTATATTAGAGGGATAGTAATGC
* * **
841302 TTTGGGGTAATGATATCTATATTAG-GGGTATAGTAATAT
1 TTT-GGGTAATGGTATTTATATTAGAGGG-ATAGTAATGC
* * * ** *
841341 TTTAAGGCAATGGTATTCATACCAG-GGGTATAGTTATAT-T
1 TTT-GGGTAATGGTATTTATATTAGAGGG-ATAG-TA-ATGC
* *
841381 TTTGGGTAATGGTATTCATATCT-GAGTGATAGTAATGC
1 TTTGGGTAATGGTATTTATAT-TAGAGGGATAGTAATGC
** *
841419 TTTAGAATAATGGTATTTATATTAGAGGGATGATATATATAATGC
1 TTT-GGGTAATGGTATTTATATTAGA-GG--G--ATA-GTAATGC
* * * * *
841464 TTTGCGGTAATGGTATTTTTGTAAGAGGGATGGTAATGT
1 TTTG-GGTAATGGTATTTATATTAGAGGGATAGTAATGC
* * *
841503 TTTGGGGGAATGGTATTTATATTAGAGGGATGGTAATGT
1 TTT-GGGTAATGGTATTTATATTAGAGGGATAGTAATGC
* * * **
841542 TTTGGGGTAATGTTATTTAAATCAG-GGGTATAGTAATATT
1 TTT-GGGTAATGGTATTTATATTAGAGGG-ATAGTAAT-GC
* ** * *
841582 TTTGGGTAATGGTATTCATATCCGAGGAATAGTTATGC
1 TTTGGGTAATGGTATTTATATTAGAGGGATAGTAATGC
* *
841620 TTTGGAATAATGGTGTTTATATTAGAGGGA-AGGTAATGC
1 TTTGG-GTAATGGTATTTATATTAGAGGGATA-GTAATGC
* * * * *
841659 TTTACGGTAATGGTATTAATATTAGAGGGATGGTCATGT
1 TTT-GGGTAATGGTATTTATATTAGAGGGATAGTAATGC
841698 TTTGGGGGTAATGGTATTTATATTAGAGGGATAGTAATG-
1 TTT--GGGTAATGGTATTTATATTAGAGGGATAGTAATGC
* **
841737 TTTGGGGTAATGGTATTTATATCAG-GGGTATAGTAATATT
1 TTT-GGGTAATGGTATTTATATTAGAGGG-ATAGTAAT-GC
* * *
841777 TTTGGGTAATGGTATTTATATCCA-AGGGATATTCATGC
1 TTTGGGTAATGGTATTTATAT-TAGAGGGATAGTAATGC
* * * **
841815 TTTGGAATAATGGTATTTATATTAGAGGGATGGTTATAT
1 TTTGG-GTAATGGTATTTATATTAGAGGGATAGTAATGC
* * * **
841854 TTTGGGGTAATGTTA-TTATATCAG-GGGTATACTAATAT
1 TTT-GGGTAATGGTATTTATATTAGAGGG-ATAGTAATGC
* * ** *
841892 TTTGGGGTAATGATATTCATATCCGAGGGATAGTTATGC
1 TTT-GGGTAATGGTATTTATATTAGAGGGATAGTAATGC
** *
841931 TTTGAAATAATAGTATTTATATCT-GAGGGATAGTAATGC
1 TTTG-GGTAATGGTATTTATAT-TAGAGGGATAGTAATGC
* * * * *
841970 TTTGGGGTAATAGTATTTATATCT-GAGGAATGGTCATGTT
1 TTT-GGGTAATGGTATTTATAT-TAGAGGGATAGTAATG-C
* * **
842010 TTTGGGTAATGGTATTTATATCAG-GGGTATTGTAATAT
1 TTTGGGTAATGGTATTTATATTAGAGGG-ATAGTAATGC
842048 TTTGGGTAATGGTATTTATATTAGAGGGAT
1 TTTGGGTAATGGTATTTATATTAGAGGGAT
842078 GGTATCTATA
Statistics
Matches: 714, Mismatches: 132, Indels: 93
0.76 0.14 0.10
Matches are distributed among these distances:
37 11 0.02
38 136 0.19
39 466 0.65
40 66 0.09
41 2 0.00
42 2 0.00
44 6 0.01
45 25 0.04
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.39
Consensus pattern (38 bp):
TTTGGGTAATGGTATTTATATTAGAGGGATAGTAATGC
Found at i:841280 original size:78 final size:77
Alignment explanation
Indices: 841140--842081 Score: 679
Period size: 78 Copynumber: 12.0 Consensus size: 77
841130 CATGGGTTTA
* * * * * ** *
841140 GTAATATTTTGGGATAATGGTATTTATATTAGAGGGAAAGTACTGATTTGGAAAAATAGTATTTA
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGGATAGTAATGCTTTGG-GTAATGGTATTTA
*
841205 TATAAGAGGGATG
65 TATTAGAGGGATG
* ** * * *
841218 GTAATGCTTTGCAGTAATGGTATTAATATTAGAGGGATGGTAATGCTTTGCGGTAGTGGTATTTA
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGGATAGTAATGCTTTG-GGTAATGGTATTTA
*
841283 TATTAGAGGGATA
65 TATTAGAGGGATG
* * ** * * *
841296 GTAATG-TTTGGGGTAATGATATCTATATTAG-GGGTATAGTAATATTTTAAGGCAATGGTATTC
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGG-ATAGTAATGCTTT-GGGTAATGGTATTT
** *
841359 ATACCAG-GGGTATA
64 ATATTAGAGGG-ATG
* * * * * **
841373 GTTATATTTTTGGGTAATGGTATTCATATCT-GAGTGATAGTAATGCTTTAGAATAATGGTATTT
1 GTAATGTTTTGGGGTAATGGTATTTATAT-TAGAGGGATAGTAATGCTTT-GGGTAATGGTATTT
841437 ATATTAGAGGGATG
64 ATATTAGAGGGATG
* * * * * * * * *
841451 ATATATATAATGCTTTGCGGTAATGGTATTTTTGTAAGAGGGATGGTAATGTTTTGGGGGAATGG
1 ------GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGGATAGTAATGCTTT-GGGTAATGG
841516 TATTTATATTAGAGGGATG
59 TATTTATATTAGAGGGATG
* * * ** *
841535 GTAATGTTTTGGGGTAATGTTATTTAAATCAG-GGGTATAGTAATATTTTTGGGTAATGGTATTC
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGG-ATAGTAAT-GCTTTGGGTAATGGTATTT
** * *
841599 ATATCCGAGGAATA
64 ATATTAGAGGGATG
* * ** * * *
841613 GTTATGCTTTGGAATAATGGTGTTTATATTAGAGGGA-AGGTAATGCTTTACGGTAATGGTATTA
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGGATA-GTAATGCTTT-GGGTAATGGTATTT
841677 ATATTAGAGGGATG
64 ATATTAGAGGGATG
*
841691 GTCATGTTTTGGGGGTAATGGTATTTATATTAGAGGGATAGTAATG-TTTGGGGTAATGGTATTT
1 GTAATGTTTT-GGGGTAATGGTATTTATATTAGAGGGATAGTAATGCTTT-GGGTAATGGTATTT
* *
841755 ATATCAG-GGGTATA
64 ATATTAGAGGG-ATG
* * * * * *
841769 GTAATATTTTTGGGTAATGGTATTTATATCCA-AGGGATATTCATGCTTTGGAATAATGGTATTT
1 GTAATGTTTTGGGGTAATGGTATTTATAT-TAGAGGGATAGTAATGCTTTGG-GTAATGGTATTT
841833 ATATTAGAGGGATG
64 ATATTAGAGGGATG
* * * * * ** * *
841847 GTTATATTTTGGGGTAATGTTA-TTATATCAG-GGGTATACTAATATTTTGGGGTAATGATATTC
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGG-ATAGTAATGCTTT-GGGTAATGGTATTT
** *
841910 ATATCCGAGGGATA
64 ATATTAGAGGGATG
* * *** * *
841924 GTTATGCTTTGAAATAATAGTATTTATATCT-GAGGGATAGTAATGCTTTGGGGTAATAGTATTT
1 GTAATGTTTTGGGGTAATGGTATTTATAT-TAGAGGGATAGTAATGCTTT-GGGTAATGGTATTT
*
841988 ATATCT-GAGGAATG
64 ATAT-TAGAGGGATG
* * * * **
842002 GTCATGTTTTTGGGTAATGGTATTTATATCAG-GGGTATTGTAATATTTTGGGTAATGGTATTTA
1 GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGG-ATAGTAATGCTTTGGGTAATGGTATTTA
842066 TATTAGAGGGATG
65 TATTAGAGGGATG
842079 GTA
1 GTA
842082 TCTATATCAA
Statistics
Matches: 668, Mismatches: 159, Indels: 75
0.74 0.18 0.08
Matches are distributed among these distances:
76 12 0.02
77 172 0.26
78 373 0.56
79 50 0.07
80 1 0.00
84 60 0.09
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.39
Consensus pattern (77 bp):
GTAATGTTTTGGGGTAATGGTATTTATATTAGAGGGATAGTAATGCTTTGGGTAATGGTATTTAT
ATTAGAGGGATG
Found at i:841890 original size:116 final size:115
Alignment explanation
Indices: 841706--842077 Score: 416
Period size: 116 Copynumber: 3.2 Consensus size: 115
841696 GTTTTGGGGG
841706 TAATGGTATTTATATTAGAGGGATAG-TA-ATGTTTGGGGTAATGGTATTTATATCAGGGGTATA
1 TAATGGTATTTATATTAGAGGGATAGTTATAT-TTTGGGGTAAT-GTATTTATATCAGGGGTATA
841769 GTAATATTTTTGGGTAATGGTATTTATATCCAAGGGATA-TTCATGCTTTGGAA
64 GTAATATTTTTGGGTAATGGTATTTATATCC-AGGGATAGTT-ATGCTTTGGAA
* *
841822 TAATGGTATTTATATTAGAGGGATGGTTATATTTTGGGGTAATGT-TATTATATCAGGGGTATAC
1 TAATGGTATTTATATTAGAGGGATAGTTATATTTTGGGGTAATGTAT-TTATATCAGGGGTATAG
* * * *
841886 TAATATTTTGGGGTAATGATATTCATATCCGAGGGATAGTTATGCTTTGAAA
65 TAATATTTTTGGGTAATGGTATTTATATCC-AGGGATAGTTATGCTTTGGAA
* * ** * * * *
841938 TAATAGTATTTATATCT-GAGGGATAGTAATGCTTTGGGGTAATAGTATTTATATCTGAGGAATG
1 TAATGGTATTTATAT-TAGAGGGATAGTTATATTTTGGGGTAAT-GTATTTATATCAGGGGTATA
* * * * ** *
842002 GTCATGTTTTTGGGTAATGGTATTTATAT-CAGGGGTATTGTAATATTTTGG-G
64 GTAATATTTTTGGGTAATGGTATTTATATCCA-GGG-ATAGTTATGCTTTGGAA
842054 TAATGGTATTTATATTAGAGGGAT
1 TAATGGTATTTATATTAGAGGGAT
842078 GGTATCTATA
Statistics
Matches: 217, Mismatches: 29, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
115 3 0.01
116 148 0.68
117 63 0.29
118 3 0.01
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (115 bp):
TAATGGTATTTATATTAGAGGGATAGTTATATTTTGGGGTAATGTATTTATATCAGGGGTATAGT
AATATTTTTGGGTAATGGTATTTATATCCAGGGATAGTTATGCTTTGGAA
Found at i:842081 original size:58 final size:59
Alignment explanation
Indices: 842018--842142 Score: 162
Period size: 58 Copynumber: 2.1 Consensus size: 59
842008 TTTTTGGGTA
* * * *
842018 ATGGTATTTATATCAGGGGTATTGTAATATTTTGGG-TAATGGTATTTATATTAGAGGG
1 ATGGTATTTATATCAAGGGTATAGTAATATTTTGGGATAATGGTATTCATATCAGAGGG
* * * * *
842076 ATGGTATCTATATCAAGGGTATAGTAATGTTTTGGGATATTGGTATTCATATCCGAGGT
1 ATGGTATTTATATCAAGGGTATAGTAATATTTTGGGATAATGGTATTCATATCAGAGGG
842135 ATGGTATT
1 ATGGTATT
842143 GTTTTCAGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
58 32 0.57
59 24 0.43
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (59 bp):
ATGGTATTTATATCAAGGGTATAGTAATATTTTGGGATAATGGTATTCATATCAGAGGG
Found at i:843927 original size:40 final size:40
Alignment explanation
Indices: 843872--844678 Score: 688
Period size: 40 Copynumber: 20.1 Consensus size: 40
843862 AGGCCTAACA
* * *
843872 TTGTTACTAGGAGTCAATAAGATTAATATTGCATGTCATC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * *
843912 TTGTTACTAGGAGTCAATAAGACTGGTATTGTGTGCCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * *
843952 TTGTTACTGGGAGTCAATAAGATTGGTATTCTATGTCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * *
843992 GTGTTA-TAAGGAGTCGAA-AAGATTGGTATTGAATGTCATC
1 TTGTTACT-AGGAGTC-AATAAGATTAGTATTGTATGTCACC
* * * *
844032 TAGTTACTATGAGTCATTAAGATTGGTATTGTATGTCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * *
844072 TTGTTACAAGGAGAATCAATTAGATTAGTATCGTGTGTCACC
1 TTGTTACTAGGAG--TCAATAAGATTAGTATTGTATGTCACC
* *
844114 TTGTTACTAGGAGTCAATAAGA-TAGGTTTTGTATGTTTA-C
1 TTGTTACTAGGAGTCAATAAGATTA-GTATTGTATG-TCACC
* * * * *
844154 TTGTTTC-AGGAGGTAAATAAGATTGGTATTGAATGTCAGC
1 TTGTTACTAGGA-GTCAATAAGATTAGTATTGTATGTCACC
* * * * *
844194 GTGTTATTAGGAGTCAATAA-ATTGGTATTGTATGTAATC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * * * **
844233 TTGTAACTATGAGT-AACTTATATAAGTATTGTATGTCAGT
1 TTGTTACTAGGAGTCAA-TAAGATTAGTATTGTATGTCACC
* * *
844273 TTTTTACTAGGAGTCATTTAGA-TATGTATTGTATGTCACC
1 TTGTTACTAGGAGTCAATAAGATTA-GTATTGTATGTCACC
* * *
844313 TTGTTACAAGGAGTCAATAAGATAAGTATTGTATGTCTCC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* **
844353 TTGTTACTAAGAGTCAA-AAGGATT-GATATTGTATGTCAGT
1 TTGTTACTAGGAGTCAATAA-GATTAG-TATTGTATGTCACC
* * * *
844393 TTGTTCCTATGAGTCAATCAA-ACTGGTATTGTATGTCACC
1 TTGTTACTAGGAGTCAAT-AAGATTAGTATTGTATGTCACC
* * * *
844433 GTGTTACAAGGAGT-AAGTTAGATTAGTATTGTATGTCTCC
1 TTGTTACTAGGAGTCAA-TAAGATTAGTATTGTATGTCACC
* * * **
844473 TTGTTATTAAGAGTCAA-AATGATTGGTATTGTATGTCAGT
1 TTGTTACTAGGAGTCAATAA-GATTAGTATTGTATGTCACC
* * *
844513 TTGTTACTAGGAGTCAATTAGATTACTATTGTGTGTCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * *
844553 TTGTTACTAGCAGTCAGTAAGATTAATATTGTATGTCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * *
844593 TTCTTACTCA-CACTCAATAAGATTGGTATTGTATGTCACC
1 TTGTTACT-AGGAGTCAATAAGATTAGTATTGTATGTCACC
* * * *
844633 GTGTTACAAGGAGTCAATTAGATTAATATTGTATGTCACC
1 TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
844673 TTGTTA
1 TTGTTA
844679 TCGATCTCTT
Statistics
Matches: 609, Mismatches: 129, Indels: 58
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.00
39 47 0.08
40 507 0.83
41 17 0.03
42 36 0.06
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (40 bp):
TTGTTACTAGGAGTCAATAAGATTAGTATTGTATGTCACC
Found at i:846822 original size:12 final size:12
Alignment explanation
Indices: 846802--846842 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
846792 AACTGAAGAG
*
846802 GGACAGACAGAC
1 GGACGGACAGAC
846814 GGACGGACAGAC
1 GGACGGACAGAC
*
846826 GGACGGACTGAC
1 GGACGGACAGAC
846838 GGACG
1 GGACG
846843 CAGAGGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.41, T:0.02
Consensus pattern (12 bp):
GGACGGACAGAC
Found at i:846823 original size:16 final size:16
Alignment explanation
Indices: 846802--846833 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
846792 AACTGAAGAG
846802 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
*
846818 GGACAGACGGACGGAC
1 GGACAGACAGACGGAC
846834 TGACGGACGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.41, T:0.00
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:848055 original size:1 final size:1
Alignment explanation
Indices: 848049--848073 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
848039 NNNNNNNNAA
848049 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
848074 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:861446 original size:40 final size:40
Alignment explanation
Indices: 861350--861464 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
861340 CATTTAAAAT
* * * *
861350 AAACCACCGATGAGTAATGAATTCGACT-TCTCGCGAATA
1 AAACCACCAATAAGTAATGTATTCGACTATCTCTCGAATA
* * *
861389 AAACCACTAATTAGTAATGTATTCGACTATCTCTCGACTA
1 AAACCACCAATAAGTAATGTATTCGACTATCTCTCGAATA
*
861429 ACACCACCAATAAGTAATGTATTCGACTATCTCTCG
1 AAACCACCAATAAGTAATGTATTCGACTATCTCTCG
861465 TAATGTATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 24 0.36
40 42 0.64
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (40 bp):
AAACCACCAATAAGTAATGTATTCGACTATCTCTCGAATA
Found at i:861470 original size:22 final size:22
Alignment explanation
Indices: 861442--861483 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
861432 CCACCAATAA
861442 GTAATGTATTCGACTATCTCTC
1 GTAATGTATTCGACTATCTCTC
861464 GTAATGTATTCGACTATCTC
1 GTAATGTATTCGACTATCTC
861484 CAATCGCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (22 bp):
GTAATGTATTCGACTATCTCTC
Found at i:861866 original size:40 final size:41
Alignment explanation
Indices: 861809--861988 Score: 159
Period size: 40 Copynumber: 4.4 Consensus size: 41
861799 ATTGCGACTA
* * * *
861809 GACTATATCTCGTCTAAAATCCA-TAATTAGTAATGTATTT
1 GACTATCTCTCGACTAAAATCCACCAATTAGTAATGTATTC
*
861849 GACTATCTCTCGACTAAAA-CCACCAATAAGTAATGTATTC
1 GACTATCTCTCGACTAAAATCCACCAATTAGTAATGTATTC
* * ** * * * * *
861889 GACTATCGCTCGTAATGTATTCAACTATCTCTCGTAATGTATTC
1 GACTATCTCTCG-ACTAAAATCCACCA-AT-TAGTAATGTATTC
* * *
861933 AACTATCTCTCGTC-AAAAGCCACCAATTAGTAATGTATTC
1 GACTATCTCTCGACTAAAATCCACCAATTAGTAATGTATTC
861973 GACTATCTCTCGACTA
1 GACTATCTCTCGACTA
861989 TACCCGCCAA
Statistics
Matches: 105, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
39 3 0.03
40 66 0.63
41 5 0.05
42 9 0.09
43 1 0.01
44 21 0.20
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (41 bp):
GACTATCTCTCGACTAAAATCCACCAATTAGTAATGTATTC
Found at i:861906 original size:22 final size:22
Alignment explanation
Indices: 861878--861945 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
861868 CCACCAATAA
* *
861878 GTAATGTATTCGACTATCGCTC
1 GTAATGTATTCAACTATCTCTC
861900 GTAATGTATTCAACTATCTCTC
1 GTAATGTATTCAACTATCTCTC
861922 GTAATGTATTCAACTATCTCTC
1 GTAATGTATTCAACTATCTCTC
861944 GT
1 GT
861946 CAAAAGCCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (22 bp):
GTAATGTATTCAACTATCTCTC
Found at i:861999 original size:40 final size:40
Alignment explanation
Indices: 861809--862051 Score: 152
Period size: 40 Copynumber: 6.0 Consensus size: 40
861799 ATTGCGACTA
* * * *
861809 GACTATATCTCGTCTAAAATCCA-TAATTAGTAATGTATTT
1 GACTATCTCTCGACTAAAA-CCACCAATTAGTAATGTATTC
*
861849 GACTATCTCTCGACTAAAACCACCAATAAGTAATGTATTC
1 GACTATCTCTCGACTAAAACCACCAATTAGTAATGTATTC
* * * ** * * * *
861889 GACTATCGCTCGTAATGTATTCAACTATCTCTCGTAATGTATTC
1 GACTATCTCTCG-ACT-AAAACCACCA-AT-TAGTAATGTATTC
* *
861933 AACTATCTCTCGTC-AAAAGCCACCAATTAGTAATGTATTC
1 GACTATCTCTCGACTAAAA-CCACCAATTAGTAATGTATTC
* * *
861973 GACTATCTCTCGACTATACCCGCCAATTTAGTTAA-GTATGT-
1 GACTATCTCTCGACTAAAACCACCAA-TTAG-TAATGTAT-TC
* * * * **
862014 GACTACCTCTCGATTAAAACAATCGGTTAGTAATGTAT
1 GACTATCTCTCGACTAAAACCACCAATTAGTAATGTAT
862052 ATTTCCGAAA
Statistics
Matches: 152, Mismatches: 40, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
39 6 0.04
40 80 0.53
41 31 0.20
42 13 0.09
43 1 0.01
44 21 0.14
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (40 bp):
GACTATCTCTCGACTAAAACCACCAATTAGTAATGTATTC
Found at i:862659 original size:2 final size:2
Alignment explanation
Indices: 862652--862699 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
862642 TTAAAAGCAT
862652 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
862694 GA GA GA
1 GA GA GA
862700 TATTTTGATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:869320 original size:21 final size:21
Alignment explanation
Indices: 869295--869357 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
869285 ATTTCAAAGT
869295 TCATTGGGGTTCATTGGGGTA
1 TCATTGGGGTTCATTGGGGTA
869316 TCATTGGGGTTCATTGGGGTA
1 TCATTGGGGTTCATTGGGGTA
869337 TCATTGGGGTTCATTGGGGTA
1 TCATTGGGGTTCATTGGGGTA
869358 AAAAGACGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.14, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
TCATTGGGGTTCATTGGGGTA
Found at i:869321 original size:11 final size:10
Alignment explanation
Indices: 869293--869356 Score: 110
Period size: 10 Copynumber: 6.2 Consensus size: 10
869283 GTATTTCAAA
869293 GTTCATTGGG
1 GTTCATTGGG
869303 GTTCATTGGG
1 GTTCATTGGG
869313 GTATCATTGGG
1 GT-TCATTGGG
869324 GTTCATTGGG
1 GTTCATTGGG
869334 GTATCATTGGG
1 GT-TCATTGGG
869345 GTTCATTGGG
1 GTTCATTGGG
869355 GT
1 GT
869357 AAAAAGACGC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
10 32 0.62
11 20 0.38
ACGTcount: A:0.12, C:0.09, G:0.39, T:0.39
Consensus pattern (10 bp):
GTTCATTGGG
Found at i:869331 original size:31 final size:31
Alignment explanation
Indices: 869294--869356 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
869284 TATTTCAAAG
869294 TTCATTGGGGTTCATTGGGGTATCATTGGGG
1 TTCATTGGGGTTCATTGGGGTATCATTGGGG
869325 TTCATTGGGGTATCATTGGGGT-TCATTGGGG
1 TTCATTGGGGT-TCATTGGGGTATCATTGGGG
869356 T
1 T
869357 AAAAAGACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.40
Consensus pattern (31 bp):
TTCATTGGGGTTCATTGGGGTATCATTGGGG
Found at i:870059 original size:39 final size:39
Alignment explanation
Indices: 870005--870166 Score: 290
Period size: 39 Copynumber: 4.2 Consensus size: 39
869995 TTATGAATAT
* *
870005 ATAAAC-CCTAACAAGAACATGTATTGTAAATATACTCAA
1 ATAAACGCC-AACAAGAATAGGTATTGTAAATATACTCAA
870044 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
1 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
870083 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
1 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
870122 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
1 ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
870161 ATAAAC
1 ATAAAC
870167 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
39 118 0.98
40 2 0.02
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.23
Consensus pattern (39 bp):
ATAAACGCCAACAAGAATAGGTATTGTAAATATACTCAA
Found at i:876838 original size:26 final size:26
Alignment explanation
Indices: 876779--876844 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
876769 TGAAAGGAAA
* *
876779 CTGTAAACCATCATATGATTGTGTAC
1 CTGTAAACTATTATATGATTGTGTAC
* * *
876805 CTGCAAACTATTATATGCTTGTTTAC
1 CTGTAAACTATTATATGATTGTGTAC
*
876831 TTGTAAACTATTAT
1 CTGTAAACTATTAT
876845 TTAGTGACGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (26 bp):
CTGTAAACTATTATATGATTGTGTAC
Found at i:888927 original size:19 final size:19
Alignment explanation
Indices: 888903--888984 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
888893 TCTGAGACCG
888903 GTAGATGGTTTATCCAATA
1 GTAGATGGTTTATCCAATA
*
888922 GTAGATGGTTTATCCAATG
1 GTAGATGGTTTATCCAATA
888941 GTAGATGGTTTATCCAATA
1 GTAGATGGTTTATCCAATA
* *
888960 GTAGATGGTGTATCCAATG
1 GTAGATGGTTTATCCAATA
888979 GTAGAT
1 GTAGAT
888985 TCATAACGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 59 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (19 bp):
GTAGATGGTTTATCCAATA
Found at i:888953 original size:38 final size:38
Alignment explanation
Indices: 888902--888984 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
888892 TTCTGAGACC
*
888902 GGTAGATGGTTTATCCAATAGTAGATGGTTTATCCAAT
1 GGTAGATGGTTTATCCAATAGTAGATGGTGTATCCAAT
888940 GGTAGATGGTTTATCCAATAGTAGATGGTGTATCCAAT
1 GGTAGATGGTTTATCCAATAGTAGATGGTGTATCCAAT
888978 GGTAGAT
1 GGTAGAT
888985 TCATAACGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.35
Consensus pattern (38 bp):
GGTAGATGGTTTATCCAATAGTAGATGGTGTATCCAAT
Found at i:897294 original size:20 final size:21
Alignment explanation
Indices: 897257--897299 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
897247 GCAAATGTGA
*
897257 TTTATACCTTACAATTTCTAT
1 TTTATACCTTACAATTTCAAT
* *
897278 TTTAT-CCTTAGAGTTTCAAT
1 TTTATACCTTACAATTTCAAT
897298 TT
1 TT
897300 AAAACGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTATACCTTACAATTTCAAT
Found at i:906759 original size:2 final size:2
Alignment explanation
Indices: 906752--906795 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
906742 ACTGACCAAT
906752 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
906794 GA
1 GA
906796 TGGGTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:908775 original size:2 final size:2
Alignment explanation
Indices: 908768--908822 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
908758 AAAGCATAAG
908768 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
908810 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
908823 ATAAATAGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:911213 original size:26 final size:26
Alignment explanation
Indices: 911148--911266 Score: 150
Period size: 26 Copynumber: 4.5 Consensus size: 26
911138 ACTAATAATC
* **
911148 GTCTCTGATATAATAATGGTATAGATAA
1 GTCTCTGATATAATAAT-GT-TATATCT
*
911176 GTCTTTGATATAATAATGTTATATCT
1 GTCTCTGATATAATAATGTTATATCT
* *
911202 GTCTCTGGTATAATTATGTTATATCT
1 GTCTCTGATATAATAATGTTATATCT
911228 GTCTCT-ATTATAATAATGTTATATCT
1 GTCTCTGA-TATAATAATGTTATATCT
911254 GTCTCTGATATAA
1 GTCTCTGATATAA
911267 GCATTTCGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
26 61 0.76
27 3 0.04
28 16 0.20
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (26 bp):
GTCTCTGATATAATAATGTTATATCT
Found at i:911953 original size:180 final size:179
Alignment explanation
Indices: 911642--912220 Score: 944
Period size: 180 Copynumber: 3.2 Consensus size: 179
911632 TTTCCCTTTN
*
911642 ACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCCCCTAC
1 ACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTAC
* * *
911707 AGTTTTCAAGATAGGATGTTGTTGTTTTGCAGATCTATTGTACATATATCAGAAGTGTGCATATT
66 AGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATT
* *
911772 GCTAGGAGTTTGATTTCCGATAATGTT-TGAAAAAAATACCAGCTTTTGA
131 GCTAGGATTTTGATTTCAGATAAT-TTATGAAAAAAATACCAGCTTTTGA
* *
911821 ACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTTATTGTACGGATAACTCCTCCTG
1 ACTTAGTCA-TTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTA
911886 CAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATAT
65 CAGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATAT
911951 TGCTAGGATTTTGATTTCAGATAATTTATGAAAAAAATACCAGCTTTTGA
130 TGCTAGGATTTTGATTTCAGATAATTTATGAAAAAAATACCAGCTTTTGA
* * * * *
912001 ACTTAGTCACTTTTGGCAAAATATTGCACAAAGGGTACCCTCATTGTATGTATAACTCCTCCTAC
1 ACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTAC
* *
912066 AGATTTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATAGGGTATATCAGAGGTGTGC
66 AGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTAC--A---TATATCAGAGGTGTGC
912131 ATATTGCTAGGATTTTGATTTCAGATAATTTATGAAAAAAATACCAGCTTTTGA
126 ATATTGCTAGGATTTTGATTTCAGATAATTTATGAAAAAAATACCAGCTTTTGA
912185 ACTTAGTCACTTTTTGGCAAAATATTGCATATAGGG
1 ACTTAGTCA-TTTTTGGCAAAATATTGCATATAGGG
912221 GTACACCATT
Statistics
Matches: 372, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
179 101 0.27
180 168 0.45
181 1 0.00
184 79 0.21
185 23 0.06
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (179 bp):
ACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTAC
AGTTTTCAAGATAGGAAGTTGTTGTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATT
GCTAGGATTTTGATTTCAGATAATTTATGAAAAAAATACCAGCTTTTGA
Found at i:913059 original size:26 final size:26
Alignment explanation
Indices: 912994--913111 Score: 130
Period size: 26 Copynumber: 4.5 Consensus size: 26
912984 ACTAATAATC
* **
912994 GTCTCTGATATAATAATGGTATAGATAA
1 GTCTCTGATATAATAAT-GT-TATATCT
*
913022 GTCTTTGATATAATAATGTTATATCT
1 GTCTCTGATATAATAATGTTATATCT
* * *
913048 GTCTCTGGTATAATTATGTTACATCT
1 GTCTCTGATATAATAATGTTATATCT
913074 GTCTCT-ATTATAATAATGTTATATCT
1 GTCTCTGA-TATAATAATGTTATATCT
*
913100 ATCTCTGATATA
1 GTCTCTGATATA
913112 GGCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 57 0.75
27 3 0.04
28 16 0.21
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (26 bp):
GTCTCTGATATAATAATGTTATATCT
Found at i:916757 original size:57 final size:57
Alignment explanation
Indices: 916695--916804 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
916685 TTGTCCACAG
* *
916695 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACTGTTATTGTACTGTCACAGTCA
1 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTCATTGTACTGTCACAGTCA
*
916752 TTGTACTGTCACATTTAGACGATAAGTCTGTCCACAGTCATTGTACTGTCACA
1 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTCATTGTACTGTCACA
916805 TTTAGACGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (57 bp):
TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTCATTGTACTGTCACAGTCA
Found at i:916794 original size:40 final size:40
Alignment explanation
Indices: 916740--917089 Score: 399
Period size: 40 Copynumber: 8.9 Consensus size: 40
916730 TGTTATTGTA
* *
916740 CTGT-CACAGTCATTGTACTGTCACATTTAGACGATAAGT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
*
916779 CTGTCCACAGTCATTGTACTGTCACATTTAGACGATTAGT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
* *
916819 CTGTCCACGGTTATTGTACCGTCACATTTAGACGATTAGT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
*
916859 CTGTCCACAGTTATTGTACTGTCACAGTT-----ATT-GT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
* *
916893 ACTGT-CACATTTAGACGATTAGT-CTGTCCACAGTT-----ATT-GT
1 -CTGTCCACAGTT-----ATT-GTACTGT-CACATTTAGACGATTAGT
*
916933 ACTGT-CACAGTCATTGTACTGTCACATTTAGACGATTAGT
1 -CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
916973 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
*
917013 CTGTCCACAGTTATTGTACTGTCACATTTAGACAATTAGT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
* *
917053 CTGTCCACATTTATTGTTCTGTCACATTTAGACGATT
1 CTGTCCACAGTTATTGTACTGTCACATTTAGACGATT
917090 TTTTTAAAAA
Statistics
Matches: 278, Mismatches: 16, Indels: 33
0.85 0.05 0.10
Matches are distributed among these distances:
34 16 0.06
35 14 0.05
39 18 0.06
40 230 0.83
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (40 bp):
CTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGT
Found at i:916809 original size:97 final size:96
Alignment explanation
Indices: 916695--917038 Score: 475
Period size: 97 Copynumber: 3.6 Consensus size: 96
916685 TTGTCCACAG
* * *
916695 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACTGTTATTGTACTGTCACAGTCATTGTACTG
1 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
*
916760 TCACATTTAGACGATAAGTCTGTCCACAGTCA
66 TCACATTTAGACGAT-AGTCTGTCCACAGTTA
* * *
916792 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACGGTTATTGTACCGTCACATTTAGACGATTA
1 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCAC----AGTC-ATT-
* **
916857 GT-CTGTCCACAGTTA-TTG-TA--CTGT-CACAGTTA
60 GTACTGT-CACATTTAGACGATAGTCTGTCCACAGTTA
916889 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
1 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
916954 TCACATTTAGACGATTAGTCTGTCCACAGTTA
66 TCACATTTAGACGA-TAGTCTGTCCACAGTTA
916986 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
1 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
917039 TTTAGACAAT
Statistics
Matches: 218, Mismatches: 15, Indels: 28
0.84 0.06 0.11
Matches are distributed among these distances:
91 9 0.04
92 8 0.04
93 3 0.01
94 2 0.01
96 4 0.02
97 166 0.76
98 4 0.02
100 1 0.00
101 4 0.02
102 8 0.04
103 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (96 bp):
TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
TCACATTTAGACGATAGTCTGTCCACAGTTA
Found at i:916892 original size:57 final size:57
Alignment explanation
Indices: 916828--916998 Score: 324
Period size: 57 Copynumber: 3.0 Consensus size: 57
916818 TCTGTCCACG
*
916828 GTTATTGTACCGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
1 GTTATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
916885 GTTATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
1 GTTATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
*
916942 GTCATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
1 GTTATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
916999 TTTAGACGAT
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 112 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (57 bp):
GTTATTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACA
Found at i:917028 original size:194 final size:194
Alignment explanation
Indices: 916695--917078 Score: 678
Period size: 194 Copynumber: 2.0 Consensus size: 194
916685 TTGTCCACAG
*
916695 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACTGTTATTGTACTGTCACAGTCATTGTACTG
1 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
916760 TCACATTTAGACGATAAGTCTGTCCACAGTCATTGTACTGTCACATTTAGACGATTAGTCTGTCC
66 TCACATTTAGACGATAAGTCTGTCCACAGTCATTGTACTGTCACATTTAGACGATTAGTCTGTCC
* *
916825 ACGGTTATTGTACCGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTTA
131 ACAGTTATTGTACCGTCACATTTAGACAATTAGTCTGTCCACAGTTATTGTACTGTCACAGTTA
* *
916889 TTGTACTGTCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
1 TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
* *
916954 TCACATTTAGACGATTAGTCTGTCCACAGTTATTGTACTGTCACATTTAGACGATTAGTCTGTCC
66 TCACATTTAGACGATAAGTCTGTCCACAGTCATTGTACTGTCACATTTAGACGATTAGTCTGTCC
* * *
917019 ACAGTTATTGTACTGTCACATTTAGACAATTAGTCTGTCCACATTTATTGTTCTGTCACA
131 ACAGTTATTGTACCGTCACATTTAGACAATTAGTCTGTCCACAGTTATTGTACTGTCACA
917079 TTTAGACGAT
Statistics
Matches: 180, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 180 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (194 bp):
TTGTACTGTCACATTTAGACAATAAGTCTGTCCACAGTTATTGTACTGTCACAGTCATTGTACTG
TCACATTTAGACGATAAGTCTGTCCACAGTCATTGTACTGTCACATTTAGACGATTAGTCTGTCC
ACAGTTATTGTACCGTCACATTTAGACAATTAGTCTGTCCACAGTTATTGTACTGTCACAGTTA
Found at i:917765 original size:2 final size:2
Alignment explanation
Indices: 917758--917814 Score: 98
Period size: 2 Copynumber: 28.5 Consensus size: 2
917748 TCATAGATTT
917758 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A TGA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA GA GA
917800 GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
917815 CACTTAATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 51 0.96
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
GA
Found at i:919551 original size:165 final size:165
Alignment explanation
Indices: 919264--920427 Score: 1409
Period size: 165 Copynumber: 7.1 Consensus size: 165
919254 CAGTTCGCAG
* *
919264 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACTCAGTTCGCAATTCAAAATTTAAAATTCATAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * * * *
919329 TTGGGGCCTGAAATTTTCAGGGGCATATACTGGTGGT-TTACCACTGCCACCGTGAAAATTTGGT
66 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATT-CCACTACCACTGTGAAAATATGGT
* *
919393 GAAGTGGTCT-TCTCTAGTTTTTGAGATAT-TGGCTTT
130 GAAGTGGT-TATCTATAGTTTTTGAGA-ATCGGGCTTT
*
919429 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACACAGTTCGCAATTCAAAATTTAGAATTCATAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * *
919494 TTGGGGCCTGAAATTTTCAGGGGCATCTACCAGTGCTATTTCACTACCACTGTGAAAATATGGTG
66 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGTG
* ** * *
919559 ATGCAGTTATATATAGTTTCTGAGAATCGGGCTTAT
131 AAGTGGTTATCTATAGTTTTTGAGAATCGGGCTT-T
* * *
919595 AT-GCAATTGAATAGTGAACTGCATTCTAGAATGCAGTTCGCAATTCAAAATTTAGAATTCAT-T
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * * * *
919658 TATGGGGCCCGAAATTTTTAGGGGCATCTACTAGTGGTATTTCATTACCACTGTGAAAATATAGT
66 T-TGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGT
*
919723 G-A-TGCATATATCTATAGTTTTTGAGAATCGGGCTTAT
130 GAAGTG-GT-TATCTATAGTTTTTGAGAATCGGGCTT-T
*
919760 AT-GCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * * *
919824 TTGGGGCCTGAAATTTTCAGGGGCATCTACTGGTGGT-TTACCACTGCCACCGTGAAAATTTGGT
66 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATT-CCACTACCACTGTGAAAATATGGT
* * *
919888 GAAGTGGTTTTCTCTAGTTTTTGAGATAT-TGGCTTT
130 GAAGTGGTTATCTATAGTTTTTGAGA-ATCGGGCTTT
* *
919924 TTCGCATTTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTAAGAATTCATAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
*
919989 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTTCACTACCACTGTGAAAATATGGTG
66 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGTG
* * *
920054 ATGCT-GTTATCTATAGTTTCTGAGAATCGGGCATAT
131 AAG-TGGTTATCTATAGTTTTTGAGAATCGGGC-TTT
* * * *
920090 AT-GTAATAGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAAAATTCATAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * * ** * *
920154 TTTGGG-CTCGAAATTTTCAGGGGCATATACTGGTGGTACACCACTGCCACTGTGAAAATTTGGT
66 TTGGGGCCT-GAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGT
* * * * **
920218 GAAGTGGTTTTCTCTTGTTTTTGAGATTTTGGCTTT
130 GAAGTGGTTATCTATAGTTTTTGAGAATCGGGCTTT
* *
920254 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGAAATTCAAAATTTAGAATTCTTAT
1 TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
* * * * ** *
920319 TTGGTGCCCGAAATTTTCAGGGG------C-A-TGGTATACCACTAACACCCTCAAAATATGGTG
66 TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGTG
* * * *
920376 AAGTGGTCATCTCTACTTTTTGAGATTCGGGCTTAT
131 AAGTGGTTATCTATAGTTTTTGAGAATCGGGCTT-T
920412 TT-GCAATTGAATAGTG
1 TTCGCAATTGAATAGTG
920428 CAAGCACGCA
Statistics
Matches: 869, Mismatches: 108, Indels: 52
0.84 0.10 0.05
Matches are distributed among these distances:
157 67 0.08
158 3 0.00
159 1 0.00
164 18 0.02
165 761 0.88
166 17 0.02
167 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (165 bp):
TTCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATAT
TTGGGGCCTGAAATTTTCAGGGGCATCTACTAGTGGTATTCCACTACCACTGTGAAAATATGGTG
AAGTGGTTATCTATAGTTTTTGAGAATCGGGCTTT
Found at i:920206 original size:495 final size:495
Alignment explanation
Indices: 919265--920344 Score: 1727
Period size: 495 Copynumber: 2.2 Consensus size: 495
919255 AGTTCGCAGT
* *
919265 TCGCAATTGAATAGTGAACTGCGTTCTAGAACTCAGTTCGCAATTCAAAATTTAAAATTCATATT
1 TCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATT
919330 TGGGGCCTGAAATTTTCAGGGGCATATACTGGTGGTTTACCACTGCCACCGTGAAAATTTGGTGA
66 TGGGGCCTGAAATTTTCAGGGGCATATACTGGTGGTTTACCACTGCCACCGTGAAAATTTGGTGA
919395 AGTGGTCTTCTCTAGTTTTTGAGATATTGGCTTTTTCGCAATTGAATAGTGAACTGCGTTCTAGA
131 AGTGGTCTTCTCTAGTTTTTGAGATATTGGCTTTTTCGCAATTGAATAGTGAACTGCGTTCTAGA
*
919460 ACACAGTTCGCAATTCAAAATTTAGAATTCATATTTGGGGCCTGAAATTTTCAGGGGCATCTACC
196 ACACAGTTCGCAATTCAAAATTAAGAATTCATATTTGGGGCCTGAAATTTTCAGGGGCATCTACC
919525 AGTGCTATTTCACTACCACTGTGAAAATATGGTGATGCAGTTATATATAGTTTCTGAGAATCGGG
261 AGTGCTATTTCACTACCACTGTGAAAATATGGTGATGCAGTTATATATAGTTTCTGAGAATCGGG
* * * *
919590 CTTATATGCAATTGAATAGTGAACTGCATTCTAGAATGCAGTTCGCAATTCAAAATTTAGAATTC
326 CATATATGCAATAGAATAGTGAACTGCATTCTAGAACGCAGTTCGCAATTCAAAATTTAAAATTC
* * *** *
919655 ATTTATGGGGCCCGAAATTTTTAGGGGCATCTACTAGTGGTATTTCATTACCACTGTGAAAATAT
391 ATTTATGGGGCCCGAAATTTTCAGGGGCATATACTAGTGGTACACCACTACCACTGTGAAAATAT
919720 AGTG-A-TGCATATATCTATAGTTTTTGAGAATCGGGCTTATA
456 AGTGAAGTG-AT-TATCTATAGTTTTTGAGAATCGGGCTT-TA
919761 T-GCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATT
1 TCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATT
*
919825 TGGGGCCTGAAATTTTCAGGGGCATCTACTGGTGGTTTACCACTGCCACCGTGAAAATTTGGTGA
66 TGGGGCCTGAAATTTTCAGGGGCATATACTGGTGGTTTACCACTGCCACCGTGAAAATTTGGTGA
* *
919890 AGTGGTTTTCTCTAGTTTTTGAGATATTGGCTTTTTCGCATTTGAATAGTGAACTGCGTTCTAGA
131 AGTGGTCTTCTCTAGTTTTTGAGATATTGGCTTTTTCGCAATTGAATAGTGAACTGCGTTCTAGA
* *
919955 ACGCAGTTCGCAATTCAAAATTAAGAATTCATATTTGGGGCCTGAAATTTTCAGGGGCATCTACT
196 ACACAGTTCGCAATTCAAAATTAAGAATTCATATTTGGGGCCTGAAATTTTCAGGGGCATCTACC
* * *
920020 AGTGGTATTTCACTACCACTGTGAAAATATGGTGATGCTGTTATCTATAGTTTCTGAGAATCGGG
261 AGTGCTATTTCACTACCACTGTGAAAATATGGTGATGCAGTTATATATAGTTTCTGAGAATCGGG
* *
920085 CATATATGTAATAGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAAAATTC
326 CATATATGCAATAGAATAGTGAACTGCATTCTAGAACGCAGTTCGCAATTCAAAATTTAAAATTC
* * * * *
920150 ATATT-TTGGGCTCGAAATTTTCAGGGGCATATACTGGTGGTACACCACTGCCACTGTGAAAATT
391 AT-TTATGGGGCCCGAAATTTTCAGGGGCATATACTAGTGGTACACCACTACCACTGTGAAAATA
* * * * * * ** *
920214 TGGTGAAGTGGTTTTCTCTTGTTTTTGAGATTTTGGCTTTT
455 TAGTGAAGTGATTATCTATAGTTTTTGAGAATCGGGCTTTA
* *
920255 TCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGAAATTCAAAATTTAGAATTCTTATT
1 TCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATT
* *
920320 TGGTGCCCGAAATTTTCAGGGGCAT
66 TGGGGCCTGAAATTTTCAGGGGCAT
920345 GGTATACCAC
Statistics
Matches: 539, Mismatches: 41, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
494 2 0.00
495 530 0.98
496 5 0.01
497 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (495 bp):
TCGCAATTGAATAGTGAACTGCGTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATT
TGGGGCCTGAAATTTTCAGGGGCATATACTGGTGGTTTACCACTGCCACCGTGAAAATTTGGTGA
AGTGGTCTTCTCTAGTTTTTGAGATATTGGCTTTTTCGCAATTGAATAGTGAACTGCGTTCTAGA
ACACAGTTCGCAATTCAAAATTAAGAATTCATATTTGGGGCCTGAAATTTTCAGGGGCATCTACC
AGTGCTATTTCACTACCACTGTGAAAATATGGTGATGCAGTTATATATAGTTTCTGAGAATCGGG
CATATATGCAATAGAATAGTGAACTGCATTCTAGAACGCAGTTCGCAATTCAAAATTTAAAATTC
ATTTATGGGGCCCGAAATTTTCAGGGGCATATACTAGTGGTACACCACTACCACTGTGAAAATAT
AGTGAAGTGATTATCTATAGTTTTTGAGAATCGGGCTTTA
Found at i:920836 original size:150 final size:150
Alignment explanation
Indices: 920565--920860 Score: 522
Period size: 150 Copynumber: 2.0 Consensus size: 150
920555 TGCAGTTCAT
920565 TATTCAATTGCGAAAAAGCAAAAATCTCAAAAATAAGAGAAGACCACTTCACCAAATTTTCACGG
1 TATTCAATTGCGAAAAAGCAAAAATCTCAAAAATAAGAGAAGACCACTTCACCAAATTTTCACGG
*
920630 TGGCAGTGGTAAACCACCAGTATAAGCCCCTGAAAATTTCAGGCCCGAAATATGAATTCTAAATT
66 TGGCAATGGTAAACCACCAGTATAAGCCCCTGAAAATTTCAGGCCCGAAATATGAATTCTAAATT
920695 TTGAATTGCGAACTGCGTTC
131 TTGAATTGCGAACTGCGTTC
* *
920715 TATTCAATTGTGAAAAAGCCAAAATCTCAAAAACT-AGAGAAGACCACTTCACCAAATTTTCACG
1 TATTCAATTGCGAAAAAGCAAAAATCTCAAAAA-TAAGAGAAGACCACTTCACCAAATTTTCACG
* * *
920779 GTGGCAATGGTAAACCACCAGTATATGCCCCTGAAAATTTTAGGCCCGAAATATGAATTCTTAAT
65 GTGGCAATGGTAAACCACCAGTATAAGCCCCTGAAAATTTCAGGCCCGAAATATGAATTCTAAAT
920844 TTTGAATTGCGAACTGC
130 TTTGAATTGCGAACTGC
920861 ATTGTAGAAC
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 138 0.99
151 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (150 bp):
TATTCAATTGCGAAAAAGCAAAAATCTCAAAAATAAGAGAAGACCACTTCACCAAATTTTCACGG
TGGCAATGGTAAACCACCAGTATAAGCCCCTGAAAATTTCAGGCCCGAAATATGAATTCTAAATT
TTGAATTGCGAACTGCGTTC
Found at i:921191 original size:165 final size:165
Alignment explanation
Indices: 920763--921192 Score: 682
Period size: 165 Copynumber: 2.6 Consensus size: 165
920753 GAAGACCACT
* * * ** * * **
920763 TCACCAAATTTTCACGGTGGCAATGGTAAACCACCAGTATATGCCCCTGAAAATTTTAGG-CCCG
1 TCACCATATTTTCACAGTGGTAATGAAAAACCACTAGTAGATGCCCCTGAAAATTTCGGGCCCCG
* *
920827 AAATATGAATTCTTAATTTTGAATTGCGAACTGCATTGTAGAACGCAGTTCACTATTCAAAAGCA
66 -AATATGAATTCTTAATTTTGAATTGCGAACTGCGTTCTAGAACGCAGTTCACTATTCAAAAGCA
920892 TATAAGCCCGATTCTCAAAAACTATAGATAACTGCA
130 TATAAGCCCGATTCTCAAAAACTATAGATAACTGCA
* * *
920928 TCACCATATTTTCACAGTGGTAGTGAAATACCACTAGTAGATGCCCATGAAAATTTCGGGCCCCG
1 TCACCATATTTTCACAGTGGTAATGAAAAACCACTAGTAGATGCCCCTGAAAATTTCGGGCCCCG
* **
920993 AATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACGCAGTTCACTATTCAATTGCAT
66 AATATGAATTCTTAATTTTGAATTGCGAACTGCGTTCTAGAACGCAGTTCACTATTCAAAAGCAT
*
921058 ATAAGTCCGATTCTCAAAAACTATAGATAACTGCA
131 ATAAGCCCGATTCTCAAAAACTATAGATAACTGCA
921093 TCACCATATTTTCACAGTGGTAATGAAAAACCACTAGTAGATGCCCCTGAAAATTTCGGGCCCCG
1 TCACCATATTTTCACAGTGGTAATGAAAAACCACTAGTAGATGCCCCTGAAAATTTCGGGCCCCG
921158 AATATGAATTCTTAATTTTGAATTGCGAACTGCGT
66 AATATGAATTCTTAATTTTGAATTGCGAACTGCGT
921193 ATGCACACGT
Statistics
Matches: 242, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 238 0.98
166 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (165 bp):
TCACCATATTTTCACAGTGGTAATGAAAAACCACTAGTAGATGCCCCTGAAAATTTCGGGCCCCG
AATATGAATTCTTAATTTTGAATTGCGAACTGCGTTCTAGAACGCAGTTCACTATTCAAAAGCAT
ATAAGCCCGATTCTCAAAAACTATAGATAACTGCA
Found at i:931616 original size:25 final size:25
Alignment explanation
Indices: 931582--931629 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
931572 GAAAAAGCGA
*
931582 TTGTATACACCCCTTGTACAACACG
1 TTGTATACACCCCGTGTACAACACG
931607 TTGTATACACCCCGTGTACAACA
1 TTGTATACACCCCGTGTACAACA
931630 TCACTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.27
Consensus pattern (25 bp):
TTGTATACACCCCGTGTACAACACG
Found at i:933467 original size:22 final size:22
Alignment explanation
Indices: 933437--933551 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
933427 AGGTCGAGGT
*
933437 GCGAGAGTGCGAAGTTGCGAAA
1 GCGAAAGTGCGAAGTTGCGAAA
* **
933459 GCGAAAGTGCGAAGGTGCGACG
1 GCGAAAGTGCGAAGTTGCGAAA
* * *
933481 GAGAAGGAGCGAAAG-TGCGAAGA
1 GCGAAAGTGCG-AAGTTGCGAA-A
* * *
933504 TGCG-ACG-GCGAAGATGCGAAG
1 -GCGAAAGTGCGAAGTTGCGAAA
* *
933525 GCGAAAGTGAGAAGTTGCGAAT
1 GCGAAAGTGCGAAGTTGCGAAA
933547 GCGAA
1 GCGAA
933552 GAAGCAATAC
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
20 3 0.04
21 5 0.07
22 56 0.79
23 5 0.07
24 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.42, T:0.10
Consensus pattern (22 bp):
GCGAAAGTGCGAAGTTGCGAAA
Found at i:933477 original size:30 final size:29
Alignment explanation
Indices: 933443--933523 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
933433 AGGTGCGAGA
933443 GTGCGAAGTTGCGAA-AGCGAAAGTGCGAAG
1 GTGCGAAG--GCGAAGAGCGAAAGTGCGAAG
* *
933473 GTGCGACGGAGAAGGAGCGAAAGTGCGAAG
1 GTGCGAAGGCGAA-GAGCGAAAGTGCGAAG
* *
933503 ATGCGACGGCGAAGATGCGAA
1 GTGCGAAGGCGAAGA-GCGAA
933524 GGCGAAAGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
28 4 0.09
29 2 0.05
30 38 0.86
ACGTcount: A:0.33, C:0.15, G:0.42, T:0.10
Consensus pattern (29 bp):
GTGCGAAGGCGAAGAGCGAAAGTGCGAAG
Found at i:933516 original size:14 final size:14
Alignment explanation
Indices: 933497--933529 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
933487 GAGCGAAAGT
*
933497 GCGAAGATGCGACG
1 GCGAAGATGCGAAG
933511 GCGAAGATGCGAAG
1 GCGAAGATGCGAAG
933525 GCGAA
1 GCGAA
933530 AGTGAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.42, T:0.06
Consensus pattern (14 bp):
GCGAAGATGCGAAG
Found at i:933622 original size:22 final size:22
Alignment explanation
Indices: 933574--933628 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
933564 CTATCGCTCC
933574 TTCGCCATCGCAACTTCGCACT
1 TTCGCCATCGCAACTTCGCACT
* * *
933596 CTCGCCGTCGCATA-TTCGCGCT
1 TTCGCCATCGCA-ACTTCGCACT
*
933618 TTCGCCTTCGC
1 TTCGCCATCGC
933629 CTTTTTGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.11, C:0.42, G:0.18, T:0.29
Consensus pattern (22 bp):
TTCGCCATCGCAACTTCGCACT
Found at i:936057 original size:2 final size:2
Alignment explanation
Indices: 936050--936089 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
936040 TACTGAAACA
936050 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
936090 TCCAACCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:954192 original size:17 final size:17
Alignment explanation
Indices: 954172--954206 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
954162 ATATTGATAC
954172 TGCTAAAATATATGTAT
1 TGCTAAAATATATGTAT
*
954189 TGCTGAAATATATGTAT
1 TGCTAAAATATATGTAT
954206 T
1 T
954207 TTTGATTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (17 bp):
TGCTAAAATATATGTAT
Found at i:954474 original size:19 final size:19
Alignment explanation
Indices: 954450--954492 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
954440 TTTATAGTAA
954450 TATCAAATGAAAGAAGAGT
1 TATCAAATGAAAGAAGAGT
*
954469 TATC-AATTAAAGAAGAGT
1 TATCAAATGAAAGAAGAGT
954487 TATCAA
1 TATCAA
954493 TTTTCTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (19 bp):
TATCAAATGAAAGAAGAGT
Found at i:954482 original size:18 final size:18
Alignment explanation
Indices: 954459--954494 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
954449 ATATCAAATG
954459 AAAGAAGAGTTATCAATT
1 AAAGAAGAGTTATCAATT
954477 AAAGAAGAGTTATCAATT
1 AAAGAAGAGTTATCAATT
954495 TTCTACTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (18 bp):
AAAGAAGAGTTATCAATT
Found at i:964764 original size:23 final size:23
Alignment explanation
Indices: 964738--964785 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
964728 TTTTGAGAAT
*
964738 TGGACAGGCATAGTCTTCATCCA
1 TGGACAGGCATAGTCTACATCCA
964761 TGGACAGGCATAGTCTACATCCA
1 TGGACAGGCATAGTCTACATCCA
964784 TG
1 TG
964786 TGGATGTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
TGGACAGGCATAGTCTACATCCA
Found at i:967436 original size:2 final size:2
Alignment explanation
Indices: 967429--967474 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
967419 GCCAAAGCCA
967429 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
967471 TC TC
1 TC TC
967475 ATTTCGACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:968076 original size:30 final size:30
Alignment explanation
Indices: 967863--968230 Score: 255
Period size: 30 Copynumber: 12.4 Consensus size: 30
967853 TAATCTTAAA
* * * **
967863 AGATATAGGTAGTGTGTTTATTCTTACCCA
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
** **
967893 AGATACAGGTATTGCATTTGTTCTTACCTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
*
967923 AGATACA--TAAG-GTGCATTTGTTCTTACCCG
1 AGATACAGGT-AGCGTG--TTTGTTCTTACCTG
** * ** * *
967953 AGATACTTGTGGTATGTTTTTTCTTAACTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* * * * *
967983 AGATACAGGTAACCTGTTAG-TCATATCT-
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* * * * * * *
968011 AAATTACGGGAAGTGTGATTGTTTTTACATG
1 AGA-TACAGGTAGCGTGTTTGTTCTTACCTG
*
968042 AGATACAGGTAGCGTGTTTGCTCTTACCTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* * * *
968072 AGATACAGATAGGGTGTTTGTTCCTACATG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
968102 AGATACAGGTA--GTGTTTGTTCTTACCTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* * *
968130 AGATACAGGTAGCATGTTTGTTCATATCTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* * * **
968160 AGAAACAGGTAGTGTGTTTGTTATTACCCA
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
* *
968190 AGATACAGGTAGTGTGTTTGGTCTTACCTG
1 AGATACAGGTAGCGTGTTTGTTCTTACCTG
968220 AGATACAGGTA
1 AGATACAGGTA
968231 CAGTGGAGCC
Statistics
Matches: 256, Mismatches: 71, Indels: 22
0.73 0.20 0.06
Matches are distributed among these distances:
28 30 0.12
29 17 0.07
30 203 0.79
31 3 0.01
32 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (30 bp):
AGATACAGGTAGCGTGTTTGTTCTTACCTG
Found at i:968105 original size:24 final size:25
Alignment explanation
Indices: 968078--968134 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 25
968068 CCTGAGATAC
968078 AGATAGG-GTGTTTGTTCCTACATG
1 AGATAGGAGTGTTTGTTCCTACATG
* *
968102 AGATACAGGTAGTGTTTGTTCTTACCTG
1 AGAT--AGG-AGTGTTTGTTCCTACATG
968130 AGATA
1 AGATA
968135 CAGGTAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.15
26 4 0.15
28 19 0.70
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (25 bp):
AGATAGGAGTGTTTGTTCCTACATG
Found at i:968148 original size:88 final size:89
Alignment explanation
Indices: 968029--968230 Score: 253
Period size: 88 Copynumber: 2.3 Consensus size: 89
968019 GGAAGTGTGA
* * * * *
968029 TTGTTTTTACATGAGATACAGGTAGCGTGTTTGCTCTTACCTGAGATACAGATAGGGTGTTTGTT
1 TTGTTCTTACCTGAGATACAGGTAGCATGTTTGCTCATACCTGAGAAACAGATAGGGTGTTTGTT
* **
968094 CCTACATGAGATACAGGTA-GTGT
66 ACTACACAAGATACAGGTAGGTGT
* * * *
968117 TTGTTCTTACCTGAGATACAGGTAGCATGTTTGTTCATATCTGAGAAACAGGTAGTGTGTTTGTT
1 TTGTTCTTACCTGAGATACAGGTAGCATGTTTGCTCATACCTGAGAAACAGATAGGGTGTTTGTT
* *
968182 ATTACCCAAGATACAGGTAGTGTGT
66 ACTACACAAGATACAGGTAG-GTGT
*
968207 TTGGTCTTACCTGAGATACAGGTA
1 TTGTTCTTACCTGAGATACAGGTA
968231 CAGTGGAGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 70 0.72
90 27 0.28
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (89 bp):
TTGTTCTTACCTGAGATACAGGTAGCATGTTTGCTCATACCTGAGAAACAGATAGGGTGTTTGTT
ACTACACAAGATACAGGTAGGTGT
Found at i:968876 original size:15 final size:15
Alignment explanation
Indices: 968856--968885 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
968846 GTAAACTGAA
*
968856 GCGTCCGGTTATCTG
1 GCGTCCGGATATCTG
968871 GCGTCCGGATATCTG
1 GCGTCCGGATATCTG
968886 AGGCCCCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
GCGTCCGGATATCTG
Found at i:970467 original size:41 final size:41
Alignment explanation
Indices: 970410--972401 Score: 1872
Period size: 41 Copynumber: 49.1 Consensus size: 41
970400 TCTTCAAATT
* * *
970410 GGAAGAGGTAAGAAATCCTGTCTTAGAACTTATGTTTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
970451 GGAAGAGGTAAGAAATCCTGTCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
970492 -G--GA---AAGAGTTCCTATCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
970527 GGAAGAGGTTAGAGATCCTGTCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
970568 -G--GA---AAGAGATCCTGTCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
970603 -G--GA---AAGAGCTCCTGTTTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
** *
970638 GGAAGAGGTAAGAGATAATGTCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
970679 GGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
970720 GGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
970761 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
970802 -G--GA---AAGAGATCCTGTCTTAGAACTGATGTACAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * *
970837 GGAAGAGGTAAGAGTTCCTATCTAAGAACTGATGTAT----
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
970874 --AAGAGGTAAGAGATCCTGT-TTAAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTT-AGAACTGATGTATAAGA
*
970913 GGAAGAGGTAAGAGATTCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
970954 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* ** * *
970995 GAAAGAGGTAAGAGATAATATCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
971036 -G--GA---AAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
971071 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* ** * *
971112 GAAAGAGGTAAGAGATAATATCTTAGAACTGATGTGTAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
971153 -G--GA---AAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
971188 GGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
971229 GGAAGAGGTAAGAGTTCCTGTCTTAGAACTAATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
971270 GGAAGAGGTAAGAGATCCCGTCTTAGAACGGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
971311 GGAAGAGGTTAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * * * **
971352 GGAAGAGGTAAGAGTTCTTATCTTACAACTGATGTATTTGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
971393 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * *
971434 GGAAGAGGTTAGAGGTCCTATCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
971475 GGAAGAGGTAAGA-AGTCCTGTCTTAGAACTGATGTATATGA
1 GGAAGAGGTAAGAGA-TCCTGTCTTAGAACTGATGTATAAGA
*
971516 GGAAGAGGTAAGAAATCCTGTCTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * *
971557 GGGGGGAAGAGGAAAGAGTTCCTATCTTAGAACTGATGTATAAGA
1 ----GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
971602 GGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
*
971643 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGAATAAGAGGGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT-A-A--GA
* * * *
971688 GGAAGAGGAAAGAGTTCCTATCTTAGAACTAATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * *
971729 GGAAGAGGAAAGATG-TCCAT-CCTTAGAACTGATGTAAAAAGA
1 GGAAGAGGTAAGA-GATCC-TGTCTTAGAACTGATGT-ATAAGA
* * ** * * * * * ** *
971771 AGATGAGAAAAGAGTTCCT-TATAAAAGAGTTTTCCTTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGA-ACTGAT--GTATAAGA
*
971814 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGAATAAGAGGGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT-A-A--GA
* * * *
971859 GGAAGAGGAAAGAGTTCCTATCTTAGAACTAATGTATAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * *
971900 GGAAGAGGAAAGATG-TCCAT-CCTTAGAACTGATGTAAAAAGA
1 GGAAGAGGTAAGA-GATCC-TGTCTTAGAACTGATGT-ATAAGA
* * ** * *
971942 AGATGAGAAAAGAGTTCCTATCTTAGAACTGATGTGA-AAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGT-ATAAGA
* * * * * *
971983 GGAAGAGATAAGAGGTTCTGTCTTAGAACAGATGTGAAAATA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGT-ATAAGA
* * * * * *
972025 -GAAAAGGTAAGAGGTCCTATCTTAAAAGTGATGTAAAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * * * * ** * * *
972065 GGATGAGGAAAGAGGTTCTATCCAAGTAGTGATGTAAAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * * * * * *
972106 GGATGAGGAAAGAGGTCCTATTTTGGAAGTGATGT-TAAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT-AAGA
* * * * * * *
972147 GGAAGAGGAAAGAGGTCCTATTTTGGAGGTGATGACCATCATGTAAAAAA
1 GGAAGAGGTAAGAGATCCTGTCTT--A---GA--A-C-TGATGTATAAGA
* ** * * * ** *
972197 GGATGAGAAAAGAGGTCCTATTTTAGAACCAATGTAAAAGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* * * *
972238 GGAAGAGGAAAGAGGTCCTAT-TTAAGAACTAATG-ATAAGGA
1 GGAAGAGGTAAGAGATCCTGTCTT-AGAACTGATGTATAA-GA
* * **
972279 GGAAGAGGTAAGAGGTCCTATCTTAGAACTGATGTCA-GGGA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGT-ATAAGA
* * * * *
972320 GGAAGGGGTAAGATATCCTGTCTTAGATCTGAT-T-TCATA
1 GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
* *
972359 -GAAGAGGTAAGGGGTCCTGT-TTAAGAACTGATG-ATAAGGA
1 GGAAGAGGTAAGAGATCCTGTCTT-AGAACTGATGTATAA-GA
972399 GGA
1 GGA
972402 GGATGTTATA
Statistics
Matches: 1653, Mismatches: 209, Indels: 178
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.00
35 207 0.13
36 5 0.00
37 2 0.00
38 44 0.03
39 3 0.00
40 15 0.01
41 1131 0.68
42 69 0.04
43 28 0.02
44 7 0.00
45 107 0.06
46 2 0.00
48 2 0.00
50 30 0.02
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (41 bp):
GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTATAAGA
Found at i:970761 original size:117 final size:117
Alignment explanation
Indices: 970412--971993 Score: 1224
Period size: 117 Copynumber: 13.1 Consensus size: 117
970402 TTCAAATTGG
* ** * * *
970412 AAGAGGTAAGAAATCCTGTCTTAGAACTTATGTTTAAGAGGAAGAGGTAAGAAATCCTGTCTTAG
1 AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAG
* * *
970477 AACTGATGTGTAAGA-G--GA---AAGAGTTCCTATCTTAGAACTGATGTAT
66 AACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* *
970523 AAGAGG-AAGAGGTTAGAGATCCTGTCTTAGAACTGATGTGTAAGA-G--GA---AAGAGATCCT
1 AAGAGGTAAGA-G--ATA-A---TGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCT
* * *
970581 GTCTTAGAACTGATGTGTAAGA-G--GA---AAGAGCTCCTGTTTTAGAACTGATGTAT
59 GTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
*
970634 AAGAGGAAGAGGTAAGAGATAATGTCTTAGAACTGATGTGTAAGAGGAAGAGGTAAGAGATCCTG
1 ------AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
* *
970699 TTTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTAT
60 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
** *
970757 AAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTGTAAGA-G--GA---AAGAGATCCTG
1 ------AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
* * * *
970816 TCTTAGAACTGATGTACAAGAGGAAGAGGTAAGAGTTCCTATCTAAGAACTGATGTAT
60 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
** *
970874 AAGAGGTAAGAGATCCTGT-TTAAGAACTGATGTATAAGAGGAAGAGGTAAGAGATTCTGTCTTA
1 AAGAGGTAAGAGATAATGTCTT-AGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTA
970938 GAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
65 GAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* *
970991 AAGAGAAAGAGGTAAGAGATAATATCTTAGAACTGATGTGTAAGA-G--GA---AAGAGATCCTG
1 ------AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
971050 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
60 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* *
971108 AAGAGAAAGAGGTAAGAGATAATATCTTAGAACTGATGTGTAAGA-G--GA---AAGAGATCCTG
1 ------AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
*
971167 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTAT
60 TCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* * *
971225 AAGAGG-AAGAGGTAAGAGTTCCTGTCTTAGAACTAATGTATAAGAGGAAGAGGTAAGAGATCCC
1 AAGAGGTAAGAGAT-A-A-----TGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCT
* *
971289 GTCTTAGAACGGATGTATAAGAGGAAGAGGTTAGAGATCCTGTCTTAGAACTGATGTAT
59 GTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* * * **
971348 AAGAGG-AAGAGGTAAGAGTTCTTATCTTACAACTGATGTATTTGAGGAAGAGGTAAGAGATCCT
1 AAGAGGTAAGAGAT-A-A-----TGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCT
* * *
971412 GTCTTAGAACTGATGTATAAGAGGAAGAGGTTAGAGGTCCTATCTTAGAACTGATGTAT
59 GTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* * *
971471 AAGAGG-AAGAGGTAAGAAGTCCTGTCTTAGAACTGATGTATATGAGGAAGAGGTAAGAAATCCT
1 AAGAGGTAAGA-G--ATAA----TGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCT
* * *
971535 GTCTTAGAACTGATGTATAAGAGGGGGGAAGAGGAAAGAGTTCCTATCTTAGAACTGATGTAT
59 GTCTTAGAACTGATGTATAAGA----GGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
** *
971598 AAGAGGAAGAGGTAAGAGATCCTGTTTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
1 ------AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTG
* * * * *
971663 TCTTAGAACTGATGAATAAGAGGGAGGAAGAGGAAAGAGTTCCTATCTTAGAACTAATGTAT
60 TCTTAGAACTGATGTAT-A-A--GAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* * * * ** *
971725 AAGAGG-AAGAGGAAAGATGTCCATCCTTAGAACTGATGTAAAAAGAAGATGAGAAAAGAGTTCC
1 AAGAGGTAAGA-GATA-ATG----T-CTTAGAACTGATGT-ATAAGAGGAAGAGGTAAGAGATCC
* * * * ** * *
971789 T-TATAAAAGAGTTTTCCTTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGAAT
58 TGTCTTAGA-ACTGAT--GTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
* * * * *
971851 AAGAGGGAGGAAGAGGAAAGAGTTCCTATCTTAGAACTAATGTATAAGAGGAAGAGGAAAGATG-
1 AAGA--G-GTAAGA-GATA-A-----TGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGA-GA
* * * * ** * *
971915 TCCAT-CCTTAGAACTGATGTAAAAAGAAGATGAGAAAAGAGTTCCTATCTTAGAACTGATGTGA
55 TCC-TGTCTTAGAACTGATGT-ATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGT-A
971979 -
117 T
971979 AAGAGG-AAGAGATAA
1 AAGAGGTAAGAGATAA
971994 GAGGTTCTGT
Statistics
Matches: 1259, Mismatches: 117, Indels: 179
0.81 0.08 0.12
Matches are distributed among these distances:
110 12 0.01
111 130 0.10
112 3 0.00
113 1 0.00
114 7 0.01
115 2 0.00
116 1 0.00
117 389 0.31
118 6 0.00
120 12 0.01
121 8 0.01
122 5 0.00
123 355 0.28
124 8 0.01
125 2 0.00
126 40 0.03
127 144 0.11
128 62 0.05
129 25 0.02
130 31 0.02
131 4 0.00
133 7 0.01
134 4 0.00
135 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (117 bp):
AAGAGGTAAGAGATAATGTCTTAGAACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAG
AACTGATGTATAAGAGGAAGAGGTAAGAGATCCTGTCTTAGAACTGATGTAT
Found at i:971798 original size:15 final size:16
Alignment explanation
Indices: 971778--971811 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
971768 AGAAGATGAG
971778 AAAAGAG-TTCCTTAT
1 AAAAGAGTTTCCTTAT
971793 AAAAGAGTTTTCCTTAT
1 AAAAGAG-TTTCCTTAT
971810 AA
1 AA
971812 GAGGAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (16 bp):
AAAAGAGTTTCCTTAT
Found at i:972209 original size:132 final size:132
Alignment explanation
Indices: 972055--972299 Score: 328
Period size: 132 Copynumber: 1.9 Consensus size: 132
972045 CTTAAAAGTG
* * * * *** *
972055 ATGTAAAAGAGGATGAGGAAAGAGGTTCTATCCAAGTAGTGATGTAAAAGAGGATGAGGAAAGAG
1 ATGTAAAAAAGGATGAGAAAAGAGGTCCTATCCAAGAACCAATGTAAAAGAGGAAGAGGAAAGAG
** * * *
972120 GTCCTATTTTGGAAGTGATGTTAAAGAGGAAGAGGAAAGAGGTCCTATTTTGGAGGTGATGACCA
66 GTCCTATTTAAGAACTAATGATAAAGAGGAAGAGGAAAGAGGTCCTATTTTGGAGGTGATGACCA
972185 TC
131 TC
***
972187 ATGTAAAAAAGGATGAGAAAAGAGGTCCTATTTTAGAACCAATGTAAAAGAGGAAGAGGAAAGAG
1 ATGTAAAAAAGGATGAGAAAAGAGGTCCTATCCAAGAACCAATGTAAAAGAGGAAGAGGAAAGAG
* *
972252 GTCCTATTTAAGAACTAATGATAAGGAGGAAGAGGTAAGAGGTCCTAT
66 GTCCTATTTAAGAACTAATGATAAAGAGGAAGAGGAAAGAGGTCCTAT
972300 CTTAGAACTG
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 95 1.00
ACGTcount: A:0.40, C:0.08, G:0.30, T:0.22
Consensus pattern (132 bp):
ATGTAAAAAAGGATGAGAAAAGAGGTCCTATCCAAGAACCAATGTAAAAGAGGAAGAGGAAAGAG
GTCCTATTTAAGAACTAATGATAAAGAGGAAGAGGAAAGAGGTCCTATTTTGGAGGTGATGACCA
TC
Found at i:973242 original size:2 final size:2
Alignment explanation
Indices: 973235--973277 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
973225 TTGGTGGGTG
973235 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
973277 T
1 T
973278 TTTTTTTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:974416 original size:38 final size:38
Alignment explanation
Indices: 974365--976022 Score: 2050
Period size: 38 Copynumber: 43.6 Consensus size: 38
974355 ATTTTTTAAA
* * * * *
974365 CATGTCATCTGATTGAACAAGACAGTCACACGATAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
974403 CATGTCAACTGATTGATCTAGACAGTCACATGGTAGG-
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
974440 C-CGTCAACTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* ** *
974477 CATGTCAACTGATTGACCTAGACAAACACATGATGGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
974515 CATGTCAACTGATTGATCTAGACAGTCACACGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974553 AATGTCAACTGATTGATCTAAACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974591 AATGTCAACTGATTGATGTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
974629 TATGTCAACTGATTGATCTAAACAGTCACATGGTAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974667 TATGTCAACTGATTGATCTAGACAGTCACATGATTGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974705 AATGTCAACTGATTGATCTAAACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
974743 AATGTCAACTGATTGATCTAAACAGTCACATGGTAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974781 TATGTCAACTGATTGATCTAGACAGTCACATGATTGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
974819 TATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
974857 TATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
974895 TATGTCAACTGATTGAACAAGACAGTCACACGATAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
974933 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
974971 AATGTCAACTGATTGATGTAGACAGTCACATGATAGAG-
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAG-GT
* *
975009 CATGTCATCCTTGATTGATCTAGACAGTCACGTGATAGGT
1 CATGTCA-AC-TGATTGATCTAGACAGTCACATGATAGGT
* *
975049 C-TGGTCAACTGATTGATCTAGACAGTCACATGATAAGC
1 CAT-GTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
975087 CATGTCATCTGATTGATCTAGACAGTCACATGATATGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
975125 TATGTCAACTGATTGATCTAGACAGTCACATGATAAGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * ** *
975163 CATGTTATCTGATTGACCTAGACAAACACATGATGGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
975201 TATGTCATCTGATTGATCTAGAAAGTCACATGAAAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
975239 CGTGTCATCTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
975277 TATGTCAACTGATTGATCTAGACAGTCACATGGTAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
975315 AATGTCAACTGATTGATCTAGACAGTCACATGATAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* *
975353 CGTGTCATCTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
975391 TATGTCAGCTGATTGATCTAGACAGTCACACGGTAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
975429 CGTGCCATCTGATTGATCTAGACAATCACATGATTA-GC
1 CATGTCAACTGATTGATCTAGACAGTCACATGA-TAGGT
* * * *
975467 CTTGTCATCTGATTGATCTAGACAGTCACATGATAAGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * *
975505 CGTGTCATCTGATTGATCTAGACAGTCACATGATAAGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * **
975543 CGTGTCATCTGATTGATCTAGACAGTCATATGATAGAC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * ***
975581 CATGTCAACCGATTGATTTAGAGAGTCACATGATATCC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * *
975619 CATGTCATCTGATTGATTTAGACAGTCACATGGTAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
975657 CGTGTCATCTGATTGATATAGACAATCACATGATTA-GC
1 CATGTCAACTGATTGATCTAGACAGTCACATGA-TAGGT
*
975695 CATGTCATCTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
975733 TATGTCAACTGATTGATCTAGACAGTCACATGGTAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * ** *
975771 CGTGTCATCTGATTGATATAGACAATCACATGATTTGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
975809 CATGTCATCTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
*
975847 TATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
975885 TATGTCAACTGATTGATCTAGACAGTCATATGATTGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * * * *
975923 TATATTAACTGATTGATCTAGACAGTCACATGGTAGGC
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
975961 CGTGTCATCTGATTGATCGAGACAGTCACATGATAGGT
1 CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
* * *
975999 CACGTCATCTGATTGATCGAGACA
1 CATGTCAACTGATTGATCTAGACA
976023 ATCATGTTAA
Statistics
Matches: 1430, Mismatches: 178, Indels: 24
0.88 0.11 0.01
Matches are distributed among these distances:
36 33 0.02
37 6 0.00
38 1351 0.94
39 10 0.01
40 30 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (38 bp):
CATGTCAACTGATTGATCTAGACAGTCACATGATAGGT
Found at i:974700 original size:21 final size:20
Alignment explanation
Indices: 974676--974890 Score: 65
Period size: 21 Copynumber: 11.2 Consensus size: 20
974666 TTATGTCAAC
974676 TGATTGATCTAGACAGTCACA
1 TGATTGATCTA-ACAGTCACA
* *
974697 TGATTG--GTAA-TGTCA-A
1 TGATTGATCTAACAGTCACA
974713 CTGATTGATCTAAACAGTCACA
1 -TGATTGATCT-AACAGTCACA
** *
974735 TGA-T-AGGTAA-TGTCA-A
1 TGATTGATCTAACAGTCACA
974751 CTGATTGATCTAAACAGTCACA
1 -TGATTGATCT-AACAGTCACA
* * * *
974773 TGGTAGGT-T-A-TGTCA-A
1 TGATTGATCTAACAGTCACA
974789 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTA-ACAGTCACA
* *
974811 TGATTGGT-T-A-TGTCA-A
1 TGATTGATCTAACAGTCACA
974827 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTA-ACAGTCACA
* * *
974849 TGATAGGT-T-A-TGTCA-A
1 TGATTGATCTAACAGTCACA
974865 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTA-ACAGTCACA
974887 TGAT
1 TGAT
974891 AGGTTATGTC
Statistics
Matches: 136, Mismatches: 28, Indels: 60
0.61 0.12 0.27
Matches are distributed among these distances:
16 5 0.04
17 47 0.35
18 10 0.07
19 7 0.05
20 11 0.08
21 51 0.38
22 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (20 bp):
TGATTGATCTAACAGTCACA
Found at i:975272 original size:21 final size:21
Alignment explanation
Indices: 975248--975348 Score: 51
Period size: 21 Copynumber: 5.2 Consensus size: 21
975238 CCGTGTCATC
975248 TGATTGATCTAGACAGTCACA
1 TGATTGATCTAGACAGTCACA
* * *
975269 TGATAGGT-T--A-TGTCA-A
1 TGATTGATCTAGACAGTCACA
975285 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTAGACAGTCACA
* ** *
975307 TG-GT-AGGTA-A-TGTCA-A
1 TGATTGATCTAGACAGTCACA
975323 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTAGACAGTCACA
975345 TGAT
1 TGAT
975349 AGGCCGTGTC
Statistics
Matches: 54, Mismatches: 14, Indels: 24
0.59 0.15 0.26
Matches are distributed among these distances:
16 2 0.04
17 16 0.30
18 4 0.07
19 6 0.11
20 4 0.07
21 20 0.37
22 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
TGATTGATCTAGACAGTCACA
Found at i:975494 original size:21 final size:21
Alignment explanation
Indices: 975434--975576 Score: 64
Period size: 21 Copynumber: 7.4 Consensus size: 21
975424 TAGGCCGTGC
*
975434 CATCTGATTGATCTAGACAAT
1 CATCTGATTGATCTAGACAGT
* *
975455 CA-C--A-TGAT-TAGCCTTGT
1 CATCTGATTGATCTAGAC-AGT
975472 CATCTGATTGATCTAGACAGT
1 CATCTGATTGATCTAGACAGT
* * *
975493 CA-C--A-TGAT-AAGCCGTGT
1 CATCTGATTGATCTAGAC-AGT
975510 CATCTGATTGATCTAGACAGT
1 CATCTGATTGATCTAGACAGT
* * *
975531 CA-C--A-TGAT-AAGCCGTGT
1 CATCTGATTGATCTAGAC-AGT
975548 CATCTGATTGATCTAGACAGT
1 CATCTGATTGATCTAGACAGT
*
975569 CATATGAT
1 CATCTGAT
975577 AGACCATGTC
Statistics
Matches: 86, Mismatches: 18, Indels: 36
0.61 0.13 0.26
Matches are distributed among these distances:
16 10 0.12
17 23 0.27
18 6 0.07
20 6 0.07
21 31 0.36
22 10 0.12
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
CATCTGATTGATCTAGACAGT
Found at i:975722 original size:21 final size:20
Alignment explanation
Indices: 975660--975722 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
975650 GGTAGGCCGT
975660 GTCATCTGATTGATATAGACA
1 GTCATCTGATTGAT-TAGACA
* *
975681 ATCA-C--A-TGATTAGCCA
1 GTCATCTGATTGATTAGACA
975697 TGTCATCTGATTGATCTAGACA
1 -GTCATCTGATTGAT-TAGACA
975719 GTCA
1 GTCA
975723 CATGATAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 2 0.06
20 2 0.06
21 11 0.34
22 5 0.16
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (20 bp):
GTCATCTGATTGATTAGACA
Found at i:975728 original size:21 final size:21
Alignment explanation
Indices: 975704--975764 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
975694 CCATGTCATC
975704 TGATTGATCTAGACAGTCACA
1 TGATTGATCTAGACAGTCACA
* * *
975725 TGATAGGT-T--A-TGTCA-A
1 TGATTGATCTAGACAGTCACA
975741 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTAGACAGTCACA
975763 TG
1 TG
975765 GTAGGCCGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 2 0.07
20 2 0.07
21 12 0.43
22 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (21 bp):
TGATTGATCTAGACAGTCACA
Found at i:975842 original size:21 final size:21
Alignment explanation
Indices: 975818--975954 Score: 59
Period size: 21 Copynumber: 7.1 Consensus size: 21
975808 CCATGTCATC
975818 TGATTGATCTAGACAGTCACA
1 TGATTGATCTAGACAGTCACA
* * *
975839 TGATAGGT-T--A-TGTCA-A
1 TGATTGATCTAGACAGTCACA
975855 CTGATTGATCTAGACAGTCACA
1 -TGATTGATCTAGACAGTCACA
* * *
975877 TGATAGGT-T--A-TGTCA-A
1 TGATTGATCTAGACAGTCACA
*
975893 CTGATTGATCTAGACAGTCATA
1 -TGATTGATCTAGACAGTCACA
* * * *
975915 TGATTGGT-T--ATATTAAC-
1 TGATTGATCTAGACAGTCACA
975932 TGATTGATCTAGACAGTCACA
1 TGATTGATCTAGACAGTCACA
975953 TG
1 TG
975955 GTAGGCCGTG
Statistics
Matches: 79, Mismatches: 21, Indels: 32
0.60 0.16 0.24
Matches are distributed among these distances:
16 2 0.03
17 27 0.34
18 9 0.11
20 10 0.13
21 29 0.37
22 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (21 bp):
TGATTGATCTAGACAGTCACA
Found at i:979541 original size:19 final size:19
Alignment explanation
Indices: 979499--979553 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
979489 GATGAAAATT
* * *
979499 AAAGTTTGTGGCTGAGTTG
1 AAAGTTTGTAGCTGACTTC
*
979518 TAAGTTTGTAGCTGACTTC
1 AAAGTTTGTAGCTGACTTC
*
979537 AAAG-TTGTAGATGACTT
1 AAAGTTTGTAGCTGACTT
979554 GTGAGTTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.38
Consensus pattern (19 bp):
AAAGTTTGTAGCTGACTTC
Found at i:979879 original size:38 final size:38
Alignment explanation
Indices: 979780--979867 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
979770 TGTTGTTGAA
* * *
979780 TTGTGAGATTGTGGTTGAGTTGTGGGTTGGTAGCTGAC
1 TTGTGAGTTTGTAGTTGAGTTGTGGGTAGGTAGCTGAC
*
979818 TTGTGAGTTTGTAGTTGAGTTGTGGGTAGGTAGCTTAC
1 TTGTGAGTTTGTAGTTGAGTTGTGGGTAGGTAGCTGAC
979856 TTGTGAGTTTGT
1 TTGTGAGTTTGT
979868 TTTTGAATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.14, C:0.05, G:0.39, T:0.43
Consensus pattern (38 bp):
TTGTGAGTTTGTAGTTGAGTTGTGGGTAGGTAGCTGAC
Found at i:979892 original size:19 final size:19
Alignment explanation
Indices: 979765--979897 Score: 97
Period size: 19 Copynumber: 7.0 Consensus size: 19
979755 GCTGACCTCC
* *
979765 GAGTTTGTTGTTGAATTGT
1 GAGTTTGTGGTTGAGTTGT
*
979784 GAGATTGTGGTTGAGTTGT
1 GAGTTTGTGGTTGAGTTGT
* * * * *
979803 GGGTTGGTAGCTGACTTGT
1 GAGTTTGTGGTTGAGTTGT
*
979822 GAGTTTGTAGTTGAGTTGT
1 GAGTTTGTGGTTGAGTTGT
* ** * *
979841 GGGTAGGTAGCTT-ACTTGT
1 GAGTTTGT-GGTTGAGTTGT
** *
979860 GAGTTTGTTTTTGAATTGT
1 GAGTTTGTGGTTGAGTTGT
979879 GAGTTTGTGGTTGAGTTGT
1 GAGTTTGTGGTTGAGTTGT
979898 ATGTTAGTAG
Statistics
Matches: 84, Mismatches: 28, Indels: 4
0.72 0.24 0.03
Matches are distributed among these distances:
18 2 0.02
19 80 0.95
20 2 0.02
ACGTcount: A:0.14, C:0.03, G:0.37, T:0.46
Consensus pattern (19 bp):
GAGTTTGTGGTTGAGTTGT
Found at i:987413 original size:16 final size:16
Alignment explanation
Indices: 987360--987401 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
987350 CGAGGTTTAA
987360 GGCGAACGATTATTTG
1 GGCGAACGATTATTTG
987376 GGCGAACGATTATTTG
1 GGCGAACGATTATTTG
987392 GGCGAACGAT
1 GGCGAACGAT
987402 AATTAGAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.26
Consensus pattern (16 bp):
GGCGAACGATTATTTG
Found at i:999798 original size:26 final size:26
Alignment explanation
Indices: 999750--999799 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
999740 CATCTTGCCT
**
999750 TAGATTTCATTATTTTGTGTGGTATG
1 TAGATTTCATTATTTTGCATGGTATG
999776 TAGATTTCATTATTTTGCATGGTA
1 TAGATTTCATTATTTTGCATGGTA
999800 CATAGACTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (26 bp):
TAGATTTCATTATTTTGCATGGTATG
Found at i:999805 original size:26 final size:26
Alignment explanation
Indices: 999750--999805 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
999740 CATCTTGCCT
** **
999750 TAGATTTCATTATTTTGTGTGGTATG
1 TAGATTTCATTATTTTGCATGGTACA
999776 TAGATTTCATTATTTTGCATGGTACA
1 TAGATTTCATTATTTTGCATGGTACA
999802 TAGA
1 TAGA
999806 CTCTTGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (26 bp):
TAGATTTCATTATTTTGCATGGTACA
Found at i:1000152 original size:43 final size:43
Alignment explanation
Indices: 1000091--1000175 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
1000081 TCAAGAGGTT
*
1000091 AGTTTCCACTGTCAGAATTCTTTTTCTCTAGTATAAATGTGAA
1 AGTTTCCACTGTCAGAATTCTTTTTCTCCAGTATAAATGTGAA
* *
1000134 AGTTTTCACTGTCAGAATTCTTTTTCTCCAGTATTAATGTGA
1 AGTTTCCACTGTCAGAATTCTTTTTCTCCAGTATAAATGTGA
1000176 TGATGTTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (43 bp):
AGTTTCCACTGTCAGAATTCTTTTTCTCCAGTATAAATGTGAA
Found at i:1012019 original size:95 final size:95
Alignment explanation
Indices: 1011846--1012025 Score: 231
Period size: 95 Copynumber: 1.9 Consensus size: 95
1011836 TGCCTTCAAC
* * * *
1011846 TATTTAATTTACATAAAGGTGTAAATATATCTCCCTGTAGCAAGCCTAATAGTTTTTCATTGGCA
1 TATTTAATTTACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGACA
*
1011911 ATAATAAACACACAATTTTTTTAGCTAAGG
66 ATAATAAACACACAAGTTTTTTAGCTAAGG
* * *
1011941 TATTTAATTTATACA-AAAGG-GTAAAGATTTCTCCTTGTAGCAAACCTTATAGTTTTGCATTGA
1 TATTTAA-TT-TACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGA
*
1012004 CAATAA-AAGCAACACAAGTTTT
64 CAATAATAAAC-ACACAAGTTTT
1012026 CCTTTTTTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
94 3 0.04
95 59 0.81
96 7 0.10
97 4 0.05
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (95 bp):
TATTTAATTTACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGACA
ATAATAAACACACAAGTTTTTTAGCTAAGG
Found at i:1013671 original size:94 final size:94
Alignment explanation
Indices: 1013499--1013677 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 94
1013489 TGCCTTCAAC
* * * *
1013499 TATTTAATTTACATAAAGGTGTAAATATATCTCCCTGTAGCAAGCCTAATAGTTTTTCATTGGCA
1 TATTTAATTTACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGACA
*
1013564 ATAAAAAACACACAATTTTTTAGCTAAGG
66 ATAAAAAACACACAAGTTTTTAGCTAAGG
* * *
1013593 TATTTAATTTATACA-AAAGG-GTAAAGATTTCTCCTTGTAGCAAACCTTATAGTTTTGCATTGA
1 TATTTAA-TT-TACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGA
*
1013656 CAAT-AAAAGCAACACAAGTTTT
64 CAATAAAAAAC-ACACAAGTTTT
1013678 CCTTTTTTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 5 0.07
94 57 0.78
95 7 0.10
96 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (94 bp):
TATTTAATTTACATAAAGGTGTAAAGATATCTCCCTGTAGCAAACCTAATAGTTTTGCATTGACA
ATAAAAAACACACAAGTTTTTAGCTAAGG
Found at i:1014403 original size:28 final size:28
Alignment explanation
Indices: 1014367--1015204 Score: 487
Period size: 28 Copynumber: 30.5 Consensus size: 28
1014357 TAATAATATG
* *
1014367 ATGTACTGATGCTGTGTCAGGTAAT-CC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* **
1014394 ACTGAACTGATGCTGTGTTATGTAATATC
1 A-TGTACTGATGCTGTGTTATGTAATGCC
*
1014423 ATGTGCTGATGCTGTGTTATGTAATGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
*
1014451 ATGTATTGATGCTGTGTTATGTAATGTCC
1 ATGTACTGATGCTGTGTTATGTAATG-CC
* *
1014480 -TG-A-TG-T--TGTGTCATGTCAT-CC
1 ATGTACTGATGCTGTGTTATGTAATGCC
**
1014501 ACTG-ATCTGATGCTGTGTTATGTAATATC
1 A-TGTA-CTGATGCTGTGTTATGTAATGCC
*
1014530 ATGTGCTGATGCTGTGTTATGTAATGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
1014558 ATGTACTGATGCTGTGTTATGTAATGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
*
1014586 ATATACTGATGCTGTGTTATGTAATGTCC
1 ATGTACTGATGCTGTGTTATGTAATG-CC
* *
1014615 -TG-A-TG-T--TGTGTCATGTCAT-CC
1 ATGTACTGATGCTGTGTTATGTAATGCC
**
1014636 AT-TGATCTGATGCTGTGTTATGTAATATC
1 ATGT-A-CTGATGCTGTGTTATGTAATGCC
* ** * **
1014665 ATGTCCTTTTGCTGTGTTATGTATTATC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* *
1014693 ATGTA-TCAATGCTGTGTCATGTAATGCC
1 ATGTACT-GATGCTGTGTTATGTAATGCC
* * * **
1014721 ATGTCCTAATGCTGTGTTATGAAATATC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * *
1014749 ATGTCCTAATGCTGTGTCATGTAATGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* *
1014777 ATGT-CTTTATGCTGTGTTATGTAATGCT
1 ATGTAC-TGATGCTGTGTTATGTAATGCC
* * * * * **
1014805 ATGT-CTTAATGCTATTTTTTGTTATATC
1 ATGTAC-TGATGCTGTGTTATGTAATGCC
* * * *
1014833 ATGTCCTAATGCTGTGTCATGTAATGTC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * **
1014861 ATGT-CTTAATGCTGTGTAATGTAATATC
1 ATGTAC-TGATGCTGTGTTATGTAATGCC
* *
1014889 ATGT-CTTTATGCTGTGATT-TGTAATGTC
1 ATGTAC-TGATGCTGTG-TTATGTAATGCC
* ** * * ***
1014917 AAGTTTTAATGCTGCT-ATATGTAATATT
1 ATGTACTGATGCTG-TGTTATGTAATGCC
** *
1014945 ATGTACTGATGCTGTGCCATGTAATGAC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * * *
1014973 ATGTCCTAATGCTGTATTATGTAATGTC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * * *
1015001 ATGTCCTAATGCTGT-TT-TAT-AT--T
1 ATGTACTGATGCTGTGTTATGTAATGCC
* *
1015024 ATGTACTGATGCTGTGTCATGTGATGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * * *
1015052 ATGTCCTAATGCTGTTTTATGTAATACC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* ** **
1015080 ATGTACCGATGCTGTGTCCTGTGGTGCC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * *
1015108 ATGTCCTGATGCTGTGTTATGCAATACC
1 ATGTACTGATGCTGTGTTATGTAATGCC
* * * **
1015136 ATGT-CTTAAAGCTGTGATATGTAATATC
1 ATGTAC-TGATGCTGTGTTATGTAATGCC
* *
1015164 ATGTCCTGATGCTGTGTCATGTAAT-CC
1 ATGTACTGATGCTGTGTTATGTAATGCC
1015191 ATTGTACTGATGCT
1 A-TGTACTGATGCT
1015205 TGGTCATGTT
Statistics
Matches: 640, Mismatches: 130, Indels: 81
0.75 0.15 0.10
Matches are distributed among these distances:
21 4 0.01
22 1 0.00
23 39 0.06
24 1 0.00
25 10 0.02
26 10 0.02
27 13 0.02
28 545 0.85
29 16 0.03
30 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (28 bp):
ATGTACTGATGCTGTGTTATGTAATGCC
Found at i:1014605 original size:84 final size:84
Alignment explanation
Indices: 1014360--1015232 Score: 604
Period size: 84 Copynumber: 10.6 Consensus size: 84
1014350 ATTTAACTAA
* * * *
1014360 TAATATGATGTACTGATGCTGTGTCAGGTAAT-CCACTGAACTGATGCTGTGTTATGTAATATCA
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCA-TGTACTAATGCTGTGTTATGTAATATCA
*
1014424 TGTGCTGATGCTGTGTTATG
65 TGTCCTGATGCTGTGTTATG
** * * * * * *
1014444 TAATGCCATGTATTGATGCTGTGTTATGTAATGTCC-TG-----ATGTTGTGTCATGTCAT-CCA
1 TAATATCATGTACTGATGCTGTGTCATGTAATG-CCATGTACTAATGCTGTGTTATGTAATATCA
1014502 CTGAT-CTGATGCTGTGTTATG
65 -TG-TCCTGATGCTGTGTTATG
* * * **
1014523 TAATATCATGTGCTGATGCTGTGTTATGTAATGCCATGTACTGATGCTGTGTTATGTAATGCCAT
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGTACTAATGCTGTGTTATGTAATATCAT
* *
1014588 ATACTGATGCTGTGTTATG
66 GTCCTGATGCTGTGTTATG
* * * *
1014607 ---TA--ATGTCCTGATGTTGTGTCATGTCAT-CCAT-TGATCTGATGCTGTGTTATGTAATATC
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGT-A-CTAATGCTGTGTTATGTAATATC
**
1014665 ATGTCCTTTTGCTGTGTTATG
64 ATGTCCTGATGCTGTGTTATG
* * * *
1014686 TATTATCATGTA-TCAATGCTGTGTCATGTAATGCCATGTCCTAATGCTGTGTTATGAAATATCA
1 TAATATCATGTACT-GATGCTGTGTCATGTAATGCCATGTACTAATGCTGTGTTATGTAATATCA
* *
1014750 TGTCCTAATGCTGTGTCATG
65 TGTCCTGATGCTGTGTTATG
** * * * * * * *
1014770 TAATGCCATGT-CTTTATGCTGTGTTATGTAATGCTATGT-CTTAATGCTATTTTTTGTTATATC
1 TAATATCATGTAC-TGATGCTGTGTCATGTAATGCCATGTAC-TAATGCTGTGTTATGTAATATC
* *
1014833 ATGTCCTAATGCTGTGTCATG
64 ATGTCCTGATGCTGTGTTATG
* * * ** * *
1014854 TAATGTCATGT-CTTAATGCTGTGTAATGTAATATCATGT-CTTTATGCTGTGATT-TGTAATGT
1 TAATATCATGTAC-TGATGCTGTGTCATGTAATGCCATGTAC-TAATGCTGTG-TTATGTAATAT
* ** * *
1014916 CAAGTTTTAATGCTGCT-ATATG
63 CATGTCCTGATGCTG-TGTTATG
* * * * * *
1014938 TAATATTATGTACTGATGCTGTGCCATGTAATGACATGTCCTAATGCTGTATTATGTAATGTCAT
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGTACTAATGCTGTGTTATGTAATATCAT
*
1015003 GTCCTAATGC--TGTT-T-
66 GTCCTGATGCTGTGTTATG
* * * * *
1015018 T-ATATTATGTACTGATGCTGTGTCATGTGATGCCATGTCCTAATGCTGTTTTATGTAATACCAT
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGTACTAATGCTGTGTTATGTAATATCAT
**
1015082 GTACC-GATGCTGTGTCCTG
66 GT-CCTGATGCTGTGTTATG
** ** * * * * * *
1015101 TGGTGCCATGTCCTGATGCTGTGTTATGCAATACCATGT-CTTAAAGCTGTGATATGTAATATCA
1 TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGTAC-TAATGCTGTGTTATGTAATATCA
*
1015165 TGTCCTGATGCTGTGTCATG
65 TGTCCTGATGCTGTGTTATG
* ** **
1015185 TAAT-CCATTGTACTGATGCT-TGGTCATGTTTTGTAATGTACTAATGCT
1 TAATATCA-TGTACTGATGCTGT-GTCATGTAATGCCATGTACTAATGCT
1015233 AAGTCATGTA
Statistics
Matches: 636, Mismatches: 111, Indels: 84
0.77 0.13 0.10
Matches are distributed among these distances:
77 1 0.00
78 9 0.01
79 185 0.29
80 4 0.01
81 7 0.01
82 4 0.01
83 13 0.02
84 396 0.62
85 14 0.02
86 3 0.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (84 bp):
TAATATCATGTACTGATGCTGTGTCATGTAATGCCATGTACTAATGCTGTGTTATGTAATATCAT
GTCCTGATGCTGTGTTATG
Found at i:1014816 original size:13 final size:13
Alignment explanation
Indices: 1014749--1014819 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
1014739 ATGAAATATC
*
1014749 ATGTCCTAATGCT
1 ATGTCTTAATGCT
* *
1014762 GTGTCATGTAATGCC
1 ATGTC-T-TAATGCT
*
1014777 ATGTCTTTATGCT
1 ATGTCTTAATGCT
* *
1014790 GTGTTATGTAATGCT
1 ATG-TCT-TAATGCT
1014805 ATGTCTTAATGCT
1 ATGTCTTAATGCT
1014818 AT
1 AT
1014820 TTTTTGTTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
13 20 0.47
14 5 0.12
15 18 0.42
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (13 bp):
ATGTCTTAATGCT
Found at i:1015224 original size:28 final size:28
Alignment explanation
Indices: 1015193--1015250 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
1015183 TGTAATCCAT
* ** **
1015193 TGTACTGATGCTTGGTCATGTTTTGTAA
1 TGTACTAATGCTAAGTCATGTAGTGTAA
1015221 TGTACTAATGCTAAGTCATGTAGTGTAA
1 TGTACTAATGCTAAGTCATGTAGTGTAA
1015249 TG
1 TG
1015251 ATGCTGTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (28 bp):
TGTACTAATGCTAAGTCATGTAGTGTAA
Found at i:1015401 original size:28 final size:28
Alignment explanation
Indices: 1015370--1015465 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
1015360 ATGGTGCATC
*
1015370 ATGTAATGTCATGTTATGATGCTGCGTT
1 ATGTAATATCATGTTATGATGCTGCGTT
* * *
1015398 ATGTAACATCATGTACTAAGA-GGTGAC---
1 ATGTAATATCATGT--TATGATGCTG-CGTT
*
1015425 ATGTAATGTCATGTTATGATGCTGCGTT
1 ATGTAATATCATGTTATGATGCTGCGTT
*
1015453 GTGTAATATCATG
1 ATGTAATATCATG
1015466 CACTGGTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
25 5 0.10
26 3 0.06
27 12 0.24
28 23 0.45
29 3 0.06
30 5 0.10
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (28 bp):
ATGTAATATCATGTTATGATGCTGCGTT
Found at i:1015645 original size:10 final size:10
Alignment explanation
Indices: 1015612--1015654 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
1015602 TATAATGACA
1015612 TCATGTAATG
1 TCATGTAATG
*
1015622 TTCTGATGTTATG
1 -TC--ATGTAATG
1015635 TCATGTAATG
1 TCATGTAATG
1015645 TCATGTAATG
1 TCATGTAATG
1015655 ATGCTGCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 17 0.61
11 2 0.07
12 2 0.07
13 7 0.25
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (10 bp):
TCATGTAATG
Found at i:1016897 original size:15 final size:15
Alignment explanation
Indices: 1016877--1016905 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1016867 ATCCCCTTTG
1016877 GGATATTATATCCCC
1 GGATATTATATCCCC
1016892 GGATATTATATCCC
1 GGATATTATATCCC
1016906 AAACAGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (15 bp):
GGATATTATATCCCC
Found at i:1022764 original size:20 final size:21
Alignment explanation
Indices: 1022725--1022766 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1022715 TATTGGCATT
1022725 TGATAATCATTTAAAAAATAA
1 TGATAATCATTTAAAAAATAA
* *
1022746 TGATAGTCATTT-TAAAATAA
1 TGATAATCATTTAAAAAATAA
1022766 T
1 T
1022767 CAATGTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
TGATAATCATTTAAAAAATAA
Found at i:1034026 original size:47 final size:47
Alignment explanation
Indices: 1033958--1034048 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
1033948 TTTTGCTCGT
1033958 TTTTAAAATTTTGCAACGTAGTTTACCTTGAGCCAAAAACCGGCATG
1 TTTTAAAATTTTGCAACGTAGTTTACCTTGAGCCAAAAACCGGCATG
1034005 TTTTAAAATTTTGCAACGTAGTTTACCTTGAGCCAAAAACCGGC
1 TTTTAAAATTTTGCAACGTAGTTTACCTTGAGCCAAAAACCGGC
1034049 GTACATGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (47 bp):
TTTTAAAATTTTGCAACGTAGTTTACCTTGAGCCAAAAACCGGCATG
Found at i:1034395 original size:2 final size:2
Alignment explanation
Indices: 1034388--1034452 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1034378 AGCCTTAAAT
1034388 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1034430 TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
1034453 ATTACCGTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1039683 original size:22 final size:21
Alignment explanation
Indices: 1039630--1039720 Score: 146
Period size: 21 Copynumber: 4.3 Consensus size: 21
1039620 AAACAAAATT
*
1039630 GCGAATAAACGCGAAACTATC
1 GCGAATAAACGCGAAACTTTC
1039651 GCGAATAAACGCGAAACTTTC
1 GCGAATAAACGCGAAACTTTC
*
1039672 GTGATATAAACGCGAAACTTTC
1 GCGA-ATAAACGCGAAACTTTC
*
1039694 GCGAATAAACGCGTAACTTTC
1 GCGAATAAACGCGAAACTTTC
1039715 GCGAAT
1 GCGAAT
1039721 TAAGGTCAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
21 45 0.69
22 20 0.31
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (21 bp):
GCGAATAAACGCGAAACTTTC
Found at i:1039696 original size:43 final size:43
Alignment explanation
Indices: 1039634--1039715 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
1039624 AAAATTGCGA
1039634 ATAAACGCGAAACTATCGCGAATAAACGCGAAACTTTCGTGAT
1 ATAAACGCGAAACTATCGCGAATAAACGCGAAACTTTCGTGAT
* *
1039677 ATAAACGCGAAACTTTCGCGAATAAACGCGTAACTTTCG
1 ATAAACGCGAAACTATCGCGAATAAACGCGAAACTTTCG
1039716 CGAATTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (43 bp):
ATAAACGCGAAACTATCGCGAATAAACGCGAAACTTTCGTGAT
Found at i:1040276 original size:21 final size:21
Alignment explanation
Indices: 1040250--1040353 Score: 120
Period size: 21 Copynumber: 5.0 Consensus size: 21
1040240 ATTTTTTATA
1040250 GCGAATAAACGCGAAACTTTC
1 GCGAATAAACGCGAAACTTTC
* *
1040271 GCGAATAAACGCGTAACTGTC
1 GCGAATAAACGCGAAACTTTC
* *
1040292 GTGAATAAACGCAAAACTTTC
1 GCGAATAAACGCGAAACTTTC
*
1040313 GCG-ATATAACGCGAAACTTTT
1 GCGAATA-AACGCGAAACTTTC
* * *
1040334 GCAAATAGACGTGAAACTTT
1 GCGAATAAACGCGAAACTTT
1040354 GATATAAATA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (21 bp):
GCGAATAAACGCGAAACTTTC
Found at i:1041316 original size:42 final size:42
Alignment explanation
Indices: 1041270--1041415 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
1041260 TAAAGTGTTC
*
1041270 ATTCGCAAAACTAACGCGTTATAGCGCGAAAATTTTGCGTTT
1 ATTCGCAAAACTAACGCGTTATATCGCGAAAATTTTGCGTTT
* * * * *
1041312 ATTCGCGAAAGTTACGCGTTATATCGC-AAACGTTTCGCGTTT
1 ATTCGCAAAACTAACGCGTTATATCGCGAAA-ATTTTGCGTTT
*
1041354 ATTCGCAAAACAAACGCGTTATATCGCG-AAATTTTCGCGTTT
1 ATTCGCAAAACTAACGCGTTATATCGCGAAAATTTT-GCGTTT
* *
1041396 ATTTC-CGAAAGTAACGCGTT
1 A-TTCGCAAAACTAACGCGTT
1041416 TATTTGCGAA
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.07
42 76 0.89
43 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
ATTCGCAAAACTAACGCGTTATATCGCGAAAATTTTGCGTTT
Found at i:1041358 original size:84 final size:84
Alignment explanation
Indices: 1041210--1041415 Score: 247
Period size: 84 Copynumber: 2.5 Consensus size: 84
1041200 ATGATAGTTT
* * * *
1041210 CGCGAAAGTTATGC-TTTATATCGCGAAAGTTACGCGTTTTATAGCAAAAGTAAAGTGTTCATTC
1 CGCGAAAATTTTGCGTTTAT-TCGCGAAAGTTACGCGTTATATAGCAAAAGTAAAGCGTTCATTC
*
1041274 GCAAAACTAACGCGTTATAG
65 GCAAAACAAACGCGTTATAG
* * *** *
1041294 CGCGAAAATTTTGCGTTTATTCGCGAAAGTTACGCGTTATATCGCAAACGTTTCGCGTTTATTCG
1 CGCGAAAATTTTGCGTTTATTCGCGAAAGTTACGCGTTATATAGCAAAAGTAAAGCGTTCATTCG
*
1041359 CAAAACAAACGCGTTATAT
66 CAAAACAAACGCGTTATAG
*
1041378 CGCG-AAATTTTCGCGTTTATTTC-CGAAAGTAACGCGTT
1 CGCGAAAATTTT-GCGTTTA-TTCGCGAAAGTTACGCGTT
1041416 TATTTGCGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
83 7 0.07
84 91 0.86
85 8 0.08
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (84 bp):
CGCGAAAATTTTGCGTTTATTCGCGAAAGTTACGCGTTATATAGCAAAAGTAAAGCGTTCATTCG
CAAAACAAACGCGTTATAG
Done.