Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold204
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: 1152859
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.31
Warning! 64757 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:3087 original size:4 final size:4
Alignment explanation
Indices: 3078--3108 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
3068 GAAAAGCAAA
3078 AAAT AAAT AAAT AAAT AAAT AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
3109 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:3145 original size:7 final size:7
Alignment explanation
Indices: 3082--3145 Score: 58
Period size: 7 Copynumber: 8.7 Consensus size: 7
3072 AGCAAAAAAT
3082 AAATAAA
1 AAATAAA
3089 TAAATAAA
1 -AAATAAA
3097 TAAATAAA
1 -AAATAAA
3105 AAATTAAA
1 AAA-TAAA
*
3113 AATTAAA
1 AAATAAA
3120 AAA-AGAA
1 AAATA-AA
*
3127 AAAGAAA
1 AAATAAA
*
3134 GAATAAA
1 AAATAAA
3141 AAATA
1 AAATA
3146 TTAAAGAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
6 1 0.02
7 25 0.52
8 22 0.46
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:17368 original size:12 final size:12
Alignment explanation
Indices: 17351--17381 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17341 CAAATAATTT
17351 TGATGAAACAAG
1 TGATGAAACAAG
17363 TGATGAAACAAG
1 TGATGAAACAAG
17375 TG-TGAAA
1 TGATGAAA
17382 AAATTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (12 bp):
TGATGAAACAAG
Found at i:18962 original size:19 final size:19
Alignment explanation
Indices: 18938--18974 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18928 AGAAAGGATT
18938 TTGAATTGC-ATAGTGCATA
1 TTGAATT-CAATAGTGCATA
18957 TTGAATTCAATAGTGCAT
1 TTGAATTCAATAGTGCAT
18975 TAAGGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGAATTCAATAGTGCATA
Found at i:23444 original size:21 final size:21
Alignment explanation
Indices: 23420--23491 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
23410 ATTATGCCGG
*
23420 CATGCAAGATAAATATGTTGA
1 CATGCAAGATAAATATGTTAA
** *
23441 CATGCAAGATAGTTATGTCAA
1 CATGCAAGATAAATATGTTAA
* * *
23462 CATGCAACATAACTAAGTTAA
1 CATGCAAGATAAATATGTTAA
23483 CATGCAAGA
1 CATGCAAGA
23492 AAACTGCAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
CATGCAAGATAAATATGTTAA
Found at i:23585 original size:21 final size:21
Alignment explanation
Indices: 23561--23731 Score: 164
Period size: 21 Copynumber: 8.1 Consensus size: 21
23551 AGATGCTACC
* *
23561 TATTGATGTCAACATGCAACT
1 TATTTATGTTAACATGCAACT
23582 TATTTATGTTAACATGCAACT
1 TATTTATGTTAACATGCAACT
* **
23603 TCTTTATGTCGACATGCAACT
1 TATTTATGTTAACATGCAACT
*
23624 TATTTATGTTGACATGCAACT
1 TATTTATGTTAACATGCAACT
* **
23645 TAGTTATGTTAACATGCAAGA
1 TATTTATGTTAACATGCAACT
** *
23666 TAAATATGTTGACATGCAA-T
1 TATTTATGTTAACATGCAACT
**
23686 ATATTTATGTCGACATGCAACT
1 -TATTTATGTTAACATGCAACT
* * * *
23708 TAGTTATGTTGACATACAAAT
1 TATTTATGTTAACATGCAACT
23729 TAT
1 TAT
23732 AAGCTGCATT
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
21 124 0.99
22 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (21 bp):
TATTTATGTTAACATGCAACT
Found at i:23625 original size:42 final size:42
Alignment explanation
Indices: 23561--23731 Score: 200
Period size: 42 Copynumber: 4.1 Consensus size: 42
23551 AGATGCTACC
* *
23561 TATTGATGTCAACATGCAACTTATTTATGTTAACATGCAACT
1 TATTTATGTCAACATGCAACTTATTTATGTTGACATGCAACT
* *
23603 TCTTTATGTCGACATGCAACTTATTTATGTTGACATGCAACT
1 TATTTATGTCAACATGCAACTTATTTATGTTGACATGCAACT
* * ** **
23645 TAGTTATGTTAACATGCAAGATAAATATGTTGACATGCAA-T
1 TATTTATGTCAACATGCAACTTATTTATGTTGACATGCAACT
* * * *
23686 ATATTTATGTCGACATGCAACTTAGTTATGTTGACATACAAAT
1 -TATTTATGTCAACATGCAACTTATTTATGTTGACATGCAACT
23729 TAT
1 TAT
23732 AAGCTGCATT
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (42 bp):
TATTTATGTCAACATGCAACTTATTTATGTTGACATGCAACT
Found at i:23674 original size:63 final size:63
Alignment explanation
Indices: 23561--23722 Score: 209
Period size: 63 Copynumber: 2.6 Consensus size: 63
23551 AGATGCTACC
* * * * ***
23561 TATTGATGTCAACATGCAACTTATTTATGTTAACATGCAACTTCTTTATGTCGACATGCAACT-
1 TATTTATGTCGACATGCAACTTAGTTATGTTAACATGCAACATAAATATGTCGACATGCAA-TA
* * *
23624 TATTTATGTTGACATGCAACTTAGTTATGTTAACATGCAAGATAAATATGTTGACATGCAATA
1 TATTTATGTCGACATGCAACTTAGTTATGTTAACATGCAACATAAATATGTCGACATGCAATA
*
23687 TATTTATGTCGACATGCAACTTAGTTATGTTGACAT
1 TATTTATGTCGACATGCAACTTAGTTATGTTAACAT
23723 ACAAATTATA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
62 1 0.01
63 85 0.99
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (63 bp):
TATTTATGTCGACATGCAACTTAGTTATGTTAACATGCAACATAAATATGTCGACATGCAATA
Found at i:23790 original size:21 final size:21
Alignment explanation
Indices: 23764--23946 Score: 174
Period size: 21 Copynumber: 8.7 Consensus size: 21
23754 TATCTATCTC
*
23764 GCATGTCAACAAAAATAAGTT
1 GCATGTCAACATAAATAAGTT
* *
23785 GCATGTCAACAT-ATTCA-TCT
1 GCATGTCAACATAAATAAGT-T
* *
23805 CGCTTGTCAACATAAGTAAGTT
1 -GCATGTCAACATAAATAAGTT
** *
23827 GCATGTTGACATAAAAAAGTT
1 GCATGTCAACATAAATAAGTT
*
23848 GCATGTCGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
**
23869 GCATGTTGACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
* **
23890 GCATGTCAGCATATTTATA-TT
1 GCATGTCAACATAAATA-AGTT
*
23911 GCATGTTAACATAAATAAGTT
1 GCATGTCAACATAAATAAGTT
*
23932 GCATGTCGACATAAA
1 GCATGTCAACATAAA
23947 AAGGTAGCAT
Statistics
Matches: 131, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
21 119 0.91
22 5 0.04
23 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (21 bp):
GCATGTCAACATAAATAAGTT
Found at i:23795 original size:48 final size:45
Alignment explanation
Indices: 23730--23883 Score: 115
Period size: 42 Copynumber: 3.5 Consensus size: 45
23720 CATACAAATT
* *
23730 ATAAGCTGCATTTCAACATAAAATTATCTATCTCGCATGTCAACAAAA
1 ATAAGTTGCATGTCAACATAAAA-T-TC-ATCTCGCATGTCAACAAAA
* *
23778 ATAAGTTGCATGTCAACAT---ATTCATCTCGCTTGTCAACATAA
1 ATAAGTTGCATGTCAACATAAAATTCATCTCGCATGTCAACAAAA
* ** * * *
23820 GTAAGTTGCATGTTGACATAAAA--AAGT-T-GCATGTCGACATAA
1 ATAAGTTGCATGTCAACATAAAATTCA-TCTCGCATGTCAACAAAA
**
23862 ATAAGTTGCATGTTGACATAAA
1 ATAAGTTGCATGTCAACATAAA
23884 TAAGTTGCAT
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
42 66 0.73
43 4 0.04
44 2 0.02
45 2 0.02
48 17 0.19
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (45 bp):
ATAAGTTGCATGTCAACATAAAATTCATCTCGCATGTCAACAAAA
Found at i:24106 original size:21 final size:21
Alignment explanation
Indices: 24031--24117 Score: 95
Period size: 21 Copynumber: 4.2 Consensus size: 21
24021 TCTGATTGCA
*
24031 ATTT-TCTTGCATTTCAACAT
1 ATTTATCTTGCATGTCAACAT
* * **
24051 AATTATGTTGCATGTTGACAT
1 ATTTATCTTGCATGTCAACAT
*
24072 AATTATCTTGCATGTCAACAT
1 ATTTATCTTGCATGTCAACAT
* *
24093 ATTTATCTTGCATGTCGATAT
1 ATTTATCTTGCATGTCAACAT
24114 ATTT
1 ATTT
24118 GATAGAATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 3 0.05
21 52 0.95
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (21 bp):
ATTTATCTTGCATGTCAACAT
Found at i:35231 original size:166 final size:166
Alignment explanation
Indices: 34944--36331 Score: 2077
Period size: 166 Copynumber: 8.4 Consensus size: 166
34934 NNNNNNNGAT
* * * * ** *
34944 GATGCTTCCATTTTAATTTGAGCTTTTCTGGCCTTATAGTTTTTCAGGGGAAGATTTTTAAATAT
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
*
35009 TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCATCCTACCCCCGGGGAC
66 TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGAC
* *
35074 CATGATTTGAACAAACTTGAATCTACATTACCTGAG
131 CATGATTTGAACAAACTTGAATCTACACTATCTGAG
* * *
35110 GATGCTGT-CATTTTAATTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGA
1 GATGCT-TCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGA
*
35174 TTTTCTCTATATATTCTTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
65 TTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
35239 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
130 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
* ** * * *
35276 AATGCTTCCACCCAAAGTTGAGCTTTTCTGGCCTAATGGTTTTTGAGAAGAAGATTTTTAAATAT
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
* *
35341 TTTCTATATATATTCCTATGTAAAACAAGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGAC
66 TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGAC
*
35406 CATGATTTGAACAAACTTGAATCTACACTACCTGAG
131 CATGATTTGAACAAACTTGAATCTACACTATCTGAG
* * *
35442 AATGCTTCCACTCAAAGGTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
* * *
35507 TTTCTCTATATAATCTTATGTAAAACATGATCCCCCAATTGTGGCCCCTCCCTACCCCCCGGGGA
66 TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTA-CCCCCGGGGA
*
35572 CCATGATTTGAACAAACTTGAATCTGCACTATCTGAG
130 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
* ** *
35609 GATGCTTCCACTTGAAGTTGAGCTTCCCTGG-CTTAATAGTTTTTGAGAAGAAGATTTTTATAGA
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTT-ATAGTTTTTGAGAAGAAGATTTTTAAAGA
* * *
35673 TTTTCTCTACATATTCCTATGTAAAACATGATCCCCAAATTGTGGCCCTACCCTACCCCCGGGGA
65 TTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
** *
35738 CCATGATTTGAACAAACTTGAATCTGTACTATCTGTG
130 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
**
35775 GATGCTTCCACTTAAAGTTGAGCTTCCCTGG-CTTAATAGTTTTTGAGAAGAAGATTTTTAAAGA
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTT-ATAGTTTTTGAGAAGAAGATTTTTAAAGA
* *
35839 TTTTCTCTACATATTCCTATGTAAAATATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
65 TTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
** *
35904 CCATGATTTGAACAAACTTGAATCTGTACTATCTGTG
130 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
**
35941 GATGCTTCCACTTAAAGTTGAGCTTCCCTGG-CTTAATAGTTTTTGAGAAGAAGATTTTTAAAGA
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTT-ATAGTTTTTGAGAAGAAGATTTTTAAAGA
* *
36005 TTTTCTCTACATATTCCTATGTAAAATATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
65 TTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGA
*
36070 CCATGATTTGAACAAACTTGAATCTGCACTATCTGAG
130 CCATGATTTGAACAAACTTGAATCTACACTATCTGAG
36107 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
1 GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
* * ** * *
36172 GTTCTCTATATATTCCTATGTAAAACGTGATCCCCCTCTAGTGGCCCCTCCCTACCCCCGGGGAC
66 TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGAC
* *
36237 CATGATTTGAACAAACTTGAATCTACACTACCTGAT
131 CATGATTTGAACAAACTTGAATCTACACTATCTGAG
* * * ** *
36273 GATGCCTCCAC--ACAAGTTTAAGCTTTTCAGGCCGAATAGCTTTTGAGAAGAAGATTTTT
1 GATGCTTCCACTTA-AAG-TTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTT
36332 GAAAAATACC
Statistics
Matches: 1141, Mismatches: 74, Indels: 14
0.93 0.06 0.01
Matches are distributed among these distances:
164 1 0.00
165 4 0.00
166 985 0.86
167 151 0.13
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (166 bp):
GATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGAT
TTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGAC
CATGATTTGAACAAACTTGAATCTACACTATCTGAG
Found at i:35882 original size:499 final size:498
Alignment explanation
Indices: 34962--36331 Score: 2070
Period size: 499 Copynumber: 2.7 Consensus size: 498
34952 CATTTTAATT
* ** *
34962 TGAGCTTTTCTGGCCTTATAGTTTTTCAGGGGAAGATTTTTAAATATTTTCTCTATATATTCCTA
1 TGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTA
35027 TGTAAAACATGATCCCCCAATTGTGGCCCCAT-CCTACCCCCGGGGACCATGATTTGAACAAACT
66 TGTAAAACATGATCCCCCAATTGTGGCCCC-TCCCTACCCCCGGGGACCATGATTTGAACAAACT
* * * * * *
35091 TGAATCTACATTACCTGAGGATGCTGT-CATTTTAATTTGAGCTTTTCTGGCCTTATAGTTTTTG
130 TGAATCTGCACTATCTGAGGATGCT-TCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTG
*
35155 AGAAGAAGATTTTTAAAGATTTTCTCTATATATTCTTATGTAAAACATGATCCCCCAATTGTGGC
194 AGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGC
*
35220 CCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGAATGCTTCC
259 CCTACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGAATGCTTCC
** * * *
35285 ACCCAAAGTTGAGCTTTTCTGGCCTAATGGTTTTTGAGAAGAAGATTTTTAAATATTTTCTATAT
324 ACCCAAAGTTGAGCTTCCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTATAC
35350 ATATTCCTATGTAAAACAAGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTG
389 ATATTCCTATGTAAAACAAGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTG
35415 AACAAACTTGAATCTACACTACCTGAGAATGCTTCCACTCAAAGG
454 AACAAACTTGAATCTACACTACCTGAGAATGCTTCCACTCAAAGG
* *
35460 TGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATAATCTTA
1 TGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTA
35525 TGTAAAACATGATCCCCCAATTGTGGCCCCTCCCTACCCCCCGGGGACCATGATTTGAACAAACT
66 TGTAAAACATGATCCCCCAATTGTGGCCCCTCCCTA-CCCCCGGGGACCATGATTTGAACAAACT
* **
35590 TGAATCTGCACTATCTGAGGATGCTTCCACTTGAAGTTGAGCTTCCCTGG-CTTAATAGTTTTTG
130 TGAATCTGCACTATCTGAGGATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTT-ATAGTTTTTG
* * *
35654 AGAAGAAGATTTTTATAGATTTTCTCTACATATTCCTATGTAAAACATGATCCCCAAATTGTGGC
194 AGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGC
** * *
35719 CCTACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTGTACTATCTGTGGATGCTTCC
259 CCTACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGAATGCTTCC
** * *
35784 ACTTAAAGTTGAGCTTCCCTGGCTTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTAC
324 ACCCAAAGTTGAGCTTCCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTATAC
* *
35849 ATATTCCTATGTAAAATATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTG
389 ATATTCCTATGTAAAACAAGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTG
** * * * * *
35914 AACAAACTTGAATCTGTACTATCTGTGGATGCTTCCACTTAAAGT
454 AACAAACTTGAATCTACACTACCTGAGAATGCTTCCACTCAAAGG
** *
35959 TGAGCTTCCCTGG-CTTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTACATATTCCT
1 TGAGCTTTTCTGGCCTT-ATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCT
* *
36023 ATGTAAAATATGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACT
65 ATGTAAAACATGATCCCCCAATTGTGGCCCCTCCCTACCCCCGGGGACCATGATTTGAACAAACT
36088 TGAATCTGCACTATCTGAGGATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGA
130 TGAATCTGCACTATCTGAGGATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGA
* * ** *
36153 GAAGAAGATTTTTAAAGATGTTCTCTATATATTCCTATGTAAAACGTGATCCCCCTCTAGTGGCC
195 GAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGG-C
* *
36218 CCT-CCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGATG-ATGCCTC
259 CCTACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGA-GAATGCTTC
* * ** * * *
36281 CACAC-AAGTTTAAGCTTTTCAGGCCGAATAGCTTTTGAGAAGAAGATTTTT
323 CACCCAAAG-TTGAGCTTCCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTT
36332 GAAAAATACC
Statistics
Matches: 790, Mismatches: 73, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
497 4 0.01
498 332 0.42
499 454 0.57
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (498 bp):
TGAGCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTA
TGTAAAACATGATCCCCCAATTGTGGCCCCTCCCTACCCCCGGGGACCATGATTTGAACAAACTT
GAATCTGCACTATCTGAGGATGCTTCCACTTAAAGTTGAGCTTTTCTGGCCTTATAGTTTTTGAG
AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACATGATCCCCCAATTGTGGCCC
TACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGAATGCTTCCAC
CCAAAGTTGAGCTTCCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTATACAT
ATTCCTATGTAAAACAAGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAA
CAAACTTGAATCTACACTACCTGAGAATGCTTCCACTCAAAGG
Found at i:38040 original size:2 final size:2
Alignment explanation
Indices: 38035--38078 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
38025 TGCACACATA
38035 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
38077 CT
1 CT
38079 TTTAAATTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:55085 original size:20 final size:20
Alignment explanation
Indices: 55060--55114 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
55050 TAAATAAAAT
55060 ATATATACCTCACAATATAA
1 ATATATACCTCACAATATAA
*
55080 ATATATACCTCATAATATAA
1 ATATATACCTCACAATATAA
55100 ACTATATACCTCACA
1 A-TATATACCTCACA
55115 TCGATATGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATATACCTCACAATATAA
Found at i:69016 original size:161 final size:161
Alignment explanation
Indices: 68726--69151 Score: 615
Period size: 161 Copynumber: 2.7 Consensus size: 161
68716 TCGCTCGCCT
* * *
68726 ATCATACCCAA-AACAAACTTGACCAAGATATTAT-ATAGATAAACCTGCATACCAAATTTCATA
1 ATCATACCCAATATCAAACTTGACCTAGATATTATCAT-GATAAACCTGTATACCAAATTTCAT-
** * * * *
68789 TT-AATATGTGCACCCTCTGCGAAGAAAATGAGTGGAAACTGCAAATAACTCGAATTTTTCTAAG
64 TTCAATATGTTAATCCTATGCGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAG
68853 TCCAAGGGCCATAACTCTGTCGAAAATTACTCG
129 TCCAAGGGCCATAACTCTGTCGAAAATTACTCG
* * *
68886 ATCATACCCAATATCGAACTTAACCTAGATATTATCATGATAAACCTGTATACCGAATTTCATTT
1 ATCATACCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTT
* * *
68951 CAATATCTTAATCCTATGCGAAGTAAATGAGCAGAAACTGCAAATAACTCAAATTTTTCTAAGTC
66 CAATATGTTAATCCTATGCGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTC
*
69016 CAAGGGCCATAACTCTGTCGAAAATTGCTCG
131 CAAGGGCCATAACTCTGTCGAAAATTACTCG
* *
69047 ATCGTACCCCATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTT
1 ATCATACCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTT
* * * *
69112 CAATATGTTTATCCTTTGCAAAGAAAATGAACGGAAACTG
66 CAATATGTTAATCCTATGCGAAGAAAATGAGCGGAAACTG
69152 TTGGTGGACC
Statistics
Matches: 235, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
160 13 0.06
161 220 0.94
162 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (161 bp):
ATCATACCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTT
CAATATGTTAATCCTATGCGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTC
CAAGGGCCATAACTCTGTCGAAAATTACTCG
Found at i:72078 original size:38 final size:38
Alignment explanation
Indices: 72021--72274 Score: 276
Period size: 38 Copynumber: 6.7 Consensus size: 38
72011 AAGTTATTAC
* * * * *
72021 CTTTATCCTGCTGGCAGTAATTTCATGTAGAGACTTGG
1 CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
* * * *
72059 CTTTATCTTACTGATAGTAATAACCTATAGAGACTTAG
1 CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
* * * * *
72097 CTTTATCTTACGGATAGAAATTACCTGGT-GTGACTTGA
1 CTTTATCTTACTGACAGTAATTACCT-GTAGAGACTTGG
* * *
72135 CTTTATTTTACTGACAGTAATTACCTGCAGCGACTTGG
1 CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
* * *
72173 CTTTATCTTATTGACAGTAATTACCTGTAGAGACTAGT
1 CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
* *
72211 CTTTATCTTACTGACAGTAATTACCTGTAGAGATTTGT
1 CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
* *
72249 CTTTATTTTACTAACAGTAATTACCT
1 CTTTATCTTACTGACAGTAATTACCT
72275 TAATCTTACA
Statistics
Matches: 180, Mismatches: 34, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
37 1 0.01
38 178 0.99
39 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (38 bp):
CTTTATCTTACTGACAGTAATTACCTGTAGAGACTTGG
Found at i:72181 original size:114 final size:114
Alignment explanation
Indices: 72052--72274 Score: 315
Period size: 114 Copynumber: 2.0 Consensus size: 114
72042 TTCATGTAGA
* *
72052 GACTTGGCTTTATCTTACTGATAGTAATAACCTATAGAGACTTAG-CTTTATCTTACGGATAGAA
1 GACTTGGCTTTATCTTACTGACAGTAATAACCTATAGAGAC-TAGTCTTTATCTTACGGACAGAA
* *
72116 ATTACCTGGT-GTGACTTGACTTTATTTTACTGACAGTAATTACCTGCAGC
65 ATTACCT-GTAGAGACTTGACTTTATTTTACTAACAGTAATTACCTGCAGC
* * * * *
72166 GACTTGGCTTTATCTTATTGACAGTAATTACCTGTAGAGACTAGTCTTTATCTTACTGACAGTAA
1 GACTTGGCTTTATCTTACTGACAGTAATAACCTATAGAGACTAGTCTTTATCTTACGGACAGAAA
* *
72231 TTACCTGTAGAGATTTGTCTTTATTTTACTAACAGTAATTACCT
66 TTACCTGTAGAGACTTGACTTTATTTTACTAACAGTAATTACCT
72275 TAATCTTACA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
113 5 0.05
114 91 0.95
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (114 bp):
GACTTGGCTTTATCTTACTGACAGTAATAACCTATAGAGACTAGTCTTTATCTTACGGACAGAAA
TTACCTGTAGAGACTTGACTTTATTTTACTAACAGTAATTACCTGCAGC
Found at i:72352 original size:99 final size:100
Alignment explanation
Indices: 72188--72373 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 100
72178 TCTTATTGAC
* * * * * *
72188 AGTAATTACCTGTAGAGACTAGTCTTTATCTTACTGACAGTAATTACCTGTAGAGATTTGTCTTT
1 AGTAATTACCTGCAGAGACTAGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTTGGCTTT
*
72253 ATTTTACTAACAGTAATTACCTTAATCTTACAAAT
66 ATCTTACTAACAGTAATTACCTTAATCTTACAAAT
*
72288 AGTAATTACCTGCCA-AGACT-GACTTTATCTTACTGACAGCAAGTACCTGTAGATACTTGGCTT
1 AGTAATTACCTG-CAGAGACTAGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTTGGCTT
* *
72351 TATCTTATTGACAGTAATTACCT
65 TATCTTACTAACAGTAATTACCT
72374 GTACAAACTC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
99 57 0.76
100 17 0.23
101 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (100 bp):
AGTAATTACCTGCAGAGACTAGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTTGGCTTT
ATCTTACTAACAGTAATTACCTTAATCTTACAAAT
Found at i:72407 original size:38 final size:38
Alignment explanation
Indices: 72288--72411 Score: 126
Period size: 38 Copynumber: 3.3 Consensus size: 38
72278 TCTTACAAAT
* *
72288 AGTAATTACCTG-CCAAGACT-GACTTTATCTTACTGAC
1 AGTAATTACCTGTACAA-ACTCAACTTTATCTTACTGAC
* * * * *** *
72325 AGCAAGTACCTGTAGATACTTGGCTTTATCTTATTGAC
1 AGTAATTACCTGTACAAACTCAACTTTATCTTACTGAC
72363 AGTAATTACCTGTACAAACTCAACTTTATCTTACTGAC
1 AGTAATTACCTGTACAAACTCAACTTTATCTTACTGAC
*
72401 ATTAATTACCT
1 AGTAATTACCT
72412 TAATCTTACT
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
37 13 0.19
38 56 0.81
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (38 bp):
AGTAATTACCTGTACAAACTCAACTTTATCTTACTGAC
Found at i:72419 original size:137 final size:138
Alignment explanation
Indices: 72150--72464 Score: 364
Period size: 137 Copynumber: 2.3 Consensus size: 138
72140 TTTTACTGAC
* * * * * *
72150 AGTAATTACCTGCAGCGACTTGGCTTTATCTTATTGACAGTAATTACCTGTAGAGACTAGTCTTT
1 AGTAATTACCTGCAGAGACTTGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTAGGCTTT
* * * *** *
72215 ATCTTACTGACAGTAATTACCTGTAGAGATTTGTCTTTATTTTACTAACAGTAATTACCTTAATC
66 ATCTTACTGACAGTAATTACCTGTACAAACTCAACTTTATCTTACTAACAGTAATTACCTTAATC
72280 TTACAAAT
131 TTACAAAT
* *
72288 AGTAATTACCTGCCA-AGAC-TGACTTTATCTTACTGACAGCAAGTACCTGTAGATACTTGGCTT
1 AGTAATTACCTG-CAGAGACTTGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTAGGCTT
* * *
72351 TATCTTATTGACAGTAATTACCTGTACAAACTCAACTTTATCTTACTGACATTAATTACCTTAAT
65 TATCTTACTGACAGTAATTACCTGTACAAACTCAACTTTATCTTACTAACAGTAATTACCTTAAT
** *
72416 CTTACTGAC
130 CTTACAAAT
* * * * **
72425 AGTTATTTCCTGGAGGGACTCCACTTTATCTTACTGACAG
1 AGTAATTACCTGCAGAGACTTGACTTTATCTTACTGACAG
72465 TATTAATAAG
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
136 1 0.01
137 111 0.76
138 33 0.22
139 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (138 bp):
AGTAATTACCTGCAGAGACTTGACTTTATCTTACTGACAGCAAGTACCTGTAGAGACTAGGCTTT
ATCTTACTGACAGTAATTACCTGTACAAACTCAACTTTATCTTACTAACAGTAATTACCTTAATC
TTACAAAT
Found at i:72703 original size:19 final size:19
Alignment explanation
Indices: 72676--72719 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
72666 ATGACAGATA
*
72676 TTTAAACCAAATATATATT
1 TTTACACCAAATATATATT
72695 TTTACACCAAATATATATT
1 TTTACACCAAATATATATT
72714 TTTACA
1 TTTACA
72720 TTTGGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTACACCAAATATATATT
Found at i:74226 original size:97 final size:95
Alignment explanation
Indices: 74039--74232 Score: 336
Period size: 97 Copynumber: 2.0 Consensus size: 95
74029 GGAAATCCCA
74039 ATGAATTAACAGTAACACAATTGGCCACTGAATCTTTGTTTATTCCTTGTCATGAATTAAAATTA
1 ATGAATTAACAGTAACACAATTGGCCACTGAATCTTTGTTTATTCCTTGTCATGAATTAAAATTA
74104 TCTGTTTATTTAATATCTTCTCCTATAAAC
66 TCTGTTTATTTAATATCTTCTCCTATAAAC
* *
74134 ATGAATTAACAGTAACA-ATATTGGCTACTGAATCTTTGTTTTTTCCTTATGTCATGAATTAAAA
1 ATGAATTAACAGTAACACA-ATTGGCCACTGAATCTTTGTTTATTCC-T-TGTCATGAATTAAAA
74198 TTATCTGTTTATTTAATATCTTCTCCTATAAAC
63 TTATCTGTTTATTTAATATCTTCTCCTATAAAC
74231 AT
1 AT
74233 TAATCTATAA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
94 1 0.01
95 42 0.45
96 1 0.01
97 50 0.53
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (95 bp):
ATGAATTAACAGTAACACAATTGGCCACTGAATCTTTGTTTATTCCTTGTCATGAATTAAAATTA
TCTGTTTATTTAATATCTTCTCCTATAAAC
Found at i:76032 original size:39 final size:39
Alignment explanation
Indices: 75989--76932 Score: 1656
Period size: 39 Copynumber: 24.0 Consensus size: 39
75979 CTTTGATGTT
* * *
75989 TGTGATGGTATCTAGCAAAATAATGTCTTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76028 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACT-GCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
* *
76066 TGTGATGACATCTAGCTAAATAATGTCCACTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76105 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76144 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76183 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76222 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76261 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76300 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76339 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76378 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76417 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76456 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76495 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76534 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
*
76573 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAACA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76612 TGTGATGGCATCTAGCTATTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGC---TAAATAATGTCCTCTGACTAGCA
76654 TGTGATGGCATCTAGCTATTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGC---TAAATAATGTCCTCTGACTAGCA
* *
76696 TGTGATGGCATCTACCTATTAAATTATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGC---TAAATAATGTCCTCTGACTAGCA
*
76738 TGTGATGGCATCTAGCTAAATAATGTTCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
* * * *
76777 TGTGATGTCATCAAGCTAAAGAATGTTCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
*
76816 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAACA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
* *
76855 TGTGATGGCATCTAGCTCAATAATGTCCTCTGACTAACA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76894 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
1 TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
76933 AAGGAGATTA
Statistics
Matches: 876, Mismatches: 25, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
38 36 0.04
39 721 0.82
42 119 0.14
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (39 bp):
TGTGATGGCATCTAGCTAAATAATGTCCTCTGACTAGCA
Found at i:77847 original size:55 final size:55
Alignment explanation
Indices: 77763--77987 Score: 369
Period size: 55 Copynumber: 4.1 Consensus size: 55
77753 TTCATCACTA
77763 GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
1 GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
* * *
77818 GTGTACATCTATGGTACTGACCTGAGTAGCACTTTGTGCATGGTCTGTGCTATGT
1 GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
* * * *
77873 ATATAGAGCTAAGGTACTGACCTGAGTAGCACTTTGTGCATGGTCTGTGCTATGT
1 GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
* *
77928 GTGTACAGCTAAGGTACTGACCTAAGTAGCACTTCGTGCATAGTCTGTGCTATGT
1 GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
77983 GTGTA
1 GTGTA
77988 TCATCCACTT
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 156 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (55 bp):
GTGTACAGCTAAGGTACTGACCTGAGTAGCACTTCGTGCATGGTCTGTGCTATGT
Found at i:83811 original size:26 final size:26
Alignment explanation
Indices: 83782--83833 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
83772 AAAAATCAAC
*
83782 GATCTACTAAGTAATTTAATATAAAT
1 GATCTACTAAGTAATTTAATAAAAAT
83808 GATCTACTAAGTAATTTAATAAAAAT
1 GATCTACTAAGTAATTTAATAAAAAT
83834 TGGATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (26 bp):
GATCTACTAAGTAATTTAATAAAAAT
Found at i:83877 original size:13 final size:16
Alignment explanation
Indices: 83845--83883 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
83835 GGATTTTAAA
83845 ATATCATCATACTACT
1 ATATCATCATACTACT
83861 ATATCATCATA-T-C-
1 ATATCATCATACTACT
83874 ATATCATCAT
1 ATATCATCAT
83884 CATATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 1 0.04
15 1 0.04
16 11 0.48
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATCATCATACTACT
Found at i:87698 original size:56 final size:56
Alignment explanation
Indices: 87612--88197 Score: 947
Period size: 56 Copynumber: 10.3 Consensus size: 56
87602 AAGAGAGGAG
* *
87612 AAAGAAAGTCCATTACAAGAGGCCTGGGGTAAGTCCAGACAGTGAAGGTTGCAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
* * *
87668 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCAAGACTGGGAAGGTTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
*
87724 AAAGAGAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
* *
87780 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCAAGACAGTGAAGGTTGCAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
* * *
87836 AAAGATCAGGACTGTTCCATTACAAGAGAACTGGGGTAAGTCCAGACAGGGAAGGCTACAAGT
1 AAAGA--A--A--G-TCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
* *
87899 AAAGAGAGTCCATTACAAGAGGACTGGGGTTAGTCCAGACAGTGAAGGTTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
87955 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
*
88011 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTGCAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
88067 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
* * *
88123 AAAGAAAGTCTATTACAAGAGGACTGGGGTAAGTCCAGACAGGGAAGGCTACAAGT
1 AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
*
88179 AAAGAAAGTCCATTGCAAG
1 AAAGAAAGTCCATTACAAG
88198 GGGAATGGAC
Statistics
Matches: 492, Mismatches: 31, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
56 439 0.89
57 1 0.00
58 1 0.00
59 1 0.00
60 1 0.00
62 1 0.00
63 48 0.10
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.18
Consensus pattern (56 bp):
AAAGAAAGTCCATTACAAGAGGACTGGGGTAAGTCCAGACAGTGAAGGTTACAAGT
Found at i:92240 original size:34 final size:32
Alignment explanation
Indices: 92202--92281 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
92192 ATTGTCCCTG
* *
92202 GGTAAGTCCTCCGCACGCCCTCACATTGTTTTTA
1 GGTAAGTCCTCC-CACG-CCACACATTGTCTTTA
* * *
92236 GGTAAGTCTTTCCCTCGCCACACATTGTCTTTG
1 GGTAAGTC-CTCCCACGCCACACATTGTCTTTA
92269 GGTAAGTCCTCCC
1 GGTAAGTCCTCCC
92282 CAGAGGAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 4 0.10
33 21 0.54
34 11 0.28
35 3 0.08
ACGTcount: A:0.16, C:0.33, G:0.19, T:0.33
Consensus pattern (32 bp):
GGTAAGTCCTCCCACGCCACACATTGTCTTTA
Found at i:112241 original size:2 final size:2
Alignment explanation
Indices: 112169--112223 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
112159 TCATTCATAT
112169 TC TC TC TC -C 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
112210 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
112224 ACTCATTCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:116761 original size:167 final size:167
Alignment explanation
Indices: 116485--116821 Score: 674
Period size: 167 Copynumber: 2.0 Consensus size: 167
116475 TTTGTCTTCC
116485 TGAACAAAGCCCGCCTCTCGATCCACGGAAAGGTTATCAAAACTGTCCTGGCTCCTGGATCCGGA
1 TGAACAAAGCCCGCCTCTCGATCCACGGAAAGGTTATCAAAACTGTCCTGGCTCCTGGATCCGGA
116550 GCTGGATCTCCGTTTGGAGCGACCCATCAGTTTCAGGAAGGAGCTTCGGACTTTACTCCTGGAAA
66 GCTGGATCTCCGTTTGGAGCGACCCATCAGTTTCAGGAAGGAGCTTCGGACTTTACTCCTGGAAA
116615 AGCTTTCACTTTGCTGTGAGCCAGCTGTGTCCATACT
131 AGCTTTCACTTTGCTGTGAGCCAGCTGTGTCCATACT
116652 TGAACAAAGCCCGCCTCTCGATCCACGGAAAGGTTATCAAAACTGTCCTGGCTCCTGGATCCGGA
1 TGAACAAAGCCCGCCTCTCGATCCACGGAAAGGTTATCAAAACTGTCCTGGCTCCTGGATCCGGA
116717 GCTGGATCTCCGTTTGGAGCGACCCATCAGTTTCAGGAAGGAGCTTCGGACTTTACTCCTGGAAA
66 GCTGGATCTCCGTTTGGAGCGACCCATCAGTTTCAGGAAGGAGCTTCGGACTTTACTCCTGGAAA
116782 AGCTTTCACTTTGCTGTGAGCCAGCTGTGTCCATACT
131 AGCTTTCACTTTGCTGTGAGCCAGCTGTGTCCATACT
116819 TGA
1 TGA
116822 GGTAGAGCCT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 170 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (167 bp):
TGAACAAAGCCCGCCTCTCGATCCACGGAAAGGTTATCAAAACTGTCCTGGCTCCTGGATCCGGA
GCTGGATCTCCGTTTGGAGCGACCCATCAGTTTCAGGAAGGAGCTTCGGACTTTACTCCTGGAAA
AGCTTTCACTTTGCTGTGAGCCAGCTGTGTCCATACT
Found at i:121303 original size:2 final size:2
Alignment explanation
Indices: 121296--121334 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
121286 TTCTCTGTCC
121296 CT CT CT CT CT CT C- 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
121335 GACTTACCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:138979 original size:2 final size:2
Alignment explanation
Indices: 138972--139017 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
138962 TATTTTTCTG
138972 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
139014 GA GA
1 GA GA
139018 TTGGGAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:142505 original size:21 final size:21
Alignment explanation
Indices: 142487--142612 Score: 146
Period size: 21 Copynumber: 6.0 Consensus size: 21
142477 GCAACATACG
142487 TAAGTTGCATGTTGACATAAA
1 TAAGTTGCATGTTGACATAAA
*
142508 TAAGTTGCATGTCGACATAAA
1 TAAGTTGCATGTTGACATAAA
142529 TAAGTTGCATGTTGACATAAA
1 TAAGTTGCATGTTGACATAAA
* ***
142550 TAAGTTGCATG-TCAGCATTTT
1 TAAGTTGCATGTTGA-CATAAA
** *
142571 TATCTTGCATGTTAACATAAA
1 TAAGTTGCATGTTGACATAAA
**
142592 TAAGTTGCATGTCAACATAAA
1 TAAGTTGCATGTTGACATAAA
142613 AAAGGTAACA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
20 2 0.02
21 84 0.95
22 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (21 bp):
TAAGTTGCATGTTGACATAAA
Found at i:142539 original size:42 final size:41
Alignment explanation
Indices: 142487--142612 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 41
142477 GCAACATACG
142487 TAAGTTGCATGTTGACATAAATAAGTTGCATGTCGACATAAA
1 TAAGTTGCATGTTGACATAAATAAGTTGCATGTC-ACATAAA
***
142529 TAAGTTGCATGTTGACATAAATAAGTTGCATGTCAGCATTTT
1 TAAGTTGCATGTTGACATAAATAAGTTGCATGTCA-CATAAA
** *
142571 TATCTTGCATGTTAACATAAATAAGTTGCATGTCAACATAAA
1 TAAGTTGCATGTTGACATAAATAAGTTGCATGTC-ACATAAA
142613 AAAGGTAACA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 71 0.97
43 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (41 bp):
TAAGTTGCATGTTGACATAAATAAGTTGCATGTCACATAAA
Found at i:142630 original size:63 final size:63
Alignment explanation
Indices: 142512--142630 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 63
142502 CATAAATAAG
* ** * ** *
142512 TTGCATGTCGACATAAATAAGTTGCATGTTGACATAAATAAGTTGCATGTCAGCATTTTTATC
1 TTGCATGTCAACATAAATAAGTTGCATGTCAACATAAAAAAGTAACATCTCAGCATTTTTATC
*
142575 TTGCATGTTAACATAAATAAGTTGCATGTCAACATAAAAAAGGTAACATCT-AGCAT
1 TTGCATGTCAACATAAATAAGTTGCATGTCAACATAAAAAA-GTAACATCTCAGCAT
142631 CTTGGATGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
63 41 0.87
64 6 0.13
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (63 bp):
TTGCATGTCAACATAAATAAGTTGCATGTCAACATAAAAAAGTAACATCTCAGCATTTTTATC
Found at i:142725 original size:21 final size:20
Alignment explanation
Indices: 142697--142778 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 20
142687 ATTGCAATTT
142697 TCTTGCATGTCAACATAGTTA
1 TCTTGCATGTCAACATA-TTA
* * **
142718 TGTTGCATTTTGACATAATTA
1 TCTTGCATGTCAACAT-ATTA
142739 TCTTGCATGTCAACATATTAA
1 TCTTGCATGTCAACATATT-A
*
142760 TCTTGCATGTCGACATATT
1 TCTTGCATGTCAACATATT
142779 TGATAGAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
20 3 0.06
21 46 0.92
22 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TCTTGCATGTCAACATATTA
Found at i:142766 original size:42 final size:42
Alignment explanation
Indices: 142692--142776 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
142682 ATCTGATTGC
* * * *
142692 AATTTTCTTGCATGTCAACATAGTTATGTTGCATTTTGACAT
1 AATTATCTTGCATGTCAACATAGTTATCTTGCATGTCGACAT
142734 AATTATCTTGCATGTCAACATA-TTAATCTTGCATGTCGACAT
1 AATTATCTTGCATGTCAACATAGTT-ATCTTGCATGTCGACAT
142776 A
1 A
142777 TTTGATAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 36 0.95
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (42 bp):
AATTATCTTGCATGTCAACATAGTTATCTTGCATGTCGACAT
Found at i:143706 original size:57 final size:57
Alignment explanation
Indices: 143637--143773 Score: 222
Period size: 57 Copynumber: 2.4 Consensus size: 57
143627 TCTAATAAAG
*
143637 ATCTTTCATGAATTTTCTCGAAACCCCTTTTGGCAAATAAATCGGCACTAAG-GTAGA
1 ATCTTTCATGAATTCTCTCGAAACCCCTTTTGGCAAATAAATCGGCACT-AGTGTAGA
* * *
143694 ATCTTTCATGAATTCTCTCGAAACCCTTTTTGGCAAATAAATCGGCACTGGTGTGGA
1 ATCTTTCATGAATTCTCTCGAAACCCCTTTTGGCAAATAAATCGGCACTAGTGTAGA
143751 ATCTTTCATGAATTCTCTCGAAA
1 ATCTTTCATGAATTCTCTCGAAA
143774 TCTACTTAGC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 1 0.01
57 74 0.99
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (57 bp):
ATCTTTCATGAATTCTCTCGAAACCCCTTTTGGCAAATAAATCGGCACTAGTGTAGA
Found at i:150119 original size:21 final size:21
Alignment explanation
Indices: 150095--150166 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
150085 ATCTGCCACC
150095 ACTTGTCAGATAATTATGTCG
1 ACTTGTCAGATAATTATGTCG
*
150116 ACTTGTCAGAT-CTTGATGTCG
1 ACTTGTCAGATAATT-ATGTCG
**
150137 ACTTGTTTGATAATTATGTTC-
1 ACTTGTCAGATAATTATG-TCG
150158 ACTTGTCAG
1 ACTTGTCAG
150167 TTCTTTAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.05
21 36 0.86
22 4 0.10
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTCG
Found at i:150311 original size:42 final size:42
Alignment explanation
Indices: 150264--150403 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
150254 TAATATTTTC
***
150264 TGACAAGTCGACATAATCATCTTTTAAGTCGAT-ATAATTATT
1 TGACAAGTCGACATAATCATCTGACAAGTCG-TCATAATTATT
* *
150306 TGACAAGTCGACATTATTATCTGACAAGTCGTCATAATTATT
1 TGACAAGTCGACATAATCATCTGACAAGTCGTCATAATTATT
* * * * ** * *
150348 TGACAAGACGACA-AAACATCAGACAAGACAACATCATTATC
1 TGACAAGTCGACATAATCATCTGACAAGTCGTCATAATTATT
150389 TGACAAGTCGACATA
1 TGACAAGTCGACATA
150404 CAATATGAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 32 0.40
42 48 0.60
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (42 bp):
TGACAAGTCGACATAATCATCTGACAAGTCGTCATAATTATT
Found at i:150395 original size:21 final size:21
Alignment explanation
Indices: 150262--150403 Score: 106
Period size: 21 Copynumber: 6.8 Consensus size: 21
150252 AATAATATTT
* *
150262 TCTGACAAGTCGACATAATCA
1 TCTGACAAGACGACATAATTA
*** * *
150283 TCTTTTAAGTCGATATAATTA
1 TCTGACAAGACGACATAATTA
* * *
150304 TTTGACAAGTCGACATTATTA
1 TCTGACAAGACGACATAATTA
* *
150325 TCTGACAAGTCGTCATAATTA
1 TCTGACAAGACGACATAATTA
* **
150346 TTTGACAAGACGACA-AAACA
1 TCTGACAAGACGACATAATTA
* * *
150366 TCAGACAAGACAACATCATTA
1 TCTGACAAGACGACATAATTA
*
150387 TCTGACAAGTCGACATA
1 TCTGACAAGACGACATA
150404 CAATATGAAT
Statistics
Matches: 91, Mismatches: 29, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
20 15 0.16
21 76 0.84
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (21 bp):
TCTGACAAGACGACATAATTA
Found at i:150478 original size:21 final size:21
Alignment explanation
Indices: 150452--150612 Score: 135
Period size: 21 Copynumber: 7.7 Consensus size: 21
150442 TTATTTTTTC
* *
150452 TGTCAGATAATAATGTTAACT
1 TGTCAGATAATTATGTCAACT
** *
150473 TGTCAGATCTTTATGTCGACT
1 TGTCAGATAATTATGTCAACT
**
150494 TGAT-AGATAATTATGTTTACT
1 TG-TCAGATAATTATGTCAACT
** *
150515 TGTCAGATCTTTATGTCGACT
1 TGTCAGATAATTATGTCAACT
* *
150536 TGACAGATAATTATGTTAACT
1 TGTCAGATAATTATGTCAACT
** *
150557 TGTCAGATCTTTATGTCGACT
1 TGTCAGATAATTATGTCAACT
* *
150578 TGTCAGATGATTATGTAAACT
1 TGTCAGATAATTATGTCAACT
* *
150599 TTTCAGATATTTAT
1 TGTCAGATAATTAT
150613 TTCGACTTAT
Statistics
Matches: 108, Mismatches: 30, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
20 1 0.01
21 106 0.98
22 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (21 bp):
TGTCAGATAATTATGTCAACT
Found at i:150504 original size:42 final size:42
Alignment explanation
Indices: 150456--150620 Score: 242
Period size: 42 Copynumber: 3.9 Consensus size: 42
150446 TTTTTCTGTC
*
150456 AGATAATAATGTTAACTTGTCAGATCTTTATGTCGACTTGAT
1 AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGAT
* *
150498 AGATAATTATGTTTACTTGTCAGATCTTTATGTCGACTTGAC
1 AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGAT
150540 AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTTG-T
1 AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGAT
* * * * *
150581 CAGATGATTATGTAAACTTTTCAGATATTTATTTCGACTT
1 -AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTT
150621 ATATGAAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 112 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (42 bp):
AGATAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGAT
Found at i:150620 original size:21 final size:21
Alignment explanation
Indices: 150470--150620 Score: 144
Period size: 21 Copynumber: 7.2 Consensus size: 21
150460 AATAATGTTA
*
150470 ACTTGTCAGATCTTTATGTCG
1 ACTTGTCAGATATTTATGTCG
* **
150491 ACTTGAT-AGATAATTATGTTT
1 ACTTG-TCAGATATTTATGTCG
*
150512 ACTTGTCAGATCTTTATGTCG
1 ACTTGTCAGATATTTATGTCG
* * **
150533 ACTTGACAGATAATTATGTTA
1 ACTTGTCAGATATTTATGTCG
*
150554 ACTTGTCAGATCTTTATGTCG
1 ACTTGTCAGATATTTATGTCG
**
150575 ACTTGTCAGATGA-TTATGTAA
1 ACTTGTCAGAT-ATTTATGTCG
* *
150596 ACTTTTCAGATATTTATTTCG
1 ACTTGTCAGATATTTATGTCG
150617 ACTT
1 ACTT
150621 ATATGAAATA
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.02
21 98 0.97
22 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (21 bp):
ACTTGTCAGATATTTATGTCG
Found at i:150738 original size:21 final size:21
Alignment explanation
Indices: 150712--150805 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
150702 ATGGTTATTT
*
150712 TCTGACAAGTCAACATAAAGA
1 TCTGACAAGTCAACATAAATA
**
150733 TCTGACAAGTTGACATAAATA
1 TCTGACAAGTCAACATAAATA
* *
150754 TCTGACAAGTCGACAT-TATCA
1 TCTGACAAGTCAACATAAAT-A
* * * *
150775 TATGATAAGTTAACATAATTA
1 TCTGACAAGTCAACATAAATA
150796 TCTGACAAGT
1 TCTGACAAGT
150806 GGTGGCAGAT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
20 2 0.03
21 55 0.95
22 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (21 bp):
TCTGACAAGTCAACATAAATA
Found at i:152368 original size:2 final size:2
Alignment explanation
Indices: 152361--152411 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
152351 TACGTGTCTG
152361 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
152403 CT CT CT CT C
1 CT CT CT CT C
152412 AGCGGGATGT
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:155388 original size:13 final size:13
Alignment explanation
Indices: 155370--155394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155360 TTCTACGGGC
155370 TTAGTGGCTGCTG
1 TTAGTGGCTGCTG
155383 TTAGTGGCTGCT
1 TTAGTGGCTGCT
155395 AGCTTCAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (13 bp):
TTAGTGGCTGCTG
Found at i:156738 original size:23 final size:23
Alignment explanation
Indices: 156712--156757 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
156702 TGTATGTAAG
156712 CCCCCTACATTAAATGCACAATA
1 CCCCCTACATTAAATGCACAATA
* * *
156735 CCCCGTACATTAGATTCACAATA
1 CCCCCTACATTAAATGCACAATA
156758 GCCCATGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.24
Consensus pattern (23 bp):
CCCCCTACATTAAATGCACAATA
Found at i:162677 original size:5 final size:5
Alignment explanation
Indices: 162658--162753 Score: 126
Period size: 5 Copynumber: 19.4 Consensus size: 5
162648 CTGTAAAGTG
* *
162658 CGAAA CGAAA TCGAAA CGAAA CGAAA CGAAA CGAAA CCAAT CGAAA CGAAA
1 CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA
*
162709 CGAAA CCAAA CGAAA CGAAA C-AAA --AAA TCGAAA CGAAA CGAAA CG
1 CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA CG
162754 GAATTTAAAC
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 67 0.83
6 8 0.10
ACGTcount: A:0.58, C:0.22, G:0.17, T:0.03
Consensus pattern (5 bp):
CGAAA
Found at i:162945 original size:5 final size:5
Alignment explanation
Indices: 162935--163036 Score: 125
Period size: 5 Copynumber: 20.2 Consensus size: 5
162925 TCGATTTTTG
* * * *
162935 GTTTC GTTTC GTTTG GTTTC GTTTG GTTTC GATTG GTTTC GTTTC GTTTC
1 GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC GTTTC
* *
162985 GATTG GTTTC GTTTC GTTTC G-TTC GATTTC GTTTC GTTTC GATTTC GTTTC
1 GTTTC GTTTC GTTTC GTTTC GTTTC G-TTTC GTTTC GTTTC G-TTTC GTTTC
163036 G
1 G
163037 CACTTTACAG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
4 4 0.05
5 69 0.84
6 9 0.11
ACGTcount: A:0.04, C:0.16, G:0.25, T:0.56
Consensus pattern (5 bp):
GTTTC
Found at i:162963 original size:20 final size:20
Alignment explanation
Indices: 162935--163036 Score: 141
Period size: 20 Copynumber: 5.0 Consensus size: 20
162925 TCGATTTTTG
162935 GTTTCGTTTCGTTTGGTTTC
1 GTTTCGTTTCGTTTGGTTTC
* *
162955 GTTTGGTTTCGATTGGTTTC
1 GTTTCGTTTCGTTTGGTTTC
*
162975 GTTTCGTTTCGATTGGTTTC
1 GTTTCGTTTCGTTTGGTTTC
* *
162995 GTTTCGTTTCGTTCGATTTC
1 GTTTCGTTTCGTTTGGTTTC
*
163015 GTTTCGTTTCGATTTCGTTTC
1 GTTTCGTTTCG-TTTGGTTTC
163036 G
1 G
163037 CACTTTACAG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
20 65 0.90
21 7 0.10
ACGTcount: A:0.04, C:0.16, G:0.25, T:0.56
Consensus pattern (20 bp):
GTTTCGTTTCGTTTGGTTTC
Found at i:167680 original size:2 final size:2
Alignment explanation
Indices: 167675--167715 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
167665 TGCTCTTCAG
167675 CT 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 CT C
167716 CACACACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:170954 original size:1 final size:1
Alignment explanation
Indices: 170948--170974 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
170938 ATGGAAAATT
170948 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
170975 GCTCTGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:171040 original size:2 final size:2
Alignment explanation
Indices: 171033--171057 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
171023 TGTTCAACAA
171033 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 C
171058 CTAATGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:174362 original size:161 final size:161
Alignment explanation
Indices: 174091--175041 Score: 1350
Period size: 161 Copynumber: 6.0 Consensus size: 161
174081 AATATAATAT
* * * * ** *
174091 AACTGGAATTTTTCTAAGTTCAAGGGCCATAACTCTGTCTAAAATTGCTCTATCACACCCAAAAT
1 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
* ** * * * * * ** *
174156 CAAACTTGACCTAGATATTATTTTGATAAATCTGTATATCAAATTTCATATCCATATGTGCACCC
66 CGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATCC
** *
174221 TCTGCGAAGAAAATGAGCAAAAACTGCAAAT
131 TCTGCGAAGAAAATGAGCGGAAACTGCAAAA
* * *
174252 ATCTCGAATTTTTCTATGTCCAAGAGG-CATAACTCTGTCGAAAATTGCTCGATCGTACCCAATA
1 AACTAGAATTTTTCTAAGTCCAAG-GGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATA
*
174316 TCGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATTTGTTTATC
65 TCGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATC
* *
174381 CTCTGCAAAGAAAATGAGCGGAAACTGCAAAT
130 CTCTGCGAAGAAAATGAGCGGAAACTGCAAAA
* * * * *
174413 AACTGGAATTTTTTTTACGTCCAAGGGCTATAACTCTGTCGAAAATTGCTCGATTGTACCCAATA
1 AACTAGAA-TTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATA
* * *
174478 TCGAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATT
65 TCGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATC
*
174543 CTCTGCGAAGAAAATGAGCAGAAACTGCAAAA
130 CTCTGCGAAGAAAATGAGCGGAAACTGCAAAA
* *
174575 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTATCCAATAT
1 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
**
174640 TAAACTTGACCTAGATA--ATC---AT--A--TAT-T-CCAAATTTCATTTCAATATGTTTATCC
66 CGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATCC
*
174694 TCTGCGAAGAAAATGAGCGGAAACTGCAGAA
131 TCTGCGAAGAAAATGAGCGGAAACTGCAAAA
* *
174725 AACTAGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAATAT
1 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
* * * *
174790 CGAACTTGACTTAGATATTATCATGATGAACCTGTATACTAAATTTCATTTCAATATGTTTATCC
66 CGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATCC
174855 TCTGCGAAGAAAATGAGCGGAAACTGCAAAA
131 TCTGCGAAGAAAATGAGCGGAAACTGCAAAA
174886 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
1 AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
*
174951 CGAACTTGACCTAGATATTATCATGATAATCCTATATACCAAATTTCATTTCAATATGTTTATCC
66 CGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATCC
* *
175016 CCTGCGAAGAAAATGAACGGAAACTG
131 TCTGCGAAGAAAATGAGCGGAAACTG
175042 TTGGTGGACC
Statistics
Matches: 710, Mismatches: 66, Indels: 28
0.88 0.08 0.03
Matches are distributed among these distances:
150 131 0.18
151 1 0.00
152 5 0.01
154 1 0.00
155 2 0.00
156 2 0.00
157 1 0.00
159 5 0.01
160 1 0.00
161 413 0.58
162 148 0.21
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (161 bp):
AACTAGAATTTTTCTAAGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCAATAT
CGAACTTGACCTAGATATTATCATGATAAACCTATATACCAAATTTCATTTCAATATGTTTATCC
TCTGCGAAGAAAATGAGCGGAAACTGCAAAA
Found at i:174848 original size:311 final size:317
Alignment explanation
Indices: 174089--175041 Score: 1375
Period size: 311 Copynumber: 3.0 Consensus size: 317
174079 AAAATATAAT
* * * * *** *
174089 ATAACTGGAATTTTTCTAAGTTCAAGGGCCATAACTCTGTCTAAAATTGCTCTATCACACCCAAA
1 ATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAAT
* ** * * * *
174154 ATCAAACTTGACCTAGATATTATTTTGATAAATCTGTATA-TCAAATTTCATATCCATATGTGCA
66 ATCGAACTTGACCTAGATATTATCATGATAAACCTGTATACT-AAATTTCATTTCAATATGTTCA
* * * * * *
174218 CCCTCTGCGAAGAAAATGAGCAAAAACTGCAAATATCTCGAATTTTTCTATGTCCAAGAGG-CAT
130 TCCTCTGCGAAGAAAATGAGCAGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAG-GGCCAT
174282 AACTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATATTATCATGATAAA
194 AACTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATA-TATCA--AT-AA
* *
174347 CCTATATACCAAATTTCATTTCAATTTGTTTATCCTCTGCAAAGAAAATGAGCGGAAACTGCAA
255 -CTATATACCAAATTTCATTTCAATATGTTTATCCTCTGCGAAGAAAATGAGCGGAAACTGCAA
* *
174411 ATAACTGGAATTTTTTTTACGTCCAAGGGCTATAACTCTGTCGAAAATTGCTCGATTGTACCCAA
1 ATAACTGGAA-TTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAA
*
174476 TATCGAACTTGACCTAGATATTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCA
65 TATCGAACTTGACCTAGATATTATCATGATAAACCTGTATACTAAATTTCATTTCAATATGTTCA
*
174541 TTCTCTGCGAAGAAAATGAGCAGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAGGGCCATA
130 TCCTCTGCGAAGAAAATGAGCAGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAGGGCCATA
* * **
174606 ACTCTGTCGAAAATTGCTCGATTGTATCCAATATTAAACTTGACCTAGATA-ATC-AT-A-TAT-
195 ACTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATATATCAATAACTATA
174666 T-CCAAATTTCATTTCAATATGTTTATCCTCTGCGAAGAAAATGAGCGGAAACTGCAGA
260 TACCAAATTTCATTTCAATATGTTTATCCTCTGCGAAGAAAATGAGCGGAAACTGCA-A
*
174724 A-AACTAGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAAT
1 ATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAAT
* * *
174788 ATCGAACTTGACTTAGATATTATCATGATGAACCTGTATACTAAATTTCATTTCAATATGTTTAT
66 ATCGAACTTGACCTAGATATTATCATGATAAACCTGTATACTAAATTTCATTTCAATATGTTCAT
*
174853 CCTCTGCGAAGAAAATGAGCGGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAGGGCCATAA
131 CCTCTGCGAAGAAAATGAGCAGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAGGGCCATAA
174918 CTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATATTATCATGATAATCC
196 CTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATA-TATCA--ATAA--C
* *
174983 TATATACCAAATTTCATTTCAATATGTTTATCCCCTGCGAAGAAAATGAACGGAAACTG
256 TATATACCAAATTTCATTTCAATATGTTTATCCTCTGCGAAGAAAATGAGCGGAAACTG
175042 TTGGTGGACC
Statistics
Matches: 570, Mismatches: 46, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
311 223 0.39
312 60 0.11
313 6 0.01
314 3 0.01
316 3 0.01
317 1 0.00
318 2 0.00
320 3 0.01
321 4 0.01
322 63 0.11
323 202 0.35
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (317 bp):
ATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCAAT
ATCGAACTTGACCTAGATATTATCATGATAAACCTGTATACTAAATTTCATTTCAATATGTTCAT
CCTCTGCGAAGAAAATGAGCAGAAACTGCAAAAAACTAGAATTTTTCTAAGTCCAAGGGCCATAA
CTCTGTCGAAAATTGCTCGATCGTACCCAATATCGAACTTGACCTAGATATATCAATAACTATAT
ACCAAATTTCATTTCAATATGTTTATCCTCTGCGAAGAAAATGAGCGGAAACTGCAA
Found at i:175061 original size:8 final size:8
Alignment explanation
Indices: 175056--175085 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
175046 TGGACCGAGC
175056 GACCGACA
1 GACCGACA
175064 GACCGACA
1 GACCGACA
*
175072 GACCGACC
1 GACCGACA
175080 GACCGA
1 GACCGA
175086 AGCAAAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.40, G:0.27, T:0.00
Consensus pattern (8 bp):
GACCGACA
Found at i:179154 original size:11 final size:10
Alignment explanation
Indices: 179137--179165 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
179127 TAAATAATAA
179137 TAAAAAAAAT
1 TAAAAAAAAT
179147 TAAAAAAAAT
1 TAAAAAAAAT
179157 TAAAAAAAA
1 TAAAAAAAA
179166 CCAATTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
TAAAAAAAAT
Found at i:184527 original size:37 final size:37
Alignment explanation
Indices: 184477--185082 Score: 408
Period size: 37 Copynumber: 17.2 Consensus size: 37
184467 TGTAGAAGAC
* *
184477 CCCCTTCCTGTTTTGTATTTGTAAGAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* *
184514 CCCCTTCCTGTTTTAAATTTTTAGGAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* ** * *
184551 CCCGTTTTTGTTTTATATTTTTAGAAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* * *
184588 CCCCTTCCGGTTTTGTATTTGTAGGAACCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* * *
184625 CCTCTTCCTG--------TT-T-GCAGCCCT-CTGGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCT-GAT
* * *
184652 CCCCTTCCTGTTTTATATTTATATGATG-CTTTCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGA-GCCTTCCTGAT
* *
184689 --CC--CCTGTTTTATATTTGTATGAGCCTCCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* * * * *
184722 CCCCTTTCTGTTATATATTTTTAGGAGTCTTCCCGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
184759 CCCCTTCCTGTTTTATATTT-TAAGGAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGT-AGGAGCCTTCCTGAT
* * ** * *
184796 TCCGTTTTTGTTTTATATTTTTA-GAGGCCTTCCTTAT
1 CCCCTTCCTGTTTTATATTTGTAGGA-GCCTTCCTGAT
* * * *
184833 CCCCTTCCGGTTGTGTATTTGTAGGAACCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* * * *
184870 --CC-T-C--TTCT-TGTTT-T-GCAGCCCT-CTGGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCT-GAT
* *
184898 CCCCTTCCTGTTTTATATTTATATGATG-CTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGA-GCCTTCCTGAT
** *
184935 CCCCTTTTTGTTTTATAATTGTAGGAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
* * *
184972 CCTCTTCCTG--------TT-TAGCAGCCCT-CTGGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCT-GAT
* *
185000 CCCCTTCCTGTTTCATATTTATAGGAGCCTTCCTGAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
** *
185037 CCCCTTTTTGTTTTATATTTGTAGGAGCCTTCCTCAT
1 CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
185074 CCCCTTCCT
1 CCCCTTCCT
185083 CTTCTTCCTG
Statistics
Matches: 438, Mismatches: 85, Indels: 92
0.71 0.14 0.15
Matches are distributed among these distances:
26 2 0.00
27 21 0.05
28 29 0.07
29 5 0.01
30 6 0.01
31 4 0.01
32 2 0.00
33 27 0.06
34 4 0.01
35 12 0.03
36 8 0.02
37 307 0.70
38 11 0.03
ACGTcount: A:0.14, C:0.27, G:0.15, T:0.45
Consensus pattern (37 bp):
CCCCTTCCTGTTTTATATTTGTAGGAGCCTTCCTGAT
Found at i:184721 original size:33 final size:33
Alignment explanation
Indices: 184658--184726 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
184648 GGATCCCCTT
**
184658 CCTGTTTTATATTTATATGATGCTTTCTGATCC
1 CCTGTTTTATATTTATATGATGCTCCCTGATCC
*
184691 CCTGTTTTATATTTGTATGA-GCCTCCCTGATCC
1 CCTGTTTTATATTTATATGATG-CTCCCTGATCC
184724 CCT
1 CCT
184727 TTCTGTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.46
Consensus pattern (33 bp):
CCTGTTTTATATTTATATGATGCTCCCTGATCC
Found at i:184984 original size:102 final size:102
Alignment explanation
Indices: 184851--185082 Score: 376
Period size: 102 Copynumber: 2.3 Consensus size: 102
184841 GGTTGTGTAT
* * * *
184851 TTGTAGGAACCTTCCTGATCCTCTTCTTGTTTTGCAGCCCTCTGGATCCCCTTCCTGTTTTATAT
1 TTGTAGGAGCCTTCCTGATCCTCTTCCTGTTTAGCAGCCCTCTGGATCCCCTTCCTGTTTCATAT
*
184916 TTATATGATG-CTTCCTGATCCCCTTTTTGTTTTATAA
66 TTATAGGA-GCCTTCCTGATCCCCTTTTTGTTTTATAA
184953 TTGTAGGAGCCTTCCTGATCCTCTTCCTGTTTAGCAGCCCTCTGGATCCCCTTCCTGTTTCATAT
1 TTGTAGGAGCCTTCCTGATCCTCTTCCTGTTTAGCAGCCCTCTGGATCCCCTTCCTGTTTCATAT
*
185018 TTATAGGAGCCTTCCTGATCCCCTTTTTGTTTTATAT
66 TTATAGGAGCCTTCCTGATCCCCTTTTTGTTTTATAA
* *
185055 TTGTAGGAGCCTTCCTCATCCCCTTCCT
1 TTGTAGGAGCCTTCCTGATCCTCTTCCT
185083 CTTCTTCCTG
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 1 0.01
102 120 0.99
ACGTcount: A:0.14, C:0.28, G:0.15, T:0.43
Consensus pattern (102 bp):
TTGTAGGAGCCTTCCTGATCCTCTTCCTGTTTAGCAGCCCTCTGGATCCCCTTCCTGTTTCATAT
TTATAGGAGCCTTCCTGATCCCCTTTTTGTTTTATAA
Found at i:189780 original size:2 final size:2
Alignment explanation
Indices: 189773--189835 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
189763 ACCCACTTCC
189773 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
189815 GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA G
189836 CCCGGTACCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:221428 original size:15 final size:16
Alignment explanation
Indices: 221391--221431 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
221381 TTAAAATTAC
221391 TTCGTTATAGCCGTAAA
1 TTCGTTATAGCCGT-AA
*
221408 TTCGTTATAGCCGT-G
1 TTCGTTATAGCCGTAA
221423 TTCGTTATA
1 TTCGTTATA
221432 CATGTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (16 bp):
TTCGTTATAGCCGTAA
Found at i:224488 original size:21 final size:21
Alignment explanation
Indices: 224464--224507 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
224454 AATACATTAC
224464 ACAGTTTATGATCATTTTTTA
1 ACAGTTTATGATCATTTTTTA
224485 ACAGTTTATGATCATTTTTTA
1 ACAGTTTATGATCATTTTTTA
224506 AC
1 AC
224508 CGAAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (21 bp):
ACAGTTTATGATCATTTTTTA
Found at i:231328 original size:12 final size:12
Alignment explanation
Indices: 231311--231340 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
231301 TAAAGGGTTA
231311 AAAATTGTTTAT
1 AAAATTGTTTAT
231323 AAAATTGTTTAT
1 AAAATTGTTTAT
231335 AAAATT
1 AAAATT
231341 AAACAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
AAAATTGTTTAT
Found at i:236814 original size:8 final size:8
Alignment explanation
Indices: 236801--236859 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
236791 TTTCCTCTGC
*
236801 GTCCGTCA
1 GTCCGTCT
236809 GTCCGTCT
1 GTCCGTCT
*
236817 GTCTGTCT
1 GTCCGTCT
* *
236825 GTCTGTCC
1 GTCCGTCT
236833 GTCCGTCT
1 GTCCGTCT
* *
236841 GTCTGTCC
1 GTCCGTCT
236849 GTCCGTCT
1 GTCCGTCT
236857 GTC
1 GTC
236860 TGTCCCACAG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.02, C:0.36, G:0.25, T:0.37
Consensus pattern (8 bp):
GTCCGTCT
Found at i:236820 original size:4 final size:4
Alignment explanation
Indices: 236813--236863 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
236803 CCGTCAGTCC
* * * *
236813 GTCT GTCT GTCT GTCT GTCC GTCC GTCT GTCT GTCC GTCC GTCT GTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT
236861 GTC
1 GTC
236864 CCACAGTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.25, T:0.41
Consensus pattern (4 bp):
GTCT
Found at i:236842 original size:16 final size:16
Alignment explanation
Indices: 236800--236864 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
236790 CTTTCCTCTG
* *
236800 CGTCCGTCAGTCCGTC
1 CGTCCGTCTGTCTGTC
* *
236816 TGTCTGTCTGTCTGTC
1 CGTCCGTCTGTCTGTC
236832 CGTCCGTCTGTCTGTC
1 CGTCCGTCTGTCTGTC
236848 CGTCCGTCTGTCTGTC
1 CGTCCGTCTGTCTGTC
236864 C
1 C
236865 CACAGTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.02, C:0.37, G:0.25, T:0.37
Consensus pattern (16 bp):
CGTCCGTCTGTCTGTC
Found at i:236864 original size:12 final size:12
Alignment explanation
Indices: 236809--236859 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
236799 GCGTCCGTCA
236809 GTCCGTCTGTCT
1 GTCCGTCTGTCT
* *
236821 GTCTGTCTGTCC
1 GTCCGTCTGTCT
236833 GTCCGTCTGTCT
1 GTCCGTCTGTCT
*
236845 GTCCGTCCGTCT
1 GTCCGTCTGTCT
236857 GTC
1 GTC
236860 TGTCCCACAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.25, T:0.39
Consensus pattern (12 bp):
GTCCGTCTGTCT
Found at i:239318 original size:12 final size:12
Alignment explanation
Indices: 239301--239339 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
239291 ATTTGCAAGA
239301 CATTTGATATAT
1 CATTTGATATAT
239313 CATTTGATATAT
1 CATTTGATATAT
239325 CATTTGATATAT
1 CATTTGATATAT
239337 CAT
1 CAT
239340 ATACCATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (12 bp):
CATTTGATATAT
Found at i:239329 original size:24 final size:24
Alignment explanation
Indices: 239301--239356 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
239291 ATTTGCAAGA
* *
239301 CATTTGATATATCATTTGA-TATAT
1 CATTTGATATATCATAT-ACCATAT
239325 CATTTGATATATCATATACCATAT
1 CATTTGATATATCATATACCATAT
239349 CATTTGAT
1 CATTTGAT
239357 TTGATATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (24 bp):
CATTTGATATATCATATACCATAT
Found at i:244084 original size:2 final size:2
Alignment explanation
Indices: 244077--244114 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
244067 TTTTCATTAT
244077 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
244115 GTTAGTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:249953 original size:15 final size:15
Alignment explanation
Indices: 249933--249963 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
249923 TTTTGTAATC
249933 TTGCATAAATGTTCA
1 TTGCATAAATGTTCA
*
249948 TTGCATACATGTTCA
1 TTGCATAAATGTTCA
249963 T
1 T
249964 CTTTTAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (15 bp):
TTGCATAAATGTTCA
Found at i:251918 original size:186 final size:181
Alignment explanation
Indices: 251598--251999 Score: 608
Period size: 186 Copynumber: 2.2 Consensus size: 181
251588 GGCTGCCAAA
*
251598 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
* * * * * *
251663 GATAAATTTTCCGTACATTAGAGGTGTGCATATTGCTAGTATTTAGATTTCTGATTATTTAT-GA
66 GATAAATTGTACATACATCAGAGGTGTGCATATTGCTAGGATTTAGATTTCTGATTATTTATAAA
* *
251727 AAAAAATACCAGCTTTTGAACATAGTCATTTTTTGGCAAAAACCTGCATATATATAT
131 AAAAAATACCAGCTTTTGAACATAATCATTTTTTGGC-AAAA--T--AT-TACATAT
*
251784 AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
* *
251849 GATAAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTAGATTTCTGATTTTTTATAAA
66 GATAAATTGTACATACATCAGAGGTGTGCATATTGCTAGGATTTAGATTTCTGATTATTTATAAA
* *
251914 AAAAAATACCAGCTTTTGAACTTAATCATTTTTTGGCAAAATATTGCATAT
131 AAAAAATACCAGCTTTTGAACATAATCATTTTTTGGCAAAATATTACATAT
*
251965 AGGCTACCCTCATTGTACGGATAACTCCTCCTACA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACA
252000 NNNNNNNNNN
Statistics
Matches: 199, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
181 38 0.19
182 2 0.01
184 1 0.01
186 122 0.61
187 36 0.18
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (181 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAATTGTTCTTTTGCA
GATAAATTGTACATACATCAGAGGTGTGCATATTGCTAGGATTTAGATTTCTGATTATTTATAAA
AAAAAATACCAGCTTTTGAACATAATCATTTTTTGGCAAAATATTACATAT
Found at i:253282 original size:21 final size:21
Alignment explanation
Indices: 253252--253301 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
253242 TTTTCCTGAT
* *
253252 ACACGCACGATC-CCGCATGTC
1 ACACGAACGATCACC-CACGTC
*
253273 ACACGAACGATCACCCACGTT
1 ACACGAACGATCACCCACGTC
253294 ACACGAAC
1 ACACGAAC
253302 TAATTAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.32, C:0.40, G:0.16, T:0.12
Consensus pattern (21 bp):
ACACGAACGATCACCCACGTC
Found at i:258804 original size:11 final size:11
Alignment explanation
Indices: 258788--258812 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
258778 CTCAATGGCC
258788 GAATCCATAGT
1 GAATCCATAGT
258799 GAATCCATAGT
1 GAATCCATAGT
258810 GAA
1 GAA
258813 ATTAACTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (11 bp):
GAATCCATAGT
Found at i:261514 original size:12 final size:12
Alignment explanation
Indices: 261499--261523 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
261489 AAGCACATGC
261499 AAAAAAAAAACA
1 AAAAAAAAAACA
261511 AAAAAAAAAACA
1 AAAAAAAAAACA
261523 A
1 A
261524 CGAGCAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:264231 original size:16 final size:15
Alignment explanation
Indices: 264199--264238 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
264189 TTAATATATG
264199 TGATTATTATTTGTTT
1 TGATT-TTATTTGTTT
264215 TGATTTTATTTGATTT
1 TGATTTTATTTG-TTT
264231 TAGATTTT
1 T-GATTTT
264239 TCTTTTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (15 bp):
TGATTTTATTTGTTT
Found at i:265557 original size:2 final size:2
Alignment explanation
Indices: 265550--265580 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
265540 CGGTTCGTAG
265550 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 C
265581 AACTATGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:265868 original size:16 final size:16
Alignment explanation
Indices: 265847--265895 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
265837 TATACCATAG
265847 CATAGCATTAAAATCT
1 CATAGCATTAAAATCT
** *
265863 CATAGCA-TAGCA--G
1 CATAGCATTAAAATCT
265876 CATAGCATTAAAATCT
1 CATAGCATTAAAATCT
265892 CATA
1 CATA
265896 CATGTAGCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 3 0.12
16 11 0.46
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (16 bp):
CATAGCATTAAAATCT
Found at i:266152 original size:10 final size:10
Alignment explanation
Indices: 266137--266170 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
266127 GTTCAAATCT
266137 CATAGCATAC
1 CATAGCATAC
*
266147 CATAGCATAG
1 CATAGCATAC
*
266157 CATACCATAC
1 CATAGCATAC
266167 CATA
1 CATA
266171 CCATTAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (10 bp):
CATAGCATAC
Found at i:266157 original size:15 final size:15
Alignment explanation
Indices: 266137--266170 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
266127 GTTCAAATCT
*
266137 CATAGCATACCATAG
1 CATAGCATACCATAC
266152 CATAGCATACCATAC
1 CATAGCATACCATAC
266167 CATA
1 CATA
266171 CCATTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (15 bp):
CATAGCATACCATAC
Found at i:269531 original size:4 final size:4
Alignment explanation
Indices: 269522--269600 Score: 158
Period size: 4 Copynumber: 19.8 Consensus size: 4
269512 AATATCTAAA
269522 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
269570 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
269601 ATATTCGTCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 75 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:272314 original size:14 final size:14
Alignment explanation
Indices: 272282--272313 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
272272 AAAATGTGTG
272282 TTTTTGCTTTTTGT
1 TTTTTGCTTTTTGT
272296 TTTTTGCTTTTT-T
1 TTTTTGCTTTTTGT
272309 TTTTT
1 TTTTT
272314 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (14 bp):
TTTTTGCTTTTTGT
Found at i:277092 original size:22 final size:19
Alignment explanation
Indices: 277046--277082 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
277036 GTAACTATGA
*
277046 ACATATATTAATATATATT
1 ACATATATTAATATATAAT
277065 ACATATATT-ATATATAAT
1 ACATATATTAATATATAAT
277083 TAATACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ACATATATTAATATATAAT
Found at i:280835 original size:41 final size:41
Alignment explanation
Indices: 280790--280869 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
280780 CCCCCTCCTT
** *
280790 TTGAAACATCTGTGAAGAAAATGAATGGAAACTGCAAATTA
1 TTGAAACATCTGCAAAGAAAATGAAAGGAAACTGCAAATTA
*
280831 TTGAAACATCTGCAAAGCAAATGAAAGGAAACTGCAAAT
1 TTGAAACATCTGCAAAGAAAATGAAAGGAAACTGCAAAT
280870 ATCGGAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (41 bp):
TTGAAACATCTGCAAAGAAAATGAAAGGAAACTGCAAATTA
Found at i:284028 original size:166 final size:166
Alignment explanation
Indices: 283700--284043 Score: 519
Period size: 166 Copynumber: 2.1 Consensus size: 166
283690 AAAACTTTCC
*
283700 AAGAATATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCC
* * * * *
283765 GACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACTCTATCTGAGGATGCTTCCAA
66 CACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCCTCCAA
* * * *
283830 TCAATTTTGAGCTTTCCTGGCCTAAAAGTTTTTGAG
131 TCAAGTTTAAGCTTTCCAGGCCGAAAAGTTTTTGAG
** *
283866 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCTCTTGTTGCCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCC
* *
283931 CTCCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGATGATGCCTCCAC
66 CACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCCTCCA-
* *
283996 A-CAAGTTTAAGCTTTTCAGGCCGAATAGTTTTTGAG
130 ATCAAGTTTAAGCTTTCCAGGCCGAAAAGTTTTTGAG
284032 AAGAAGATTTTT
1 AAGAAGATTTTT
284044 GAAAAATACC
Statistics
Matches: 160, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
166 159 0.99
167 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (166 bp):
AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCC
CACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCCTCCAA
TCAAGTTTAAGCTTTCCAGGCCGAAAAGTTTTTGAG
Found at i:284228 original size:6 final size:6
Alignment explanation
Indices: 284217--284257 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
284207 AAGTTAACAC
*
284217 CGACAA CGACAA CGACGA CGACAA CGAC-A -GACAA CGGACAA
1 CGACAA CGACAA CGACAA CGACAA CGACAA CGACAA C-GACAA
284258 ATTGTGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.10
5 2 0.07
6 20 0.67
7 5 0.17
ACGTcount: A:0.46, C:0.32, G:0.22, T:0.00
Consensus pattern (6 bp):
CGACAA
Found at i:288560 original size:2 final size:2
Alignment explanation
Indices: 288547--288598 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
288537 CTGTACGTCA
*
288547 TC TC TC TT 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
288589 TC TC TC TC TC
1 TC TC TC TC TC
288599 ATCCACACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:289537 original size:19 final size:19
Alignment explanation
Indices: 289513--289551 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
289503 AGTACAATCC
289513 ATTTTTAAACGTTTCTTTA
1 ATTTTTAAACGTTTCTTTA
289532 ATTTTTAAACGTTTCTTTA
1 ATTTTTAAACGTTTCTTTA
289551 A
1 A
289552 CTTTAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTTTAAACGTTTCTTTA
Found at i:289696 original size:60 final size:60
Alignment explanation
Indices: 289624--289743 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
289614 TCATACGGTT
*
289624 AAATGGTTATGAAAAGATGAGTCGAAAATATTGTTTTCTTTTAAATTTCTTTCAAACAAA
1 AAATGGTTATGAAAAGATGAGTCGAAAATATTGTTTTCTTATAAATTTCTTTCAAACAAA
289684 AAATGGTTATGAAAAGATGAGTCGAAAATATTGTTTTCTTATAAATTTCTTTCAAACAAA
1 AAATGGTTATGAAAAGATGAGTCGAAAATATTGTTTTCTTATAAATTTCTTTCAAACAAA
289744 TATAATTGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (60 bp):
AAATGGTTATGAAAAGATGAGTCGAAAATATTGTTTTCTTATAAATTTCTTTCAAACAAA
Found at i:292150 original size:2 final size:2
Alignment explanation
Indices: 292143--292196 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
292133 ATATTATACG
292143 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
292185 CT CT CT CT CT CT
1 CT CT CT CT CT CT
292197 TAACTAAGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:294213 original size:32 final size:33
Alignment explanation
Indices: 294173--294235 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
294163 AAAAAAAATA
*
294173 AAAAATTATCTATCTATATTTC-ATCTATCTTT
1 AAAAATTATCTATCTATATATCTATCTATCTTT
*
294205 AAAAATTATCTATCTATCTATCTATCTATCT
1 AAAAATTATCTATCTATATATCTATCTATCT
294236 GTCTATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (33 bp):
AAAAATTATCTATCTATATATCTATCTATCTTT
Found at i:294218 original size:4 final size:4
Alignment explanation
Indices: 294211--294263 Score: 97
Period size: 4 Copynumber: 13.2 Consensus size: 4
294201 CTTTAAAAAT
*
294211 TATC TATC TATC TATC TATC TATC TGTC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
294259 TATC T
1 TATC T
294264 GTATATCTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:294270 original size:16 final size:16
Alignment explanation
Indices: 294211--294285 Score: 87
Period size: 16 Copynumber: 4.7 Consensus size: 16
294201 CTTTAAAAAT
*
294211 TATCTATCTATCTATC
1 TATCTATATATCTATC
* *
294227 TATCTATCTGTCTATC
1 TATCTATATATCTATC
*
294243 TATCTATCTATCTATC
1 TATCTATATATCTATC
* * *
294259 TATCTGTATATCTGTA
1 TATCTATATATCTATC
294275 TATCTATATAT
1 TATCTATATAT
294286 ATCTGTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (16 bp):
TATCTATATATCTATC
Found at i:298015 original size:32 final size:32
Alignment explanation
Indices: 297976--298039 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
297966 TTCCGTAGTG
297976 AGTCAGTAACTAACCTAATAAGTGTTTTAATC
1 AGTCAGTAACTAACCTAATAAGTGTTTTAATC
298008 AGTCAGTAACTAACCTAATAAGTGTTTTAATC
1 AGTCAGTAACTAACCTAATAAGTGTTTTAATC
298040 TTAATAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
AGTCAGTAACTAACCTAATAAGTGTTTTAATC
Found at i:306730 original size:180 final size:180
Alignment explanation
Indices: 306427--306972 Score: 936
Period size: 180 Copynumber: 3.0 Consensus size: 180
306417 GGCTGCCAAA
306427 AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
1 AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
*
306492 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTATGAA
* * * *
306557 AAAAATACCAGCTTTTGAACTAAGTCATTTTTTGGCAAAATATTGCATAT
131 AAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
*
306607 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
1 AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
306672 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTATGAA
306737 AAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
131 AAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
* * *
306787 AGGGTACCCTCATTGTATGTATAA---CTCCTACAGATTTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
*
306849 GATCAATTGTACATACGGTATATCAGAGGTATGCATATTGCTAGGATTTTGATTTCTGATAATTT
66 GATCAATTGTAC--A---TATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTT
306914 ATGAAAAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
126 ATGAAAAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
306969 AGGG
1 AGGG
306973 GTACACCATT
Statistics
Matches: 350, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
177 48 0.14
179 1 0.00
180 196 0.56
182 105 0.30
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (180 bp):
AGGGTACCCTCATTGTATGGATAACTCCTCCTACAGATTTCAAGATAGGAAGTTATTGTTTTGCA
GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCTGATAATTTATGAA
AAAAATACCACCTTTTGAACTTATTCACTTTTTGGCAAAATATTGCATAT
Found at i:313478 original size:13 final size:13
Alignment explanation
Indices: 313460--313484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
313450 AATGTGTTAC
313460 AAAATATACTAGA
1 AAAATATACTAGA
313473 AAAATATACTAG
1 AAAATATACTAG
313485 CAAAGGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAATATACTAGA
Found at i:317445 original size:2 final size:2
Alignment explanation
Indices: 317440--317486 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
317430 TACACACACA
317440 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
317482 CT CT C
1 CT CT C
317487 ATACTGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:319216 original size:14 final size:14
Alignment explanation
Indices: 319197--319224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
319187 ACTCTAAGAA
319197 AAAGTTATACTTAG
1 AAAGTTATACTTAG
319211 AAAGTTATACTTAG
1 AAAGTTATACTTAG
319225 GATATGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
AAAGTTATACTTAG
Found at i:330195 original size:30 final size:30
Alignment explanation
Indices: 330159--330215 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
330149 AGTATTTGCA
*
330159 TTGTCAATGTTGAACATATCTGAACTCATG
1 TTGTCAATGATGAACATATCTGAACTCATG
* *
330189 TTGTCAATGATGCACATATTTGAACTC
1 TTGTCAATGATGAACATATCTGAACTC
330216 GACGTAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (30 bp):
TTGTCAATGATGAACATATCTGAACTCATG
Found at i:333229 original size:4 final size:4
Alignment explanation
Indices: 333216--333273 Score: 73
Period size: 4 Copynumber: 14.8 Consensus size: 4
333206 AAAGTTTACA
* * * *
333216 GACG GACA GACA GACG GACG GACA GACG GACG GACG GACG GACA GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
333264 GAC- GACG GAC
1 GACG GACG GAC
333274 AAAAAGTGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.33, C:0.26, G:0.41, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:333237 original size:16 final size:16
Alignment explanation
Indices: 333216--333267 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
333206 AAAGTTTACA
333216 GACGGACAGACAGACG
1 GACGGACAGACAGACG
*
333232 GACGGACAGACGGACG
1 GACGGACAGACAGACG
*
333248 GACGGACGGACAGACG
1 GACGGACAGACAGACG
333264 GACG
1 GACG
333268 ACGGACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.42, T:0.00
Consensus pattern (16 bp):
GACGGACAGACAGACG
Found at i:333596 original size:11 final size:11
Alignment explanation
Indices: 333580--333608 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
333570 TAAAGACTAT
333580 CTTTAAGCCAC
1 CTTTAAGCCAC
333591 CTTTAAGCCAC
1 CTTTAAGCCAC
333602 CTTTAAG
1 CTTTAAG
333609 GACAACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:333656 original size:11 final size:11
Alignment explanation
Indices: 333640--333693 Score: 90
Period size: 11 Copynumber: 4.9 Consensus size: 11
333630 GTCCAAACTT
333640 CTTTAAGCCAC
1 CTTTAAGCCAC
333651 CTTTAAGCCAC
1 CTTTAAGCCAC
* *
333662 TTTTAAGCTAC
1 CTTTAAGCCAC
333673 CTTTAAGCCAC
1 CTTTAAGCCAC
333684 CTTTAAGCCA
1 CTTTAAGCCA
333694 TTAAACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:334948 original size:10 final size:11
Alignment explanation
Indices: 334933--334972 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
334923 GGTTGTATAG
*
334933 CCTTTAAG-CT
1 CCTTTAAGCCA
*
334943 CCTTTAAGTCA
1 CCTTTAAGCCA
334954 CCTTTAAGCCA
1 CCTTTAAGCCA
334965 CCTTTAAG
1 CCTTTAAG
334973 GACAACTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (11 bp):
CCTTTAAGCCA
Found at i:335436 original size:22 final size:22
Alignment explanation
Indices: 335408--335468 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
335398 AATATTGACT
*
335408 TAAAGGCCACTTAAAGACAGTG
1 TAAAGGCCACTTAAAGACAGCG
* *
335430 TAAAGG-CAGTGTAAAGAGAGCG
1 TAAAGGCCACT-TAAAGACAGCG
*
335452 TAAATGCCACTTAAAGA
1 TAAAGGCCACTTAAAGA
335469 TGCTTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.09
22 26 0.81
23 3 0.09
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (22 bp):
TAAAGGCCACTTAAAGACAGCG
Found at i:335484 original size:11 final size:11
Alignment explanation
Indices: 335461--335499 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
335451 GTAAATGCCA
*
335461 CTTAAAGAT-G
1 CTTAAAGGTGG
335471 CTTAAAGGTGG
1 CTTAAAGGTGG
*
335482 CTTAAATGTGG
1 CTTAAAGGTGG
335493 CTTAAAG
1 CTTAAAG
335500 AAGTTTGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:335595 original size:11 final size:10
Alignment explanation
Indices: 335569--335608 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
335559 GGTTGTATAG
*
335569 CCTTTAAGCT
1 CCTTTAAGCA
335579 CCTTTAAGTCA
1 CCTTTAAG-CA
335590 CCTTTAAGCAA
1 CCTTTAAGC-A
335601 CCTTTAAG
1 CCTTTAAG
335609 GACTTGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (10 bp):
CCTTTAAGCA
Found at i:337667 original size:21 final size:21
Alignment explanation
Indices: 337392--337680 Score: 227
Period size: 21 Copynumber: 13.8 Consensus size: 21
337382 AAAAAAAAAA
* *
337392 TTCGCGAATATACGCGAAACT
1 TTCGCGAATAAACGCGTAACT
* *
337413 TTTGCG-ATATAACGCGTAAGT
1 TTCGCGAATA-AACGCGTAACT
* *
337434 TTCGCAAATAAACGCGAAACT
1 TTCGCGAATAAACGCGTAACT
337455 TTCGCG-ATATAACGCGT-ACAT
1 TTCGCGAATA-AACGCGTAAC-T
*
337476 TTTGCGAATAAACGCG-AACAT
1 TTCGCGAATAAACGCGTAAC-T
** *
337497 TTCTTG-ATATAACGCGTAAGT
1 TTCGCGAATA-AACGCGTAACT
* * * * *
337518 TTTGCTAGTAAAGGCGTAAGT
1 TTCGCGAATAAACGCGTAACT
*
337539 TTCGCGAATAAACGCGTAATT
1 TTCGCGAATAAACGCGTAACT
337560 TTCGCG-ATATAACGCGTTAA-T
1 TTCGCGAATA-AACGCG-TAACT
*
337581 TTTGCGAATAAACGCG-AATCT
1 TTCGCGAATAAACGCGTAA-CT
* *
337602 TTTGCG-ATATAAGGCGTAACT
1 TTCGCGAATA-AACGCGTAACT
* *
337623 TTTGGGAATAAACGCGTAACT
1 TTCGCGAATAAACGCGTAACT
337644 TTCGCGAATAAACGCGTAACT
1 TTCGCGAATAAACGCGTAACT
* *
337665 TTCGCAAATTAACGCG
1 TTCGCGAATAAACGCG
337681 AAATCATTAT
Statistics
Matches: 217, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.01
20 17 0.08
21 177 0.82
22 21 0.10
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (21 bp):
TTCGCGAATAAACGCGTAACT
Found at i:337680 original size:105 final size:105
Alignment explanation
Indices: 337399--337669 Score: 363
Period size: 105 Copynumber: 2.6 Consensus size: 105
337389 AAATTCGCGA
* * *
337399 ATAT-ACGCGAAACTTTTGCG-ATATAACGCGTAAGTTTCGCAAATAAACGCGAAACTTTCGCGA
1 ATATAACGCGTAACTTTTGCGAATA-AACGCGTAAGTTTCGCGAATAAACGCGTAACTTTCGCGA
*
337462 TATAACGCGTACATTTTGCGAATAAACGCGAACATTTCTTG
65 TATAACGCGTACATTTTGCGAATAAACGCGAACATTTCTCG
* * * * *
337503 ATATAACGCGTAAGTTTTGCTAGTAAAGGCGTAAGTTTCGCGAATAAACGCGTAATTTTCGCGAT
1 ATATAACGCGTAACTTTTGCGAATAAACGCGTAAGTTTCGCGAATAAACGCGTAACTTTCGCGAT
337568 ATAACGCGTTA-ATTTTGCGAATAAACGCGAATC-TTT-TGCG
66 ATAACGCG-TACATTTTGCGAATAAACGCGAA-CATTTCT-CG
* * *
337608 ATATAAGGCGTAACTTTTGGGAATAAACGCGTAACTTTCGCGAATAAACGCGTAACTTTCGC
1 ATATAACGCGTAACTTTTGCGAATAAACGCGTAAGTTTCGCGAATAAACGCGTAACTTTCGC
337670 AAATTAACGC
Statistics
Matches: 145, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
104 5 0.03
105 135 0.93
106 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (105 bp):
ATATAACGCGTAACTTTTGCGAATAAACGCGTAAGTTTCGCGAATAAACGCGTAACTTTCGCGAT
ATAACGCGTACATTTTGCGAATAAACGCGAACATTTCTCG
Found at i:338582 original size:42 final size:42
Alignment explanation
Indices: 338535--338625 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
338525 TTTGCGTTTA
338535 ATCGCGAAAGTTTCGTATTTAATCGCGAAAATAACGCGTGAT
1 ATCGCGAAAGTTTCGTATTTAATCGCGAAAATAACGCGTGAT
* * * *
338577 ATCGCGAAAGTTTCGTGTTTATTCGCGAAAGTAACGCGTTAT
1 ATCGCGAAAGTTTCGTATTTAATCGCGAAAATAACGCGTGAT
338619 ATCGCGA
1 ATCGCGA
338626 TTGTTACGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
ATCGCGAAAGTTTCGTATTTAATCGCGAAAATAACGCGTGAT
Found at i:338623 original size:63 final size:62
Alignment explanation
Indices: 338556--338691 Score: 148
Period size: 63 Copynumber: 2.2 Consensus size: 62
338546 TTCGTATTTA
* * * *
338556 ATCGCGAAAATAACGCGTG-ATATCGCGAAAGTTTCGTGTTTATTCGCGAAAGTAACGCGTTAT
1 ATCGCGAAAATAACGCATGTAT-TCGCGAAAGTTTCGCGTTTATTCGCAAAACTAACGCGTT-T
*** * * *
338619 ATCGCGATTGTTACGCATGTATTCGCTAAAGTTTCGCGTTTATTTGCAAAACTAACGCGTTT
1 ATCGCGAAAATAACGCATGTATTCGCGAAAGTTTCGCGTTTATTCGCAAAACTAACGCGTTT
338681 ATTCGCGAAAA
1 A-TCGCGAAAA
338692 AAATATTTTG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
62 2 0.03
63 54 0.93
64 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (62 bp):
ATCGCGAAAATAACGCATGTATTCGCGAAAGTTTCGCGTTTATTCGCAAAACTAACGCGTTT
Found at i:338662 original size:21 final size:21
Alignment explanation
Indices: 338528--338690 Score: 105
Period size: 21 Copynumber: 7.8 Consensus size: 21
338518 TTTAAGTTTT
* *
338528 GCGTTTAATCGCGAAAGTTTC
1 GCGTTTATTCGCGAAAGTTAC
** * * *
338549 GTATTTAATCGCGAAAATAAC
1 GCGTTTATTCGCGAAAGTTAC
* *
338570 GCG-TGATATCGCGAAAGTTTC
1 GCGTTTAT-TCGCGAAAGTTAC
* *
338591 GTGTTTATTCGCGAAAGTAAC
1 GCGTTTATTCGCGAAAGTTAC
**
338612 GCG-TTATATCGCGATTGTTAC
1 GCGTTTAT-TCGCGAAAGTTAC
* * * *
338633 GCATGTATTCGCTAAAGTTTC
1 GCGTTTATTCGCGAAAGTTAC
* * * *
338654 GCGTTTATTTGCAAAACTAAC
1 GCGTTTATTCGCGAAAGTTAC
338675 GCGTTTATTCGCGAAA
1 GCGTTTATTCGCGAAA
338691 AAAATATTTT
Statistics
Matches: 103, Mismatches: 35, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
20 6 0.06
21 91 0.88
22 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (21 bp):
GCGTTTATTCGCGAAAGTTAC
Found at i:344160 original size:2 final size:2
Alignment explanation
Indices: 344153--344183 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
344143 CTAAAAGCAT
344153 GA GA GA GA GA G- GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
344184 TTTAGTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:348957 original size:36 final size:36
Alignment explanation
Indices: 348917--348990 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
348907 GATTTCTTTA
348917 TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTG
1 TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTG
* *
348953 TTAGGTCTTTGCACCTTTCAGTTGAAAGACCTTTTG
1 TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTG
348989 TT
1 TT
348991 TCCTTTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (36 bp):
TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTG
Found at i:349016 original size:54 final size:54
Alignment explanation
Indices: 348948--349062 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
348938 GTGAAAGACC
* * *
348948 TTTTGTTAGGTCTTTGCACCTTTCAGTTGAAAGACCTTTTGTTTCCTTTATGTT
1 TTTTATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTTTCCTTTATGTT
*
349002 TTTTATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTTTTCTTTATGTT
1 TTTTATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTTTCCTTTATGTT
349056 TTTTATT
1 TTTTATT
349063 CTTATTAGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.54
Consensus pattern (54 bp):
TTTTATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTTTCCTTTATGTT
Found at i:351540 original size:426 final size:430
Alignment explanation
Indices: 350634--351575 Score: 1120
Period size: 426 Copynumber: 2.2 Consensus size: 430
350624 CTTGTTTACG
* **
350634 AAAA-GCTTGTTATCGCTACTTCTCTGAAACCATAAGAGA-ATGAGACCGGAAACTTTTACCAAT
1 AAAATGCTTGTTATCGCTACTCCTCT-AAACCATAAGAGATA-GAGACTTGAAACTTTTACCAAT
* * *
350697 GTCTTCAGTTCACTTAGAGGGTTCTTCAATCTACTAATACCGAAAAGATCCGAGACCCCGTTCTA
64 GTCTTCAGTACACTTAGACGGTTCTTCAATCTACTAATACCGAAAAGATCCGAGACCCCGATCTA
** * *
350762 TCAGTTGTTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTTCAACTGTTTTATTATTAAT
129 GAAGTTATTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTTCAACTGTTTTATAATTAAT
* * * *
350827 CATAGAGACCTTGGACCTCTTTGAATGGAAGCATCTACCTTGGCCAAACAAAATGACATAAAGGT
194 CATAGAGACCTTGGACCACTTGGAATGGAAGCATCTACCGTGGCCAAAC-AAA-GACATAAAGCT
* *
350892 CAAAGGTCAAGGTCATTTGGAAATCTGTTAATTAATGAGTTTTTAGATCTCTTTTATTAAGGGTG
257 CAAAGGTCAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATTAAGGGTG
* * ** * * * *
350957 GTAGAGTAAAACTTTTTCATGGATGTATTAGGACATCTTAAGACATTTTAAAATATAGCCCCTCG
322 GCAGAGAAAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAACCCATCG
* * * * * *
351022 GCTCATACCTTTGAATAAATACAAAAATATTGCCCCTTTTGTAC
387 ACCCATACCTATGAACAAATACAAAAATATTACCCCTATTGTAC
* * * *
351066 GAAATGTTTGTTATCGCTACTCCTCTGACACCATAAGAGATCGAGACTTGAAACTTTTACCAATG
1 AAAATGCTTGTTATCGCTACTCCTCT-AAACCATAAGAGATAGAGACTTGAAACTTTTACCAATG
* * * * **
351131 TCTTCAGTACACATAGACGGTTCTTCAATCTATTCATACC-AAAAGGATCTGAGGTTCCC-ATCT
65 TCTTCAGTACACTTAGACGGTTCTTCAATCTACTAATACCGAAAA-GATCCGA-GACCCCGATCT
*
351194 AGAAGTTATTGCCCCTGAAAGTATTT-ACATTTCCATAAAATCAC-TTCAAACTTTTTTATAACT
128 AGAAGTTATTGCCCCTGAAAGTATTTGA-ATTTCCATAAAATCACTTTC-AACTGTTTTATAA-T
* *
351257 T-ATCATAGAGA-CTTCGGACCACTTGGGATGGAAGCATCTACCGTGGCCGAAC-AA-A-AT-AA
190 TAATCATAGAGACCTT-GGACCACTTGGAATGGAAGCATCTACCGTGGCCAAACAAAGACATAAA
* *
351316 -CTCAAAGGTCAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTGTTTAGG
254 GCTCAAAGGTCAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATTAAGG
* * *
351380 GTGGCAGAGAAAAACTTTTTCATGTATTTAAAAGGACATCATAAGACATTTCAAAATGTAACCCA
319 GTGGCAGAGAAAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAACCCA
* * * * * **
351445 TTGACCCTTTCCATAT-AACAATTATAAAGTTATTACCCCTATTGTAC
384 TCGACCCATACC-TATGAACAAATACAAAAATATTACCCCTATTGTAC
* * * * *
351492 AAAATGCTTGTTATCGCTACTCCTCATTAACCGTTAGAGATAGAGACTTGAAACGTTTACTAATG
1 AAAATGCTTGTTATCGCTACTCCTC-TAAACCATAAGAGATAGAGACTTGAAACTTTTACCAATG
*
351557 TATTCAGTACACTTAGACG
65 TCTTCAGTACACTTAGACG
351576 CTCCTATCAT
Statistics
Matches: 434, Mismatches: 66, Indels: 26
0.83 0.13 0.05
Matches are distributed among these distances:
426 215 0.50
427 5 0.01
428 2 0.00
429 1 0.00
431 2 0.00
432 14 0.03
433 189 0.44
434 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (430 bp):
AAAATGCTTGTTATCGCTACTCCTCTAAACCATAAGAGATAGAGACTTGAAACTTTTACCAATGT
CTTCAGTACACTTAGACGGTTCTTCAATCTACTAATACCGAAAAGATCCGAGACCCCGATCTAGA
AGTTATTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTTCAACTGTTTTATAATTAATCA
TAGAGACCTTGGACCACTTGGAATGGAAGCATCTACCGTGGCCAAACAAAGACATAAAGCTCAAA
GGTCAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATTAAGGGTGGCAG
AGAAAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAACCCATCGACCC
ATACCTATGAACAAATACAAAAATATTACCCCTATTGTAC
Found at i:351691 original size:426 final size:427
Alignment explanation
Indices: 350634--351759 Score: 966
Period size: 426 Copynumber: 2.6 Consensus size: 427
350624 CTTGTTTACG
* * ** *
350634 AAAA-GCTTGTTATCGCTACTTCTCTGAAACCATAAGAGA-ATGAGACCGGAAACTTTTACCAAT
1 AAAATGCTTGTTATCGCTACTCCTCTGACACCATAAGAGATA-GAGACTTGAAACGTTTACCAAT
* * * * * * * * * * ** *
350697 GTCTTCAGTTCACTTAGAGGGTTCTTCAATCTACTAATACCGAAAA-GATCC-GAGACCCCGTTC
65 GTATTCAGTACACATAGACGCTCCTTCAATCTATTCATAAC-AAAAGGATCCAAAGTTCCC-ATC
** * * * ** *
350760 TATCAGTTGTTGCCCCTGAAAGTATTTGA-ATTTCCATAAAATCACTTTC-AACTGTTTT-ATTA
128 TAGAAGTTATTGCCCCTGAAAGTA-TTAACATTTCAATAAAATCAC-AACAAACT-TTTTAATAA
* ** * * * *
350822 -TTAATCATAGAGACCTTGGACCTCTTTGAATGGAAGCATCTACCTTGGCCA-AACAAAATGACA
190 CTT-ATCATAGAGACATCAGACCACTTGGGATGGAAGCATCTACCGTGG-CAGAACAAAAT---A
* * *
350885 TAAAGGTCAAAGGTCAAGGTCATTTGGAAATCTGTTAATTAATGAGTTTTTAGATCTCTTTTATT
250 -ACA--TCAAAGGTCAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATT
* * ** * * *
350950 AAGGGTGGTAGAGTAAAACTTTTTCATGGATGTATTAGGACATCTTAAGACATTTTAAAATATAG
312 AAGGGTGGCAGAGAAAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAA
* * * * * * *
351015 CCCCTCGGCTCATACCTTTGAATAAATACAAAAATATTGCCCCTTTTGTAC
377 CCCATCGACCCATACCTATGAACAAATACAAAAATATTACCCCTATTGTAC
* * * *
351066 GAAATGTTTGTTATCGCTACTCCTCTGACACCATAAGAGATCGAGACTTGAAACTTTTACCAATG
1 AAAATGCTTGTTATCGCTACTCCTCTGACACCATAAGAGATAGAGACTTGAAACGTTTACCAATG
* * * * ** *
351131 TCTTCAGTACACATAGACGGTTCTTCAATCTATTCATACCAAAAGGATCTGAGGTTCCCATCTAG
66 TATTCAGTACACATAGACGCTCCTTCAATCTATTCATAACAAAAGGATCCAAAGTTCCCATCTAG
* * ** *
351196 AAGTTATTGCCCCTGAAAGTATTTACATTTCCATAAAATCACTTCAAACTTTTTTATAACTTATC
131 AAGTTATTGCCCCTGAAAGTATTAACATTTCAATAAAATCACAACAAACTTTTTAATAACTTATC
* * *
351261 ATAGAGACTTCGGACCACTTGGGATGGAAGCATCTACCGTGGCCGAACAAAATAAC-TCAAAGGT
196 ATAGAGACATCAGACCACTTGGGATGGAAGCATCTACCGTGGCAGAACAAAATAACATCAAAGGT
* *
351325 CAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTGTTTAGGGTGGCAGAGA
261 CAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATTAAGGGTGGCAGAGA
* * * * * *
351390 AAAACTTTTTCATGTATTTAAAAGGACATCATAAGACATTTCAAAATGTAACCCATTGACCCTTT
326 AAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAACCCATCGACCCATA
* * **
351455 CCATAT-AACAATTATAAAGTTATTACCCCTATTGTAC
391 CC-TATGAACAAATACAAAAATATTACCCCTATTGTAC
* * * *
351492 AAAATGCTTGTTATCGCTACTCCTCATTA-ACCGTTAGAGATAGAGACTTGAAACGTTTACTAAT
1 AAAATGCTTGTTATCGCTACTCCTC-TGACACCATAAGAGATAGAGACTTGAAACGTTTACCAAT
* * * * *
351556 GTATTCAGTACACTTAGACGCTCCTATC-ATTTATTCATAACGAAAGGGTCCAAAG-TCCC-TTT
65 GTATTCAGTACACATAGACGCTCCT-TCAATCTATTCATAACAAAAGGATCCAAAGTTCCCATCT
351618 CATGCAA-TTATTGCCCCTGAAAGT-TTCAAACATTT-AATTAAAA-CACAAACAAA-TTTTTAA
129 -A-G-AAGTTATTGCCCCTGAAAGTATT--AACATTTCAA-TAAAATCAC-AACAAACTTTTTAA
* * * * * * * *
351678 TCAA--TATTCATAGATACATCAGACCACTTGGTATTGAAGCGTCTACCTTGTCAGATCAAAATG
187 T-AACTTA-TCATAGAGACATCAGACCACTTGGGATGGAAGCATCTACCGTGGCAGAACAAAATA
351741 ACAT-AAAGGTCAAAGGTCA
250 ACATCAAAGGTC-AAGGTCA
351760 AGGTCAAGTA
Statistics
Matches: 576, Mismatches: 95, Indels: 51
0.80 0.13 0.07
Matches are distributed among these distances:
424 2 0.00
425 9 0.02
426 321 0.56
427 33 0.06
429 1 0.00
430 1 0.00
432 18 0.03
433 185 0.32
434 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (427 bp):
AAAATGCTTGTTATCGCTACTCCTCTGACACCATAAGAGATAGAGACTTGAAACGTTTACCAATG
TATTCAGTACACATAGACGCTCCTTCAATCTATTCATAACAAAAGGATCCAAAGTTCCCATCTAG
AAGTTATTGCCCCTGAAAGTATTAACATTTCAATAAAATCACAACAAACTTTTTAATAACTTATC
ATAGAGACATCAGACCACTTGGGATGGAAGCATCTACCGTGGCAGAACAAAATAACATCAAAGGT
CAAGGTCATTTGGAAATCTCTAAATTAATGAGTTTTTAGATCTCTTTTATTAAGGGTGGCAGAGA
AAAACTTTTTCATGGATGTAAAAGGACATCATAAGACATTTCAAAATATAACCCATCGACCCATA
CCTATGAACAAATACAAAAATATTACCCCTATTGTAC
Done.