Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 107 of 322
Found at i:34625719 original size:101 final size:101
Alignment explanation
Indices: 34625586--34625777 Score: 294
Period size: 101 Copynumber: 1.9 Consensus size: 101
34625576 CAGATGGTTA
* * * *
34625586 AGTCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGT
34625651 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTT
66 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTT
* * * * *
34625687 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAATTCACATGTGTAGT
1 AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGT
*
34625752 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCATACC
34625778 AGAGAGCTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
AGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTT
Found at i:34625748 original size:151 final size:150
Alignment explanation
Indices: 34625462--34625780 Score: 505
Period size: 151 Copynumber: 2.1 Consensus size: 150
34625452 CTTGTATAGT
* *
34625462 GCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACC
1 GCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
* *
34625527 CTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCAT
66 CTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCAC
*
34625592 GTGTGTAGCACTAAGTGCAG
131 ATGTGTAGCACTAAGTGCAG
* * *
34625612 GCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
1 GCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
*
34625677 CGTTAACTTTAG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAATTC
66 C-TTAAC-TTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTC
*
34625741 ACATGTGTAGTACTAAGTGCAG
129 ACATGTGTAGCACTAAGTGCAG
* *
34625763 GCTACTATGCGTACCAGA
1 GCTACTAAGTGTACCAGA
34625781 GAGCTTCGGT
Statistics
Matches: 155, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
150 61 0.39
151 91 0.59
152 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (150 bp):
GCTACTAAGTGTACCAGATCGACAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
CTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCAC
ATGTGTAGCACTAAGTGCAG
Found at i:34625814 original size:151 final size:150
Alignment explanation
Indices: 34625509--34625814 Score: 391
Period size: 151 Copynumber: 2.0 Consensus size: 150
34625499 GTAGTAAGTG
* *
34625509 CAGGCTACTATGCGTACCCTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGT
1 CAGGCTACTATGCATACCCTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGT
** * **
34625574 ATCAGATGGTTAAGTCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
66 ATCAGATGGTTAAGTCACATGTGTAGCACTAAGTGCAGGCTACTACGCGTACCAGAGAGATAGGT
* * * **
34625639 CGCATGTGTAGTACTAAGTG
131 CACAAGGGTAGTACTAAGCA
34625659 CAGGCTACTATGCATACCCGTTAACTTTAG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGT
1 CAGGCTACTATGCATACCC-TTAAC-TTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGT
* * * * *
34625723 GTATCAGATGGTTAATTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTC
64 GTATCAGATGGTTAAGTCACATGTGTAGCACTAAGTGCAGGCTACTACGCGTACCAGAGAG-ATA
* * *
34625788 GGTTACAAGGGTGGTA-TATGCA
128 GGTCACAAGGGTAGTACTAAGCA
34625810 CAGGC
1 CAGGC
34625815 CACCGGGTAT
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
150 18 0.14
151 100 0.75
152 15 0.11
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
CAGGCTACTATGCATACCCTTAACTTAGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGT
ATCAGATGGTTAAGTCACATGTGTAGCACTAAGTGCAGGCTACTACGCGTACCAGAGAGATAGGT
CACAAGGGTAGTACTAAGCA
Found at i:34626002 original size:16 final size:16
Alignment explanation
Indices: 34625981--34626012 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34625971 AGAATAGAGT
34625981 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
34625997 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
34626013 TAAAACTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:34629489 original size:29 final size:28
Alignment explanation
Indices: 34629442--34629568 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
34629432 CATGAGATTG
* **
34629442 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-AATTATATA
* *
34629471 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
* *
34629499 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTAATTATAT-A
*
34629528 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
34629556 ACACTAAGTGTGC
1 GCACTAAGTGTGC
34629569 AGACTTACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.50
29 44 0.50
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:34629508 original size:28 final size:28
Alignment explanation
Indices: 34629468--34629569 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
34629458 TTTAAATTGC
34629468 ATAGCACTAAGTGTGCAAGTTTGATTAT
1 ATAGCACTAAGTGTGCAAGTTTGATTAT
*
34629496 ATAGCACTAAGTGTGCGAGTTTGATTAT
1 ATAGCACTAAGTGTGCAAGTTTGATTAT
* *
34629524 GTAAGCACTAAGTGTGCGAGTTTGATTAT
1 AT-AGCACTAAGTGTGCAAGTTTGATTAT
*
34629553 ATAACACTAAGTGTGCA
1 ATAGCACTAAGTGTGCA
34629570 GACTTACTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 41 0.60
29 27 0.40
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (28 bp):
ATAGCACTAAGTGTGCAAGTTTGATTAT
Found at i:34629531 original size:57 final size:57
Alignment explanation
Indices: 34629442--34629568 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 57
34629432 CATGAGATTG
*
34629442 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
34629499 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
34629556 ACACTAAGTGTGC
1 GCACTAAGTGTGC
34629569 AGACTTACTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:34637533 original size:28 final size:28
Alignment explanation
Indices: 34637467--34637594 Score: 157
Period size: 28 Copynumber: 4.5 Consensus size: 28
34637457 CATGAGATTG
* * **
34637467 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
34637496 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
34637524 GCATTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
34637553 GCACTAAGTGTGCGAGTTTGAGTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34637581 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
34637595 GACTTACTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 44 0.51
29 42 0.49
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34652814 original size:29 final size:29
Alignment explanation
Indices: 34652751--34652818 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34652741 TAATCAACCG
34652751 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34652780 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34652809 CGCACACTTA
1 CGCACACTTA
34652819 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34652931 original size:174 final size:174
Alignment explanation
Indices: 34652640--34652967 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
34652630 AACTCAAGGT
* *
34652640 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34652705 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
34652770 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
34652814 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
34652879 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCGATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
* **
34652944 ACTTTGAACTTGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
34652968 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:34652987 original size:29 final size:28
Alignment explanation
Indices: 34652920--34652996 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 28
34652910 CTTAATAATC
*
34652920 AACCACGCACACTTAGTGCGATGTACTTTG
1 AACC-CGCACACTTAGTGC-ATGTACTTTA
**
34652950 AACTTGCACACTTAGTGC-TGTACAATTTA
1 AACCCGCACACTTAGTGCATGTAC--TTTA
34652979 AACCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
34652997 CAATCTCATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.12
29 32 0.80
30 3 0.08
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (28 bp):
AACCCGCACACTTAGTGCATGTACTTTA
Found at i:34656808 original size:306 final size:306
Alignment explanation
Indices: 34656255--34656867 Score: 1127
Period size: 306 Copynumber: 2.0 Consensus size: 306
34656245 CGTCTTTGTC
34656255 GCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGTGATCCAAAAATACATGGCAC
1 GCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGTGATCCAAAAATACATGGCAC
*
34656320 TTTTCGCCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACGATGGCGGCTAGCTCGAGATC
66 TTTTCGCCAAACAAATAATGTCCCCATATTTTCAAAGCAAATACGATGGCGGCTAGCTCGAGATC
*
34656385 ATGGGTTGGATAATTTCTCTCGTGTGGCTTCAATTATCTCGACGCATAGGCCACAACTCGACCTT
131 ATAGGTTGGATAATTTCTCTCGTGTGGCTTCAATTATCTCGACGCATAGGCCACAACTCGACCTT
34656450 CTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCT
196 CTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCT
*
34656515 GATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAACGAGTTTTCA
261 GATTCGGGGTGCACTAAAATTGGAGCTTCAGTCAAACGAGTTTTCA
* *
34656561 GCAGATTTAAGTCTCTTTGAGTTATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCAC
1 GCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGTGATCCAAAAATACATGGCAC
* * *
34656626 TTTTCGCCAAACAAGTAATGTCCCCATATTTTCAAAGCGAATACGATGGCGGCTAGTTCGAGATC
66 TTTTCGCCAAACAAATAATGTCCCCATATTTTCAAAGCAAATACGATGGCGGCTAGCTCGAGATC
* *
34656691 ATAGGTTGGATAATTTCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGGCCTT
131 ATAGGTTGGATAATTTCTCTCGTGTGGCTTCAATTATCTCGACGCATAGGCCACAACTCGACCTT
34656756 CTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCT
196 CTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCT
*
34656821 GATTCGGGGTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCA
261 GATTCGGGGTGCACTAAAATTGGAGCTTCAGTCAAACGAGTTTTCA
34656867 G
1 G
34656868 TTGATCGAAG
Statistics
Matches: 296, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
306 296 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (306 bp):
GCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGTGATCCAAAAATACATGGCAC
TTTTCGCCAAACAAATAATGTCCCCATATTTTCAAAGCAAATACGATGGCGGCTAGCTCGAGATC
ATAGGTTGGATAATTTCTCTCGTGTGGCTTCAATTATCTCGACGCATAGGCCACAACTCGACCTT
CTTGCATCAATACGCAACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCT
GATTCGGGGTGCACTAAAATTGGAGCTTCAGTCAAACGAGTTTTCA
Found at i:34657308 original size:150 final size:150
Alignment explanation
Indices: 34657037--34657336 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
34657027 AGGTTTCCAG
34657037 TTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGATGCAGATACCACATGACCCAA
1 TTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGATGCAGATACCACATGACCCAA
34657102 GAAGCTAACTTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTTCTTATCCCGCA
66 GAAGCTAACTTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTTCTTATCCCGCA
34657167 AAACTTGCAACACTAATCTC
131 AAACTTGCAACACTAATCTC
34657187 TTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGATGCAGATACCACATGACCCAA
1 TTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGATGCAGATACCACATGACCCAA
34657252 GAAGCTAACTTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTTCTTATCCCGCA
66 GAAGCTAACTTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTTCTTATCCCGCA
34657317 AAACTTGCAACACTAATCTC
131 AAACTTGCAACACTAATCTC
34657337 AAGTGTTCAG
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (150 bp):
TTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGATGCAGATACCACATGACCCAA
GAAGCTAACTTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTTCTTATCCCGCA
AAACTTGCAACACTAATCTC
Found at i:34665520 original size:29 final size:29
Alignment explanation
Indices: 34665457--34665524 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34665447 TAATCAACCG
34665457 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34665486 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34665515 CGCACACTTA
1 CGCACACTTA
34665525 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34665636 original size:174 final size:174
Alignment explanation
Indices: 34665346--34665673 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
34665336 AACTCAAGGT
*
34665346 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
34665411 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
34665476 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
34665520 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
34665585 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
34665650 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
34665674 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:34665665 original size:29 final size:30
Alignment explanation
Indices: 34665626--34665704 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34665616 CTTAATAATC
34665626 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34665656 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34665685 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34665705 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34673666 original size:29 final size:29
Alignment explanation
Indices: 34673603--34673670 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34673593 TAATCAACCA
34673603 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34673632 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34673661 CGCACACTTA
1 CGCACACTTA
34673671 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34673811 original size:29 final size:30
Alignment explanation
Indices: 34673772--34673850 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34673762 CTTAATAATC
34673772 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34673802 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34673831 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34673851 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34689931 original size:22 final size:23
Alignment explanation
Indices: 34689906--34689951 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34689896 CAACCAAATC
*
34689906 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAGATA
*
34689928 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
34689951 A
1 A
34689952 CGTCATCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:34689957 original size:23 final size:23
Alignment explanation
Indices: 34689913--34689957 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34689903 ATCAATTCAA
* *
34689913 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
34689936 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
34689958 CACATATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:34695959 original size:38 final size:38
Alignment explanation
Indices: 34695903--34695981 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
34695893 ATTTGATGTG
* * *
34695903 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCAGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATA
*
34695941 TATCAGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCAGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATA
34695979 TAT
1 TAT
34695982 TCGGGCCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCAGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATA
Found at i:34696089 original size:43 final size:43
Alignment explanation
Indices: 34695979--34696089 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
34695969 GCTGGTATTA
** *
34695979 TATTCGGGCCTTCATGCCTAGCAGATTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
34696022 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTG
34696065 TATTCGGGCCTTCATGCCTAGCAGG
1 TATTCGGGCCTTCATGCCTAGCAGG
34696090 TGTAATGCCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.14, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:34698829 original size:42 final size:42
Alignment explanation
Indices: 34698770--34698931 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 42
34698760 TTAGGGTTAT
*
34698770 TGAGACTTTGTGTAAGACCATATCTGGGATATGGCATC-ACTA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGA-TA
*
34698812 TGAGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
34698854 TAAGACTTTGTGTAAGACCATAGCTGGGCTATTGACATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
34698897 CGATA-TTACATGTAAGACCATATCTGGGATATGGC
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGC
34698932 GTTGGTATTA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 69 0.68
43 32 0.32
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:34706090 original size:68 final size:63
Alignment explanation
Indices: 34705943--34706122 Score: 157
Period size: 68 Copynumber: 2.8 Consensus size: 63
34705933 ATATAGTTCG
* * *
34705943 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACTTAGCCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
* * *
34706006 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGCGACCTAGC--CA--AT-ATATC
*
34706069 TTGTA
59 TCGTA
* ** * ** *
34706074 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGC
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGC
34706123 TACANNNNNN
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 41 0.44
64 1 0.01
65 2 0.02
67 3 0.03
68 45 0.48
69 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
Found at i:34716056 original size:17 final size:17
Alignment explanation
Indices: 34716034--34716066 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34716024 AATGAATATG
34716034 ATAAAATCTCATATTAA
1 ATAAAATCTCATATTAA
*
34716051 ATAAAATTTCATATTA
1 ATAAAATCTCATATTA
34716067 GATGCTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAATCTCATATTAA
Found at i:34718317 original size:29 final size:29
Alignment explanation
Indices: 34718281--34718381 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
34718271 TGGCCCATCT
34718281 CATTCATATGGCCCATCAGGCTCAATTCA
1 CATTCATATGGCCCATCAGGCTCAATTCA
* *
34718310 CATTCATATGGCCTATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCTCAATTCA
* * * * *
34718339 TATTCATATGACCTATTAGGCTCAAATCA
1 CATTCATATGGCCCATCAGGCTCAATTCA
* *
34718368 CCTTTATATGGCCC
1 CATTCATATGGCCC
34718382 GTTAAGCCCA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.31
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCTCAATTCA
Found at i:34718623 original size:16 final size:16
Alignment explanation
Indices: 34718599--34718633 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34718589 GCAGCCAAAC
34718599 TTTCAGCTTTTTAGCT
1 TTTCAGCTTTTTAGCT
*
34718615 TTTCGGCTTTTTAGCT
1 TTTCAGCTTTTTAGCT
34718631 TTT
1 TTT
34718634 GCCGATCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.14, T:0.60
Consensus pattern (16 bp):
TTTCAGCTTTTTAGCT
Found at i:34732898 original size:50 final size:50
Alignment explanation
Indices: 34732839--34732939 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
34732829 CTCGCACACA
34732839 TAGTGCCATAGTAAACCGTACACTCAGTGCATTGGATTTTCTCTCATGCT
1 TAGTGCCATAGTAAACCGTACACTCAGTGCATTGGATTTTCTCTCATGCT
34732889 TAGTGCCATAGTAAACCGTACACTCAGTGCATTGGATTTTCTCTCATGCT
1 TAGTGCCATAGTAAACCGTACACTCAGTGCATTGGATTTTCTCTCATGCT
34732939 T
1 T
34732940 CAACATCCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (50 bp):
TAGTGCCATAGTAAACCGTACACTCAGTGCATTGGATTTTCTCTCATGCT
Found at i:34736349 original size:17 final size:16
Alignment explanation
Indices: 34736316--34736347 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34736306 AAGTTCGGGA
34736316 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
34736332 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
34736348 GTGTTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:34737238 original size:25 final size:25
Alignment explanation
Indices: 34737209--34737276 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
34737199 GTTCTGACCC
* *
34737209 ACAGCTCGTGAGAGCCTACCGATTT
1 ACAGCTCATGAGAGCATACCGATTT
* *
34737234 ACAGCTCATGAGAGCATATCGATTC
1 ACAGCTCATGAGAGCATACCGATTT
*
34737259 ATAGCTCAT-ATGAGCATA
1 ACAGCTCATGA-GAGCATA
34737277 TATGTACAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATACCGATTT
Found at i:34751446 original size:27 final size:26
Alignment explanation
Indices: 34751399--34751454 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
34751389 GCTGTAACTA
34751399 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
34751425 ATTAAATTGCTGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
34751452 ATT
1 ATT
34751455 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:34753104 original size:20 final size:20
Alignment explanation
Indices: 34753065--34753103 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34753055 ATACTCAGGG
*
34753065 CAATTTTATCGATACTTTTT
1 CAATTATATCGATACTTTTT
34753085 CAATTATATCGATA-TTTTT
1 CAATTATATCGATACTTTTT
34753104 TAGGTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (20 bp):
CAATTATATCGATACTTTTT
Found at i:34755985 original size:51 final size:51
Alignment explanation
Indices: 34755909--34756009 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
34755899 TTTTACAAGC
*
34755909 CATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTTGACCCG
1 CATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCG
34755960 CATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCC
1 CATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCC
34756010 ATCCCGATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (51 bp):
CATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCG
Found at i:34765864 original size:29 final size:30
Alignment explanation
Indices: 34765832--34765890 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
34765822 ATTTAATAGG
34765832 AACTTTGGAAAAATTACACTTTT-CCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
34765861 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34765891 GGCTCAGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34772150 original size:9 final size:9
Alignment explanation
Indices: 34772136--34772160 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34772126 AACATCCACC
34772136 ATAACAAAT
1 ATAACAAAT
34772145 ATAACAAAT
1 ATAACAAAT
34772154 ATAACAA
1 ATAACAA
34772161 CGAAGGTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAACAAAT
Found at i:34774005 original size:58 final size:58
Alignment explanation
Indices: 34773816--34773993 Score: 356
Period size: 58 Copynumber: 3.1 Consensus size: 58
34773806 TATAACATCA
34773816 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
1 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
34773874 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
1 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
34773932 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
1 ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
34773990 ATAA
1 ATAA
34773994 TTTAGAGATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 120 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (58 bp):
ATAACTTAAAAATATAATTATAATATTTTAAAGTTTAAAACCAATTTAAATCAACCAT
Found at i:34774229 original size:16 final size:17
Alignment explanation
Indices: 34774201--34774240 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
34774191 CAGAGACGAA
34774201 AGAAAATTAGAAAGA-T
1 AGAAAATTAGAAAGATT
34774217 AGAATAATT-GAAAGATT
1 AGAA-AATTAGAAAGATT
34774234 AGAAAAT
1 AGAAAAT
34774241 ATATTCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (17 bp):
AGAAAATTAGAAAGATT
Found at i:34775101 original size:18 final size:17
Alignment explanation
Indices: 34775078--34775124 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 17
34775068 TTTAAAAATT
34775078 ATAAAAAATATTCAAAAA
1 ATAAAAAA-ATTCAAAAA
34775096 AT-AAAAAATTCAAAAA
1 ATAAAAAAATTCAAAAA
34775112 ATATATAAAAATT
1 ATA-A-AAAAATT
34775125 GATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 11 0.42
17 5 0.19
18 3 0.12
19 7 0.27
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAAAATTCAAAAA
Found at i:34775106 original size:16 final size:17
Alignment explanation
Indices: 34775081--34775114 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
34775071 AAAAATTATA
34775081 AAAAATATTCAAAAAAT
1 AAAAATATTCAAAAAAT
34775098 AAAAA-ATTCAAAAAAT
1 AAAAATATTCAAAAAAT
34775114 A
1 A
34775115 TATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATATTCAAAAAAT
Found at i:34775117 original size:29 final size:28
Alignment explanation
Indices: 34775070--34775140 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
34775060 AAGTTTAATT
34775070 TAAAAATT-ATAAAAAATATTCAAAAAAT-A
1 TAAAAATTCA-AAAAAATA-T-AAAAAATGA
*
34775099 -AAAAATTCAAAAAATATATAAAAATTGA
1 TAAAAATTCAAAAAA-ATATAAAAAATGA
34775127 TAAAAATTCAAAAA
1 TAAAAATTCAAAAA
34775141 GAAAACATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 6 0.16
28 14 0.38
29 17 0.46
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAAAATTCAAAAAAATATAAAAAATGA
Found at i:34775129 original size:10 final size:9
Alignment explanation
Indices: 34775066--34775134 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
34775056 AAAAAAGTTT
34775066 AATT-TAAA
1 AATTATAAA
34775074 AATTATAAA
1 AATTATAAA
*
34775083 AAATATTCAAA
1 AATTA-T-AAA
*
34775094 AAATA-AAA
1 AATTATAAA
34775102 AATTCA-AAA
1 AATT-ATAAA
34775111 AATATATAAA
1 AAT-TATAAA
34775121 AATTGATAAA
1 AATT-ATAAA
34775131 AATT
1 AATT
34775135 CAAAAAGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 10 0.19
9 17 0.33
10 17 0.33
11 8 0.15
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (9 bp):
AATTATAAA
Found at i:34781004 original size:154 final size:154
Alignment explanation
Indices: 34780724--34781181 Score: 916
Period size: 154 Copynumber: 3.0 Consensus size: 154
34780714 TGGAATTTGG
34780724 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
1 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
34780789 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
66 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
34780854 ATGTTACATTATCTAATCATATTT
131 ATGTTACATTATCTAATCATATTT
34780878 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
1 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
34780943 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
66 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
34781008 ATGTTACATTATCTAATCATATTT
131 ATGTTACATTATCTAATCATATTT
34781032 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
1 AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
34781097 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
66 CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
34781162 ATGTTACATTATCTAATCAT
131 ATGTTACATTATCTAATCAT
34781182 CTCCGATTTA
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 304 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (154 bp):
AACTTAAAAAACTCAATTAATTGCATTTAACCCAATTGATCCGTAATTTATTTATCTATTAAATA
CAATAATTTGAGTTTGTTAAACTACAATGAGCTGGAGGTGAATATATTTAATCATATTTAAATTA
ATGTTACATTATCTAATCATATTT
Found at i:34781991 original size:29 final size:27
Alignment explanation
Indices: 34781937--34781991 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
34781927 ATTAATTATA
*
34781937 ATATAATTTTTAATAAATATATTTGTT
1 ATATAATTTTTAATAAATACATTTGTT
34781964 ATATAATTTGATTAA-AAATACACTTTGT
1 ATATAATTT--TTAATAAATACA-TTTGT
34781992 CCTATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 6 0.25
29 9 0.38
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (27 bp):
ATATAATTTTTAATAAATACATTTGTT
Found at i:34782140 original size:22 final size:22
Alignment explanation
Indices: 34782109--34782167 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
34782099 TCTAGAACTA
*
34782109 AGCTATGTTATTTTCATTTATT
1 AGCTAAGTTATTTTCATTTATT
34782131 AGCTAAGTTATTTTCATTTATT
1 AGCTAAGTTATTTTCATTTATT
34782153 AGCTAAGTTATTTTC
1 AGCTAAGTTATTTTC
34782168 TTAGGTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (22 bp):
AGCTAAGTTATTTTCATTTATT
Found at i:34785458 original size:27 final size:27
Alignment explanation
Indices: 34785428--34785605 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
34785418 ATATTGAGTC
* * * *
34785428 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34785455 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34785482 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34785510 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34785537 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34785564 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34785591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34785606 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34785567 original size:82 final size:81
Alignment explanation
Indices: 34785449--34785604 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
34785439 TGCTATATAA
*
34785449 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34785514 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34785531 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34785595 CACTTAGTGC
65 CACTTAGTGC
34785605 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34785619 original size:82 final size:83
Alignment explanation
Indices: 34785428--34785619 Score: 225
Period size: 82 Copynumber: 2.3 Consensus size: 83
34785418 ATATTGAGTC
* * * *
34785428 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
34785492 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
34785510 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
34785571 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
34785591 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
34785620 CCGCGCACTT
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.18
82 71 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:34786717 original size:13 final size:13
Alignment explanation
Indices: 34786699--34786723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34786689 TACTAAATTT
34786699 TCATGGATTCAAG
1 TCATGGATTCAAG
34786712 TCATGGATTCAA
1 TCATGGATTCAA
34786724 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:34789058 original size:74 final size:74
Alignment explanation
Indices: 34788937--34789085 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
34788927 GTGACTCGAT
*
34788937 CCCATTTCCACTCGGGTATCATGATCGGCTGGAGTAATCCTGAAGGCACTTGATGTTCCGCTTTC
1 CCCATTTCCACTCGGGTATCATGATCGGCTGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTC
34789002 ACTTGTTGA
66 ACTTGTTGA
*
34789011 CCCATTTCCACTCGGGTATCATGGTCGGCTGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTC
1 CCCATTTCCACTCGGGTATCATGATCGGCTGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTC
34789076 ACTTGTTGA
66 ACTTGTTGA
34789085 C
1 C
34789086 ATATCAAACA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (74 bp):
CCCATTTCCACTCGGGTATCATGATCGGCTGAAGTAATCCTGAAGGCACTTGATGTTCCGCTTTC
ACTTGTTGA
Found at i:34792886 original size:84 final size:84
Alignment explanation
Indices: 34792745--34792902 Score: 316
Period size: 84 Copynumber: 1.9 Consensus size: 84
34792735 AGTCTGATAC
34792745 TGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACTGACTTTAACCCC
1 TGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACTGACTTTAACCCC
34792810 TTATAAAATACCAATCAAA
66 TTATAAAATACCAATCAAA
34792829 TGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACTGACTTTAACCCC
1 TGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACTGACTTTAACCCC
34792894 TTATAAAAT
66 TTATAAAAT
34792903 TTATTTTCCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.18
Consensus pattern (84 bp):
TGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACTGACTTTAACCCC
TTATAAAATACCAATCAAA
Found at i:34793276 original size:83 final size:83
Alignment explanation
Indices: 34793137--34793307 Score: 342
Period size: 83 Copynumber: 2.1 Consensus size: 83
34793127 TTTGATATCT
34793137 CCCTACACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCT
1 CCCTACACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCT
34793202 GTACATATATGGTACGAC
66 GTACATATATGGTACGAC
34793220 CCCTACACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCT
1 CCCTACACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCT
34793285 GTACATATATGGTACGAC
66 GTACATATATGGTACGAC
34793303 CCCTA
1 CCCTA
34793308 ATTATCTCTG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 88 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (83 bp):
CCCTACACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCT
GTACATATATGGTACGAC
Found at i:34794292 original size:27 final size:27
Alignment explanation
Indices: 34794262--34794439 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34794252 ATATTGAGTC
* * * *
34794262 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34794289 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34794316 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34794344 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34794371 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34794398 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34794425 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34794440 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34794401 original size:82 final size:81
Alignment explanation
Indices: 34794283--34794438 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34794273 TGCTATATAA
* *
34794283 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34794348 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34794365 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34794429 CACTTAGTGC
65 CACTTAGTGC
34794439 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34796521 original size:43 final size:41
Alignment explanation
Indices: 34796474--34796589 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 41
34796464 TCCCAGGCGT
34796474 GGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAA-ATCGATGCCA-TGTCCCAGACAG
* * * *
34796517 GGTCTTAAATGAAATC-AAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAAAT-CGATG-CCATGTCCCAGACAG
* *
34796559 GGTCTTACACGTAAATCATAAGTCGATGCCA
1 GGTCTTACATGT-AATCA-AAATCGATGCCA
34796590 ACGTCCTAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.46
43 22 0.37
44 5 0.08
45 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
GGTCTTACATGTAATCAAAATCGATGCCATGTCCCAGACAG
Found at i:34808341 original size:42 final size:42
Alignment explanation
Indices: 34808295--34808423 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 42
34808285 GATGCCTCTA
*
34808295 TCCCAGACAGGGTCTTACACGAAATCAGATATGATGCCAATG
1 TCCCAGACACGGTCTTACACGAAATCAGATATGATGCCAATG
* * * * * ** *
34808337 TCCCAGACATGGTCTTATACATAAATCTGA-ATTGAGGCCTGTT
1 TCCCAGACACGGTCTTACAC-GAAATCAGATA-TGATGCCAATG
* *
34808380 TCCCAGACACGGTCTTACACGATATCTCAGATA-GATGTCAATG
1 TCCCAGACACGGTCTTACACGA-A-ATCAGATATGATGCCAATG
34808423 T
1 T
34808424 TTCTTTAGAA
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
42 20 0.31
43 39 0.61
44 4 0.06
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGAAATCAGATATGATGCCAATG
Found at i:34813683 original size:40 final size:40
Alignment explanation
Indices: 34813584--34813734 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
34813574 TGGACGATAA
* * * * **
34813584 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
34813624 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
34813663 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
34813703 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34813735 AGCTATATCC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 33 0.34
40 63 0.64
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:34813775 original size:50 final size:50
Alignment explanation
Indices: 34813700--34813799 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
34813690 CGAGTTACTC
* * *
34813700 TAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTA
1 TAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
34813750 TAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
1 TAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
34813800 AATTCCGAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
Found at i:34823091 original size:16 final size:16
Alignment explanation
Indices: 34823072--34823105 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34823062 TATAAATACT
34823072 ATAATAAATAATAGAC
1 ATAATAAATAATAGAC
34823088 ATAATAAATAATAGAC
1 ATAATAAATAATAGAC
34823104 AT
1 AT
34823106 CAAACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
ATAATAAATAATAGAC
Found at i:34823528 original size:23 final size:22
Alignment explanation
Indices: 34823471--34823543 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 22
34823461 TGACACATAA
34823471 GTGCCTGAA-ACGACACACGAG
1 GTGCCTGAATACGACACACGAG
* *
34823492 GTGCCTG-CTGCGACACACGAG
1 GTGCCTGAATACGACACACGAG
* *
34823513 GTGCCTGAAATACGACACACAAA
1 GTGCCTG-AATACGACACACGAG
34823536 GTGCCTGA
1 GTGCCTGA
34823544 TCAGTAAAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 25 0.58
22 1 0.02
23 17 0.40
ACGTcount: A:0.30, C:0.29, G:0.27, T:0.14
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:34823780 original size:28 final size:29
Alignment explanation
Indices: 34823748--34823803 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
34823738 AACACACCAG
* *
34823748 TATAATCC-TCCCAAACACAGCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
34823776 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCCATCCAAAACACACCAGAATA
34823804 GCACAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.18
Consensus pattern (29 bp):
TATAATCCATCCAAAACACACCAGAATAA
Found at i:34826922 original size:37 final size:37
Alignment explanation
Indices: 34826872--34826950 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34826862 TTATTACGAA
* * *
34826872 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
34826909 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
34826946 GTCTT
1 GTCTT
34826951 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:34827140 original size:47 final size:47
Alignment explanation
Indices: 34827069--34827228 Score: 257
Period size: 47 Copynumber: 3.4 Consensus size: 47
34827059 CCCTTCGGGA
* * * *
34827069 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
34827116 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
34827163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
34827210 CTTATCACATATATACACT
1 CTTATCACATATATACACT
34827229 CACATCACAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:34827147 original size:25 final size:25
Alignment explanation
Indices: 34827119--34827197 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
34827109 ACTCGGCCCT
34827119 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
34827144 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
34827166 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
34827191 ATCACAT
1 ATCACAT
34827198 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:34836241 original size:21 final size:21
Alignment explanation
Indices: 34836204--34836248 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34836194 GAGGGATCAA
*
34836204 ATGCTGGAGTCCGAGAAAAAC
1 ATGCTGGAATCCGAGAAAAAC
*
34836225 ATGCTGGAATCAC-AGAACAAC
1 ATGCTGGAATC-CGAGAAAAAC
34836246 ATG
1 ATG
34836249 ATAAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAATCCGAGAAAAAC
Found at i:34842713 original size:79 final size:81
Alignment explanation
Indices: 34842604--34842786 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34842594 TACTCGTTCA
* *
34842604 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
34842667 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
34842684 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
* *
34842747 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
34842763 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34842787 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34842786 original size:40 final size:40
Alignment explanation
Indices: 34842602--34842786 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
34842592 GCTACTCGTT
* *
34842602 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * *
34842642 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
34842682 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
34842721 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
34842762 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34842787 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:34852830 original size:45 final size:45
Alignment explanation
Indices: 34852766--34853579 Score: 1619
Period size: 45 Copynumber: 18.1 Consensus size: 45
34852756 TTAAGATCTT
34852766 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34852811 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34852856 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34852901 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34852946 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34852991 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853036 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853081 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853126 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853171 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853216 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853261 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853306 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853351 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853396 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853441 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853486 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
*
34853531 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCGTTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34853576 ATAA
1 ATAA
34853580 CGAGCTCATC
Statistics
Matches: 768, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 768 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (45 bp):
ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
Found at i:34853823 original size:43 final size:42
Alignment explanation
Indices: 34853727--34853845 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
34853717 CACACGGTAA
* * *
34853727 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAGATAT
* * * *
34853769 CGTATCGATGCCAATATCCTAGCTATGGTCTTACATGA-AGTAT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGAGA-TAT
* *
34853812 CATATCAATGCCATATCCCAAAAATGGTCTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
34853846 CAAAGTCTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAGATAT
Found at i:34853841 original size:42 final size:42
Alignment explanation
Indices: 34853727--34853887 Score: 155
Period size: 42 Copynumber: 3.8 Consensus size: 42
34853717 CACACGGTAA
* * *
34853727 CATACCAATGCCATATCCCAGATATGGTCTTACATG-GGATCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACATGAAG-TCT
* * * ** *
34853769 CGTATCGATGCCAATATCCTAGCTATGGTCTTACATGAAGTAT
1 CATATCAATGCC-ATATCCCAAATATGGTCTTACATGAAGTCT
* **
34853812 CATATCAATGCCATATCCCAAAAATGGTCTTACACAAAGTCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACATGAAGTCT
* *
34853854 CATAT-AGATTCCATCTCCCAAATATGGTCTTACA
1 CATATCA-ATGCCATATCCCAAATATGGTCTTACA
34853888 CATAGTCTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 61 0.63
43 34 0.35
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAAATATGGTCTTACATGAAGTCT
Found at i:34864387 original size:45 final size:45
Alignment explanation
Indices: 34864323--34864416 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
34864313 TTAAGATCTT
34864323 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
*
34864368 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCGTTAC
1 ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
34864413 ATAA
1 ATAA
34864417 CGAGCTCATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (45 bp):
ATAATCGTAACTTACTCAATCATAATCTTACCAAGGGTTCATTAC
Found at i:34864660 original size:43 final size:42
Alignment explanation
Indices: 34864564--34864682 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
34864554 CACACGGTAA
* * *
34864564 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAGATAT
* * * *
34864606 CGTATCGATGCCAATATCCTAGCTATGGTCTTACATGA-AGTAT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGAGA-TAT
* *
34864649 CATATCAATGCCATATCCCAAAAATGGTCTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
34864683 CAAAGTCTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAGATAT
Found at i:34864678 original size:42 final size:42
Alignment explanation
Indices: 34864564--34864724 Score: 155
Period size: 42 Copynumber: 3.8 Consensus size: 42
34864554 CACACGGTAA
* * *
34864564 CATACCAATGCCATATCCCAGATATGGTCTTACATG-GGATCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACATGAAG-TCT
* * * ** *
34864606 CGTATCGATGCCAATATCCTAGCTATGGTCTTACATGAAGTAT
1 CATATCAATGCC-ATATCCCAAATATGGTCTTACATGAAGTCT
* **
34864649 CATATCAATGCCATATCCCAAAAATGGTCTTACACAAAGTCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACATGAAGTCT
* *
34864691 CATAT-AGATTCCATCTCCCAAATATGGTCTTACA
1 CATATCA-ATGCCATATCCCAAATATGGTCTTACA
34864725 CATAGTCTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 61 0.63
43 34 0.35
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAAATATGGTCTTACATGAAGTCT
Found at i:34871968 original size:13 final size:13
Alignment explanation
Indices: 34871950--34871976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34871940 GCTCGATAGG
34871950 GACACGCCCGTGT
1 GACACGCCCGTGT
34871963 GACACGCCCGTGT
1 GACACGCCCGTGT
34871976 G
1 G
34871977 TAATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:34873452 original size:40 final size:40
Alignment explanation
Indices: 34873415--34873639 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
34873405 GCTACTCGTT
* *
34873415 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
34873455 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34873495 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
34873535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
34873574 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34873615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34873640 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34873599 original size:119 final size:120
Alignment explanation
Indices: 34873415--34873639 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
34873405 GCTACTCGTT
*
34873415 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
34873480 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
34873535 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
34873597 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34873640 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34881598 original size:40 final size:40
Alignment explanation
Indices: 34881506--34881709 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
34881496 CGAAATTTAA
* * ** *
34881506 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34881546 CCGG-TTACAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34881586 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34881625 CTGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34881665 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34881705 CCGGA
1 CCGGA
34881710 CATCATTCGA
Statistics
Matches: 136, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 89 0.65
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34881693 original size:79 final size:80
Alignment explanation
Indices: 34881554--34881705 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 80
34881544 GCCCGGTTAC
* * *
34881554 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG
1 AGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGGG
34881619 -CTTAGCCTGGAATT
66 ACTTAGCCTGGAATT
** * *
34881633 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCG
1 AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACCAAAGCCTTCG
34881696 GGACTTAGCC
64 GGACTTAGCC
34881706 CGGACATCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.05
79 49 0.78
80 11 0.17
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
AGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGGG
ACTTAGCCTGGAATT
Found at i:34887340 original size:13 final size:13
Alignment explanation
Indices: 34887322--34887346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34887312 GTGTGGGTGC
34887322 ACACGGCCGTGTG
1 ACACGGCCGTGTG
34887335 ACACGGCCGTGT
1 ACACGGCCGTGT
34887347 CTGTCTTTGT
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:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (13 bp):
ACACGGCCGTGTG
Found at i:34897527 original size:14 final size:14
Alignment explanation
Indices: 34897508--34897537 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34897498 GTTCTTCTTG
34897508 ATCTATAATAGTAA
1 ATCTATAATAGTAA
34897522 ATCTATAATAGTAA
1 ATCTATAATAGTAA
34897536 AT
1 AT
34897538 TTAACTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
ATCTATAATAGTAA
Found at i:34900052 original size:53 final size:53
Alignment explanation
Indices: 34899869--34900123 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
34899859 ATTAGGGTTT
* * *
34899869 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
34899924 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
34899979 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
34900032 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* ** * *
34900081 AAGGATACCACGTAAGACCATTACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
34900124 GTACCAATGT
Statistics
Matches: 171, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 8 0.05
53 44 0.26
54 8 0.05
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:34900075 original size:108 final size:110
Alignment explanation
Indices: 34899876--34900076 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
34899866 TTTAAGGATA
*
34899876 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGA
*
34899941 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
34899986 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGAAAGGAAACCATGTAAG
*
34900048 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
34900077 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:34911612 original size:22 final size:23
Alignment explanation
Indices: 34911570--34911613 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34911560 TCTCTTTTTT
34911570 TTTCTTCCACTTCATTCTCCAAAA
1 TTTCTTCCACTT-ATTCTCCAAAA
*
34911594 TTTCTTCCAGTT-TTCTCCAA
1 TTTCTTCCACTTATTCTCCAA
34911614 TGGCTTGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.20, C:0.32, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTCTTCCACTTATTCTCCAAAA
Found at i:34926569 original size:12 final size:12
Alignment explanation
Indices: 34926547--34926576 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34926537 GATTATTCAC
34926547 GTAATTATTCTT
1 GTAATTATTCTT
34926559 GTAATTATTCTT
1 GTAATTATTCTT
*
34926571 ATAATT
1 GTAATT
34926577 GCCATTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
GTAATTATTCTT
Found at i:34936198 original size:18 final size:18
Alignment explanation
Indices: 34936171--34936234 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
34936161 AACCGAGCCA
*
34936171 TAAAATTTTTCCCAAATT
1 TAAAACTTTTCCCAAATT
***
34936189 TAAAACTTTT--CAAGCCA
1 TAAAACTTTTCCCAA-ATT
*
34936206 TAAAATTTTTCCCAAATT
1 TAAAACTTTTCCCAAATT
34936224 TAAAACTTTTC
1 TAAAACTTTTC
34936235 ATTCACATGC
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
16 3 0.09
17 9 0.26
18 19 0.56
19 3 0.09
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAACTTTTCCCAAATT
Found at i:34936205 original size:35 final size:35
Alignment explanation
Indices: 34936166--34936235 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34936156 TACAAAACCG
34936166 AGCCATAAAATTTTTCCCAAATTTAAAACTTTTCA
1 AGCCATAAAATTTTTCCCAAATTTAAAACTTTTCA
34936201 AGCCATAAAATTTTTCCCAAATTTAAAACTTTTCA
1 AGCCATAAAATTTTTCCCAAATTTAAAACTTTTCA
34936236 TTCACATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (35 bp):
AGCCATAAAATTTTTCCCAAATTTAAAACTTTTCA
Found at i:34936483 original size:16 final size:16
Alignment explanation
Indices: 34936462--34936495 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34936452 GACTTCATCA
34936462 ACTAAATTGAGGTCGC
1 ACTAAATTGAGGTCGC
34936478 ACTAAATTGAGGTCGC
1 ACTAAATTGAGGTCGC
34936494 AC
1 AC
34936496 GGTCAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (16 bp):
ACTAAATTGAGGTCGC
Found at i:34936839 original size:16 final size:17
Alignment explanation
Indices: 34936811--34936842 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34936801 ATATATGATT
34936811 TTATAATTTTTATAACC
1 TTATAATTTTTATAACC
34936828 TTATAA-TTTTATAAC
1 TTATAATTTTTATAAC
34936843 TAAGGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATTTTTATAACC
Found at i:34945148 original size:42 final size:42
Alignment explanation
Indices: 34945076--34945184 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
34945066 TGTTGCAAAT
* * * *
34945076 GCCATATCCCAGATATGGTCTTACATGAAAT-ATCATATCGAA
1 GCCATATCCCAGATATGGTCTTATAAGAAATCA-CACACCGAA
* * * *
34945118 GCCATGTCCCTGACATGGTCTTATAAGAAATCACACACCGAT
1 GCCATATCCCAGATATGGTCTTATAAGAAATCACACACCGAA
34945160 GCCATATCCCAGATATGGTCTTATA
1 GCCATATCCCAGATATGGTCTTATA
34945185 TGGAATCTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTATAAGAAATCACACACCGAA
Found at i:34951676 original size:21 final size:20
Alignment explanation
Indices: 34951644--34951682 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34951634 ATATCAATGA
34951644 ATTTAATGTCAATTTAATCC
1 ATTTAATGTCAATTTAATCC
*
34951664 ATTTCATGCTCAATTTAAT
1 ATTTAATG-TCAATTTAAT
34951683 TCAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTAATGTCAATTTAATCC
Found at i:34959860 original size:68 final size:64
Alignment explanation
Indices: 34959768--34959989 Score: 241
Period size: 67 Copynumber: 3.4 Consensus size: 64
34959758 TAATACGGGA
* *
34959768 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTTGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTTGCATGGGTGATACT
34959833 ATG
62 ATG
* * * *
34959836 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCTAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTA--
34959900 TG
63 TG
* * ** * **
34959902 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTATG
34959966 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
34959990 CAAAATTATG
Statistics
Matches: 130, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
63 20 0.15
64 27 0.21
65 2 0.02
66 24 0.18
67 29 0.22
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTATG
Found at i:34966511 original size:63 final size:58
Alignment explanation
Indices: 34966404--34966524 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 58
34966394 ACAAAGTTTG
34966404 TAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACT
1 TAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACT
* * ** *
34966462 NNNNNTAGGGAAATGTCTGACATGCCAGCAAGTGAAAGCTGAGGTTCAATTACCTTTTGGACT
1 -----TAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACT
34966525 GTTGCAGCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.25
Consensus pattern (58 bp):
TAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACT
Found at i:34968005 original size:26 final size:26
Alignment explanation
Indices: 34967976--34968083 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34967966 TGGTACAAAT
34967976 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34968002 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34968028 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34968054 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
34968080 TGAT
1 TGAT
34968084 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34973727 original size:16 final size:17
Alignment explanation
Indices: 34973698--34973729 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34973688 AAACATTAGA
34973698 GGCAAATGTGTAAATTT
1 GGCAAATGTGTAAATTT
34973715 GGCAAAT-TGTAAATT
1 GGCAAATGTGTAAATT
34973730 ATAGGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (17 bp):
GGCAAATGTGTAAATTT
Found at i:34973742 original size:19 final size:18
Alignment explanation
Indices: 34973692--34973742 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
34973682 AATGTGAAAC
*
34973692 ATTAGAGGCAAATGTGTAA
1 ATTATAGGCAAAT-TGTAA
34973711 ATT-T-GGCAAATTGTAA
1 ATTATAGGCAAATTGTAA
34973727 ATTATAGGCTAAATTG
1 ATTATAGGC-AAATTG
34973743 AATAGACTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.29
17 8 0.29
18 3 0.11
19 9 0.32
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
ATTATAGGCAAATTGTAA
Found at i:34974146 original size:24 final size:24
Alignment explanation
Indices: 34974086--34974157 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
34974076 CGGCACACCA
* *
34974086 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACCG-T-TTT
* *
34974112 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACCGTTTT
34974136 CAGCTCGTAAGAGCTTACCGTT
1 CAGCTCGTAAGAGCTTACCGTT
34974158 CAGCTCAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 22 0.55
25 1 0.03
26 17 0.43
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCGTTTT
Found at i:34974170 original size:22 final size:23
Alignment explanation
Indices: 34974086--34974175 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 23
34974076 CGGCACACCA
* *
34974086 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCATAAGAGCTTACCG-T-T-T
*
34974112 CAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCATAAGAGCTTACCG-TTT
*
34974136 CAGCTCGTAAGAGCTTACCG-TT
1 CAGCTCATAAGAGCTTACCGTTT
34974158 CAGCTCA-ATAGAGCTTAC
1 CAGCTCATA-AGAGCTTAC
34974176 TGTCCATCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.02
22 17 0.30
24 19 0.34
25 1 0.02
26 18 0.32
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACCGTTT
Found at i:34974177 original size:46 final size:48
Alignment explanation
Indices: 34974086--34974178 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 48
34974076 CGGCACACCA
*
34974086 CAGCTCGTATGAGCTTACCGATATATCAGCTCATAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACCG--ATATCAGCTCATAAGAGCTTACTGTTTT
34974136 CAGCTCGTAAGAGCTTACCG-T-TCAGCTCA-ATAGAGCTTACTGT
1 CAGCTCGTAAGAGCTTACCGATATCAGCTCATA-AGAGCTTACTGT
34974179 CCATCAGCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 1 0.02
46 20 0.49
47 1 0.02
50 19 0.46
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (48 bp):
CAGCTCGTAAGAGCTTACCGATATCAGCTCATAAGAGCTTACTGTTTT
Found at i:34982253 original size:37 final size:37
Alignment explanation
Indices: 34982195--34982302 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
34982185 TAGCTCGAAT
* * *
34982195 AATCCCCACACGTAGTTATCGGGTTTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
34982232 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
34982269 AATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34982303 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:34982503 original size:48 final size:48
Alignment explanation
Indices: 34982443--34982732 Score: 454
Period size: 48 Copynumber: 6.0 Consensus size: 48
34982433 ATATACACAC
* *
34982443 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
34982491 ATCTCATGCATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* **
34982539 ATCTCATACATATTCCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34982587 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
34982635 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
34982683 ATCTCATACATATTTCACACTAGCCATTAGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34982731 AT
1 AT
34982733 ATTTATCTTG
Statistics
Matches: 220, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 220 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:34988174 original size:47 final size:47
Alignment explanation
Indices: 34988115--34988246 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 47
34988105 TGTAAATAAT
*
34988115 ACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTTGAGA-AGAGCA
1 ACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTTAAGATA-AGCA
* * ** **
34988162 ACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCCAAGATAAGTT
1 ACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTTAAGATAAGCA
* *
34988209 ACCTTGATTTGGCTACGGGTCATGGTATAGGTACTTTT
1 ACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTT
34988247 CAATTGTGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
47 68 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (47 bp):
ACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTTAAGATAAGCA
Found at i:34996954 original size:94 final size:93
Alignment explanation
Indices: 34996711--34996982 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 93
34996701 GGTAAAGTGC
* * *
34996711 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCGAGGTCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCAT-GAGGCCGATG-CATGTCCCAG
*
34996776 ACATGGTCTTACACT-G-ACACATCTCGTAGT
63 ACAT-GTCTTACACTAGCACACATCTCATAGT
* * * ** * * *
34996806 CTATG-CATGTCCCAGACAT-GTCTTATACTGGCTTACGTCCCGAGGCTGATGCATGTCCTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCATGAGGCCGATGCATGTCCCAGAC
* *
34996869 ATGTCTTACACTAGCACTCGTCTCAATA-T
65 ATGTCTTACACTAGCACACATCTC-ATAGT
* * *
34996898 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATGATGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCATGAGGCCGATGCATGTCCCAGAC
*
34996963 ATGTCTTACACTAGCTCACA
65 ATGTCTTACACTAGCACACA
34996983 CAAATGACCC
Statistics
Matches: 143, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
90 10 0.07
91 13 0.09
92 21 0.15
93 32 0.22
94 62 0.43
95 5 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCATGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACACATCTCATAGT
Found at i:35000696 original size:40 final size:40
Alignment explanation
Indices: 35000637--35000784 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
35000627 GAGCATTGGA
35000637 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35000677 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35000717 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35000757 ATATGTCCGGGTTAAGACCAGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
35000785 ATGTGTTTGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:35007044 original size:21 final size:21
Alignment explanation
Indices: 35007016--35007070 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
35007006 AAAATAGGGC
35007016 ACACGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
35007037 ACATGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
35007058 ACACGCCCGTGTG
1 ACACGCCCGTGTG
35007071 ACCATTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.36, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGTA
Found at i:35008223 original size:49 final size:50
Alignment explanation
Indices: 35008154--35008286 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 50
35008144 TGGGTAAAGT
* *
35008154 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATC-T-TCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCA-CATAACAAG
* * * * * *
35008203 GCCTATGCCAAGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACATAACAAG
35008253 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
35008287 ACATATCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.52
50 33 0.46
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACATAACAAG
Found at i:35008274 original size:50 final size:49
Alignment explanation
Indices: 35008153--35008320 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 49
35008143 ATGGGTAAAG
* * *
35008153 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTACAA
* * * * *
35008202 GGCCTATGCCAAGTCCCAGACATGGTCTTACACTAGCTCTCA-CATAACCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T-ACAA
35008252 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-AT-ATCT-C-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTACAA
*
35008297 TAGCTGATG-CATGTCCCAGACATG
1 T-GCCGATGCCATGTCCCAGACATG
35008321 CCTTATACTG
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
45 17 0.17
46 7 0.07
48 3 0.03
49 40 0.40
50 34 0.34
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTACAA
Found at i:35014133 original size:20 final size:20
Alignment explanation
Indices: 35014092--35014133 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
35014082 GATAGTTATG
35014092 GTATATGGAATTGGTATAGTT
1 GTATATGGAATT-GTATAGTT
35014113 GTATATGGAATT-TAGTAGTT
1 GTATATGGAATTGTA-TAGTT
35014133 G
1 G
35014134 AATTGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 6 0.30
21 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (20 bp):
GTATATGGAATTGTATAGTT
Found at i:35015446 original size:21 final size:21
Alignment explanation
Indices: 35015421--35015488 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
35015411 AATGTGTAAA
*
35015421 CAAGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTACAATT
* * *
35015442 CAAGGGTACCG-AAGTACAAAT
1 CAAGGGCA-CGTATGTACAATT
*
35015463 -AGGGGCACGTATGTACAATT
1 CAAGGGCACGTATGTACAATT
35015483 CAAGGG
1 CAAGGG
35015489 TATCAAAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
21 18 0.51
22 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (21 bp):
CAAGGGCACGTATGTACAATT
Found at i:35015469 original size:41 final size:41
Alignment explanation
Indices: 35015418--35015649 Score: 232
Period size: 41 Copynumber: 5.6 Consensus size: 41
35015408 ATCAATGTGT
*
35015418 AAACAAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * *
35015459 AAATAGGGGCACGTATGTACAATTCAAGGGTATCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * ** * *
35015500 AAATAGAGGCATGTATGTATAAATT-AAGGGTACTGAACTAC
1 AAACAGGGGCACGTATGT-GCAATTCAAGGGTACCGAAGTAC
* * * *
35015541 AAAAAAAGGGCACATATGTGCAATTCAAGGGTATCGAAGTAC
1 -AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* * * **
35015583 AAACAGAGGCACGTATGTGCAATTCAGGGGCACTAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
* *
35015624 AAACAAGGGCAAGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
35015650 GGGAATAATT
Statistics
Matches: 153, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
41 123 0.80
42 30 0.20
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTAC
Found at i:35015614 original size:21 final size:21
Alignment explanation
Indices: 35015590--35015652 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
35015580 TACAAACAGA
35015590 GGCACGTATGTGCAATTCAGG
1 GGCACGTATGTGCAATTCAGG
* * * *
35015611 GGCAC-TAAAGTACAA-ACAAG
1 GGCACGT-ATGTGCAATTCAGG
*
35015631 GGCAAGTATGTGCAATTCAGG
1 GGCACGTATGTGCAATTCAGG
35015652 G
1 G
35015653 AATAATTAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (21 bp):
GGCACGTATGTGCAATTCAGG
Found at i:35015625 original size:83 final size:82
Alignment explanation
Indices: 35015425--35015649 Score: 274
Period size: 83 Copynumber: 2.7 Consensus size: 82
35015415 TGTAAACAAG
* * * * *
35015425 GGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTACAATTCAAGGGT
1 GGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAAAAAGGGCACATATGTGCAATTCAAGGGT
*
35015490 ATCAAAGTACAAATAGA
66 ATCAAAGTACAAACAGA
* ** *
35015507 GGCATGTATGTATAAATT-AAGGGTACTGAACTACAAAAAAAGGGCACATATGTGCAATTCAAGG
1 GGCACGTATGT-GCAATTCAAGGGTACTGAAGTAC-AAAAAAGGGCACATATGTGCAATTCAAGG
*
35015571 GTATCGAAGTACAAACAGA
64 GTATCAAAGTACAAACAGA
* * * *
35015590 GGCACGTATGTGCAATTCAGGGGCACTAAAGTACAAACAAGGGCA-AGTATGTGCAATTCA
1 GGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAAAAAGGGCACA-TATGTGCAATTCA
35015650 GGGAATAATT
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.01
82 51 0.43
83 68 0.57
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (82 bp):
GGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAAAAAGGGCACATATGTGCAATTCAAGGGT
ATCAAAGTACAAACAGA
Found at i:35019353 original size:38 final size:38
Alignment explanation
Indices: 35019307--35019452 Score: 190
Period size: 38 Copynumber: 3.8 Consensus size: 38
35019297 GGCCTAAAGA
35019307 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGTAA-TATATCCGGGTTAAAT
*
35019345 CCCACAGGCTTCATGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTAATATATCCGGGTTAAAT
* *
35019383 CCCGCAAGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTAATATATCCGGGTTAAAT
* * *
35019421 CCCGCAGGCCT-AGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCA-TGCTGGTAATATATCCGGG
35019453 CCTTCGTGCC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 93 0.97
39 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGTAATATATCCGGGTTAAAT
Found at i:35019522 original size:43 final size:43
Alignment explanation
Indices: 35019445--35019526 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
35019435 GCTGGTATTA
* * **
35019445 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCAGTGATGTG
35019488 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCAGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCAGTGA
35019527 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCAGTGATGTG
Found at i:35026061 original size:23 final size:23
Alignment explanation
Indices: 35026031--35026077 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
35026021 TCGAGAAAGG
35026031 ATTGATCGGGCTTTTGTGAATTT
1 ATTGATCGGGCTTTTGTGAATTT
35026054 ATTGATCGGGCTTTTGTGAATTT
1 ATTGATCGGGCTTTTGTGAATTT
35026077 A
1 A
35026078 GAATGATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.47
Consensus pattern (23 bp):
ATTGATCGGGCTTTTGTGAATTT
Found at i:35029933 original size:15 final size:15
Alignment explanation
Indices: 35029906--35029935 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35029896 TATTGAATAG
35029906 AAATTTTCAAAAAAA
1 AAATTTTCAAAAAAA
35029921 AAATTCTTCAAAAAA
1 AAATT-TTCAAAAAA
35029936 TTTATTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTTTCAAAAAAA
Found at i:35042042 original size:21 final size:21
Alignment explanation
Indices: 35042017--35042057 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35042007 AATTGTCCAC
35042017 ATTTTT-ACAAAAGAGTAAAT
1 ATTTTTAACAAAAGAGTAAAT
35042037 ATTTTTAACAAAAGAGTAAAT
1 ATTTTTAACAAAAGAGTAAAT
35042058 GGGCTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (21 bp):
ATTTTTAACAAAAGAGTAAAT
Found at i:35045616 original size:37 final size:37
Alignment explanation
Indices: 35045555--35045646 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
35045545 ATATGTAAGG
* * * *
35045555 TTACCAGTCCAGGCTGAACATTTAAAATGACAATGGA
1 TTACCAGTCCAGGCTAAACATTTAAAACGAAAACGGA
* *
35045592 TTACCAGTCCAAGCTAAACCTTTAAAACGAAAACGGA
1 TTACCAGTCCAGGCTAAACATTTAAAACGAAAACGGA
*
35045629 TTACCAGTTCAGGCTAAA
1 TTACCAGTCCAGGCTAAA
35045647 TCTGAGTCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (37 bp):
TTACCAGTCCAGGCTAAACATTTAAAACGAAAACGGA
Found at i:35046154 original size:200 final size:200
Alignment explanation
Indices: 35045811--35046210 Score: 728
Period size: 200 Copynumber: 2.0 Consensus size: 200
35045801 CAGTGTTAAA
* *
35045811 TATATATGTACATCATTAACAACATCTACTAATGAATTGTAACCAAAGATAACGTTACGAACTTA
1 TATATATATACATCATTAACAACATCTACTAATGAATTATAACCAAAGATAACGTTACGAACTTA
*
35045876 CTAAACAAAAACGGTTGCAAAAACAAGGCCAACGACTAATCTGATAATTTAGCTTTTCCATGATC
66 CCAAACAAAAACGGTTGCAAAAACAAGGCCAACGACTAATCTGATAATTTAGCTTTTCCATGATC
*
35045941 GAAGTCCAATTATTTCGTTTCTTGATCAATTAATATTTTTCATTCAATTAATCCACTTAAGCTTA
131 GAAGTCCAATTATTTCGTTCCTTGATCAATTAATATTTTTCATTCAATTAATCCACTTAAGCTTA
35046006 TAATC
196 TAATC
*
35046011 TATATATATATATCATTAACAACATCTACTAATGAATTATAACCAAAGATAACGTTACGAACTTA
1 TATATATATACATCATTAACAACATCTACTAATGAATTATAACCAAAGATAACGTTACGAACTTA
* *
35046076 CCAAACAAAAACGGTTGCAAAAACAAGGCCATCGACTAATCTGATAATTTGGCTTTTCCATGATC
66 CCAAACAAAAACGGTTGCAAAAACAAGGCCAACGACTAATCTGATAATTTAGCTTTTCCATGATC
*
35046141 GAAGTCCAATTATTTCGTTCCTTGATCAATTAATATTTTTCATTTAATTAATCCACTTAAGCTTA
131 GAAGTCCAATTATTTCGTTCCTTGATCAATTAATATTTTTCATTCAATTAATCCACTTAAGCTTA
35046206 TAATC
196 TAATC
35046211 CCTTTTAATA
Statistics
Matches: 192, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 192 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (200 bp):
TATATATATACATCATTAACAACATCTACTAATGAATTATAACCAAAGATAACGTTACGAACTTA
CCAAACAAAAACGGTTGCAAAAACAAGGCCAACGACTAATCTGATAATTTAGCTTTTCCATGATC
GAAGTCCAATTATTTCGTTCCTTGATCAATTAATATTTTTCATTCAATTAATCCACTTAAGCTTA
TAATC
Found at i:35047651 original size:43 final size:43
Alignment explanation
Indices: 35047569--35047660 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
35047559 TGTGATTACA
* ** *
35047569 TGTAAGACCATGTCTAGGACATTTGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCATATTATGATTATG
* * *
35047612 TGTAAGACCATGTCTGGGACATTGGCATCATTTTATGATTTTG
1 TGTAAGACCATGTCTAGGACATTGGCATCATATTATGATTATG
35047655 TGTAAG
1 TGTAAG
35047661 TGTGACAGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCATATTATGATTATG
Found at i:35049362 original size:39 final size:40
Alignment explanation
Indices: 35049158--35049380 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
35049148 TTGAATGCTG
* * * * * *
35049158 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
35049198 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
35049238 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
35049278 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
35049318 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
35049357 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35049381 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:35049400 original size:79 final size:80
Alignment explanation
Indices: 35049233--35049415 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
35049223 GTGCGAGATA
* * *
35049233 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
35049298 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
35049313 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
35049377 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
35049392 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
35049416 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Done.