Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1017
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: 1024007
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 32449 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:1419 original size:11 final size:11
Alignment explanation
Indices: 1402--1437 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1392 AGTTTGCCGA
1402 AAATTTGCTGC
1 AAATTTGCTGC
*
1413 AAGTTTGCTGC
1 AAATTTGCTGC
*
1424 AAATTTGCCGC
1 AAATTTGCTGC
1435 AAA
1 AAA
1438 CAACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (11 bp):
AAATTTGCTGC
Found at i:1420 original size:22 final size:22
Alignment explanation
Indices: 1392--1436 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1382 TAAACTAATC
*
1392 AGTTTGCCGAAAATTTGCTGCA
1 AGTTTGCCGAAAATTTGCCGCA
* *
1414 AGTTTGCTGCAAATTTGCCGCA
1 AGTTTGCCGAAAATTTGCCGCA
1436 A
1 A
1437 ACAACATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (22 bp):
AGTTTGCCGAAAATTTGCCGCA
Found at i:6500 original size:165 final size:166
Alignment explanation
Indices: 6287--6586 Score: 408
Period size: 165 Copynumber: 1.8 Consensus size: 166
6277 CCCATTGTTA
* * * * *
6287 CCCCGCCCTACCCCTGGGAACCATGATTTAAACAGACTTGAATCTACACTATTTGAGGATGCCTC
1 CCCCACCCTACCCCTGGGAACCATGATTTAAACAGACTTAAATCTACACTATCTGAAGAAGCCTC
*
6352 AAC-ACAAGTTTGAGATTTCCTAGCCTAACAGTTTTTAAAAAGAAGATTTTTAAAGATTTTCTCT
66 AACGACAA-TTTGAGATTTCCTAGCCAAACAGTTTTTAAAAAGAAGATTTTTAAAGATTTTCTCT
6416 ATATATTCCTATGTAAAACTTGATCCCCTAATTAAGG
130 ATATATTCCTATGTAAAACTTGATCCCCTAATTAAGG
* *
6453 CCCCACCCTACCCCTGGG-ACCATGATTTAAAGA-ATCTTAAATCTACACTATCTGAAGAAGCTT
1 CCCCACCCTACCCCTGGGAACCATGATTTAAACAGA-CTTAAATCTACACTATCTGAAGAAGCCT
* * * * ** * * *
6516 CAACGCCAATTTGAGCTTTTCTTGCCAAATTGTTTTTGATAAGAAGATTTTTAAAGCTTTTCTCT
65 CAACGACAATTTGAGATTTCCTAGCCAAACAGTTTTTAAAAAGAAGATTTTTAAAGATTTTCTCT
6581 ATATAT
130 ATATAT
6587 ATTGCATCTG
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
164 1 0.01
165 94 0.82
166 20 0.17
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (166 bp):
CCCCACCCTACCCCTGGGAACCATGATTTAAACAGACTTAAATCTACACTATCTGAAGAAGCCTC
AACGACAATTTGAGATTTCCTAGCCAAACAGTTTTTAAAAAGAAGATTTTTAAAGATTTTCTCTA
TATATTCCTATGTAAAACTTGATCCCCTAATTAAGG
Found at i:10438 original size:43 final size:43
Alignment explanation
Indices: 10390--10566 Score: 354
Period size: 43 Copynumber: 4.1 Consensus size: 43
10380 TGTAGTAAAG
10390 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
1 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
10433 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
1 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
10476 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
1 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
10519 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
1 GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
10562 GATAA
1 GATAA
10567 TTTATGAACA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 134 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (43 bp):
GATAAACATCAACCAATTAAATACATGAACATTCTAGGTGGTT
Found at i:11250 original size:2 final size:2
Alignment explanation
Indices: 11243--11283 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
11233 CGCATTGGCC
* * *
11243 TG TG TG TG TG TG TG TG TG CG TG CG TA TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11284 TAGTGTTATC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.02, C:0.05, G:0.46, T:0.46
Consensus pattern (2 bp):
TG
Found at i:12480 original size:163 final size:162
Alignment explanation
Indices: 12164--12611 Score: 499
Period size: 165 Copynumber: 2.7 Consensus size: 162
12154 TTCCCAAAAT
* * * *
12164 ATTTTTAAAGATTTTCACTATATATTCCTATGTAAAAATCTATCCCTCCATTGCGG-CCAAGCCC
1 ATTTTTAAAGATTTTCTCTATATATTCTTATGTAAAAATC-ATCCC-CCATTTCGGCCCCA-CCC
* * * * * *
12228 TACCCCCAGAGACTATGATTT-AGCAAACTTGAATTTACTCTACCTGAGGATGCCTCCACACAAG
63 TA-CCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTA-CTGAAGATGCCTCCACACAAG
12292 TTTAGGCTTTTCTGGCCTAATAGTTTTTAAAAAGAAG
126 TTTAGGCTTTTCTGGCCTAATAGTTTTTAAAAAGAAG
*
12329 ATTTTTAAAGATTTTCTCTATATATTCTTATTTAAAAATTCATCCCCCATTTCGGCCCCACCCTA
1 ATTTTTAAAGATTTTCTCTATATATTCTTATGTAAAAA-TCATCCCCCATTTCGGCCCCACCCTA
** * *
12394 CACCTGGGGACCATAATTTGAACAACCTTGAATCTACACT-CTGAAGATGCCTCCACACAAGTTT
65 C-CCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACTGAAGATGCCTCCACACAAGTTT
* *
12458 CA-GCTTTTCTGGCCTAATAGTTTTTTAGAAGAAG
129 -AGGCTTTTCTGGCCTAATAGTTTTTAAAAAGAAG
* * * ** * *
12492 ATTTTTAAAGATTGTCTCTATATATATTCTTATGTAAAAACCCATTGCCCTTTTTTGGCCCCAAC
1 ATTTTTAAAGATT-T-TCTCTATATATTCTTATGTAAAAA-TCA-TCCCCCATTTCGGCCCCACC
* * *
12557 CTACCCCCGGGAACATTGATTTGAACAAACTTGAATCTACACTACCTGAGGATGC
62 CTACCCCAGGGACCA-TGATTTGAACAAACTTGAATCTACACTA-CTGAAGATGC
12612 TTCAGGTGAG
Statistics
Matches: 240, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
163 67 0.28
164 27 0.11
165 91 0.38
166 46 0.19
168 9 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (162 bp):
ATTTTTAAAGATTTTCTCTATATATTCTTATGTAAAAATCATCCCCCATTTCGGCCCCACCCTAC
CCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACTGAAGATGCCTCCACACAAGTTTAG
GCTTTTCTGGCCTAATAGTTTTTAAAAAGAAG
Found at i:16261 original size:16 final size:16
Alignment explanation
Indices: 16240--16289 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
16230 AAGCAAATTT
*
16240 ACTCTTGATTTCTCGA
1 ACTCTTGATCTCTCGA
16256 ACTCTTGATCTCTCGAA
1 ACTCTTGATCTCTCG-A
* *
16273 ACCCTTGATCCCTCGA
1 ACTCTTGATCTCTCGA
16289 A
1 A
16290 GTCAAACTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (16 bp):
ACTCTTGATCTCTCGA
Found at i:16281 original size:17 final size:17
Alignment explanation
Indices: 16243--16289 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
16233 CAAATTTACT
* *
16243 CTTGATTTCTCG-AACT
1 CTTGATCTCTCGAAACC
16259 CTTGATCTCTCGAAACC
1 CTTGATCTCTCGAAACC
*
16276 CTTGATCCCTCGAA
1 CTTGATCTCTCGAA
16290 GTCAAACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (17 bp):
CTTGATCTCTCGAAACC
Found at i:17015 original size:16 final size:16
Alignment explanation
Indices: 16994--17029 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
16984 TGGAAAATTC
16994 CGAACTCTTGAAAACT
1 CGAACTCTTGAAAACT
*
17010 CGAACTCTTGAAACCT
1 CGAACTCTTGAAAACT
17026 CGAA
1 CGAA
17030 GTTTTTCCTC
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:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (16 bp):
CGAACTCTTGAAAACT
Found at i:17455 original size:164 final size:165
Alignment explanation
Indices: 17163--17561 Score: 462
Period size: 164 Copynumber: 2.4 Consensus size: 165
17153 AAATACTACC
* * * * * *
17163 TGAGAATGCTTCCACACAAGTTTTAGCTTTCCTGGCTAATTAGTTTTTGAGAAGAAGATTTTTAA
1 TGAGAATGCTTCCACATAAGTTTCAGCTTTCCTGGCCAAATGGTTCTT--G-AGAAGATTTTTAA
*
17228 AGATATT-CTCTATATATACCTACCAGGTATGTAAAAAGTCAACCACCTCCATTTTGGCCCCATC
63 AGAT-TTACTCTATATGT---T-CC---TATGTAAAAAGTCAACCACCTCCATTTTGGCCCCATC
* **
17292 CTACCCCCAGGGGTC-TTAATTTTAACAACTTTAAATGTACAGTACA
120 CTACCCCCAGGGGTCATGAA-TTTAACAACTTTAAACCTACAGTACA
* *
17338 TGAGAATGCTTGCACATAAGTTTCAGCTTTTCTGGCC-AATGGTTCTTGAGAAGATTTTTAAAGA
1 TGAGAATGCTTCCACATAAGTTTCAGCTTTCCTGGCCAAATGGTTCTTGAGAAGATTTTTAAAGA
* * *
17402 TTTACTCTATATGTTCCTATGTAAAAAGTCGACCCCCTCCATTTTGGCCCCATCCTACCCCCGGG
66 TTTACTCTATATGTTCCTATGTAAAAAGTCAACCACCTCCATTTTGGCCCCATCCTACCCCCAGG
* * * * *
17467 GGTCATGAATTTCACAACTTTGAACCTATATTACT
131 GGTCATGAATTTAACAACTTTAAACCTACAGTACA
* * *
17502 TGAGGATGCTTCCTCATAAGTTTCAGCTTTCCTGGCCAAATGGTTCTTGAGAAGTTTTTT
1 TGAGAATGCTTCCACATAAGTTTCAGCTTTCCTGGCCAAATGGTTCTTGAGAAGATTTTT
17562 CGAAATTTTC
Statistics
Matches: 196, Mismatches: 25, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
164 101 0.52
165 24 0.12
167 2 0.01
168 1 0.01
170 2 0.01
171 26 0.13
172 1 0.01
174 7 0.04
175 32 0.16
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (165 bp):
TGAGAATGCTTCCACATAAGTTTCAGCTTTCCTGGCCAAATGGTTCTTGAGAAGATTTTTAAAGA
TTTACTCTATATGTTCCTATGTAAAAAGTCAACCACCTCCATTTTGGCCCCATCCTACCCCCAGG
GGTCATGAATTTAACAACTTTAAACCTACAGTACA
Found at i:22463 original size:12 final size:12
Alignment explanation
Indices: 22446--22472 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22436 ACTTTTTGAT
22446 GTACGCAAAAAA
1 GTACGCAAAAAA
22458 GTACGCAAAAAA
1 GTACGCAAAAAA
22470 GTA
1 GTA
22473 AATCTGGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.11
Consensus pattern (12 bp):
GTACGCAAAAAA
Found at i:30052 original size:1 final size:1
Alignment explanation
Indices: 30046--30092 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
30036 ACACGGGTAC
** **
30046 GGGGGGGGGGGGGGGGNTGGGGGGGGGGGGGTTGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
30093 TGGTCATGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.91, T:0.06
Consensus pattern (1 bp):
G
Found at i:30069 original size:15 final size:15
Alignment explanation
Indices: 30049--30091 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
30039 CGGGTACGGG
*
30049 GGGGGGGGGGGGGNT
1 GGGGGGGGGGGGGTT
30064 GGGGGGGGGGGGGTT
1 GGGGGGGGGGGGGTT
30079 GGGGGGGGGGGGG
1 GGGGGGGGGGGGG
30092 GTGGTCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.91, T:0.07
Consensus pattern (15 bp):
GGGGGGGGGGGGGTT
Found at i:31169 original size:13 final size:13
Alignment explanation
Indices: 31153--31185 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31143 GTTTTTTGGG
31153 GTTTTTTGTTTTT
1 GTTTTTTGTTTTT
*
31166 GTTTTTTATTTTT
1 GTTTTTTGTTTTT
31179 -TTTTTTG
1 GTTTTTTG
31186 GGGGGGGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (13 bp):
GTTTTTTGTTTTT
Found at i:31965 original size:23 final size:22
Alignment explanation
Indices: 31928--31972 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
31918 TACATTAAGG
31928 TTTTACCAACATACATAATGAT
1 TTTTACCAACATACATAATGAT
* *
31950 TTTTACACATCATACATTATGAT
1 TTTTAC-CAACATACATAATGAT
31973 ATAAGTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTTACCAACATACATAATGAT
Found at i:36098 original size:21 final size:20
Alignment explanation
Indices: 36062--36143 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
36052 TAAGCAAATG
36062 AATCGATTGCGATTTAATGCAAA
1 AATC-ATTGC-ATTTAATGC-AA
*
36085 AATCATTGCATTTAATTTCAA
1 AATCATTGCATTTAA-TGCAA
**
36106 AATCATTTTATTTAATCGCAA
1 AATCATTGCATTTAAT-GCAA
* *
36127 AATTATTGCGTTTAATG
1 AATCATTGCATTTAATG
36144 AAAGAACACA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 2 0.04
21 36 0.73
22 7 0.14
23 4 0.08
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (20 bp):
AATCATTGCATTTAATGCAA
Found at i:37797 original size:12 final size:12
Alignment explanation
Indices: 37780--37805 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37770 TTTGAATAAA
37780 ATATACATACAT
1 ATATACATACAT
37792 ATATACATACAT
1 ATATACATACAT
37804 AT
1 AT
37806 TCTCTAATAA
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:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATACATACAT
Found at i:40305 original size:165 final size:164
Alignment explanation
Indices: 40033--40780 Score: 937
Period size: 165 Copynumber: 4.5 Consensus size: 164
40023 TATTAAATGA
* *
40033 CCCTGAAAATTTCAGGCCCGAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
1 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
* * * * *
40098 CAGTTCACTATTCAATTGCATATAAGGCCGATTCTCAGAAACTATAGATAACTGCATCACCATAT
66 CAGTTCACTATTCAATTGCATATAAGCCCGATCCT-AAAAACTAGAGATAACTACATCACCATAT
* * *
40163 CTTCACAGTGGTAGTGTAATACCACTAGTAGATGT
130 CTTCACAGTGGTAGTGAAATACCACCAGTAGATGC
* * *
40198 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTTAATTTTTAATTTCGAACTGCGTTCTAGAACG
1 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
* * *
40263 CAGTTCACTATTCAATTGCATATAAGCCCGATCCTAAGAAACTATAGATGACTGCATCACCATAT
66 CAGTTCACTATTCAATTGCATATAAGCCCGATCCTAA-AAACTAGAGATAACTACATCACCATAT
*
40328 CTTCACAGTGGTAGTGAAATACCACCAGTATATGC
130 CTTCACAGTGGTAGTGAAATACCACCAGTAGATGC
*
40363 CCCTGAAAATTTCGGGCCCCAAATATGAATTTTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
1 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
* ** * * * *
40428 CAGTTCACTATTCGATTGCCA-A-AAGGCCAAAAT-TTCAAAAAGTAGAGA-AGACCACCTCACC
66 CAGTTCACTATTCAATTG-CATATAA-GCC-CGATCCT-AAAAACTAGAGATA-ACTACATCACC
* * ** * ** * *
40489 AAATTTTCATGGTGGCAGTGGTATATCACCAGGAGATGC
126 ATATCTTCACAGTGGTAGTGAAATACCACCAGTAGATGC
* *
40528 CCCTGAAAATTTCGAGCCCCAAATATAAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGATAG
1 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTC----TAG
* * *
40593 AACGCAGTTCACTATTCAATTGCATATAAGCCCGATTCTTAAAATCTAGAGATAGCTACATCACC
62 AACGCAGTTCACTATTCAATTGCATATAAGCCCGA-TCCTAAAAACTAGAGATAACTACATCACC
* * * * * *
40658 CTATTTTCACAGTGGTAGTGAAATATCACTATTAGATGT
126 ATATCTTCACAGTGGTAGTGAAATACCACCAGTAGATGC
* *
40697 CCCTGAAAATTTTGGGCCCAAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
1 CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
40762 CAGTTCACTATTCAATTGC
66 CAGTTCACTATTCAATTGC
40781 GAACTGCGAA
Statistics
Matches: 505, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
164 3 0.01
165 359 0.71
166 6 0.01
168 3 0.01
169 129 0.26
170 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (164 bp):
CCCTGAAAATTTCGGGCCCCAAATATGAATTCTAAATTTTGAATTGCGAACTGCGTTCTAGAACG
CAGTTCACTATTCAATTGCATATAAGCCCGATCCTAAAAACTAGAGATAACTACATCACCATATC
TTCACAGTGGTAGTGAAATACCACCAGTAGATGC
Found at i:40788 original size:7 final size:7
Alignment explanation
Indices: 40778--40802 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
40768 ACTATTCAAT
40778 TGCGAAC
1 TGCGAAC
40785 TGCGAAC
1 TGCGAAC
40792 TGCGAAC
1 TGCGAAC
40799 TGCG
1 TGCG
40803 TTCTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (7 bp):
TGCGAAC
Found at i:46081 original size:144 final size:143
Alignment explanation
Indices: 45818--46107 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 143
45808 ATTCATTCTG
45818 TAGTAAAGGATTAACTAACAAACAAGTATACGTGCTTGAGAACTGTTCAACAAAAAGCCCAAATC
1 TAGTAAAGGATTAACTAACAAACAAGTATACGTGCTTGAGAACTGTTCAACAAAAAGCCCAAATC
45883 ATATTGTTCATATAATTTCCTTATCAAAATTGTGTTTTATGATCTCTCTCCAACATTGCTTAACT
66 ATATTGTTCATATAATTTCCTTATCAAAATTGTGTTTTATGATCTCTCTCCAACATTGCTTAACT
45948 ACGTGTTTTATCC
131 ACGTGTTTTATCC
45961 TAGNTAAAGGATTAACTAACAAACAAGTATACGTGCTTGAGAACTGTTCAACAAAAAGCCCAAAT
1 TAG-TAAAGGATTAACTAACAAACAAGTATACGTGCTTGAGAACTGTTCAACAAAAAGCCCAAAT
46026 CATATTGTTCATATAATTTCCTTATCAAAATTGTGTTTTATGATCTCTCTCCAACATTGCTTAAC
65 CATATTGTTCATATAATTTCCTTATCAAAATTGTGTTTTATGATCTCTCTCCAACATTGCTTAAC
46091 TACGTGTTTTATCC
130 TACGTGTTTTATCC
46105 TAG
1 TAG
46108 GTCCAAAATA
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 3 0.02
144 143 0.98
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (143 bp):
TAGTAAAGGATTAACTAACAAACAAGTATACGTGCTTGAGAACTGTTCAACAAAAAGCCCAAATC
ATATTGTTCATATAATTTCCTTATCAAAATTGTGTTTTATGATCTCTCTCCAACATTGCTTAACT
ACGTGTTTTATCC
Found at i:56608 original size:165 final size:163
Alignment explanation
Indices: 56325--56970 Score: 597
Period size: 165 Copynumber: 4.0 Consensus size: 163
56315 NNNNNNNNNC
* ** * *
56325 CCCCCATTGTGGCCCCACCGAACCCCCGAGGGTCATGATTTTCACAACTTTGAATTTTCACTACC
1 CCCCCAATGTGGCCCCACCCTACCCCCG-GGGTCATGATTTTCACAACTTTGAATCTACACTACC
* * *
56390 TGACGATGCTTCCATACACGTTTCAGCTTTCCTGGC-ATAATGGTTTCTGAGAAGAAGATTTTTC
65 TGAGGATGCTTCCATACAAGTTTCAGCTTTCCTGACTA-AATGGTTTCTGAGAAGAAGATTTTTC
*
56454 AAGATTTACTTTATACATTCATATGTAAAAATGCAA
129 AA-ATTTACTTTATATATTCATATGTAAAAATGCAA
* * * *
56490 CCCCCAATGTGGCCTCACCCTACCCCCGGTGTTCATGATTTTCACAACTTTGAACCTACACTATC
1 CCCCCAATGTGGCCCCACCCTACCCCCGG-GGTCATGATTTTCACAACTTTGAATCTACACTACC
* * *
56555 TTAGGATGCTTCCTTTCAAGTTTCAGCTTTCCTGACTAAATGG-TTCTTGAGAAGAAGA--TTT-
65 TGAGGATGCTTCCATACAAGTTTCAGCTTTCCTGACTAAATGGTTTC-TGAGAAGAAGATTTTTC
* * * *
56616 -AA--T-C--CATATATCCAAATGTAAAAATTCAA
129 AAATTTACTTTATATATTCATATGTAAAAATGCAA
* * * ** * *
56645 CCCCCATTGTGGCTACCA-TCTACCCTAGGGAGTCATGATTTTCACAACCTTGAATCAACACTAC
1 CCCCCAATGTGGC-CCCACCCTACCCCCGGG-GTCATGATTTTCACAACTTTGAATCTACACTAC
** * * * * *
56709 CCAAGGATGCTTCCACACAAGTTTCAGCTTTCCTGACTGATTGCTTTCTGAGAAGACGATTTTTC
64 CTGAGGATGCTTCCATACAAGTTTCAGCTTTCCTGACTAAATGGTTTCTGAGAAGAAGATTTTTC
*
56774 AATATTTACTCTT-TATATTCCAT-TGTAAAAA-GTCGA
129 AA-ATTTACT-TTATATATT-CATATGTAAAAATG-CAA
* * * * *
56810 CCCCCAACGTAGCCCCACCCTACCCCCAAGGGTCATGATATTCACAACTTTGAATATACACTACC
1 CCCCCAATGTGGCCCCACCCTACCCCC-GGGGTCATGATTTTCACAACTTTGAATCTACACTACC
* * * * *
56875 TGAGGATGCTTCC-TCATAAGTTTCAGCTTTCCTGGCCAAATGG-CTCTTGAGAAGACGATTTTT
65 TGAGGATGCTTCCAT-ACAAGTTTCAGCTTTCCTGACTAAATGGTTTC-TGAGAAGAAGATTTTT
* * * *
56938 GAAAATGTACTCTATATATTCCTATGTAAAAAT
128 -CAAATTTACTTTATATATTCATATGTAAAAAT
56971 TTGTTGACCC
Statistics
Matches: 383, Mismatches: 71, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
154 1 0.00
155 114 0.30
156 5 0.01
157 4 0.01
158 1 0.00
159 1 0.00
160 2 0.01
161 1 0.00
162 1 0.00
163 4 0.01
164 12 0.03
165 230 0.60
166 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (163 bp):
CCCCCAATGTGGCCCCACCCTACCCCCGGGGTCATGATTTTCACAACTTTGAATCTACACTACCT
GAGGATGCTTCCATACAAGTTTCAGCTTTCCTGACTAAATGGTTTCTGAGAAGAAGATTTTTCAA
ATTTACTTTATATATTCATATGTAAAAATGCAA
Found at i:56907 original size:320 final size:320
Alignment explanation
Indices: 56356--56935 Score: 787
Period size: 320 Copynumber: 1.8 Consensus size: 320
56346 ACCCCCGAGG
* *** ** * *
56356 GTCATGATTTTCACAACTTTGAATTTTCACTACCTGACGATGCTTCCATACACGTTTCAGCTTTC
1 GTCATGATTTTCACAACCTTGAATCAACACTACCCAACGATGCTTCCACACAAGTTTCAGCTTTC
* *
56421 CTGGCATAATGGTTTCTGAGAAGAAGATTTTTCAAGATTTACTTTATACATTCATATGTAAAAAT
66 CTGACATAATGCTTTCTGAGAAGAAGATTTTTCAAGATTTACTTTATACATTCATATGTAAAAAT
* * * * *
56486 GCAACCCCCAATGTGGCCTCACCCTACCCCCGGTGTTCATGATTTTCACAACTTTGAACCTACAC
131 GCAACCCCCAACGTAGCCCCACCCTACCCCCGGTGTTCATGATATTCACAACTTTGAACATACAC
* * * * *
56551 TATCTTAGGATGCTTCCTTTCAAGTTTCAGCTTTCCTGACTAAATGGTTCTTGAGAAGAAGATTT
196 TACCTGAGGATGCTTCCTATCAAGTTTCAGCTTTCCTGACCAAATGGCTCTTGAGAAGAAGATTT
56616 AATCCATATATCCAAATGTAAAAATTCAACCCCCATTGTGGCTACCATCTACCCTAGGGA
261 AATCCATATATCCAAATGTAAAAATTCAACCCCCATTGTGGCTACCATCTACCCTAGGGA
*
56676 GTCATGATTTTCACAACCTTGAATCAACACTACCCAAGGATGCTTCCACACAAGTTTCAGCTTTC
1 GTCATGATTTTCACAACCTTGAATCAACACTACCCAACGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
56741 CTGAC-TGATTGCTTTCTGAGAAGACGATTTTTCAATATTTACTCTT-TATATTCCAT-TGTAAA
66 CTGACAT-AATGCTTTCTGAGAAGAAGATTTTTCAAGATTTACT-TTATACATT-CATATGTAAA
* *
56803 AA-GTCGACCCCCAACGTAGCCCCACCCTACCCCCAAGG-G-TCATGATATTCACAACTTTGAAT
128 AATG-CAACCCCCAACGTAGCCCCACCCTACCCCC--GGTGTTCATGATATTCACAACTTTGAAC
*
56865 ATACACTACCTGAGGATGCTTCCTCAT-AAGTTTCAGCTTTCCTGGCCAAATGGCTCTTGAGAAG
190 ATACACTACCTGAGGATGCTTCCT-ATCAAGTTTCAGCTTTCCTGACCAAATGGCTCTTGAGAAG
*
56929 ACGATTT
254 AAGATTT
56936 TTGAAAATGT
Statistics
Matches: 224, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
319 2 0.01
320 213 0.95
321 7 0.03
322 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (320 bp):
GTCATGATTTTCACAACCTTGAATCAACACTACCCAACGATGCTTCCACACAAGTTTCAGCTTTC
CTGACATAATGCTTTCTGAGAAGAAGATTTTTCAAGATTTACTTTATACATTCATATGTAAAAAT
GCAACCCCCAACGTAGCCCCACCCTACCCCCGGTGTTCATGATATTCACAACTTTGAACATACAC
TACCTGAGGATGCTTCCTATCAAGTTTCAGCTTTCCTGACCAAATGGCTCTTGAGAAGAAGATTT
AATCCATATATCCAAATGTAAAAATTCAACCCCCATTGTGGCTACCATCTACCCTAGGGA
Found at i:58253 original size:18 final size:18
Alignment explanation
Indices: 58213--58247 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58203 TGTTAGACTG
*
58213 AATGTGATAACAAAGCAC
1 AATGTGATAACAAACCAC
58231 AATGTGATAACAAACCA
1 AATGTGATAACAAACCA
58248 ACATGTCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (18 bp):
AATGTGATAACAAACCAC
Found at i:69951 original size:13 final size:13
Alignment explanation
Indices: 69927--69961 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
69917 TAAAATACAA
69927 TTTCAAATTTAAAT
1 TTTCAAA-TTAAAT
69941 TTTCAAATTAAAT
1 TTTCAAATTAAAT
69954 TTT-AAATT
1 TTTCAAATT
69962 TTTGTTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 9 0.43
14 7 0.33
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTCAAATTAAAT
Found at i:71438 original size:23 final size:23
Alignment explanation
Indices: 71408--72274 Score: 1040
Period size: 23 Copynumber: 37.7 Consensus size: 23
71398 GCGAGGTGTA
*
71408 AAGTCGTACAGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
71431 AAGTCGTAGAAACGTCATTAACT
1 AAGTCGTACAGACGTCATAAACT
* *
71454 AAGTCGTACAAACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
71477 AAGTCGTACAGACGCCTTAAAGT
1 AAGTCGTACAGACGTCATAAACT
* *
71500 AAGTCGTAGAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
71523 AAGTCGTATAGACATCATAAATT
1 AAGTCGTACAGACGTCATAAACT
* * *
71546 AAGTCGTACAAACGACATAATCT
1 AAGTCGTACAGACGTCATAAACT
* *
71569 AAGTCGTAGAGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
71592 AAGTCGTACAGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
71615 AAGTCGTACAGACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* *
71638 AAGTCGTACTGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
* *
71661 AAGTCGTACTGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
71684 CAGTCGTACAGACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
71707 TAGTCGTACAGACGCCTTAAACT
1 AAGTCGTACAGACGTCATAAACT
* *
71730 AAGTCGTACCGACGTCATAAATT
1 AAGTCGTACAGACGTCATAAACT
*
71753 AAGTCGTACAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
71776 CAGTCGTACAGACATCATAAATT
1 AAGTCGTACAGACGTCATAAACT
* * * * *
71799 AGGTCGTACAAAAGACATAATCT
1 AAGTCGTACAGACGTCATAAACT
* *
71822 AAGTCGTAGAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
71845 AAGTCGTACAGACGCCATAAACT
1 AAGTCGTACAGACGTCATAAACT
71868 AAGTCGTACAGACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
71891 AAGTCGTACATG-CGACATAAACT
1 AAGTCGTACA-GACGTCATAAACT
** * *
71914 AAGTCGTTTAAACGTCATAAATT
1 AAGTCGTACAGACGTCATAAACT
71937 AAGTCGTACAGACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
71960 AAGTCGTACAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * * *
71983 AAGTTGTACAAACGACATGAACT
1 AAGTCGTACAGACGTCATAAACT
*
72006 AAGTCGTACAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
*
72029 AAGTCGTACAGACGACATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
72052 CAGTCGTACAAAAGTCATAAA-T
1 AAGTCGTACAGACGTCATAAACT
*
72074 CAAGTCGTACAGACGACATAAACT
1 -AAGTCGTACAGACGTCATAAACT
* *
72098 AAGTCGTACAAACGTCATTAACT
1 AAGTCGTACAGACGTCATAAACT
* * * *
72121 AAGTTGTACAAACGACATGAACT
1 AAGTCGTACAGACGTCATAAACT
*
72144 AAGTCGTACAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* *
72167 CAGTCGTACAAACGTCATAAACT
1 AAGTCGTACAGACGTCATAAACT
* * *
72190 AAGTCGTACAAACGCCATAACCT
1 AAGTCGTACAGACGTCATAAACT
*
72213 AAGACGTACAGACG-CATAAACT
1 AAGTCGTACAGACGTCATAAACT
72235 AAGTCGTACA-ATCGTCATAAACT
1 AAGTCGTACAGA-CGTCATAAACT
72258 AAGTCGTACAGACGTCA
1 AAGTCGTACAGACGTCA
72275 CCTTAAACAA
Statistics
Matches: 725, Mismatches: 112, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
21 1 0.00
22 19 0.03
23 702 0.97
24 3 0.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (23 bp):
AAGTCGTACAGACGTCATAAACT
Found at i:73942 original size:2 final size:2
Alignment explanation
Indices: 73935--73993 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
73925 GCTGTCCATA
73935 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
73977 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
73994 AATGAATTAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:75945 original size:52 final size:52
Alignment explanation
Indices: 75889--76296 Score: 433
Period size: 52 Copynumber: 7.8 Consensus size: 52
75879 TAAGACGGCT
* * * * * *
75889 GTAAATAACAATAATATTCTTGCTTCTATTGAGATCATCTTGTCAGAGGTCA
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
* * * ** * *
75941 GTAAATTTATAGCTA-AATATTCTCGCTTCTATTGAGGTTATCTAGTTCGTATAGTCA
1 GT-AA---ATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAG-A-AGTCA
* * * ** * * *
75998 GTTAATAGCAAAAATATTCTTACTTTTATTGACGTCATCCAGTTAGTAGTCA
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
* * * * *
76050 ATAAATAGCAAAAACATGT-TTGCCTCTATTGACATCATCTAGTTAGAAGTCA
1 GTAAATAGCAATAATAT-TCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
* *
76102 GTATATAGCAATAATATTATTGCTTCCATTGACATCATCTAGTTAGAAGTCA
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
* *
76154 GTATATAGCAATAATATTATTGCTTCCATTGACATCATCTAGTTAGAAGTCA
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
*
76206 GTATATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
* * *
76258 GTATATAGCAATATTATTATTGCTTCCATTGACATCATC
1 GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATC
76297 CAGTAAACGA
Statistics
Matches: 310, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
51 1 0.00
52 232 0.75
53 9 0.03
54 27 0.09
55 28 0.09
56 7 0.02
57 6 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (52 bp):
GTAAATAGCAATAATATTCTTGCTTCCATTGACATCATCTAGTTAGAAGTCA
Found at i:80904 original size:2 final size:2
Alignment explanation
Indices: 80897--80946 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
80887 AGAGATTGGC
80897 AG AG AG AG AG AG AG AG AG AG AG AG AG AG ATG -G AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG
80939 AG AG AG AG
1 AG AG AG AG
80947 CGCGCGCTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:84930 original size:30 final size:30
Alignment explanation
Indices: 84891--85040 Score: 291
Period size: 30 Copynumber: 5.0 Consensus size: 30
84881 AATTACGGCC
84891 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
*
84921 ATCGGCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
84951 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
84981 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
85011 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
85041 CGTATTATTA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 118 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (30 bp):
ATCGCCTTTCCTACAGTAATTGTAAGTGTT
Found at i:88061 original size:30 final size:30
Alignment explanation
Indices: 88027--88086 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88017 AATTACGGCC
88027 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
88057 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
1 ATCGCCTTTCCTACAGTAATTGTAAGTGTT
88087 CGTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (30 bp):
ATCGCCTTTCCTACAGTAATTGTAAGTGTT
Found at i:91396 original size:36 final size:36
Alignment explanation
Indices: 91355--91430 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
91345 TAAACATTTG
91355 TTTTAAGATTGGACAACAAATCTTAATTTTATTCTC
1 TTTTAAGATTGGACAACAAATCTTAATTTTATTCTC
91391 TTTTAAGATTGGACAACAAATCTTAATTTTATTCTC
1 TTTTAAGATTGGACAACAAATCTTAATTTTATTCTC
91427 TTTT
1 TTTT
91431 GAGAAGTGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (36 bp):
TTTTAAGATTGGACAACAAATCTTAATTTTATTCTC
Found at i:95691 original size:19 final size:19
Alignment explanation
Indices: 95667--96480 Score: 1385
Period size: 19 Copynumber: 42.8 Consensus size: 19
95657 CAGCTACAAC
95667 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95686 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95705 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95724 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95743 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95762 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95781 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95800 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95819 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95838 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95857 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95876 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95895 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95914 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95933 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95952 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
95971 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
95990 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96009 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96028 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96047 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96066 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96085 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96104 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96123 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96142 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96161 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96180 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96199 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96218 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
96237 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
* *
96256 AGAGGGGGTTATAACCTGT
1 AGAGGGAGTTATAATCTGT
96275 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96294 AGAGAGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
* *
96313 AGAGGGGGTTATAACCTGT
1 AGAGGGAGTTATAATCTGT
*
96332 AGAGGGAGTTATAATATGT
1 AGAGGGAGTTATAATCTGT
*
96351 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
* *
96370 AGAGGGGGTTATAATATGT
1 AGAGGGAGTTATAATCTGT
*
96389 AGAGGGGGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
**
96408 AGAGGGAGTTATAATCCAT
1 AGAGGGAGTTATAATCTGT
* *
96427 AGAGGGGGTTATAATATGT
1 AGAGGGAGTTATAATCTGT
96446 AGAGGGAGTTATAATCTGT
1 AGAGGGAGTTATAATCTGT
*
96465 ATAGGGAGTTATAATC
1 AGAGGGAGTTATAATC
96481 CATAGAATGA
Statistics
Matches: 754, Mismatches: 41, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 754 1.00
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.31
Consensus pattern (19 bp):
AGAGGGAGTTATAATCTGT
Found at i:97250 original size:20 final size:20
Alignment explanation
Indices: 97225--97929 Score: 911
Period size: 20 Copynumber: 35.2 Consensus size: 20
97215 ACTGGCTTTT
*
97225 CTGTTAGTACTCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97245 CTGTTAGTACCCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
* * *
97266 C-ATTAGTACCATGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
* *
97285 CTGTTTGTACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
*
97305 CTGTTAGTACCCTGATTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97325 CTGTTAGTACCGTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97345 CTGTTAGTACCCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
* * *
97366 C-ATTAGTACCATGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
* * *
97385 CTGTTTGCACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
*
97405 CTGTTAGTACCCTGATTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97425 CTGTTAGTACTCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
**
97445 CTGTTAGTATTCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
* * *
97466 C-ATTAGTACCATGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
* * *
97485 CTGTTTGTACCCTAAGTTTT
1 CTGTTAGTACCCTGAGTTTC
*
97505 CTGTTAGTACCCTGATTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97525 CTGTTAGTACCGTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97545 CTGTTAGTACCCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
* * *
97566 C-ATTAGTACCATGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
* * *
97585 CTGTTTGCACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
*
97605 CTGTTAGTACCCTGATTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97625 CTGTTAGTACCGTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97645 CTGTTAGTACCCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
* *
97666 C-ATTAGTACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
97685 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97705 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97725 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97745 CTGTTAGTACCCTGAGTTTTC
1 CTGTTAGTACCCTGAG-TTTC
*
97766 C-GTTAGTACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
* *
97785 CTGTTTGTACCCTGAGTTTT
1 CTGTTAGTACCCTGAGTTTC
97805 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
**
97825 CTAATAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97845 CTGTTAGTACTCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
*
97865 CTGTTAGTACCCT-AGGTTTT
1 CTGTTAGTACCCTGA-GTTTC
97885 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97905 CTGTTAGTACCCTGAGTTTC
1 CTGTTAGTACCCTGAGTTTC
97925 CTGTT
1 CTGTT
97930 TTGTAGATTC
Statistics
Matches: 598, Mismatches: 73, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
19 25 0.04
20 542 0.91
21 31 0.05
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (20 bp):
CTGTTAGTACCCTGAGTTTC
Found at i:97398 original size:100 final size:100
Alignment explanation
Indices: 97221--97929 Score: 1149
Period size: 100 Copynumber: 7.1 Consensus size: 100
97211 TTGTACTGGC
97221 TTTT-CTGTTAGTACTC-TGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTT
1 TTTTCCTGTTAGTAC-CGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTT
97284 TCTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
65 TCTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
97320 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
1 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
*
97385 CTGTTTGCACCCTGAGTTTTCTGTTAGTACCCTGA
66 CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
**
97420 TTTTCCTGTTAGTACTC-TGAGTTTCCTGTTAGTATTCTGAGTTTTCCATTAGTACCATGAGTTT
1 TTTTCCTGTTAGTAC-CGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTT
*
97484 TCTGTTTGTACCCTAAGTTTTCTGTTAGTACCCTGA
65 TCTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
97520 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
1 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
*
97585 CTGTTTGCACCCTGAGTTTTCTGTTAGTACCCTGA
66 CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
*
97620 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCCTGAGTTTT
1 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
* *
97685 CTGTTAGTACCCTGAGTTTCCTGTTAGTACCCTGA
66 CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
* * * *
97720 GTTTCCTGTTAGTACCCTGAGTTTCCTGTTAGTACCCTGAGTTTTCCGTTAGTACCCTGAGTTTT
1 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
97785 CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
66 CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
* ** * * * *
97820 GTTTCCTAATAGTACCCTGAGTTTCCTGTTAGTACTCTGAG-TTTCCTGTTAGTACCCT-AGGTT
1 TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCC-ATTAGTACCATGA-GTT
* *
97883 TTCTGTTAGTACCCTGAGTTTCCTGTTAGTACCCTGA
64 TTCTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
*
97920 GTTTCCTGTT
1 TTTTCCTGTT
97930 TTGTAGATTC
Statistics
Matches: 579, Mismatches: 25, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
99 12 0.02
100 566 0.98
101 1 0.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.44
Consensus pattern (100 bp):
TTTTCCTGTTAGTACCGTGAGTTTCCTGTTAGTACCCTGAGTTTTCCATTAGTACCATGAGTTTT
CTGTTTGTACCCTGAGTTTTCTGTTAGTACCCTGA
Found at i:101014 original size:29 final size:29
Alignment explanation
Indices: 100972--101031 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
100962 GTTTACATTA
100972 AATTTAATTTTTCTGCCTAAAAAGTGTAG
1 AATTTAATTTTTCTGCCTAAAAAGTGTAG
* *
101001 AATTTCATTTTTCTGCCTAAAAAGTTTAG
1 AATTTAATTTTTCTGCCTAAAAAGTGTAG
101030 AA
1 AA
101032 GGTTTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (29 bp):
AATTTAATTTTTCTGCCTAAAAAGTGTAG
Found at i:102717 original size:45 final size:45
Alignment explanation
Indices: 102648--102757 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
102638 TGACCCAGAC
* * * *
102648 TACAAGGTAACAACTTTACCTTTATATAGTCTTGATCAACAGTAT
1 TACAAAGTAACAACTTTACCTTTATATAGTCTTAAACAACAGCAT
* *
102693 TACAAAGTAGCAACTTTACTTTTATATAGTCTTAAACAACAGCAT
1 TACAAAGTAACAACTTTACCTTTATATAGTCTTAAACAACAGCAT
*
102738 TACAAAGTAACAACCTTACC
1 TACAAAGTAACAACTTTACC
102758 AAACTTCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (45 bp):
TACAAAGTAACAACTTTACCTTTATATAGTCTTAAACAACAGCAT
Found at i:103157 original size:24 final size:24
Alignment explanation
Indices: 103130--103175 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
103120 AGATAAGGTA
103130 TTGTCGAATGTCATATCTAGGTTT
1 TTGTCGAATGTCATATCTAGGTTT
** **
103154 TTGTTTAATGTTGTATCTAGGT
1 TTGTCGAATGTCATATCTAGGT
103176 AATTGTGCAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (24 bp):
TTGTCGAATGTCATATCTAGGTTT
Found at i:106304 original size:12 final size:12
Alignment explanation
Indices: 106287--106349 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
106277 GATAAAATCC
106287 AGAAGAAGATGG
1 AGAAGAAGATGG
106299 AGAAG-A-A-GG
1 AGAAGAAGATGG
*
106308 A-ACAGAAGATGA
1 AGA-AGAAGATGG
106320 AGAAGAAGATGG
1 AGAAGAAGATGG
*
106332 AGAACAAAGA-GG
1 AGAA-GAAGATGG
106344 AGAAGA
1 AGAAGA
106350 CGGAGTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 5 0.12
10 2 0.05
11 3 0.07
12 25 0.61
13 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.37, T:0.05
Consensus pattern (12 bp):
AGAAGAAGATGG
Found at i:111669 original size:48 final size:48
Alignment explanation
Indices: 111598--111855 Score: 394
Period size: 48 Copynumber: 5.4 Consensus size: 48
111588 GTTTGGAACT
111598 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
1 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
*
111646 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGTTCTA
1 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
* * * * * * *
111694 CATCTCCACGTGTTTTGATGTGTCAGAGTAAGTAGTGTTGTAGCTGTA
1 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
*
111742 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTA--GTTGTAGCGCTA
1 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
*
111788 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTGTA
1 CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
* *
111836 CAAATCCAAGTCGTCTGATG
1 CAACTCCAAGTCTTCTGATG
111856 CGTTGTAGCT
Statistics
Matches: 187, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 44 0.24
48 143 0.76
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (48 bp):
CAACTCCAAGTCTTCTGATGTATTAGAGTAAGTAGTGTTGTAGCTCTA
Found at i:114822 original size:2 final size:2
Alignment explanation
Indices: 114815--114846 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
114805 TTAAAAGCAT
*
114815 GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
114847 TATTCAGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:116492 original size:30 final size:30
Alignment explanation
Indices: 116458--116528 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
116448 CTGCCAGACG
*
116458 AATTTCCCAGTCTCCGATAGA-GACCAGAAA
1 AATTTCCCAGTCTCCGAAAGATGA-CAGAAA
* * *
116488 AATTTCCCAGGCTCTGAAAGATGACAGACA
1 AATTTCCCAGTCTCCGAAAGATGACAGAAA
116518 AATTTCCCAGT
1 AATTTCCCAGT
116529 GTGCGACAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (30 bp):
AATTTCCCAGTCTCCGAAAGATGACAGAAA
Found at i:118769 original size:11 final size:11
Alignment explanation
Indices: 118753--118794 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
118743 ACTAGAGTGG
*
118753 ACCCAGATTAA
1 ACCCAGAGTAA
118764 ACCCAGAGTAA
1 ACCCAGAGTAA
*
118775 ACCCAAAGTAA
1 ACCCAGAGTAA
118786 ACCCAGAGT
1 ACCCAGAGT
118795 GGACACAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (11 bp):
ACCCAGAGTAA
Found at i:118771 original size:22 final size:22
Alignment explanation
Indices: 118746--118804 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
118736 CGGGTTAACT
*
118746 AGAGTGGACCCAGATTAAACCC
1 AGAGTGGACCCAGAGTAAACCC
** *
118768 AGAGTAAACCCAAAGTAAACCC
1 AGAGTGGACCCAGAGTAAACCC
*
118790 AGAGTGGACACAGAG
1 AGAGTGGACCCAGAG
118805 AGTAAACTCA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.10
Consensus pattern (22 bp):
AGAGTGGACCCAGAGTAAACCC
Found at i:118974 original size:11 final size:11
Alignment explanation
Indices: 118960--118995 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
118950 GCAATTTCAA
*
118960 AGTAAACCCCG
1 AGTAAACCCAG
*
118971 AGTAAACCCAA
1 AGTAAACCCAG
118982 AGTAAACCCAG
1 AGTAAACCCAG
118993 AGT
1 AGT
118996 GGACCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (11 bp):
AGTAAACCCAG
Found at i:118985 original size:22 final size:22
Alignment explanation
Indices: 118957--119004 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
118947 AAAGCAATTT
*
118957 CAAAGTAAACCCCGAGTAAACC
1 CAAAGTAAACCCAGAGTAAACC
**
118979 CAAAGTAAACCCAGAGTGGACC
1 CAAAGTAAACCCAGAGTAAACC
119001 CAAA
1 CAAA
119005 TTTTCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (22 bp):
CAAAGTAAACCCAGAGTAAACC
Found at i:121706 original size:2 final size:2
Alignment explanation
Indices: 121699--121749 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
121689 ATTTAGTATG
121699 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
121741 CT CT CT CT C
1 CT CT CT CT C
121750 AGTATATAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:123185 original size:2 final size:2
Alignment explanation
Indices: 123178--123214 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
123168 ATTTAGTATG
123178 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
123215 AGTATATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:126945 original size:20 final size:20
Alignment explanation
Indices: 126920--126957 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
126910 CACACACTAA
126920 TAGTGCTTGTACTGTATACC
1 TAGTGCTTGTACTGTATACC
126940 TAGTGCTTGTACTGTATA
1 TAGTGCTTGTACTGTATA
126958 TATTTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (20 bp):
TAGTGCTTGTACTGTATACC
Found at i:131098 original size:38 final size:38
Alignment explanation
Indices: 129967--131082 Score: 1739
Period size: 38 Copynumber: 29.3 Consensus size: 38
129957 CCCCTGCCTT
* * ** * *
129967 AATCTTTATCACCGTATGTAAAGGGTATTCCC-AGCATT
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCA-A
* * *
130005 AATCTTAATCACAGTGGGTATGGGGTATTCCCTACCGA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
130043 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130081 AATCTATATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130119 AATCTATATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
130157 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* * *
130195 AATCTATATCACAGTGGGTATGGGGAATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130233 AATCTTTATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130271 AATCTTTATCACAGTGTGTATGGGATATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* * *
130309 AATCTATATCACAGTGGGTATGGGGTTTTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
130347 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* * *
130385 AATCTATCTCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130423 AATCTTTATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130461 AATCTTTATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130499 AATCTATATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
130537 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
**
130575 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACTTA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130613 AATCTATATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130651 AATCTTTATCATAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130689 AATCTATATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
*
130727 AATCTTTATCACAGTGGGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
130765 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130803 AATCTATATCACAGTGTGTATGGGGCATTCCCTACCGAA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACC-AA
* *
130842 AATCTTTATCACAGTGTGTATGGGGTATTCCCTGCCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130880 AATCTTTATCACAGTGGGTATGGGGTATTCCCTACCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* * *
130918 AATCTTTATCATAGTGTGTATGGGGTATTCCCTGCCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
130956 AATCTATATCACAGTGTGTATGGGGTATTCCCTACCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* * *
130994 AATCTTTATCATAGTGTGTATGGGGTATTCCCTGCCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
* *
131032 AATCTATATCACAGTGTGTATGGGGTATTCCCTACCCA
1 AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
131070 AATCTTTATCACA
1 AATCTTTATCACA
131083 TTTTTTATGG
Statistics
Matches: 1005, Mismatches: 71, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
38 968 0.96
39 37 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (38 bp):
AATCTTTATCACAGTGTGTATGGGGTATTCCCTACCAA
Found at i:137781 original size:33 final size:33
Alignment explanation
Indices: 137717--138651 Score: 943
Period size: 33 Copynumber: 28.6 Consensus size: 33
137707 GTAAAAGTTT
* * * **
137717 ACATCAAGT-CAGATTATGAACACTGCTATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * *
137749 ACATCAAGTATTGATAATGAAAAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* ** *
137782 ACATCAAGTATTGATGATGGCCAGTGAGATATA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
*
137815 ACATTCAAGTACTGATGGTGAACAGTGAGATGTA
1 ACA-TCAAGTACTGATGATGAACAGTGAGATGTA
* **
137849 ACATCAAGTATTGATGATGGCCAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * * *
137882 ACATCAAGTCCTGGTGGTGAACAGTGATATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
*
137915 ACATCAAGTACTGATGGTGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* **
137948 ACATCAAGTACTGGTGATGGCCAGTGATCAGATGTA
1 ACATCAAGTACTGATGATGAACAGTG---AGATGTA
* * **
137984 ACATCAAATATTGATGATGGCCAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
*
138017 ACATCAAGTACTGGTGATGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* *
138050 ACATCAAGTACTGGTGATGAACAGTAAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* **
138083 ACATCAAGTACTGGTGATGGCCAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* *
138116 CCATCAAGTACTGGTGATGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * *
138149 ACATCAAATATTGATGATGAATAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* *
138182 ACATGAAGTACTGATGGTGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
*
138215 ACATCAAGTACTGGTGATGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* **
138248 ACATCAAGTACTGGTGATGGCCAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * *
138281 ACATCAAGTATTGATGATGGACAGAGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
*
138314 ACATCAAGTACTGATGGTGAACAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * * * *
138347 ATATCAAATATTGATGATGAATAGTGAGATATA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* *
138380 ACATCAAGGT-CTGATGGTGAACAGTGAGATGAA
1 ACATCAA-GTACTGATGATGAACAGTGAGATGTA
* *
138413 ACATCAAGTACTGGTGATGAACAGTGAGATGAA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * *
138446 ACATCAA-T--TG-TGATGAAAAGTTAGATATA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* ** * * * *
138475 ACATCAAGTTCTG--GAATGTTCAGTAACAATTTT
1 ACATCAAGTACTGATG-ATGAACAGTGA-GATGTA
138508 A-ATCAAGTACTGATGAT-AGACAGTGAGATGTA
1 ACATCAAGTACTGATGATGA-ACAGTGAGATGTA
* * * *
138540 GCATCAAGTACTGATGATTAATA--G-GATGTT
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
138570 ACATCAAGTACTGATGA-G--CAGTGAGATGTA
1 ACATCAAGTACTGATGATGAACAGTGAGATGTA
* * * * * *
138600 ACAT-AAGGAACTGGTTATGAACAGTAAGAGGGA
1 ACATCAA-GTACTGATGATGAACAGTGAGATGTA
*
138633 AAAT-ATAGTACTGATGATG
1 ACATCA-AGTACTGATGATG
138652 TTACATCTAG
Statistics
Matches: 755, Mismatches: 123, Indels: 49
0.81 0.13 0.05
Matches are distributed among these distances:
27 1 0.00
29 25 0.03
30 40 0.05
31 3 0.00
32 34 0.05
33 590 0.78
34 32 0.04
36 30 0.04
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (33 bp):
ACATCAAGTACTGATGATGAACAGTGAGATGTA
Found at i:137966 original size:99 final size:99
Alignment explanation
Indices: 137744--139515 Score: 1594
Period size: 99 Copynumber: 18.1 Consensus size: 99
137734 GAACACTGCT
* * * * * * **
137744 ATGTAACATCAAGTATTGATAATGAAAAGTGAGATGTAACATCAAGTATTGATGATGGCCAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* * *
137809 GATATAACATTCAAGTACTGATGGTGAACAGTGAG
66 GATGTAACA-TCAAGTACTGGTGATGAACAGTGAG
* * * * * *
137844 ATGTAACATCAAGTATTGATGATGGCCAGTGAGATGTAACATCAAGTCCTGGTGGTGAACAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* * *
137909 TATGTAACATCAAGTACTGATGGTGAACAGTGAG
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * **
137943 ATGTAACATCAAGTACTGGTGATGGCCAGTGATCAGATGTAACATCAAATATTGATGATGGCCAG
1 ATGTAACATCAAGTACTGGTGATGGACAGTG---AGATGTAACATCAAGTACTGATGATGAACAG
138008 TGAGATGTAACATCAAGTACTGGTGATGAACAGTGAG
63 TGAGATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * **
138045 ATGTAACATCAAGTACTGGTGATGAACAGTAAGATGTAACATCAAGTACTGGTGATGGCCAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
*
138110 GATGTACCATCAAGTACTGGTGATGAACAGTGAG
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * * * *
138144 ATGTAACATCAAATATTGATGATGAATAGTGAGATGTAACATGAAGTACTGATGGTGAACAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
138209 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * *
138243 ATGTAACATCAAGTACTGGTGATGGCCAGTGAGATGTAACATCAAGTATTGATGATGGACAGAGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* *
138308 GATGTAACATCAAGTACTGATGGTGAACAGTGAG
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * * * * *
138342 ATGTAATATCAAATATTGATGATGAATAGTGAGATATAACATCAAGGT-CTGATGGTGAACAGTG
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAA-GTACTGATGATGAACAGTG
*
138406 AGATGAAACATCAAGTACTGGTGATGAACAGTGAG
65 AGATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * * * ** *
138441 ATGAAACATCAA-T--T-GTGATGAAAAGTTAGATATAACATCAAGTTCTG--GAATGTTCAGTA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATG-ATGAACAGTG
* * * *
138500 ACAATTTTA-ATCAAGTACTGATGAT-AGACAGTGAG
65 A-GATGTAACATCAAGTACTGGTGATGA-ACAGTGAG
* * * *
138535 ATGTAGCATCAAGTACTGATGAT-TA-A-T-AGGATGTTACATCAAGTACTGATGA-G--CAGTG
1 ATGTAACATCAAGTACTGGTGATGGACAGTGA-GATGTAACATCAAGTACTGATGATGAACAGTG
* * *
138593 AGATGTAACAT-AAGGAACTGGTTATGAACAGTAAG
65 AGATGTAACATCAA-GTACTGGTGATGAACAGTGAG
* * * * * *
138628 AGGGAAAAT-ATAGTAC---TGAT-G--A-T--G-T-T-ACATCTAGTTCTGATGATGGACA-TG
1 ATGTAACATCA-AGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTG
* * * * *
138679 AGAGGCAACATCAAGCACTGATGAT-AGACAGTGAA
65 AGATGTAACATCAAGTACTGGTGATGA-ACAGTGAG
* * * * * * ** * * *
138714 ATTTATCAT-TAGGAATGGGTTATAAACAGTGAGATGCAAAATCAAGTACTGATGATAAACAGTG
1 ATGTAACATCAAGTACT-GGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTG
*
138778 AGATGCAACATCAAGTAC-GAGTGATGAACAGTGAG
65 AGATGTAACATCAAGTACTG-GTGATGAACAGTGAG
* * * *
138813 ATGTAACATCAAGTACTAGTGATGAACAGTGAGATGTAACATCAGGTACTGATAATGAACAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* * * *
138878 GATATAACATCAAGTACTGGTGATGAGCAGTAAA
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * **
138912 ATGTAACATCAAGTACTGATGATGAACAGTGAGATGTAACATCAAGTTCTGGTGATGGCCAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* *
138977 GATGTAACATCAA-TCACTGGTGATGAATAGTTAG
66 GATGTAACATCAAGT-ACTGGTGATGAACAGTGAG
* * * ** *
139011 ATATAACATCAAGTACTGGTGATGGCCAGTGAGATGTAACATCAAGTATTGATGATGGCCAGAGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* * *
139076 AATGTAACATTTATA-TACTGGTGATGAACAGTAAG
66 GATGTAACA-TCA-AGTACTGGTGATGAACAGTGAG
* * * * * * *
139111 ATGTAACATCAAGTACTGG-AATGGACAGTAAAAAT-TTATATCAAGTACTGATGATGGACAGAG
1 ATGTAACATCAAGTACTGGTGATGGACAGT-GAGATGTAACATCAAGTACTGATGATGAACAGTG
* ** *
139174 AGATGTAACATCAAGTACTGGTAATGGCCAGTAAG
65 AGATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * * *
139209 ATGTAACATCAAGTATTGATGATGGCCAGTGAGATGTAATATTTATA-TACTGGTGATGAACAGT
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACA-TCA-AGTACTGATGATGAACAGT
**
139273 GAGATGTAACATCAAGTACTGGTGATGGCCAGTGAG
64 GAGATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * *
139309 ATGTAACATCAAATATTGATGATGGACAGAGAGATGTAACATCAAGTACTGGTGATGAACAGTGA
1 ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
* *
139374 GATGTAACATCAAGTACTGGTGATGAGCAGCGAG
66 GATGTAACATCAAGTACTGGTGATGAACAGTGAG
* * * * * * * *
139408 ATGCAACATCAA-TACTGGTGATGG-CTTGAGAGATGTATCATCAAATTCTTG-TGATTAACTGT
1 ATGTAACATCAAGTACTGGTGATGGAC-AGTGAGATGTAACATCAAGTAC-TGATGATGAACAGT
* *** * *
139470 GAGATATAACATTTGGAACTGGTTATGAACAGTGAG
64 GAGATGTAACATCAAGTACTGGTGATGAACAGTGAG
*
139506 ATGAAACATC
1 ATGTAACATC
139516 TTTGGGTGTC
Statistics
Matches: 1389, Mismatches: 229, Indels: 110
0.80 0.13 0.06
Matches are distributed among these distances:
84 15 0.01
85 6 0.00
86 30 0.02
87 5 0.00
89 5 0.00
90 4 0.00
92 8 0.01
93 35 0.03
94 44 0.03
95 50 0.04
96 4 0.00
97 5 0.00
98 139 0.10
99 753 0.54
100 197 0.14
101 3 0.00
102 86 0.06
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (99 bp):
ATGTAACATCAAGTACTGGTGATGGACAGTGAGATGTAACATCAAGTACTGATGATGAACAGTGA
GATGTAACATCAAGTACTGGTGATGAACAGTGAG
Found at i:138772 original size:33 final size:33
Alignment explanation
Indices: 138738--139515 Score: 753
Period size: 33 Copynumber: 23.6 Consensus size: 33
138728 ATGGGTTATA
* * * *
138738 AACAGTGAGATGCAAAATCAAGTACTGATGATA
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
*
138771 AACAGTGAGATGCAACATCAAGTAC-GAGTGATG
1 AACAGTGAGATGTAACATCAAGTACTG-GTGATG
*
138804 AACAGTGAGATGTAACATCAAGTACTAGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* * *
138837 AACAGTGAGATGTAACATCAGGTACTGATAATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
*
138870 AACAGTGAGATATAACATCAAGTACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* * * *
138903 AGCAGTAAAATGTAACATCAAGTACTGATGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
*
138936 AACAGTGAGATGTAACATCAAGTTCTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
**
138969 GCCAGTGAGATGTAACATCAA-TCACTGGTGATG
1 AACAGTGAGATGTAACATCAAGT-ACTGGTGATG
* * *
139002 AATAGTTAGATATAACATCAAGTACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
** * *
139035 GCCAGTGAGATGTAACATCAAGTATTGATGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
** * * *
139068 GCCAGAGAAATGTAACATTTATA-TACTGGTGATG
1 AACAGTGAGATGTAACA-TCA-AGTACTGGTGATG
* *
139102 AACAGTAAGATGTAACATCAAGTACTGG-AATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* * * * * *
139134 GACAGTAAAAAT-TTATATCAAGTACTGATGATG
1 AACAGT-GAGATGTAACATCAAGTACTGGTGATG
* * *
139167 GACAGAGAGATGTAACATCAAGTACTGGTAATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
** * * *
139200 GCCAGTAAGATGTAACATCAAGTATTGATGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
** * *
139233 GCCAGTGAGATGTAATATTTATA-TACTGGTGATG
1 AACAGTGAGATGTAACA-TCA-AGTACTGGTGATG
139267 AACAGTGAGATGTAACATCAAGTACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
** * * *
139300 GCCAGTGAGATGTAACATCAAATATTGATGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* *
139333 GACAGAGAGATGTAACATCAAGTACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
139366 AACAGTGAGATGTAACATCAAGTACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* * *
139399 AGCAGCGAGATGCAACATCAA-TACTGGTGATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
* * * * * * * *
139431 -GCTTGAGAGATGTATCATCAAATTCTTGTGATT
1 AAC-AGTGAGATGTAACATCAAGTACTGGTGATG
* * *** * *
139464 AACTGTGAGATATAACATTTGGAACTGGTTATG
1 AACAGTGAGATGTAACATCAAGTACTGGTGATG
*
139497 AACAGTGAGATGAAACATC
1 AACAGTGAGATGTAACATC
139516 TTTGGGTGTC
Statistics
Matches: 612, Mismatches: 117, Indels: 32
0.80 0.15 0.04
Matches are distributed among these distances:
31 2 0.00
32 53 0.09
33 505 0.83
34 50 0.08
35 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (33 bp):
AACAGTGAGATGTAACATCAAGTACTGGTGATG
Found at i:140026 original size:49 final size:48
Alignment explanation
Indices: 139969--140125 Score: 260
Period size: 49 Copynumber: 3.2 Consensus size: 48
139959 GTATAAAGAA
*
139969 GTATATGTATACAAGAACCTCCTACATCAGAGAGGCTTCTCAAACACCT
1 GTATATGTATACAAGAACCTCCTACA-CTGAGAGGCTTCTCAAACACCT
*
140018 GTATATGTATACAAGAACCTCCTACACCTGAGAAGCTTCTCAAACACCT
1 GTATATGTATACAAGAACCTCCTACA-CTGAGAGGCTTCTCAAACACCT
*
140067 GTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCT
1 GTATATGTATACAAGAACCTCCTACAC-TGAGAGGCTTCTCAAACACCT
140116 GTATATGTAT
1 GTATATGTAT
140126 CCTCGGAGGT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
48 1 0.01
49 100 0.99
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (48 bp):
GTATATGTATACAAGAACCTCCTACACTGAGAGGCTTCTCAAACACCT
Found at i:141175 original size:49 final size:49
Alignment explanation
Indices: 141099--141347 Score: 392
Period size: 49 Copynumber: 5.1 Consensus size: 49
141089 CCTTCGATGA
* *
141099 TATACAAGAACCTCCTTCACTTTAGAGGCTTCTCAAACACCTGTATATG
1 TATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATG
141148 TATACAAGAACCTCCTACA-TCTGAGAGGCTTCTCAAACACCTGTATATG
1 TATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACACCTGTATATG
* *
141197 TATACAGGAACCTCCTACACTTGAGAGGCTTCTCTAACACCTGTATATG
1 TATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATG
* *
141246 TATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACCTGTATATG
1 TATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATG
* * * *
141295 TATACAGGAACCTCCTACACTTGAGCGGCCTCTCCAACACCTGTATATG
1 TATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATG
141344 TATA
1 TATA
141348 AAAGGCTTCT
Statistics
Matches: 184, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
48 1 0.01
49 182 0.99
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (49 bp):
TATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATG
Found at i:141413 original size:79 final size:79
Alignment explanation
Indices: 141271--141426 Score: 251
Period size: 79 Copynumber: 2.0 Consensus size: 79
141261 TCCACTTGAT
* * * *
141271 AGGCTTCTCAAACACCTGTATATGTATACAGGAACCTCCTACACTTGAGCGGCCTCTCCAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCCTCTCAAACACC
141336 TGTATATGTATAAA
66 TGTATATGTATAAA
*
141350 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-TCTGAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACT-TGAGAGGCCTCTCAAACAC
141414 CTGTATATGTATA
65 CTGTATATGTATA
141427 CAAGAATCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 70 0.99
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (79 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCCTCTCAAACACC
TGTATATGTATAAA
Found at i:141426 original size:49 final size:48
Alignment explanation
Indices: 141350--142323 Score: 800
Period size: 49 Copynumber: 19.7 Consensus size: 48
141340 TATGTATAAA
*
141350 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
*
141399 AGGCTTCTCAAACACCTGTATATGTATACAAGAATCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
* * *
141448 CGGCTTCTCAAACACCTGTATATGTATACAAAAACCTCCTACATTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
* * *
141497 AGGCTTCTCTAACACCTGTATATGTATACAGGAATCTCCTACACATAGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-T-GAG
*
141547 AGGCTTCTCAAACACCTGTTTATGTATACAAGAACCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
* ** *
141596 AGGCTTCTCAAACACCTGTATATGTATACAAG-GCTTCTCAAACACCTGTAT
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAAC--CTCCTACA-CTG-AG
* * * * * * * * *** ** *
141647 AAG-TAT-ACAAGA-ACCTCTTACATCT-GAGAGGCTTCTCAAACACCTGTAT
1 AGGCT-TCTCAA-ACACCT-GTATATGTATACAAGAACCTCCTACA-CTG-AG
* * * * * * *
141696 ATG-TAT-ACAAGA-ACCTCCTCCACT-TGATAGGCTTCTCAA-ACACCT-GTATA-TGTATAC
1 AGGCT-TCTCAA-ACACCT-GT--A-TATG-TA----T-ACAAGA-ACCTCCTACACTG---AG
*** ** * * * * * *
141753 AGGAACCTCCTACACTTG-AGCA-GCT-TCTCAA-ACACCT-GTATA-TGTATACA
1 AGGCTTCTCAAACACCTGTA-TATG-TAT-ACAAGA-ACCTCCTACACTG---A-G
* *
141803 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTAAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
*
141852 AGGCTTCTCAAACACCTGTATATGTATACAGGAACCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
*
141901 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGTG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
* *
141950 AGGCTTCTTAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
* * *
141999 AGGCTTCTCAAACCCCCGTATAAGTATACAAGAACCTCCTACACCTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
* *
142048 AGGCTTCTCTAACACCTGTATATGTATACAAGAACCTCCTACAATTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTAC-ACTGAG
142097 AGGCTTCTCAAACACCTGTATA--TATACAAGAACCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
*
142144 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACATCCGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
* * *
142193 AGGCTTTTCTAACACCTTTATATGTATACAAGAACCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACAC-TGAG
* *
142242 AGGCTTCTCAAACACCTGTATAAGTATATAAGAACCTCCTACACCTGAG
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-CTGAG
*
142291 AGGCTTCTCAAACACCTGTATATATATACAAGA
1 AGGCTTCTCAAACACCTGTATATGTATACAAGA
142324 CTTCTCAAAC
Statistics
Matches: 777, Mismatches: 102, Indels: 92
0.80 0.11 0.09
Matches are distributed among these distances:
46 1 0.00
47 44 0.06
48 4 0.01
49 598 0.77
50 89 0.11
51 20 0.03
52 1 0.00
53 1 0.00
54 3 0.00
55 2 0.00
57 7 0.01
58 7 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (48 bp):
AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTGAG
Found at i:141450 original size:128 final size:128
Alignment explanation
Indices: 141222--141475 Score: 420
Period size: 128 Copynumber: 2.0 Consensus size: 128
141212 TACACTTGAG
* * * *
141222 AGGCTTCTCTAACACCTGTATATGTATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
* *
141287 TGTATATGTATACAGGAACCTCCTACACTTGAGCGGCCTCTCCAACACCTGTATATGTATAAA
66 TGTATATGTATACAAGAACCTCCTACACTTGAGCGGCCTCTCAAACACCTGTATATGTATAAA
141350 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-TCTGAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACAC
* *
141414 CTGTATATGTATACAAGAATCTCCTACACTTGAGCGGCTTCTCAAACACCTGTATATGTATA
65 CTGTATATGTATACAAGAACCTCCTACACTTGAGCGGCCTCTCAAACACCTGTATATGTATA
141476 CAAAAACCTC
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 1 0.01
128 116 0.99
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (128 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
TGTATATGTATACAAGAACCTCCTACACTTGAGCGGCCTCTCAAACACCTGTATATGTATAAA
Found at i:141469 original size:177 final size:177
Alignment explanation
Indices: 141173--141524 Score: 571
Period size: 177 Copynumber: 2.0 Consensus size: 177
141163 TACATCTGAG
* * *
141173 AGGCTTCTCAAACACCTGTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCTAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
* * **
141238 TGTATATGTATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACCTGTATATGTATACAGG
66 TGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAA
*
141303 AACCTCCTACACTTGAGCGGCCTCTCCAACACCTGTATATGTATAAA
131 AACCTCCTACACTTGAGAGGCCTCTCCAACACCTGTATATGTATAAA
141350 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-TCTGAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACAC
* *
141414 CTGTATATGTATACAAGAATCTCCTACACTTGAGCGGCTTCTCAAACACCTGTATATGTATACAA
65 CTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAA
* * *
141479 AAACCTCCTACATTTGAGAGGCTTCTCTAACACCTGTATATGTATA
130 AAACCTCCTACACTTGAGAGGCCTCTCCAACACCTGTATATGTATA
141525 CAGGAATCTC
Statistics
Matches: 161, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
176 1 0.01
177 160 0.99
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (177 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
TGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAA
AACCTCCTACACTTGAGAGGCCTCTCCAACACCTGTATATGTATAAA
Found at i:141630 original size:30 final size:30
Alignment explanation
Indices: 141596--141657 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
141586 TACACTTGAG
*
141596 AGGCTTCTCAAACACCTGTATATGTATACA
1 AGGCTTCTCAAACACCTGTATAAGTATACA
141626 AGGCTTCTCAAACACCTGTATAAGTATACA
1 AGGCTTCTCAAACACCTGTATAAGTATACA
141656 AG
1 AG
141658 AACCTCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (30 bp):
AGGCTTCTCAAACACCTGTATAAGTATACA
Found at i:141678 original size:79 final size:79
Alignment explanation
Indices: 141547--141706 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 79
141537 ACACATAGAG
* *
141547 AGGCTTCTCAAACACCTGTTTATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
141612 TGTATATGTATACA
66 TGTATATGTATACA
*
141626 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCTTACA-TCTGAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACAC
141690 CTGTATATGTATACA
65 CTGTATATGTATACA
141705 AG
1 AG
141707 AACCTCCTCC
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 1 0.01
79 76 0.99
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (79 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
TGTATATGTATACA
Found at i:141728 original size:128 final size:129
Alignment explanation
Indices: 141497--141881 Score: 437
Period size: 128 Copynumber: 3.0 Consensus size: 129
141487 TACATTTGAG
* * * *
141497 AGGCTTCTCTAACACCTGTATATGTATACAGGAATCTCCTACACATAGAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACATAGAGAGGCTTCTCAAACAC
*
141562 CTGTTTATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACA
66 CTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACA
*
141626 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCTTACATC-T-GAGAGGCTTCTCAAACA
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-CATAGAGAGGCTTCTCAAACA
* *
141689 CCTGTATATGTATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACCTGTATATGTATAC-
65 CCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACA
*** ** * ** * * * * *
141753 AGGAACCTCCTACACTTG-AGCAGCT-TCTCAA-ACACCT-GTATATGTATACA-AGGCTTCTCA
1 AGGCTTCTCAAACACCTGTATAAG-TAT-ACAAGA-ACCTCCTACA--CATAGAGAGGCTTCTCA
* *
141813 AACACCTGTATAAGTATACAAGAACCTCCTACA-TCTAAGAGGCTTCTCAAACACCTGTATATGT
61 AACACCTGTATATGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACACCTGTATATGT
141877 ATACA
125 ATACA
141882 GGAACCTCCT
Statistics
Matches: 221, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
126 8 0.04
127 21 0.10
128 151 0.68
129 40 0.18
130 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (129 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACATAGAGAGGCTTCTCAAACAC
CTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACA
Found at i:141789 original size:177 final size:177
Alignment explanation
Indices: 141449--141981 Score: 897
Period size: 177 Copynumber: 3.0 Consensus size: 177
141439 ACACTTGAGC
* * * *
141449 GGCTTCTCAAACACCTGTATATGTATACAAAAACCTCCTACATTTGAGAGGCTTCTCTAACACCT
1 GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCT
* * *
141514 GTATATGTATACAGGAATCTCCTACACATAGAGAGGCTTCTCAAACACCTGTTTATGTATACAAG
66 GTATATGTATACAGGAACCTCCTACAC-TTGAGAGGCTTCTCAAACACCTGTATATGTATACAAG
141579 AACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAA
130 AACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAA
*
141627 GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCTTACATCTGAGAGGCTTCTCAAACACCT
1 GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCT
* * * *
141692 GTATATGTATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACCTGTATATGTATACAGGA
66 GTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAGA
141757 ACCTCCTACACTTGAGCA-GCTTCTCAAACACCTGTATATGTATACAA
131 ACCTCCTACACTTGAG-AGGCTTCTCAAACACCTGTATATGTATACAA
*
141804 GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTAAGAGGCTTCTCAAACACCT
1 GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCT
141869 GTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAGA
66 GTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAGA
* * *
141934 ACCTCCTACACTTGTGAGGCTTCTTAAACACCTGTATAAGTATACAA
131 ACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAA
141981 G
1 G
141982 AACCTCCTAC
Statistics
Matches: 332, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
176 1 0.00
177 246 0.74
178 85 0.26
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (177 bp):
GGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCT
GTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAAGA
ACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACAA
Found at i:141809 original size:30 final size:30
Alignment explanation
Indices: 141775--141834 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
141765 CACTTGAGCA
*
141775 GCTTCTCAAACACCTGTATATGTATACAAG
1 GCTTCTCAAACACCTGTATAAGTATACAAG
141805 GCTTCTCAAACACCTGTATAAGTATACAAG
1 GCTTCTCAAACACCTGTATAAGTATACAAG
141835 AACCTCCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (30 bp):
GCTTCTCAAACACCTGTATAAGTATACAAG
Found at i:141858 original size:79 final size:78
Alignment explanation
Indices: 141724--141881 Score: 255
Period size: 79 Copynumber: 2.0 Consensus size: 78
141714 TCCACTTGAT
* * *
141724 AGGCTTCTCAAACACCTGTATATGTATACAGGAACCTCCTACACTTGAGCAGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTAGAG-AGCTTCTCAAACACC
141789 TGTATATGTATACA
65 TGTATATGTATACA
141803 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTA-AGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-CTAGAGA-GCTTCTCAAACAC
141867 CTGTATATGTATACA
64 CTGTATATGTATACA
141882 GGAACCTCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 1 0.01
79 71 0.96
80 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (78 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACTAGAGAGCTTCTCAAACACCT
GTATATGTATACA
Found at i:141907 original size:128 final size:127
Alignment explanation
Indices: 141547--141932 Score: 487
Period size: 128 Copynumber: 3.0 Consensus size: 127
141537 ACACATAGAG
*
141547 AGGCTTCTCAAACACCTGTTTATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
*** ** * * * * * * *
141612 TGTATATGTATACAAGGCTTCTCAAACACCTGTATAAG-TAT-ACAAGA-ACCTCTTACATCT-G
66 TGTATATGTATAC-AGGAACCTCCTACACTTG-A-GAGCT-TCTCAA-ACACCT-GTATATGTAT
*
141673 A-G
125 ACA
* *
141675 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTCCACTTGATAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
141740 TGTATATGTATACAGGAACCTCCTACACTTGAGCAGCTTCTCAAACACCTGTATATGTATACA
66 TGTATATGTATACAGGAACCTCCTACACTTGAG-AGCTTCTCAAACACCTGTATATGTATACA
* *
141803 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACA-TCTAAGAGGCTTCTCAAACAC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTCAAACAC
141867 CTGTATATGTATACAGGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATATGTATACA
65 CTGTATATGTATACAGGAACCTCCTACACTTGAGA-GCTTCTCAAACACCTGTATATGTATACA
141931 AG
1 AG
141933 AACCTCCTAC
Statistics
Matches: 230, Mismatches: 20, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
126 10 0.04
127 23 0.10
128 197 0.86
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (127 bp):
AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACC
TGTATATGTATACAGGAACCTCCTACACTTGAGAGCTTCTCAAACACCTGTATATGTATACA
Found at i:142328 original size:30 final size:30
Alignment explanation
Indices: 142294--142353 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
142284 ACCTGAGAGG
142294 CTTCTCAAACACCTGTATATATATACAAGA
1 CTTCTCAAACACCTGTATATATATACAAGA
*
142324 CTTCTCAAACACCTGTATATGTATACAAGA
1 CTTCTCAAACACCTGTATATATATACAAGA
142354 ACCTCCTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (30 bp):
CTTCTCAAACACCTGTATATATATACAAGA
Found at i:142342 original size:79 final size:80
Alignment explanation
Indices: 142245--142407 Score: 247
Period size: 79 Copynumber: 2.0 Consensus size: 80
142235 ACTTGAGAGG
* * *
142245 CTTCTCAAACACCTGTATAAGTATATAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACCTGT
1 CTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAAAGGCTTCTCAAACACCAGT
142310 ATATATATACAAG-A
66 ATATATATACAAGAA
* * * *
142324 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCACACATCAGT
1 CTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAAAGGCTTCTCAAACACCAGT
*
142389 ATATGTATACAAGAA
66 ATATATATACAAGAA
142404 CTTC
1 CTTC
142408 CTACAGTTGC
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 70 0.93
80 5 0.07
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.28
Consensus pattern (80 bp):
CTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAAAGGCTTCTCAAACACCAGT
ATATATATACAAGAA
Found at i:142379 original size:49 final size:49
Alignment explanation
Indices: 142324--142499 Score: 253
Period size: 49 Copynumber: 3.6 Consensus size: 49
142314 ATATACAAGA
142324 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGG
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGG
* * * * * **
142373 CTTCTCACACATCAGTATATGTATACAAGAACTTCCTACAGTTGCCAGG
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGG
* * * *
142422 CTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAGAGA
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGG
142471 CTTCTCAAACACCTGTATATGTATACAAG
1 CTTCTCAAACACCTGTATATGTATACAAG
142500 GCTTCTCAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 109 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (49 bp):
CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGG
Found at i:142431 original size:128 final size:128
Alignment explanation
Indices: 142203--142579 Score: 410
Period size: 128 Copynumber: 2.9 Consensus size: 128
142193 AGGCTTTTCT
* * *
142203 AACACCTTTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATAAGTA
1 AACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCAAACACCAGTATAAGTA
* *
142268 TATAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACCTGTATATA-TATACAAGACTTCTCA
66 TACAAGAACCTCCTACACCTGACAGGCTTCTCAAACACCTGTATA-AGTATACAAGACTTCTCA
* * *
142331 AACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCACACATCAGTATATGTA
1 AACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCAAACACCAGTATAAGTA
* ** * *
142396 TACAAGAACTTCCTACAGTTGCCAGGCTTCTCAAACACCTGTATAAGTATACAAGAAC--CTCC
66 TACAAGAACCTCCTACACCTGACAGGCTTCTCAAACACCTGTATAAGTATACAAG-ACTTCTCA
* * * * * * * *
142458 TACACCTGAGAGACT-TCT-CAA-ACACCT-GTATA-TGTATACAAGGCTTCTCAAACACCTGTA
1 AACACCTG-TATA-TGTATACAAGA-ACCTCCTACACT-T-GA-AAGGCTTCTCAAACACCAGTA
* * *
142518 TATGTATACAAGAACCTCCCACACCTGAGAGGCTTCTCAAACACCTGTATAAGTATACAAGA
60 TAAGTATACAAGAACCTCCTACACCTGACAGGCTTCTCAAACACCTGTATAAGTATACAAGA
142580 ACCTCCTACA
Statistics
Matches: 212, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
125 1 0.00
126 5 0.02
127 20 0.09
128 183 0.86
129 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (128 bp):
AACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCAAACACCAGTATAAGTA
TACAAGAACCTCCTACACCTGACAGGCTTCTCAAACACCTGTATAAGTATACAAGACTTCTCA
Found at i:142443 original size:177 final size:175
Alignment explanation
Indices: 142147--142674 Score: 808
Period size: 177 Copynumber: 3.0 Consensus size: 175
142137 ACTTGAGAGG
* * *
142147 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACA-TCCGAGAGGCTTTTCTAACACCTT
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACT-TGAGAGGCTTCTC-AACACCTG
*
142211 TATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAAACACCTGTATAAGTATATAAGAA
64 TATATGTATACAAGAACCTCCTACA-TTGAGAGGCTTCTCAAACACCTGTATAAGTATACAAGAA
142276 CCTCCTACACCTGAGAGGCTTCTCAAACACCTGTATATATATACAAGA
128 CCTCCTACACCTGAGAGGCTTCTCAAACACCTGTATATATATACAAGA
* * *
142324 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAAAGGCTTCTCACACATCAGT
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCA-ACACCTGT
* **
142389 ATATGTATACAAGAACTTCCTACAGTTGCCAGGCTTCTCAAACACCTGTATAAGTATACAAGAAC
65 ATATGTATACAAGAACCTCCTACA-TTGAGAGGCTTCTCAAACACCTGTATAAGTATACAAGAAC
* * *
142454 CTCCTACACCTGAGAGACTTCTCAAACACCTGTATATGTATACAAGG
129 CTCCTACACCTGAGAGGCTTCTCAAACACCTGTATATATATACAAGA
* *
142501 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCCACACCTGAGAGGCTTCTCAAACACCTGT
1 CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTC-AACACCTGT
* *
142566 ATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCTGTATATGTATACAAGAAC
65 ATATGTATACAAGAACCTCCTACAT-TGAGAGGCTTCTCAAACACCTGTATAAGTATACAAGAAC
*
142631 CTCCTACACTTGAGAGGCTTCTCAAACACCTGTATA-AGTATACA
129 CTCCTACACCTGAGAGGCTTCTCAAACACCTGTATATA-TATACA
142675 GGAACCTCCT
Statistics
Matches: 319, Mismatches: 27, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
176 2 0.01
177 315 0.99
178 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (175 bp):
CTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAGAGGCTTCTCAACACCTGTA
TATGTATACAAGAACCTCCTACATTGAGAGGCTTCTCAAACACCTGTATAAGTATACAAGAACCT
CCTACACCTGAGAGGCTTCTCAAACACCTGTATATATATACAAGA
Found at i:142505 original size:30 final size:30
Alignment explanation
Indices: 142471--142529 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
142461 ACCTGAGAGA
142471 CTTCTCAAACACCTGTATATGTATACAAGG
1 CTTCTCAAACACCTGTATATGTATACAAGG
142501 CTTCTCAAACACCTGTATATGTATACAAG
1 CTTCTCAAACACCTGTATATGTATACAAG
142530 AACCTCCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.31
Consensus pattern (30 bp):
CTTCTCAAACACCTGTATATGTATACAAGG
Found at i:142553 original size:49 final size:49
Alignment explanation
Indices: 142498--142715 Score: 382
Period size: 49 Copynumber: 4.4 Consensus size: 49
142488 TATGTATACA
* *
142498 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCCACACCTGAG
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
*
142547 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACATCTGAG
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
* *
142596 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACTTGAG
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
*
142645 AGGCTTCTCAAACACCTGTATAAGTATACAGGAACCTCCTACACCTGAG
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
142694 AGGCTTCTCAAACACCTGTATA
1 AGGCTTCTCAAACACCTGTATA
142716 GTGGCTTTGT
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (49 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAG
Found at i:142554 original size:79 final size:79
Alignment explanation
Indices: 142419--142578 Score: 284
Period size: 79 Copynumber: 2.0 Consensus size: 79
142409 TACAGTTGCC
*
142419 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCTACACCTGAGAGACTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCCACACCTGAGAGACTTCTCAAACACC
*
142484 TGTATATGTATACA
66 TGTATAAGTATACA
* *
142498 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCCACACCTGAGAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCCACACCTGAGAGACTTCTCAAACACC
142563 TGTATAAGTATACA
66 TGTATAAGTATACA
142577 AG
1 AG
142579 AACCTCCTAC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (79 bp):
AGGCTTCTCAAACACCTGTATAAGTATACAAGAACCTCCCACACCTGAGAGACTTCTCAAACACC
TGTATAAGTATACA
Found at i:142597 original size:128 final size:128
Alignment explanation
Indices: 142242--142627 Score: 455
Period size: 128 Copynumber: 3.0 Consensus size: 128
142232 TACACTTGAG
* *
142242 AGGCTTCTCAAACACCTGTATAAGTATATAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACC
** * * * * *
142307 TGTATATA-TATACAAG-ACTTCTCAAACACCTG-TATA-TGTATACAAGA-ACCTCCTACACT-
66 TGTATA-AGTATACAAGAAC--CTCCTACACCTGAGAGACT-TCT-CAA-ACACCT-GTATA-TG
*
142366 T-GA-A
123 TATACA
* * * * ** **
142370 AGGCTTCTCACACATCAGTATATGTATACAAGAACTTCCTACAGTTGCCAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACC
142435 TGTATAAGTATACAAGAACCTCCTACACCTGAGAGACTTCTCAAACACCTGTATATGTATACA
66 TGTATAAGTATACAAGAACCTCCTACACCTGAGAGACTTCTCAAACACCTGTATATGTATACA
*
142498 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCCACACCTGAGAGGCTTCTCAAACACC
1 AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACC
* *
142563 TGTATAAGTATACAAGAACCTCCTACATCTGAGAGGCTTCTCAAACACCTGTATATGTATACA
66 TGTATAAGTATACAAGAACCTCCTACACCTGAGAGACTTCTCAAACACCTGTATATGTATACA
142626 AG
1 AG
142628 AACCTCCTAC
Statistics
Matches: 221, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
125 1 0.00
126 5 0.02
127 19 0.09
128 193 0.87
129 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (128 bp):
AGGCTTCTCAAACACCTGTATATGTATACAAGAACCTCCTACACCTGAGAGGCTTCTCAAACACC
TGTATAAGTATACAAGAACCTCCTACACCTGAGAGACTTCTCAAACACCTGTATATGTATACA
Found at i:143232 original size:16 final size:16
Alignment explanation
Indices: 143211--143244 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
143201 TATTTAACAC
143211 TGGATTGCCAGTCTGA
1 TGGATTGCCAGTCTGA
143227 TGGATTGCCAGTCTGA
1 TGGATTGCCAGTCTGA
143243 TG
1 TG
143245 CTGTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (16 bp):
TGGATTGCCAGTCTGA
Found at i:143429 original size:48 final size:48
Alignment explanation
Indices: 143373--143488 Score: 223
Period size: 48 Copynumber: 2.4 Consensus size: 48
143363 CCCCACTTTC
143373 ATCTGTTTAGATGGGGGTTCCCTCTATTGTCACTGAGGCTCTGTTTTG
1 ATCTGTTTAGATGGGGGTTCCCTCTATTGTCACTGAGGCTCTGTTTTG
143421 ATCTGTTTAGATGGGGGTTCCCTCTATTGTCACTGAGGCTCTGTTTTG
1 ATCTGTTTAGATGGGGGTTCCCTCTATTGTCACTGAGGCTCTGTTTTG
*
143469 ATCCGTTTAGATGGGGGTTC
1 ATCTGTTTAGATGGGGGTTC
143489 ATTTGACTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.13, C:0.18, G:0.28, T:0.41
Consensus pattern (48 bp):
ATCTGTTTAGATGGGGGTTCCCTCTATTGTCACTGAGGCTCTGTTTTG
Found at i:143766 original size:49 final size:49
Alignment explanation
Indices: 143713--143916 Score: 345
Period size: 49 Copynumber: 4.1 Consensus size: 49
143703 AACGTGCTTG
143713 AGGTTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
1 AGGTTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
* *
143762 AGGTTTTGTTCGATCTTTGTTATGTGGTAATACACTTACGCGAGATCTAT
1 AGG-TTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
***
143812 AGGTTTGTTTGCTCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
1 AGGTTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
*
143861 AGGTTTGTTCAGTCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
1 AGGTTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
143910 AGGTTTG
1 AGGTTTG
143917 GTGCAGTCTG
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 99 0.68
50 47 0.32
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (49 bp):
AGGTTTGTTCAATCTTTGTTATGTGGTAATACACTTACGTGAGATCTAT
Found at i:148462 original size:93 final size:92
Alignment explanation
Indices: 148235--148499 Score: 325
Period size: 93 Copynumber: 2.9 Consensus size: 92
148225 GAATAAGGTG
* * * * * *
148235 GCTAGAATCATAATACATATGGATAGTGCCTGCTAGAATCACAATATATGTGTATAATGGCTGTT
1 GCTAGAATCACAATACATGTGGATAGTGACTGCTAGAATCACAATA-AAGTGTATAGTGGCTGCT
* * * *
148300 TGAATCACAAT-ATTGTGAATAGTGGCT
65 AGATTCACAATAAATATGAATAGTGGCT
* * *
148327 GCTTGAATCACAATACATGTTGATATTGACTGCTAGAATCACAATGAAAGTGTATAGTGGCTGCT
1 GCTAGAATCACAATACATGTGGATAGTGACTGCTAGAATCACAAT-AAAGTGTATAGTGGCTGCT
*
148392 AGATTCACAATAAATATGGATAGTGGCT
65 AGATTCACAATAAATATGAATAGTGGCT
* * * * *
148420 GCTAGAATCACAATACATGTGGACAGTGGCTGCTAGATTCACAATAAATGTGGATTGTGGCTGCT
1 GCTAGAATCACAATACATGTGGATAGTGACTGCTAGAATCACAATAAA-GTGTATAGTGGCTGCT
148485 AGATTCACAATAAAT
65 AGATTCACAATAAAT
148500 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 22, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
92 66 0.45
93 82 0.55
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (92 bp):
GCTAGAATCACAATACATGTGGATAGTGACTGCTAGAATCACAATAAAGTGTATAGTGGCTGCTA
GATTCACAATAAATATGAATAGTGGCT
Found at i:148497 original size:31 final size:31
Alignment explanation
Indices: 148235--148499 Score: 291
Period size: 31 Copynumber: 8.6 Consensus size: 31
148225 GAATAAGGTG
* * * *
148235 GCTAGAATCATAATACATATGGATAGTGCCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
* * *
148266 GCTAGAATCACAATATATGTGTATAATGGCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
* * * *
148297 GTTTGAATCACAAT-ATTGTGAATAGTGGCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
* * * * *
148327 GCTTGAATCACAATACATGTTGATATTGACT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
*
148358 GCTAGAATCACAATGAAA-GTGTATAGTGGCT
1 GCTAGAATCACAAT-AAATGTGGATAGTGGCT
* *
148389 GCTAGATTCACAATAAATATGGATAGTGGCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
* *
148420 GCTAGAATCACAATACATGTGGACAGTGGCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
* *
148451 GCTAGATTCACAATAAATGTGGATTGTGGCT
1 GCTAGAATCACAATAAATGTGGATAGTGGCT
*
148482 GCTAGATTCACAATAAAT
1 GCTAGAATCACAATAAAT
148500 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
30 28 0.14
31 165 0.85
32 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (31 bp):
GCTAGAATCACAATAAATGTGGATAGTGGCT
Found at i:149356 original size:31 final size:31
Alignment explanation
Indices: 149318--149454 Score: 172
Period size: 31 Copynumber: 4.5 Consensus size: 31
149308 NNNNNNNNNN
* *
149318 CTGCTAGATTCACAATAAATATGGATAGTGG
1 CTGCTAGAATCACAATAAATGTGGATAGTGG
* *
149349 CTGCTAGAATCACAATATATGTGGATTGTGG
1 CTGCTAGAATCACAATAAATGTGGATAGTGG
*
149380 -TGCTAGATTCACAAT-AA-GTGGATAGTGG
1 CTGCTAGAATCACAATAAATGTGGATAGTGG
* * *
149408 CTGCTTGAATCAGAATAAATGTGGATGGTGG
1 CTGCTAGAATCACAATAAATGTGGATAGTGG
*
149439 CTGCTAGAAACACAAT
1 CTGCTAGAATCACAAT
149455 TATATATATA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
28 10 0.11
29 13 0.15
30 16 0.18
31 50 0.56
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (31 bp):
CTGCTAGAATCACAATAAATGTGGATAGTGG
Found at i:149418 original size:59 final size:62
Alignment explanation
Indices: 149318--149446 Score: 192
Period size: 59 Copynumber: 2.1 Consensus size: 62
149308 NNNNNNNNNN
* *
149318 CTGCTAGATTCACAATAAATATGGATAGTGGCTGCTAGAATCACAATATATGTGGATTGTGG
1 CTGCTAGATTCACAATAAATATGGATAGTGGCTGCTAGAATCACAATAAATGTGGATGGTGG
* * *
149380 -TGCTAGATTCACAAT-AA-GTGGATAGTGGCTGCTTGAATCAGAATAAATGTGGATGGTGG
1 CTGCTAGATTCACAATAAATATGGATAGTGGCTGCTAGAATCACAATAAATGTGGATGGTGG
149439 CTGCTAGA
1 CTGCTAGA
149447 AACACAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 37 0.61
60 9 0.15
61 15 0.25
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (62 bp):
CTGCTAGATTCACAATAAATATGGATAGTGGCTGCTAGAATCACAATAAATGTGGATGGTGG
Found at i:165826 original size:51 final size:51
Alignment explanation
Indices: 165766--165864 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
165756 GAAGGATTTT
165766 TCATAAAAATATTTTTGATTTAATGTCATTATTCACTTGCGCCGATGTTTG
1 TCATAAAAATATTTTTGATTTAATGTCATTATTCACTTGCGCCGATGTTTG
165817 TCATAAAAATATTTTTGATTTAATGTCATTATTCACTTGCGCCGATGT
1 TCATAAAAATATTTTTGATTTAATGTCATTATTCACTTGCGCCGATGT
165865 GGTGAGTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (51 bp):
TCATAAAAATATTTTTGATTTAATGTCATTATTCACTTGCGCCGATGTTTG
Found at i:172270 original size:14 final size:14
Alignment explanation
Indices: 172251--172284 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
172241 ATCAAAAATG
172251 GCGAAGGCGAAAGT
1 GCGAAGGCGAAAGT
*
172265 GCGAAGGCGAGAGT
1 GCGAAGGCGAAAGT
172279 GCGAAG
1 GCGAAG
172285 TAGCGAAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.47, T:0.06
Consensus pattern (14 bp):
GCGAAGGCGAAAGT
Found at i:172304 original size:22 final size:22
Alignment explanation
Indices: 172261--172310 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
172251 GCGAAGGCGA
*
172261 AAGT-GCGAAGGCGAGAGTGCG
1 AAGTAGCGAAGGCGAGAGAGCG
172282 AAGTAGCGAAGGCGA-AGGAGCG
1 AAGTAGCGAAGGCGAGA-GAGCG
172304 ATAGTAG
1 A-AGTAG
172311 TATCGCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.34, C:0.12, G:0.44, T:0.10
Consensus pattern (22 bp):
AAGTAGCGAAGGCGAGAGAGCG
Found at i:172359 original size:21 final size:21
Alignment explanation
Indices: 172327--172377 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
172317 TCCTTCGCCC
172327 TCGCACCTTCGCCGTAGCATCT
1 TCGCA-CTTCGCCGTAGCATCT
*
172349 TCGCACTTCGCCGTCGCATCT
1 TCGCACTTCGCCGTAGCATCT
172370 TCGCACTT
1 TCGCACTT
172378 TCGCTCCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.12, C:0.41, G:0.18, T:0.29
Consensus pattern (21 bp):
TCGCACTTCGCCGTAGCATCT
Found at i:172417 original size:22 final size:22
Alignment explanation
Indices: 172343--172425 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
172333 CTTCGCCGTA
*
172343 GCATCTTCGCACT-TCGCCGTC
1 GCATCTTCGCACTCTCGCCTTC
*
172364 GCATCTTCGCACTTTCGCTCCTTC
1 GCATCTTCGCACTCTCG--CCTTC
*
172388 G--TCGTCGCACTCTCGCCTTC
1 GCATCTTCGCACTCTCGCCTTC
*
172408 GCAACTTCGCACTCTCGC
1 GCATCTTCGCACTCTCGC
172426 ATCTTCGACC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 6 0.12
21 13 0.25
22 28 0.54
24 5 0.10
ACGTcount: A:0.10, C:0.43, G:0.17, T:0.30
Consensus pattern (22 bp):
GCATCTTCGCACTCTCGCCTTC
Found at i:187813 original size:36 final size:36
Alignment explanation
Indices: 187626--187809 Score: 282
Period size: 36 Copynumber: 5.1 Consensus size: 36
187616 ACTGATATCT
*
187626 TCAAAACACACACATTTTGTGTTTCTTAATTCATCC
1 TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
* *
187662 TCAAAACATACACATTATGTGTTTTTTAATTCATCC
1 TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
*
187698 TCAAAACATACACATTATGTGTTTCTTAATTCATCC
1 TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
187734 TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
1 TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
* * *
187770 TCAACACATACACATTTTGGGTGTT-TGAA-TCATCC
1 TCAAAACATACACATTTTGTGT-TTCTTAATTCATCC
187805 TCAAA
1 TCAAA
187810 CACACATTTT
Statistics
Matches: 138, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
35 10 0.07
36 126 0.91
37 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (36 bp):
TCAAAACATACACATTTTGTGTTTCTTAATTCATCC
Found at i:194518 original size:31 final size:31
Alignment explanation
Indices: 194427--194582 Score: 145
Period size: 31 Copynumber: 4.8 Consensus size: 31
194417 TGCTCAGACA
* *
194427 AAGAGGAAGTAAACAACAGCTGGTACATTCATG
1 AAGAGGAAGTGAACAACAGTTGGTAC--TCATG
*
194460 AAGAGGAAGT-ACCTGGTACACAGTTGGTACTCATG
1 AAGAGGAAGTGAAC----A-ACAGTTGGTACTCATG
*
194495 AAGAGGAAGTGAACACCAGTTGGTACTCATG
1 AAGAGGAAGTGAACAACAGTTGGTACTCATG
* *
194526 AAGAGGAAGTGAACAACAGTTGGTACAC-TC
1 AAGAGGAAGTGAACAACAGTTGGTACTCATG
* * *
194556 ACAGAGGAAGTAAACAACGGCTGGTAC
1 A-AGAGGAAGTGAACAACAGTTGGTAC
194583 ACTCATAAAC
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.02
31 63 0.59
32 3 0.03
33 10 0.09
35 15 0.14
36 3 0.03
37 10 0.09
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.18
Consensus pattern (31 bp):
AAGAGGAAGTGAACAACAGTTGGTACTCATG
Found at i:194581 original size:62 final size:64
Alignment explanation
Indices: 194427--194588 Score: 170
Period size: 62 Copynumber: 2.5 Consensus size: 64
194417 TGCTCAGACA
* *
194427 AAGAGGAAGTAAACAACAGCTGGTACATTCATGAAGAGGAAGTACCTGGTACACAGTTGGTACTC
1 AAGAGGAAGTAAACAACAGCTGGTACA-TCATGAAGAGGAAGTAAC--G-ACACAGTTGGTACAC
*
194492 ATG
62 ATC
* * *
194495 AAGAGGAAGTGAACACCAGTTGGTAC-TCATGAAGAGGAAGTGAAC-A-ACAGTTGGTACAC-TC
1 AAGAGGAAGTAAACAACAGCTGGTACATCATGAAGAGGAAGT-AACGACACAGTTGGTACACATC
*
194556 ACAGAGGAAGTAAACAACGGCTGGTACACTCAT
1 A-AGAGGAAGTAAACAACAGCTGGTACA-TCAT
194589 AAACGGCAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
61 2 0.03
62 33 0.41
63 1 0.01
64 4 0.05
66 15 0.19
67 2 0.03
68 23 0.29
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (64 bp):
AAGAGGAAGTAAACAACAGCTGGTACATCATGAAGAGGAAGTAACGACACAGTTGGTACACATC
Found at i:197013 original size:17 final size:17
Alignment explanation
Indices: 196991--197038 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
196981 AGGGGTAACG
196991 GGACGTTTCGCTCCTAT
1 GGACGTTTCGCTCCTAT
*
197008 GGACGTTTCGC-GC--T
1 GGACGTTTCGCTCCTAT
197022 GAGACGTTTCGCTCCTA
1 G-GACGTTTCGCTCCTA
197039 AAGACCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 2 0.08
17 11 0.44
ACGTcount: A:0.12, C:0.29, G:0.27, T:0.31
Consensus pattern (17 bp):
GGACGTTTCGCTCCTAT
Found at i:197029 original size:15 final size:15
Alignment explanation
Indices: 197009--197065 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
196999 CGCTCCTATG
197009 GACGTTTCGCGCTGA
1 GACGTTTCGCGCTGA
* *
197024 GACGTTTCGCTCCTAAA
1 GACGTTTCGC-GCT-GA
*
197041 GACCTTTCGCGCTGA
1 GACGTTTCGCGCTGA
197056 GACGTTTCGC
1 GACGTTTCGC
197066 ACTTATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (15 bp):
GACGTTTCGCGCTGA
Found at i:197033 original size:32 final size:32
Alignment explanation
Indices: 196992--197065 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
196982 GGGGTAACGG
** *
196992 GACGTTTCGCTCCTATGGACGTTTCGCGCTGA
1 GACGTTTCGCTCCTAAAGACCTTTCGCGCTGA
197024 GACGTTTCGCTCCTAAAGACCTTTCGCGCTGA
1 GACGTTTCGCTCCTAAAGACCTTTCGCGCTGA
197056 GACGTTTCGC
1 GACGTTTCGC
197066 ACTTATATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (32 bp):
GACGTTTCGCTCCTAAAGACCTTTCGCGCTGA
Found at i:197672 original size:184 final size:180
Alignment explanation
Indices: 197291--197741 Score: 681
Period size: 184 Copynumber: 2.5 Consensus size: 180
197281 GGCTACCAAA
* * *
197291 AGGGTACCCTCATTGTACGGATAGCTCCTCCTACAGTTTTCAAGATAAGAAGTTGTTCTATTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTATCAAGATAAGAAGTTGTTCTTTTGCA
* * * * *
197356 GATCAATTGTAC--ATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATTATTTATCGA
66 GATCAATTGTACATATATCAGAGATGTGCATATTACTAGAATTTTGATTTCCGATAATTTATCAA
* *
197419 AAAAATACCAGCTTTTGCACTTGGTCATTTTTTGGCAAAATGTTGCATAT
131 AAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATAT
* * *
197469 ATGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAAGAAGTTGTTATTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTATCAAGATAAGAAGTTGTTCTTTTGCA
197534 GATCAATTGTACATATATCAGAGATGTGCATATTACTAGAATTTTGATTTCCGATAATTTATCAA
66 GATCAATTGTACATATATCAGAGATGTGCATATTACTAGAATTTTGATTTCCGATAATTTATC--
197599 AAAAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATAT
129 --AAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATAT
* * * *
197653 AGGGTACTCTCAATGTACGGAGAACTCCTCCTACAGTTATCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTATCAAGATAAGAAGTTGTTCTTTTGCA
* *
197718 GATTAATTGTACATATATTAGAGA
66 GATCAATTGTACATATATCAGAGA
197742 AATGAATTAT
Statistics
Matches: 246, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 72 0.29
180 45 0.18
184 129 0.52
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (180 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTATCAAGATAAGAAGTTGTTCTTTTGCA
GATCAATTGTACATATATCAGAGATGTGCATATTACTAGAATTTTGATTTCCGATAATTTATCAA
AAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATAT
Found at i:203444 original size:173 final size:172
Alignment explanation
Indices: 203153--203708 Score: 756
Period size: 173 Copynumber: 3.2 Consensus size: 172
203143 AAAAGAACGT
* *
203153 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACTCTACATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATTTAAAACT
* * **
203215 TT--GACCCCCCCCCCCCATTGTGGCCCAACCCTACTCCTGGGGTGTCAT-TATTTTCACAACTT
66 TTAACACCCCCCCCCCCCAATGTGGCCC-ACCCTA-TCCCCGGG-GTCATGT-TTTTCACAACTT
* *
203277 TGAATCTACACTACCTGAGGATGCTTCCACACAGGTTTCGGCTTTC
127 TGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
203323 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATTTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATTTAAAACT
* *
203388 TTAACACCCCCCCCCCCCCAATGTGGCTCCATCCT-TCCCCGGGGTCATGTTTTTCACAATTTTG
66 TTAACA-CCCCCCCCCCCCAATGTGGC-CCACCCTATCCCCGGGGTCATGTTTTTCACAACTTTG
* * *
203452 AATCTACATTACCTGAGGATGATTCCACACAAGTTTCAGCTTTT
129 AATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
203496 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTT-AAAC
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTAT-TTAAAAC
* *
203560 TTTAACA-TCCCCCCCCCCAATGTGGCCCCACCCTATCCCCGGGGGTCATGATTTTCACAACTTT
65 TTTAACACCCCCCCCCCCCAATGTGG-CCCACCCTATCCCC-GGGGTCATGTTTTTCACAACTTT
*
203624 GAATCTACACTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
128 GAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
203669 ATGGCTTAAT-GGTTCTTGAGAAGAAGATTTTTGAAA-ATTT
1 CTGGCTGATTAGTTTC-TGAGAAGAAGATTTTT-AAAGATTT
203709 CTCAAATTTT
Statistics
Matches: 347, Mismatches: 25, Indels: 25
0.87 0.06 0.06
Matches are distributed among these distances:
170 17 0.05
171 23 0.07
172 11 0.03
173 258 0.74
174 12 0.03
175 1 0.00
176 23 0.07
177 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (172 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATTTAAAACT
TTAACACCCCCCCCCCCCAATGTGGCCCACCCTATCCCCGGGGTCATGTTTTTCACAACTTTGAA
TCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:205618 original size:30 final size:30
Alignment explanation
Indices: 205582--205709 Score: 109
Period size: 30 Copynumber: 4.3 Consensus size: 30
205572 TGACCTACCT
* *
205582 TGACCTTGGTCTGTAATTGCGGTACAGCTG
1 TGACCTTGGTCTGTAATGGCGATACAGCTG
* * * *
205612 TGACCTTTGTCT-TCAATGGCGATGCTGGTG
1 TGACCTTGGTCTGT-AATGGCGATACAGCTG
* * *
205642 TGACCTT-GTCCTGTGATGGCAATACAGATG
1 TGACCTTGGT-CTGTAATGGCGATACAGCTG
* *
205672 TGACCTTGGTCTGTAATTGCGGTACATGC-G
1 TGACCTTGGTCTGTAATGGCGATACA-GCTG
205702 TGACCTTG
1 TGACCTTG
205710 TCGGGCTTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
29 3 0.04
30 70 0.91
31 4 0.05
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (30 bp):
TGACCTTGGTCTGTAATGGCGATACAGCTG
Found at i:207079 original size:17 final size:17
Alignment explanation
Indices: 207054--207102 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 17
207044 TCAAAATCAG
*
207054 TTCGCTATATCCGTAAA
1 TTCGTTATATCCGTAAA
207071 TTCGTTATATCCG--AA
1 TTCGTTATATCCGTAAA
*
207086 TTCGTTATAACCGTAAA
1 TTCGTTATATCCGTAAA
207103 ATTTTGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 14 0.50
17 14 0.50
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (17 bp):
TTCGTTATATCCGTAAA
Found at i:207089 original size:15 final size:16
Alignment explanation
Indices: 207054--207094 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
207044 TCAAAATCAG
*
207054 TTCGCTATATCCGTAAA
1 TTCGTTATATCCG-AAA
207071 TTCGTTATATCCG-AA
1 TTCGTTATATCCGAAA
207086 TTCGTTATA
1 TTCGTTATA
207095 ACCGTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
17 12 0.52
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (16 bp):
TTCGTTATATCCGAAA
Found at i:207280 original size:30 final size:30
Alignment explanation
Indices: 207244--207311 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
207234 TGACCTACCT
207244 TGACCTTGGTCTGTGATGGCAGAACAGGTG
1 TGACCTTGGTCTGTGATGGCAGAACAGGTG
* * *
207274 TGACCTTGGTCTGTGGTGGCGGTACAGGTG
1 TGACCTTGGTCTGTGATGGCAGAACAGGTG
207304 TGACCTTG
1 TGACCTTG
207312 CCGGGCTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.15, C:0.18, G:0.38, T:0.29
Consensus pattern (30 bp):
TGACCTTGGTCTGTGATGGCAGAACAGGTG
Found at i:218934 original size:360 final size:357
Alignment explanation
Indices: 218193--219370 Score: 1471
Period size: 360 Copynumber: 3.2 Consensus size: 357
218183 ATTTTTTTTT
*
218193 TGATAATTTATGGAAAACAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCAT
1 TGATAATTTAT-G-AAA-AAAATACCAGCTTTTGAACTTTGTCATTTTTTGGCAAAATATTGCAT
* *
218258 ATAGGGTACCATCATTGTATGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTTG
63 ATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTTG
218323 CAGATCAATTAAACATATATCAGAGGTATGCATATTGCTAGGATTTTGATTTTCGATAATTTATG
128 CAGATCAATTAAACATATATCAGAGGTATGCATATTGCTAGGATTTTGATTTTCGATAATTTATG
* *
218388 AAAATAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCAT
193 AAAAAAATACCAGCTTTTGAACTTAGTCA-TTTTTGGCAAAATATTGCATATAGGGTACCCTCAT
* * * *
218453 TGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTTGCGGATCAGTTATACA
257 TGTACGGATAACTCCTCCTACAG-TTTCAAGATAGGAAATTGTTCTTTTGCAGATCAGTTATACA
* *
218518 TATATCAGAGGTATGCATATTGCTAGGATTTTGATTT
321 TATATCAGAGGTGTGCATATTGCTAGGATTTTGATTC
*
218555 TCGATAATTTATGAAAAAAATACCAGCTTTTTAACTTTGTCATTTTTTGGCAAAATATTGCATAT
1 T-GATAATTTATGAAAAAAATACCAGCTTTTGAACTTTGTCATTTTTTGGCAAAATATTGCATAT
*
218620 AGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAACAGGAAGTTGTTCTTTTGCA
65 AGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTTGCA
* *
218685 GATCAATTACACATATATCAGAGGTATGCATATTGTTAGGATTTTGATTTTCGATAATTTATGAA
130 GATCAATTAAACATATATCAGAGGTATGCATATTGCTAGGATTTTGATTTTCGATAATTTATGAA
218750 AAAAATACCAGCTTTTGAACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGT
195 AAAAATACCAGCTTTTGAACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGT
*
218815 ACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAATTTTTCTTTTGCAGATCAGTTATACATAT
260 ACGGATAACTCCTCCTACAGTT-TCAAGATAGGAAATTGTTCTTTTGCAGATCAGTTATACATAT
* * *
218880 ATCAGAGGTGTGCTTATTGCTAGGAGTTTGGTTAC
324 ATCAGAGGTGTGCATATTGCTAGGATTTTGATT-C
* * *
218915 TGATAATTTATGAAAAAAAATTGCTTGTATTTTGGTTACTGATAATTTATGAAAAAAAAATTATG
1 TGATAATTTATG-AAAAAAA-TAC---CA-----G---C------TTT-TG------AACTT-TG
* * *
218980 TCATTTTTTGGCAAAATATTGCATATGATATAGCGTACCCTCATTGTACGGATAACTCCTCTTAC
39 TCATTTTTTGGCAAAATATTGC-----ATATAGGGTACCCTCATTGTACGGATAAGTCCTCCTAC
* * * *
219045 AGTTTTCAAGATAAGAAGTTGTTCTTTTGCAGATCAATTATACATATATCAGAGGTGTGCATATT
99 AGTTTTCAAAATAGGAAGTTGTTCTTTTGCAGATCAATTAAACATATATCAGAGGTATGCATATT
* * * *
219110 GCTAGGATTTTTA-TTACTGATAATTTGTGAAAAAAATACCAGCTTTTGAAGTTAGTCAATTTTT
164 GCTAGGATTTTGATTTTC-GATAATTTATGAAAAAAATACCAGCTTTTGAACTTAGTC-ATTTTT
* ** *
219174 AGCAAAATATTGCATATAGGGTTA-CCTCATTGTACGGATAACTATTCCTACAGTTTTATAGATA
227 GGCAAAATATTGCATATAGGG-TACCCTCATTGTACGGATAACTCCTCCTACAGTTTCA-AGATA
* * * * * * ** *
219238 -AAAAGTTGTTCTTTTGCAGATTAATTGTACATGTATCAGAGGTGTGAATATTTTTAGGATTTTT
290 GGAAA-TTGTTCTTTTGCAGATCAGTTATACATATATCAGAGGTGTGCATATTGCTAGGATTTTG
219302 ATTTC
354 A-TTC
* * * *
219307 TGATTATTTATGAAAAAAATACCAGCTTTTGAACTTAGTCTTTTTTTAGCAAAATATTGCATAT
1 TGATAATTTATGAAAAAAATACCAGCTTTTGAACTTTGTCATTTTTTGGCAAAATATTGCATAT
219371 GAGGTACTTT
Statistics
Matches: 715, Mismatches: 60, Indels: 84
0.83 0.07 0.10
Matches are distributed among these distances:
358 2 0.00
359 135 0.19
360 209 0.29
361 5 0.01
362 2 0.00
363 10 0.01
364 1 0.00
365 21 0.03
366 4 0.01
369 1 0.00
372 3 0.00
373 3 0.00
378 3 0.00
379 2 0.00
382 1 0.00
385 4 0.01
386 24 0.03
387 1 0.00
390 5 0.01
391 155 0.22
392 120 0.17
393 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (357 bp):
TGATAATTTATGAAAAAAATACCAGCTTTTGAACTTTGTCATTTTTTGGCAAAATATTGCATATA
GGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTTGCAG
ATCAATTAAACATATATCAGAGGTATGCATATTGCTAGGATTTTGATTTTCGATAATTTATGAAA
AAAATACCAGCTTTTGAACTTAGTCATTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTA
CGGATAACTCCTCCTACAGTTTCAAGATAGGAAATTGTTCTTTTGCAGATCAGTTATACATATAT
CAGAGGTGTGCATATTGCTAGGATTTTGATTC
Found at i:218935 original size:180 final size:180
Alignment explanation
Indices: 218189--218933 Score: 1224
Period size: 180 Copynumber: 4.1 Consensus size: 180
218179 AAAAATTTTT
*
218189 TTTTTGATAATTTATGGAAAACAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATT
1 TTTTCGATAATTTAT-G-AAA-AAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATT
* *
218254 GCATATAGGGTACCATCATTGTATGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCT
63 GCATATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCT
*
218319 TTTGCAGATCAATTAAACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
128 TTTGCAGATCAATTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
*
218372 TTTTCGATAATTTATGAAAATAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCA
1 TTTTCGATAATTTATGAAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCA
218437 TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTT
66 TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTT
* *
218502 GCGGATCAGTTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
131 GCAGATCAATTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
* *
218552 TTTTCGATAATTTATGAAAAAAATACCAGCTTTTTAACTTTGTCATTTTTTGGCAAAATATTGCA
1 TTTTCGATAATTTATGAAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCA
*
218617 TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAACAGGAAGTTGTTCTTTT
66 TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTT
* *
218682 GCAGATCAATTACACATATATCAGAGGTATGCATATTGTTAGGATTTTGA
131 GCAGATCAATTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
*
218732 TTTTCGATAATTTATGAAAAAAATACCAGCTTTTGAACTTAGTCA-TTTTTGGCAAAATATTGCA
1 TTTTCGATAATTTATGAAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCA
* * * * *
218796 TATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAATTTTTCTTTT
66 TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTT
* * * *
218861 GCAGATCAGTTATACATATATCAGAGGTGTGCTTATTGCTAGGAGTTTG-
131 GCAGATCAATTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
* *
218910 GTTACTGATAATTTATGAAAAAAA
1 TTTTC-GATAATTTATGAAAAAAA
218934 ATTGCTTGTA
Statistics
Matches: 530, Mismatches: 31, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
178 3 0.01
179 139 0.26
180 370 0.70
181 3 0.01
182 1 0.00
183 14 0.03
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (180 bp):
TTTTCGATAATTTATGAAAAAAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCA
TATAGGGTACCCTCATTGTACGGATAAGTCCTCCTACAGTTTTCAAAATAGGAAGTTGTTCTTTT
GCAGATCAATTATACATATATCAGAGGTATGCATATTGCTAGGATTTTGA
Found at i:218986 original size:39 final size:38
Alignment explanation
Indices: 218906--218986 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 38
218896 TTGCTAGGAG
*
218906 TTTGGTTACTGATAATTTATGAAAAAAAATTGCTTGTAT
1 TTTGGTTACTGATAATTTATGAAAAAAAATT-CATGTAT
218945 TTTGGTTACTGATAATTTATGAAAAAAAAATT-ATGTCAT
1 TTTGGTTACTGATAATTTATG-AAAAAAAATTCATGT-AT
218984 TTT
1 TTT
218987 TTGGCAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
38 3 0.08
39 26 0.67
40 10 0.26
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (38 bp):
TTTGGTTACTGATAATTTATGAAAAAAAATTCATGTAT
Found at i:219246 original size:180 final size:180
Alignment explanation
Indices: 219018--219370 Score: 546
Period size: 180 Copynumber: 2.0 Consensus size: 180
219008 TATAGCGTAC
* * *
219018 CCTCATTGTACGGATAACTCCTCTTACAGTTTTCAAGATAAGAAGTTGTTCTTTTGCAGATCAAT
1 CCTCATTGTACGGATAACTACTCCTACAGTTTTCAAGATAAAAAGTTGTTCTTTTGCAGATCAAT
* *
219083 TATACATATATCAGAGGTGTGCATATTGCTAGGATTTTTATTACTGATAATTTGTGAAAAAAATA
66 TATACATATATCAGAGGTGTGAATATTGCTAGGATTTTTATTACTGATAATTTATGAAAAAAATA
*
219148 CCAGCTTTTGAAGTTAGTCAATTTTTAGCAAAATATTGCATATAGGGTTA
131 CCAGCTTTTGAACTTAGTCAATTTTTAGCAAAATATTGCATATAGGGTTA
* *
219198 CCTCATTGTACGGATAACTATTCCTACAGTTTT-ATAGATAAAAAGTTGTTCTTTTGCAGATTAA
1 CCTCATTGTACGGATAACTACTCCTACAGTTTTCA-AGATAAAAAGTTGTTCTTTTGCAGATCAA
* * ** * *
219262 TTGTACATGTATCAGAGGTGTGAATATTTTTAGGATTTTTATTTCTGATTATTTATGAAAAAAAT
65 TTATACATATATCAGAGGTGTGAATATTGCTAGGATTTTTATTACTGATAATTTATGAAAAAAAT
**
219327 ACCAGCTTTTGAACTTAGTCTTTTTTTAGCAAAATATTGCATAT
130 ACCAGCTTTTGAACTTAGTCAATTTTTAGCAAAATATTGCATAT
219371 GAGGTACTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
179 1 0.01
180 155 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (180 bp):
CCTCATTGTACGGATAACTACTCCTACAGTTTTCAAGATAAAAAGTTGTTCTTTTGCAGATCAAT
TATACATATATCAGAGGTGTGAATATTGCTAGGATTTTTATTACTGATAATTTATGAAAAAAATA
CCAGCTTTTGAACTTAGTCAATTTTTAGCAAAATATTGCATATAGGGTTA
Found at i:227400 original size:22 final size:22
Alignment explanation
Indices: 227372--227418 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
227362 TAAGCGTAAT
227372 GAGAGAG-GGA-GAGAAAGAGA
1 GAGAGAGAGGAGGAGAAAGAGA
* *
227392 GAGAGAGAGGAGGAGGAGGAGA
1 GAGAGAGAGGAGGAGAAAGAGA
227414 GAGAG
1 GAGAG
227419 TGTGTGTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
GAGAGAGAGGAGGAGAAAGAGA
Found at i:241766 original size:2 final size:2
Alignment explanation
Indices: 241759--241797 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
241749 TCAAGTAGGC
241759 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
241798 ATGTATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:245457 original size:2 final size:2
Alignment explanation
Indices: 245450--245507 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
245440 AATGTAAATT
245450 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
245492 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
245508 AATGTATTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:250748 original size:11 final size:11
Alignment explanation
Indices: 250732--250761 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
250722 NNCCCCCCCA
250732 AAAAAAAAAAG
1 AAAAAAAAAAG
250743 AAAAAAAAAAG
1 AAAAAAAAAAG
250754 AAGAAAAA
1 AA-AAAAA
250762 TTATAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:250750 original size:14 final size:14
Alignment explanation
Indices: 250731--250761 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
250721 NNNCCCCCCC
250731 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
250745 AAAAAAAAGAAGAA
1 AAAAAAAAAAAGAA
250759 AAA
1 AAA
250762 TTATAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:255360 original size:14 final size:14
Alignment explanation
Indices: 255341--255369 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
255331 TTTCTTCAAC
255341 TTCTACACAATGAA
1 TTCTACACAATGAA
255355 TTCTACACAATGAA
1 TTCTACACAATGAA
255369 T
1 T
255370 GCTGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TTCTACACAATGAA
Found at i:260055 original size:180 final size:179
Alignment explanation
Indices: 259785--260298 Score: 854
Period size: 180 Copynumber: 2.9 Consensus size: 179
259775 TAATAATACT
* *
259785 AGTTC-AAAGCTGGTATTTTTTTCACAAATTATTAGAAATCAAAATCCTAGTAATATGCACA-CA
1 AGTTCAAAAGCTGGTATTTTTTTCATAAATTA-TAGAAATCAAAATCCTAGCAATATGCACACCA
* * * * *
259848 TCTTATATATGTACAATTGACCTGCAAAAGAACAACTTCCTATGTTGAAAACTGTAAGAGGTGTT
65 -CTTATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTT
*
259913 ATCCGTACAATGAGGGTACCCTATTTGCAATATTTTGCCAAAAAATGACTA
129 ATCCGTACAATGAGGGTACCCTATTTGCAATATTTTGCCAAAAAATGACGA
*
259964 AGTTTAAAAGCTGGTATTTTTTTCATAAATTATAGGAAATCAAAATCCTAGCAATATGCACACCA
1 AGTTCAAAAGCTGGTATTTTTTTCATAAATTATA-GAAATCAAAATCCTAGCAATATGCACACCA
260029 CTTATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTA
65 CTTATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTA
*
260094 TCCGTACAATGAGGGTACCCTATATGCAATATTTTGCCAAAAAATGACGA
130 TCCGTACAATGAGGGTACCCTATTTGCAATATTTTGCCAAAAAATGACGA
* *
260144 AGTTCAAAAGCTGGTATTTTTTTCATAAATTATCAGAAATCAAAATCCTAGCAATGTGCACACCT
1 AGTTCAAAAGCTGGTATTTTTTTCATAAATTAT-AGAAATCAAAATCCTAGCAATATGCACACCA
*
260209 CTGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTA
65 CTTATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTA
260274 TCCGTACAATGAGGGTACCCT-TTTG
130 TCCGTACAATGAGGGTACCCTATTTG
260299 GCAACAGCCC
Statistics
Matches: 316, Mismatches: 15, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
179 9 0.03
180 304 0.96
181 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (179 bp):
AGTTCAAAAGCTGGTATTTTTTTCATAAATTATAGAAATCAAAATCCTAGCAATATGCACACCAC
TTATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTAT
CCGTACAATGAGGGTACCCTATTTGCAATATTTTGCCAAAAAATGACGA
Found at i:275001 original size:4 final size:4
Alignment explanation
Indices: 274979--275012 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
274969 ATCACATTTT
*
274979 GTCC GT-C GTCC GTCT GTCC GTCC GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
275013 TGTAAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.44, G:0.26, T:0.29
Consensus pattern (4 bp):
GTCC
Found at i:276709 original size:19 final size:19
Alignment explanation
Indices: 276681--276751 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
276671 CTCTCAACTA
276681 AACCAGACTTATCCAAGTC
1 AACCAGACTTATCCAAGTC
* *
276700 AACAAGACTTGTCCAAGTC
1 AACCAGACTTATCCAAGTC
*
276719 AACCAGACTTATCCTAGTC
1 AACCAGACTTATCCAAGTC
276738 AACCAGACTTATCC
1 AACCAGACTTATCC
276752 GTGTCCTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.23
Consensus pattern (19 bp):
AACCAGACTTATCCAAGTC
Found at i:279280 original size:2 final size:2
Alignment explanation
Indices: 279273--279316 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
279263 TTAATATAAA
*
279273 CT CT CT CT CT CT CC 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
279315 CT
1 CT
279317 TAAAAACATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:284555 original size:75 final size:73
Alignment explanation
Indices: 284406--284636 Score: 292
Period size: 75 Copynumber: 3.2 Consensus size: 73
284396 ATGACTCAGT
*
284406 GTCTACAAAGTAAGTACAAATGTACTGGGACAGGGTACAGAATATCCT-T-C-TAC-ATAGTACT
1 GTCTACAAAGTAAGTACAAATGTACTGGGACTGGGTACAGAATATCCTCTACATACTATAGTACT
*
284467 AACTCTGC
66 GACTCTGC
* * * *
284475 GTCTACAAAGTAAATACAAATGTACTAGGACTGGGTACAGAATTTCTCTCTACATACTGGTAGTA
1 GTCTACAAAGTAAGTACAAATGTACTGGGACTGGGTACAGAATATC-CTCTACATACT-ATAGTA
284540 CTGACTCTGC
64 CTGACTCTGC
* * *
284550 GTCTACAAAGGAAGTACAAATGTACTGGGACTGGGTACAGAATATCCCTCTACA-AGATTTCAGT
1 GTCTACAAAGTAAGTACAAATGTACTGGGACTGGGTACAGAATAT-CCTCTACATA-CTAT-AGT
*
284614 ACTGACTCTGT
63 ACTGACTCTGC
284625 GTCTACAAAGTA
1 GTCTACAAAGTA
284637 CCGGTAAGTA
Statistics
Matches: 139, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
69 42 0.30
70 2 0.01
71 1 0.01
72 1 0.01
73 3 0.02
74 2 0.01
75 87 0.63
76 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (73 bp):
GTCTACAAAGTAAGTACAAATGTACTGGGACTGGGTACAGAATATCCTCTACATACTATAGTACT
GACTCTGC
Found at i:285569 original size:2 final size:2
Alignment explanation
Indices: 285562--285622 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
285552 TGAACCAATA
285562 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
285604 CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT C
285623 CTTAAGTACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:289076 original size:4 final size:4
Alignment explanation
Indices: 289077--289114 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
289067 CCGTCCGTCC
* *
289077 GTCT GTCT GTCT GTCT GTCA GTCT GTCC GTCT GTCT GT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GT
289115 GCAATCGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.03, C:0.26, G:0.26, T:0.45
Consensus pattern (4 bp):
GTCT
Found at i:289078 original size:8 final size:8
Alignment explanation
Indices: 289069--289111 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
289059 CACCTTGTCC
*
289069 GTCCGTCC
1 GTCCGTCT
*
289077 GTCTGTCT
1 GTCCGTCT
*
289085 GTCTGTCT
1 GTCCGTCT
*
289093 GTCAGTCT
1 GTCCGTCT
289101 GTCCGTCT
1 GTCCGTCT
289109 GTC
1 GTC
289112 TGTGCAATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.02, C:0.33, G:0.26, T:0.40
Consensus pattern (8 bp):
GTCCGTCT
Found at i:289100 original size:16 final size:16
Alignment explanation
Indices: 289069--289111 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
289059 CACCTTGTCC
* *
289069 GTCCGTCCGTCTGTCT
1 GTCCGTCTGTCAGTCT
*
289085 GTCTGTCTGTCAGTCT
1 GTCCGTCTGTCAGTCT
289101 GTCCGTCTGTC
1 GTCCGTCTGTC
289112 TGTGCAATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.02, C:0.33, G:0.26, T:0.40
Consensus pattern (16 bp):
GTCCGTCTGTCAGTCT
Found at i:289491 original size:146 final size:145
Alignment explanation
Indices: 289119--289665 Score: 898
Period size: 146 Copynumber: 3.7 Consensus size: 145
289109 GTCTGTGCAA
289119 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
289184 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
*
289249 AAAAAAGTGCAAAAT
131 AAAAAAATGCAAAAT
289264 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* **
289329 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTTGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
289394 AGAAAAAATGCAAAAT
131 A-AAAAAATGCAAAAT
* *
289410 TCGTGTCCGGTCCATATCTTTCATATGGGGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* *
289475 TTATGATCTAAAGGTGTGTCATGACCTTGACCGAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
289540 AAAAAAAAAATAATGCAAAAT
131 -----AAAAA-AATGCAAAAT
* * *
289561 TCGTGTCCGGTCGATATCTTTTTTATGGGGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* *
289626 TTATGA-TTAAAGGGTGTGTCATAACCTTGACCCAAGGTCA
66 TTATGACCTAAA-GGTGTGTCATGACCTTGACCCAAGGTCA
289666 ATTGAGAAAG
Statistics
Matches: 377, Mismatches: 17, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
145 128 0.34
146 136 0.36
150 8 0.02
151 105 0.28
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (145 bp):
TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
AAAAAAATGCAAAAT
Found at i:304907 original size:11 final size:11
Alignment explanation
Indices: 304885--304923 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
304875 GAAAACTCCG
304885 TCTAACCGAAAC
1 TCTAA-CGAAAC
304897 TCTAACGAAAC
1 TCTAACGAAAC
304908 TCTAACGAAAAC
1 TCTAACG-AAAC
304920 TCTA
1 TCTA
304924 GCGAGCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.21
Consensus pattern (11 bp):
TCTAACGAAAC
Found at i:317252 original size:13 final size:13
Alignment explanation
Indices: 317222--317255 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
317212 ATTCGTCAAT
317222 TCTTCTCTCCCTCC
1 TCTTC-CTCCCTCC
317236 -CTTCCTCCCTCC
1 TCTTCCTCCCTCC
317248 TCTTCCTC
1 TCTTCCTC
317256 TCACTCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (13 bp):
TCTTCCTCCCTCC
Done.