Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
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: 2465359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:662706 original size:22 final size:24
Alignment explanation
Indices: 662664--662707 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
662654 ACCATAATCC
662664 TCACCATCCAAACCCTCATCATGG
1 TCACCATCCAAACCCTCATCATGG
*
662688 TCACCAT-C-AACTCTCATCAT
1 TCACCATCCAAACCCTCATCAT
662708 CAAAGCCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.30, C:0.41, G:0.05, T:0.25
Consensus pattern (24 bp):
TCACCATCCAAACCCTCATCATGG
Found at i:667610 original size:31 final size:31
Alignment explanation
Indices: 667575--667639 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
667565 TCAAAAAACA
* *
667575 TAATATATTGTCACTTTCGTTTTTATTTAAT
1 TAATATATTGTCACTTTCATTTATATTTAAT
667606 TAATATATTGTCACTTTCATTTATATTTAAT
1 TAATATATTGTCACTTTCATTTATATTTAAT
667637 TAA
1 TAA
667640 AATGTGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (31 bp):
TAATATATTGTCACTTTCATTTATATTTAAT
Found at i:667650 original size:31 final size:31
Alignment explanation
Indices: 667579--667651 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
667569 AAAACATAAT
* * * *
667579 ATATTGTCACTTTCGTTTTTATTTAATTAAT
1 ATATGGTCACTTTCATTTATATTTAATTAAA
*
667610 ATATTGTCACTTTCATTTATATTTAATTAAA
1 ATATGGTCACTTTCATTTATATTTAATTAAA
*
667641 ATGTGGTCACT
1 ATATGGTCACT
667652 CTGAGTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (31 bp):
ATATGGTCACTTTCATTTATATTTAATTAAA
Found at i:673521 original size:21 final size:24
Alignment explanation
Indices: 673483--673529 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
673473 AAATACAAAA
673483 TCTAATAATCTATAATATAAATAT
1 TCTAATAATCTATAATATAAATAT
*
673507 TCTAAT-AT-TATATATATATATAT
1 TCTAATAATCTATA-ATATAAATAT
673530 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 11 0.52
24 6 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TCTAATAATCTATAATATAAATAT
Found at i:673946 original size:20 final size:20
Alignment explanation
Indices: 673905--673946 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
673895 GATATGGTCT
*
673905 TTAGAAATGATTGAAGTTTA
1 TTAGAAATGATTGAAATTTA
*
673925 TTAGAGATGATT-AAATTATA
1 TTAGAAATGATTGAAATT-TA
673945 TT
1 TT
673947 TAATTTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (20 bp):
TTAGAAATGATTGAAATTTA
Found at i:677190 original size:30 final size:31
Alignment explanation
Indices: 677154--677219 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
677144 AACACCGAAT
* *
677154 ATAATAAATAATATTATTTATTAA-CAAATA
1 ATAATAAATAATAATATTTATTAATAAAATA
677184 ATAATAAATAATAATATTTATTAATAAAATA
1 ATAATAAATAATAATATTTATTAATAAAATA
677215 ATAAT
1 ATAAT
677220 GTTATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
ATAATAAATAATAATATTTATTAATAAAATA
Found at i:677194 original size:10 final size:10
Alignment explanation
Indices: 677154--677219 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
677144 AACACCGAAT
677154 ATAATAAATA
1 ATAATAAATA
* **
677164 ATATTATTTA
1 ATAATAAATA
* *
677174 TTAACAAATA
1 ATAATAAATA
677184 ATAATAAATA
1 ATAATAAATA
**
677194 ATAATATTTA
1 ATAATAAATA
*
677204 TTAATAAAATA
1 ATAAT-AAATA
677215 ATAAT
1 ATAAT
677220 GTTATTTTTA
Statistics
Matches: 39, Mismatches: 16, Indels: 1
0.70 0.29 0.02
Matches are distributed among these distances:
10 32 0.82
11 7 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATAAATA
Found at i:677224 original size:20 final size:20
Alignment explanation
Indices: 677185--677225 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
677175 TAACAAATAA
*
677185 TAATAAATAATAATATTTAT
1 TAATAAATAATAATAGTTAT
677205 TAATAAAATAATAAT-GTTAT
1 TAAT-AAATAATAATAGTTAT
677225 T
1 T
677226 TTTAAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATAAATAATAATAGTTAT
Found at i:677231 original size:20 final size:21
Alignment explanation
Indices: 677185--677234 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
677175 TAACAAATAA
*
677185 TAAT-AAATAATAATATTTAT
1 TAATAAAATAATAATAGTTAT
677205 TAATAAAATAATAAT-GTTAT
1 TAATAAAATAATAATAGTTAT
**
677225 TTTTAAAATA
1 TAATAAAATA
677235 CTAGAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATAAAATAATAATAGTTAT
Found at i:677575 original size:34 final size:37
Alignment explanation
Indices: 677523--677610 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 37
677513 ATTGAAATAA
* *
677523 AAGTATAATATTATATATTATAATAATATAATTAT-AAC
1 AAGTATAA-AATA-ATATTATAATAATAAAATTATCAAC
* *
677561 -AGTA-AAAATAATATTATATTATTAAAATTATCAAC
1 AAGTATAAAATAATATTATAATAATAAAATTATCAAC
*
677596 AAGTATAAACTAATA
1 AAGTATAAAATAATA
677611 ATTAATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
34 18 0.43
35 6 0.14
36 6 0.14
37 12 0.29
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (37 bp):
AAGTATAAAATAATATTATAATAATAAAATTATCAAC
Found at i:679728 original size:22 final size:21
Alignment explanation
Indices: 679703--679747 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
679693 GGACATTATT
679703 GATACCACGAGAG-AGGAGTATC
1 GATACC-CGA-AGTAGGAGTATC
*
679725 GATACCCTAAGTAGGAGTATC
1 GATACCCGAAGTAGGAGTATC
679746 GA
1 GA
679748 CACTGAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 13 0.62
22 6 0.29
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (21 bp):
GATACCCGAAGTAGGAGTATC
Found at i:683268 original size:2 final size:2
Alignment explanation
Indices: 683232--683258 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
683222 GATATTCATT
683232 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
683259 TAACATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:684420 original size:20 final size:20
Alignment explanation
Indices: 684379--684425 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
684369 CTTTCAAAGA
* *
684379 GTATCGATACTCGAGGTTTG
1 GTATCGATACCCGAGGTATG
684399 GTATCGATACACCGAGG-ATG
1 GTATCGATAC-CCGAGGTATG
684419 GTATCGA
1 GTATCGA
684426 CACTGGTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCGAGGTATG
Found at i:684932 original size:22 final size:21
Alignment explanation
Indices: 684905--684977 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
684895 CGGTGCTAGT
*
684905 GCACTTTTGTATCAGTGTGAAT
1 GCACTTTTGTATCAGTGT-AAG
684927 GCACTTTTG-ATTCAGTGCTAAG
1 GCACTTTTGTA-TCAGTG-TAAG
* *
684949 GCACTTTAGTATTAGTGTTAAG
1 GCACTTTTGTATCAGTG-TAAG
684971 GCACTTT
1 GCACTTT
684978 CGTTATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 41 0.93
23 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (21 bp):
GCACTTTTGTATCAGTGTAAG
Found at i:699323 original size:31 final size:31
Alignment explanation
Indices: 699285--699345 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
699275 AATAGGGTGA
699285 AATCCACAGTGTTGGCCGTAGGTCGTCATGT
1 AATCCACAGTGTTGGCCGTAGGTCGTCATGT
699316 AATCCACAGTGTTGGCCGTAGGTCGTCATG
1 AATCCACAGTGTTGGCCGTAGGTCGTCATG
699346 CACTCCAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (31 bp):
AATCCACAGTGTTGGCCGTAGGTCGTCATGT
Found at i:699375 original size:29 final size:29
Alignment explanation
Indices: 699333--699389 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
699323 AGTGTTGGCC
*
699333 GTAGGTCGTCATGCACTCCAGGCGACCTT
1 GTAGGTCGCCATGCACTCCAGGCGACCTT
*
699362 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCAGGCGACCT
699390 ACCCTTGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCAGGCGACCTT
Found at i:699629 original size:29 final size:29
Alignment explanation
Indices: 699586--699643 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
699576 GCAATCTCTT
*
699586 GTAGCTCGCCGGGAAGACATAGCGACCTA
1 GTAGCTCGCCCGGAAGACATAGCGACCTA
* *
699615 GTAGGTCGCCCGGAAGGCATAGCGACCTA
1 GTAGCTCGCCCGGAAGACATAGCGACCTA
699644 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATAGCGACCTA
Found at i:699920 original size:2 final size:2
Alignment explanation
Indices: 699913--699950 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
699903 AAGAACTGTA
699913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
699951 CTTCCATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:703474 original size:55 final size:55
Alignment explanation
Indices: 703400--703519 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
703390 TTCTTTTAGA
* * * * * *
703400 TGCACACGTAGTGTCGATACGGTCGTTCATAAACGCATTATGAATT-TCGTGGTTT
1 TGCACACTTAGTATTGATACAGTCATTCATAAACACATTATGAATTAT-GTGGTTT
* *
703455 TGTACACTTAGTATTGATACAGTCATTCATAAACATATTATGAATTATGTGGTTT
1 TGCACACTTAGTATTGATACAGTCATTCATAAACACATTATGAATTATGTGGTTT
703510 TGCACACTTA
1 TGCACACTTA
703520 CATATTATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 54 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
TGCACACTTAGTATTGATACAGTCATTCATAAACACATTATGAATTATGTGGTTT
Found at i:704436 original size:35 final size:35
Alignment explanation
Indices: 704357--704439 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
704347 TAATTTATAA
*
704357 TTATAAGTTAAATTTTTTTTAAAATTTTATAAATT
1 TTATAAATTAAATTTTTTTTAAAATTTTATAAATT
** * * *
704392 AAAT-TATTAATTATTTTTTTAAAATTTTA-AATTT
1 TTATAAATTAAAT-TTTTTTTAAAATTTTATAAATT
704426 TTATAAATTAAATT
1 TTATAAATTAAATT
704440 AATAGTGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
34 12 0.33
35 24 0.67
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (35 bp):
TTATAAATTAAATTTTTTTTAAAATTTTATAAATT
Found at i:707133 original size:12 final size:13
Alignment explanation
Indices: 707118--707156 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
707108 TAAAAGAAAT
707118 TTTAAATTTAA-A
1 TTTAAATTTAATA
*
707130 TTTAAATTCAATA
1 TTTAAATTTAATA
707143 TTTAATATTTAATA
1 TTTAA-ATTTAATA
707157 ACTTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTAAATTTAATA
Found at i:710828 original size:2 final size:2
Alignment explanation
Indices: 710816--710845 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
710806 TACTGGTGGT
710816 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
710846 TATGTTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:713386 original size:24 final size:24
Alignment explanation
Indices: 713354--713402 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
713344 GAAGAGTACA
713354 AATACATGATATCACGTGTATCCC
1 AATACATGATATCACGTGTATCCC
* *
713378 AATACATGATATTATGTGTATCCC
1 AATACATGATATCACGTGTATCCC
713402 A
1 A
713403 TAAGCTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (24 bp):
AATACATGATATCACGTGTATCCC
Found at i:717195 original size:69 final size:69
Alignment explanation
Indices: 717078--717206 Score: 213
Period size: 69 Copynumber: 1.9 Consensus size: 69
717068 ATCTTAATAG
* * *
717078 AACATGTTTCTTAGATAATCTTACATTAACTTGAAAATGCGAGTTTTTTAACAATTTTACTTCAA
1 AACATGTTTCTTAGACAACCTTACATTAACTTGAAAATGCGAGATTTTTAACAATTTTACTTCAA
717143 TTAC
66 TTAC
* *
717147 AACATGTTTCTTAGACAACCTTACATTAACTTGAAAATGTGAGATTTTTGACAATTTTAC
1 AACATGTTTCTTAGACAACCTTACATTAACTTGAAAATGCGAGATTTTTAACAATTTTAC
717207 ATCCATTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (69 bp):
AACATGTTTCTTAGACAACCTTACATTAACTTGAAAATGCGAGATTTTTAACAATTTTACTTCAA
TTAC
Found at i:722677 original size:12 final size:12
Alignment explanation
Indices: 722660--722686 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
722650 CTCTCTCACA
722660 AAATGTTCAACC
1 AAATGTTCAACC
722672 AAATGTTCAACC
1 AAATGTTCAACC
722684 AAA
1 AAA
722687 CATTTCGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (12 bp):
AAATGTTCAACC
Found at i:723025 original size:21 final size:21
Alignment explanation
Indices: 722977--723019 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
722967 AAAAAAAAAG
722977 AGAAAAAAGTCTCTAGGGTTT
1 AGAAAAAAGTCTCTAGGGTTT
722998 AGAAAAAAGTCTCTAGGGTTT
1 AGAAAAAAGTCTCTAGGGTTT
723019 A
1 A
723020 ATAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (21 bp):
AGAAAAAAGTCTCTAGGGTTT
Found at i:737352 original size:7 final size:7
Alignment explanation
Indices: 737342--737371 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
737332 AGACTTTTAC
737342 TTTTT-T
1 TTTTTGT
737348 TTTTTGT
1 TTTTTGT
737355 TTTTTGT
1 TTTTTGT
737362 TTTTTGT
1 TTTTTGT
737369 TTT
1 TTT
737372 CCCCTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTTGT
Found at i:738889 original size:59 final size:60
Alignment explanation
Indices: 738813--738934 Score: 165
Period size: 59 Copynumber: 2.0 Consensus size: 60
738803 GAACATATGA
* * * **
738813 ATAGTCGAGTGACCATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACCAT
1 ATAGTCGAGGGACCATTTTATAACTTTTAATAATCAACAGACTCAACAAAGCAACACCAT
* * *
738873 ATAGTC-AGGGACCATTTTATAACTTTTCATAATTAACAGACTCAACAAAGCATCACCAT
1 ATAGTCGAGGGACCATTTTATAACTTTTAATAATCAACAGACTCAACAAAGCAACACCAT
738932 ATA
1 ATA
738935 ATAAAGGACT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
59 48 0.89
60 6 0.11
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (60 bp):
ATAGTCGAGGGACCATTTTATAACTTTTAATAATCAACAGACTCAACAAAGCAACACCAT
Found at i:743030 original size:21 final size:21
Alignment explanation
Indices: 743014--743058 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
743004 AGTTGATCTG
*
743014 ATTGATTTTCAATTTGATGAA
1 ATTGATTTTCAATTTGATCAA
743035 ATTGATTTTCAATTTGATCAA
1 ATTGATTTTCAATTTGATCAA
743056 ATT
1 ATT
743059 ATGTGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (21 bp):
ATTGATTTTCAATTTGATCAA
Found at i:746131 original size:19 final size:21
Alignment explanation
Indices: 746094--746132 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
746084 GGAGGGAGAA
746094 AATATAATAAAAAATATTTAG
1 AATATAATAAAAAATATTTAG
746115 AATAT-ATAAAAAA-ATTTA
1 AATATAATAAAAAATATTTA
746133 AAATTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AATATAATAAAAAATATTTAG
Found at i:746953 original size:16 final size:16
Alignment explanation
Indices: 746932--746972 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
746922 TTAATAATCT
746932 GTTAAAAATTAAATTA
1 GTTAAAAATTAAATTA
746948 GTTAAAAATTAAATTA
1 GTTAAAAATTAAATTA
*
746964 ATTAAAAAT
1 GTTAAAAAT
746973 GATATTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
GTTAAAAATTAAATTA
Found at i:746985 original size:16 final size:16
Alignment explanation
Indices: 746934--746985 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
746924 AATAATCTGT
*
746934 TAAAAATTAAATTAGT
1 TAAAAATTAAATTAGA
746950 TAAAAATTAAATTA-A
1 TAAAAATTAAATTAGA
* *
746965 TTAAAAATGATATTAGA
1 -TAAAAATTAAATTAGA
746982 TAAA
1 TAAA
746986 TATGGTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TAAAAATTAAATTAGA
Found at i:761271 original size:21 final size:18
Alignment explanation
Indices: 761247--761295 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
761237 TTATTATGCC
761247 AGTTACAAATATAATTACATG
1 AGTTACAAA-ATAATT--ATG
*
761268 AGTTACAGAAGTAATTATG
1 AGTTACA-AAATAATTATG
761287 AGTTACAAA
1 AGTTACAAA
761296 CGGCTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 10 0.38
21 12 0.46
22 2 0.08
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (18 bp):
AGTTACAAAATAATTATG
Found at i:762163 original size:17 final size:18
Alignment explanation
Indices: 762120--762167 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
762110 TGTTTATGAG
*
762120 GGAATTAGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
762138 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
*
762155 GGGATTGGAATCT
1 GGAATTGGAATCT
762168 AATTCCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:766030 original size:19 final size:19
Alignment explanation
Indices: 766006--766044 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
765996 TTTTAAAATG
766006 TTGA-TTTGATATATGAATT
1 TTGATTTTGAT-TATGAATT
*
766025 TTGATTTTGATTATGGATT
1 TTGATTTTGATTATGAATT
766044 T
1 T
766045 ATACCCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (19 bp):
TTGATTTTGATTATGAATT
Found at i:776073 original size:40 final size:40
Alignment explanation
Indices: 775998--776080 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
775988 ATATCTAAAG
* * *
775998 TTTAGTTTTTATATTATTTTAATACCTCGTCGTTAAAAAC
1 TTTAATTTTTATATTATTTTAATACATCGACGTTAAAAAC
* *
776038 TTTAATTTTTATTTTATTTTAATATATC-ACGGTTAAAAAC
1 TTTAATTTTTATATTATTTTAATACATCGAC-GTTAAAAAC
776078 TTT
1 TTT
776081 GTTTGGTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (40 bp):
TTTAATTTTTATATTATTTTAATACATCGACGTTAAAAAC
Found at i:777149 original size:35 final size:35
Alignment explanation
Indices: 777082--777149 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
777072 AAAATTTTAA
* *
777082 TTTTTATTTCATTTCAACACCCTTTGTTAAATTAG
1 TTTTTATTTCATTTCAACACCCGTTGTAAAATTAG
777117 TTTTTATTTCATTTCAGTAC-CCCGTT-TAAAATT
1 TTTTTATTTCATTTCA--ACACCCGTTGTAAAATT
777150 TACCGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 22 0.76
36 5 0.17
37 2 0.07
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (35 bp):
TTTTTATTTCATTTCAACACCCGTTGTAAAATTAG
Found at i:777194 original size:21 final size:21
Alignment explanation
Indices: 777168--777213 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
777158 AGTTTTGAAA
777168 AAAAATGAAAGTTCAGGTACC
1 AAAAATGAAAGTTCAGGTACC
** * *
777189 AAAAATGTTAGTTTAGGTACT
1 AAAAATGAAAGTTCAGGTACC
777210 AAAA
1 AAAA
777214 GCGTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAATGAAAGTTCAGGTACC
Found at i:777219 original size:21 final size:21
Alignment explanation
Indices: 777177--777219 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
777167 AAAAAATGAA
*
777177 AGTTCAGGTACCAAAAATGTT
1 AGTTCAGGTACCAAAAACGTT
* * *
777198 AGTTTAGGTACTAAAAGCGTT
1 AGTTCAGGTACCAAAAACGTT
777219 A
1 A
777220 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (21 bp):
AGTTCAGGTACCAAAAACGTT
Found at i:778517 original size:21 final size:20
Alignment explanation
Indices: 778479--778518 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
778469 AATAATTATG
* *
778479 TTTATTTAATAAAGTAAATA
1 TTTATTTAAAAAAATAAATA
778499 TTTATTTTAAAAAAATAAAT
1 TTTA-TTTAAAAAAATAAAT
778519 TGACTCCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTATTTAAAAAAATAAATA
Found at i:781597 original size:24 final size:24
Alignment explanation
Indices: 781570--781622 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
781560 TGGTTTAATT
* *
781570 ACAATCGATATTTTCGGGTCGATG
1 ACAATAGATATTTTCGGGTCAATG
*
781594 ACAATAGATATTTTTGGGTCAATG
1 ACAATAGATATTTTCGGGTCAATG
781618 ACAAT
1 ACAAT
781623 GGTCAATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (24 bp):
ACAATAGATATTTTCGGGTCAATG
Found at i:792430 original size:2 final size:2
Alignment explanation
Indices: 792423--792451 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
792413 TGCCTATCAT
792423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
792452 TAATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:795797 original size:19 final size:18
Alignment explanation
Indices: 795750--795802 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
795740 TGAAATTAAA
*
795750 TTATGAATCTAGAATAAG
1 TTATGAATCTGGAATAAG
*
795768 TTATGAGTCTGGAAATAAG
1 TTATGAATCTGG-AATAAG
*
795787 TTCTGAATCTGAGAAT
1 TTATGAATCTG-GAAT
795803 GAATTCTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 18 0.62
20 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (18 bp):
TTATGAATCTGGAATAAG
Found at i:795895 original size:2 final size:2
Alignment explanation
Indices: 795883--795912 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
795873 AGAAGTTTTG
*
795883 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
795913 GAAAAGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807410 original size:2 final size:2
Alignment explanation
Indices: 807351--807393 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
807341 AAGTTTAAAT
807351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
807393 T
1 T
807394 TATGGATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:817561 original size:16 final size:16
Alignment explanation
Indices: 817531--817572 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
817521 AAAAATAGAT
*
817531 TTAATATGAAGGAGAAA
1 TTAA-ATGAAAGAGAAA
817548 TTAAATGAAAGAGAAA
1 TTAAATGAAAGAGAAA
817564 TTAAATGAA
1 TTAAATGAA
817573 TAAATCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (16 bp):
TTAAATGAAAGAGAAA
Found at i:823880 original size:15 final size:16
Alignment explanation
Indices: 823858--823896 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
823848 TTCTCCCATG
823858 TAATAAAAA-TAATAA
1 TAATAAAAATTAATAA
* *
823873 TTATAAAAATTAATGA
1 TAATAAAAATTAATAA
823889 TAATAAAA
1 TAATAAAA
823897 TATATAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATAAAAATTAATAA
Found at i:825092 original size:6 final size:6
Alignment explanation
Indices: 825075--825111 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
825065 ACGAAAAATC
825075 ATTTAT ATTTTAT ATTTAT ATTTAT ATTTA- ATTTAT A
1 ATTTAT A-TTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
825112 AAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTAT
Found at i:825099 original size:19 final size:17
Alignment explanation
Indices: 825075--825111 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
825065 ACGAAAAATC
825075 ATTTATATTTTATATTTAT
1 ATTTATA-TTTA-ATTTAT
825094 ATTTATATTTAATTTAT
1 ATTTATATTTAATTTAT
825111 A
1 A
825112 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATATTTAATTTAT
Found at i:828017 original size:19 final size:19
Alignment explanation
Indices: 827995--828031 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
827985 TGTCGTCTGA
827995 GTTAAAT-AATATCAACTTG
1 GTTAAATAAATA-CAACTTG
828014 GTTAAATAAATACAACTT
1 GTTAAATAAATACAACTT
828032 ATAATATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (19 bp):
GTTAAATAAATACAACTTG
Found at i:831797 original size:29 final size:29
Alignment explanation
Indices: 831754--831836 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
831744 CTCACCTAAC
831754 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
831784 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
831813 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
831837 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:836565 original size:29 final size:29
Alignment explanation
Indices: 836522--836604 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
836512 CTCACCTAAC
836522 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
836552 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
836581 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
836605 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:846124 original size:17 final size:18
Alignment explanation
Indices: 846102--846144 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
846092 CATTTCAAAA
846102 AATAAAATAC-AAATAAC
1 AATAAAATACAAAATAAC
846119 AATAAAATACTAAAATAAC
1 AATAAAATAC-AAAATAAC
*
846138 CATAAAA
1 AATAAAA
846145 AAGTCCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
19 13 0.57
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.19
Consensus pattern (18 bp):
AATAAAATACAAAATAAC
Found at i:847395 original size:23 final size:23
Alignment explanation
Indices: 847365--847427 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
847355 ACCGAGTAGA
847365 ATTTGTCCCGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
847388 ATTTGTCCCGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
847411 ATTTGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
847428 GCGTTGAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACCACATAG
Found at i:849611 original size:3 final size:3
Alignment explanation
Indices: 849603--849665 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
849593 TTAGTCTTTA
* * *
849603 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
849651 AAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT
849666 TTATGACAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:849945 original size:38 final size:37
Alignment explanation
Indices: 849875--849987 Score: 181
Period size: 37 Copynumber: 3.0 Consensus size: 37
849865 GGGAATGTTA
849875 GTGTATACAAGGACGGAAGCAAGATATTATATTAGAG
1 GTGTATACAAGGACGGAAGCAAGATATTATATTAGAG
* *
849912 GTGTATACAAGGAACGAAAGTAAGATATTATATTAGAG
1 GTGTATACAAGG-ACGGAAGCAAGATATTATATTAGAG
* *
849950 GTGTATACAGGGACGGAAGCAGGATATTATATTAGAG
1 GTGTATACAAGGACGGAAGCAAGATATTATATTAGAG
849987 G
1 G
849988 GACGAATTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
37 35 0.51
38 34 0.49
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (37 bp):
GTGTATACAAGGACGGAAGCAAGATATTATATTAGAG
Found at i:850205 original size:21 final size:22
Alignment explanation
Indices: 850161--850205 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
850151 GATTAAATTG
* * *
850161 AATTTATTCAAAGTTTTCATCA
1 AATTAATTCAAAGTTCTAATCA
850183 AATTAATTCAAAG-TCTAATCA
1 AATTAATTCAAAGTTCTAATCA
850204 AA
1 AA
850206 ACCTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTAATTCAAAGTTCTAATCA
Found at i:850278 original size:21 final size:20
Alignment explanation
Indices: 850232--850278 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
850222 TTTGACCAGA
* * *
850232 AGTTTCGAAACTTCTACAAG
1 AGTTTCGAAACTTCCAAAAC
850252 AGTTTCGAAACTTTCCAAAAC
1 AGTTTCGAAAC-TTCCAAAAC
850273 AGTTTC
1 AGTTTC
850279 CCAAAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (20 bp):
AGTTTCGAAACTTCCAAAAC
Found at i:850310 original size:20 final size:20
Alignment explanation
Indices: 850285--850334 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
850275 TTTCCCAAAA
* * *
850285 AGTTTCGATATTTTTTCAAG
1 AGTTTCGAAATTGTCTCAAG
850305 AGTTTCGAAATTGTCTCAAG
1 AGTTTCGAAATTGTCTCAAG
*
850325 AGTTCCGAAA
1 AGTTTCGAAA
850335 CTTTCCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (20 bp):
AGTTTCGAAATTGTCTCAAG
Found at i:853487 original size:20 final size:20
Alignment explanation
Indices: 853464--853549 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
853454 AGAAGTTTTG
853464 AAACTTCTACAAGAGTTTCA
1 AAACTTCTACAAGAGTTTCA
* * * *
853484 AAACTTTCCAAAACAGTTTCG
1 AAAC-TTCTACAAGAGTTTCA
* *
853505 ATACTT-TGCAAGAGTTTCA
1 AAACTTCTACAAGAGTTTCA
*
853524 AAACTATCT-CAAGAGTTTCG
1 AAACT-TCTACAAGAGTTTCA
853544 AAACTT
1 AAACTT
853550 TCCCTAAAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
19 13 0.25
20 22 0.43
21 16 0.31
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (20 bp):
AAACTTCTACAAGAGTTTCA
Found at i:866743 original size:16 final size:18
Alignment explanation
Indices: 866722--866758 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
866712 CTATAGTAAT
866722 TTTTTA-ATTCT-TAAAA
1 TTTTTATATTCTATAAAA
*
866738 TTTTTATATTTTATAAAA
1 TTTTTATATTCTATAAAA
866756 TTT
1 TTT
866759 CTTTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATATTCTATAAAA
Found at i:873163 original size:56 final size:56
Alignment explanation
Indices: 873017--873209 Score: 266
Period size: 56 Copynumber: 3.5 Consensus size: 56
873007 GAGGCTTCGA
* * *
873017 AAGGGTCCTGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCATAAAAAT
1 AAGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCTATTAAGAAGCATAAAAAT
* *
873073 -AGGGCCCCAAAATCGAATATATCTATCAGTTGTTGCTATTAAGAAGCATAAAAAT
1 AAGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCTATTAAGAAGCATAAAAAT
* * * *
873128 AAGGGTCCTGAAATC-AAGTATATCTATTAGTTGTTG-TCATTAATAAGTATAAAAAT
1 AAGGGTCCCGAAATCGAA-TATATCTATCAGTTGTTGCT-ATTAAGAAGCATAAAAAT
873184 AAGGGTCCCGAAATCGAATATATCTA
1 AAGGGTCCCGAAATCGAATATATCTA
873210 AAAATAAAGT
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
55 53 0.44
56 66 0.55
57 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (56 bp):
AAGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCTATTAAGAAGCATAAAAAT
Found at i:879141 original size:18 final size:18
Alignment explanation
Indices: 879089--879149 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
879079 AAACCGAAAC
879089 CGGTTTTTTCGGTTCGGTT
1 CGGTTTTTTCGG-TCGGTT
**
879108 CGGGTTTTTT--AACGGTT
1 C-GGTTTTTTCGGTCGGTT
*
879125 TGGTTTTTTCGGTCGGTT
1 CGGTTTTTTCGGTCGGTT
879143 CGGTTTT
1 CGGTTTT
879150 CGGTTTTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 11 0.33
19 1 0.03
20 8 0.24
ACGTcount: A:0.03, C:0.13, G:0.31, T:0.52
Consensus pattern (18 bp):
CGGTTTTTTCGGTCGGTT
Found at i:882601 original size:24 final size:22
Alignment explanation
Indices: 882574--882633 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
882564 CTAATCAACT
882574 AATTATTTTTAAAAATATAATTAA
1 AATTATTTTTAAAAA-ATAA-TAA
* *
882598 AATTATTAGTTAAAAAATTATAA
1 AATTATT-TTTAAAAAATAATAA
882621 AATGTATTTTTAA
1 AAT-TATTTTTAA
882634 CATAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.32
24 14 0.45
25 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
AATTATTTTTAAAAAATAATAA
Found at i:889146 original size:29 final size:28
Alignment explanation
Indices: 889112--889171 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
889102 CGAATCGAAT
* * *
889112 GAACTCGACTCGAGCTTGAACTCGAGCTC
1 GAACTCAACTCGAGCTCGAACACGA-CTC
889141 GAACTCAACTCGAGCTCGAACACGACTC
1 GAACTCAACTCGAGCTCGAACACGACTC
889169 GAA
1 GAA
889172 TTCTTAACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.17
Consensus pattern (28 bp):
GAACTCAACTCGAGCTCGAACACGACTC
Found at i:889158 original size:6 final size:6
Alignment explanation
Indices: 889099--889171 Score: 59
Period size: 6 Copynumber: 13.2 Consensus size: 6
889089 CTCGATCAAC
* * *
889099 ACTCGA A-TCGA A-T-GA ACTCG- ACTCGA GCTTGA ACTCGA GCTCGA
1 ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA
* *
889143 ACTC-A ACTCGA GCTCGA ACACG- ACTCGA A
1 ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA A
889172 TTCTTAACGA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
4 3 0.06
5 21 0.40
6 28 0.54
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (6 bp):
ACTCGA
Found at i:889168 original size:17 final size:17
Alignment explanation
Indices: 889130--889170 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
889120 CTCGAGCTTG
*
889130 AACTCGAGCTCGAACTC
1 AACTCGAGCTCGAACAC
889147 AACTCGAGCTCGAACAC
1 AACTCGAGCTCGAACAC
*
889164 GACTCGA
1 AACTCGA
889171 ATTCTTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.20, T:0.15
Consensus pattern (17 bp):
AACTCGAGCTCGAACAC
Found at i:897603 original size:71 final size:70
Alignment explanation
Indices: 897473--897607 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 70
897463 GGGCACATGC
* * * * * * *
897473 CCACTATGAATCTGAATTTTTGATTACTTATTTATTTTACTGATGGTGTCCATCGTGAAATTTTT
1 CCACTATGAATCTGAATTTTTCAATACTTACTTATTTTACGGATGATGCCCACCGTGAAATTTTT
897538 TGTGT
66 TGTGT
* * * *
897543 CCACTCTGTAATCTGAGTTTTTCAATAGTTACTTATTTTACGGATGATGCCCACCTTGAAATTTT
1 CCACTATG-AATCTGAATTTTTCAATACTTACTTATTTTACGGATGATGCCCACCGTGAAATTTT
897608 ATTTGTACCC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
70 7 0.13
71 46 0.87
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (70 bp):
CCACTATGAATCTGAATTTTTCAATACTTACTTATTTTACGGATGATGCCCACCGTGAAATTTTT
TGTGT
Found at i:899964 original size:26 final size:25
Alignment explanation
Indices: 899935--899989 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
899925 AAATACTTTA
899935 ATTTTAAACTAAACTTTTCAA-AAAAT
1 ATTTTAAA-T-AACTTTTCAACAAAAT
*
899961 ATTTTTAAATCACTTTTCAACAAAAT
1 A-TTTTAAATAACTTTTCAACAAAAT
899987 ATT
1 ATT
899990 AATTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 11 0.42
26 8 0.31
27 7 0.27
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTAAATAACTTTTCAACAAAAT
Found at i:900305 original size:8 final size:8
Alignment explanation
Indices: 900254--900310 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
900244 GAAATTCAGA
900254 AAAAAAACT
1 AAAAAAA-T
900263 AAAAAAAT
1 AAAAAAAT
*
900271 ATAATAGAAT
1 A-AA-AAAAT
* *
900281 ATAGAAAT
1 AAAAAAAT
900289 AAAATAAAT
1 AAAA-AAAT
900298 AAAAAAAT
1 AAAAAAAT
900306 AAAAA
1 AAAAA
900311 TGATATAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 16 0.41
9 18 0.46
10 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:905419 original size:177 final size:177
Alignment explanation
Indices: 905124--906007 Score: 1426
Period size: 177 Copynumber: 5.0 Consensus size: 177
905114 TAATCATCTG
* * * ** *
905124 TATCTGATTTATTGATCAACTAGATTCGGATTA-GATACTAT-GAGGTAATGGTGACTCCCCCAA
1 TATCTGATCTATTAATCAACTAGATTCGGATCATG-TACTATAGAGGTAATGACGACTCTCCCAA
* *
905187 CCAATTAACTCTATTTGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCT
65 CCAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCT
*
905252 TCATCCCACCTGACCAACTAATTGTTGGTTTAGTGATGTAATAATTAA
130 TCATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
* *
905300 TATCTGATCTATTAATCAACTAGATTCGGATCATGTACTATAAAGGTAATGACGACTCACCCAAC
1 TATCTGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGTAATGACGACTCTCCCAAC
* *
905365 TAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTATTGCTT
66 CAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCTT
905430 CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
131 CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
* * *
905477 TATATGGTCTATTAATCAACTAGATTCAGATCATGTACTATAGAGGTAATGACGACTCTCCCAAC
1 TATCTGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGTAATGACGACTCTCCCAAC
*
905542 CAATTTACTCTATTCGCAATAGTCAGGGTTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCTT
66 CAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCTT
905607 CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
131 CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
* *
905654 TATATGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGCAATGACGACTCTCCCAAC
1 TATCTGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGTAATGACGACTCTCCCAAC
* *
905719 CAATTTACTCTATTCGCAATAGTCAGGA-TTGAACCATTGAGTTTGTTTAAGGGATCTACTGCTT
66 CAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCTT
905783 CATCCCACCTGA-CAACTGATTGTTGGTTTAGTGATGTAATAATTAA
131 CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
* *
905829 TA-CATGATCTATTAATCAACTAGATTCGGATCAGGTAGTATAGAGGTAAT---GACTCTCCCAA
1 TATC-TGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGTAATGACGACTCTCCCAA
* * *
905890 CCAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACCTTATTTAAGGGATGTAGTG-T
65 CCAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCT
* *
905954 CTCATCCTATCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
130 -TCATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
906003 TATCT
1 TATCT
906008 CATCAAAGGG
Statistics
Matches: 664, Mismatches: 37, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
172 41 0.06
173 39 0.06
174 37 0.06
175 80 0.12
176 82 0.12
177 385 0.58
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (177 bp):
TATCTGATCTATTAATCAACTAGATTCGGATCATGTACTATAGAGGTAATGACGACTCTCCCAAC
CAATTTACTCTATTCGCAATAGTCAGGATTTGAACCATTGACTTTGTTTAAGGGATCTAGTGCTT
CATCCCACCTGACCAACTGATTGTTGGTTTAGTGATGTAATAATTAA
Found at i:906389 original size:5 final size:5
Alignment explanation
Indices: 906354--906400 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
906344 TATCATTGGC
* * *
906354 TTTA- TTTAT TTAAT TTAAT TTAAT TTT-T TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
906401 ACATTACCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
4 8 0.21
5 31 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:906496 original size:2 final size:2
Alignment explanation
Indices: 906489--906514 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
906479 ACAAATCTAC
906489 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
906515 GCACTAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:909027 original size:17 final size:17
Alignment explanation
Indices: 908995--909030 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
908985 ATAAAATATA
908995 AAAAGTATAATAATAAT
1 AAAAGTATAATAATAAT
* *
909012 AAAAGTATATTTATAAT
1 AAAAGTATAATAATAAT
909029 AA
1 AA
909031 CTCACTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAAGTATAATAATAAT
Found at i:909911 original size:21 final size:21
Alignment explanation
Indices: 909872--909911 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
909862 AAAAAAATCC
*
909872 AACCCGGTCGGGTCGGGTCGG
1 AACCCGGTCGGGTCAGGTCGG
909893 AACCC-GTCGGGTTCAGGTC
1 AACCCGGTCGGG-TCAGGTC
909912 CCTTTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.30, G:0.40, T:0.17
Consensus pattern (21 bp):
AACCCGGTCGGGTCAGGTCGG
Found at i:916535 original size:22 final size:22
Alignment explanation
Indices: 916487--916539 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
916477 CCAAAATAAT
*
916487 AAAAAAT-ATTATTTCTATTCA
1 AAAAAATAATTATTTCAATTCA
*
916508 ATAAAAATAATTATTT-AATTGA
1 A-AAAAATAATTATTTCAATTCA
916530 AAAAAATAAT
1 AAAAAATAAT
916540 ATATAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 11 0.39
23 7 0.25
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAAATAATTATTTCAATTCA
Found at i:916834 original size:57 final size:57
Alignment explanation
Indices: 916746--916918 Score: 294
Period size: 57 Copynumber: 3.0 Consensus size: 57
916736 AGAAGCTTGA
*
916746 TGAATAAGGTAAATGGACTTAGGGACTGTTTGTTTGTCTCTTAATGAAACCATTCAG
1 TGAATAAGGTAAATGGACTTAGGGGCTGTTTGTTTGTCTCTTAATGAAACCATTCAG
* * *
916803 TGAATAAGGTAAATGGACTTAGGGGTTGTTTGTTTGTCTCTTAATGGAATCATTCAG
1 TGAATAAGGTAAATGGACTTAGGGGCTGTTTGTTTGTCTCTTAATGAAACCATTCAG
916860 TGAATAAGGTAAATGGACTTAGGGGCTGTTTGTTTGTCTCTTAAT-AGAACCATTCAG
1 TGAATAAGGTAAATGGACTTAGGGGCTGTTTGTTTGTCTCTTAATGA-AACCATTCAG
916917 TG
1 TG
916919 TTGAATGTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 108 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (57 bp):
TGAATAAGGTAAATGGACTTAGGGGCTGTTTGTTTGTCTCTTAATGAAACCATTCAG
Found at i:917131 original size:15 final size:16
Alignment explanation
Indices: 917095--917133 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
917085 AGAACCTCTG
*
917095 AATCATTCAACATTTA
1 AATCATTCAACACTTA
*
917111 AATCATTCAACGCTT-
1 AATCATTCAACACTTA
917126 AATCATTC
1 AATCATTC
917134 TGAAGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (16 bp):
AATCATTCAACACTTA
Found at i:927636 original size:2 final size:2
Alignment explanation
Indices: 927592--927618 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
927582 GCAAGTCCAT
927592 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
927619 CATTGATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:927756 original size:7 final size:8
Alignment explanation
Indices: 927739--927773 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
927729 TAAAAGTGTA
927739 TATATAAG
1 TATATAAG
927747 TATA-AAG
1 TATATAAG
927754 TATATAA-
1 TATATAAG
927761 TATATAAG
1 TATATAAG
927769 TATAT
1 TATAT
927774 GTATATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (8 bp):
TATATAAG
Found at i:927763 original size:22 final size:21
Alignment explanation
Indices: 927738--927780 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
927728 ATAAAAGTGT
927738 ATATATAAGTATAAAGTATATA
1 ATATATAAGTAT-AAGTATATA
*
927760 ATATATAAGTATATGTATATA
1 ATATATAAGTATAAGTATATA
927781 TTGAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
ATATATAAGTATAAGTATATA
Found at i:927781 original size:16 final size:15
Alignment explanation
Indices: 927739--927773 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
927729 TAAAAGTGTA
927739 TATATAAGTATA-AAG
1 TATATAA-TATATAAG
927754 TATATAATATATAAG
1 TATATAATATATAAG
927769 TATAT
1 TATAT
927774 GTATATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (15 bp):
TATATAATATATAAG
Found at i:927789 original size:22 final size:22
Alignment explanation
Indices: 927742--927789 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
927732 AAGTGTATAT
*
927742 ATAAGTATAAAGTATATAATAT
1 ATAAGTATAAAGTATATAATAA
* *
927764 ATAAGTAT-ATGTATATATTGAA
1 ATAAGTATAAAGTATATAAT-AA
927786 ATAA
1 ATAA
927790 ATACAAGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAAGTATAAAGTATATAATAA
Found at i:928065 original size:17 final size:17
Alignment explanation
Indices: 928035--928082 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 17
928025 CGCACACATA
928035 TATATAAAAGTATATAAAC
1 TATAT-AAA-TATATAAAC
928054 TATATAAATATATAAAC
1 TATATAAATATATAAAC
*
928071 TATATATATATA
1 TATATAAATATA
928083 GTATATAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 20 0.71
18 3 0.11
19 5 0.18
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TATATAAATATATAAAC
Found at i:928074 original size:15 final size:16
Alignment explanation
Indices: 928045--928082 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
928035 TATATAAAAG
928045 TATATAAACTATATAAA
1 TATATAAAC-ATATAAA
*
928062 TATATAAAC-TATATA
1 TATATAAACATATAAA
928077 TATATA
1 TATATA
928083 GTATATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATAAACATATAAA
Found at i:928106 original size:40 final size:39
Alignment explanation
Indices: 928033--928129 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 39
928023 CGCGCACACA
*
928033 TATATATAAAAGTATATAAACTATATAAATATATA-AAC
1 TATATATATAAGTATATAAACTATATAAATATATATAAC
*
928071 TATATATATATAGTATATAAACTATA-AATTATATATATAAG
1 TATATATATA-AGTATATAAACTATATAA--ATATATATAAC
*
928112 TATATACATAAGTATATA
1 TATATATATAAGTATATA
928130 TGTGATGTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
38 11 0.21
39 15 0.29
40 15 0.29
41 11 0.21
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (39 bp):
TATATATATAAGTATATAAACTATATAAATATATATAAC
Found at i:928219 original size:12 final size:12
Alignment explanation
Indices: 928033--928206 Score: 75
Period size: 12 Copynumber: 13.8 Consensus size: 12
928023 CGCGCACACA
*
928033 TATATATAAAAG
1 TATATATATAAG
*
928045 TATATAAACTATA-
1 TATATATA-TA-AG
* *
928058 TAAATATATAAAC
1 TATATATAT-AAG
928071 TATATATATATAG
1 TATATATATA-AG
*
928084 TATATAAACTATAAAT
1 TATAT--A-TAT-AAG
928100 TATATATATAAG
1 TATATATATAAG
*
928112 TATATACATAAG
1 TATATATATAAG
* *
928124 TATATATGTGATG
1 TATATATAT-AAG
* * * *
928137 TATGTACACAAA
1 TATATATATAAG
*
928149 TAGATATATAAG
1 TATATATATAAG
*
928161 CATATATACATAA-
1 --TATATATATAAG
*
928174 -ATATATACAAG
1 TATATATATAAG
*
928185 TATATACATAAG
1 TATATATATAAG
*
928197 TTTATATATA
1 TATATATATA
928207 TATATAAGTA
Statistics
Matches: 117, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
10 8 0.07
12 55 0.47
13 32 0.27
14 11 0.09
15 1 0.01
16 9 0.08
17 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.37
Consensus pattern (12 bp):
TATATATATAAG
Found at i:929124 original size:26 final size:26
Alignment explanation
Indices: 929064--929124 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
929054 AATCTCATAT
*
929064 TCGAGTTCATTTCAATCGGATGCAGG
1 TCGAGTTCGTTTCAATCGGATGCAGG
929090 TCGAGTTCGTTTCAATCGGATGCAGG
1 TCGAGTTCGTTTCAATCGGATGCAGG
929116 TCGAGTTCG
1 TCGAGTTCG
929125 ATTATCATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (26 bp):
TCGAGTTCGTTTCAATCGGATGCAGG
Found at i:934794 original size:29 final size:29
Alignment explanation
Indices: 934761--934845 Score: 170
Period size: 29 Copynumber: 2.9 Consensus size: 29
934751 TCCCCAAACA
934761 TAGGTCGCCATGCAATCCTGGCGACCTTG
1 TAGGTCGCCATGCAATCCTGGCGACCTTG
934790 TAGGTCGCCATGCAATCCTGGCGACCTTG
1 TAGGTCGCCATGCAATCCTGGCGACCTTG
934819 TAGGTCGCCATGCAATCCTGGCGACCT
1 TAGGTCGCCATGCAATCCTGGCGACCT
934846 ACCCTTGCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCAATCCTGGCGACCTTG
Found at i:934933 original size:14 final size:14
Alignment explanation
Indices: 934914--935001 Score: 149
Period size: 14 Copynumber: 6.3 Consensus size: 14
934904 CTCACATAAT
934914 TCGGTCGGATGGCC
1 TCGGTCGGATGGCC
*
934928 TCGGTCGGATGCCC
1 TCGGTCGGATGGCC
*
934942 TTGGTCGGATGGCC
1 TCGGTCGGATGGCC
934956 TCGGTCGGATGGCC
1 TCGGTCGGATGGCC
934970 TCGGTCGGATGGCC
1 TCGGTCGGATGGCC
*
934984 TCGGTTGGATGGCC
1 TCGGTCGGATGGCC
934998 TCGG
1 TCGG
935002 ATGCTCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 69 1.00
ACGTcount: A:0.07, C:0.27, G:0.42, T:0.24
Consensus pattern (14 bp):
TCGGTCGGATGGCC
Found at i:937148 original size:13 final size:13
Alignment explanation
Indices: 937130--937168 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
937120 TAAACAGTTG
937130 ATCAAATCAGCTA
1 ATCAAATCAGCTA
* *
937143 ATCAAATCAGTTG
1 ATCAAATCAGCTA
*
937156 ATCAAACCAGCTA
1 ATCAAATCAGCTA
937169 TTGGAATCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (13 bp):
ATCAAATCAGCTA
Found at i:937229 original size:41 final size:41
Alignment explanation
Indices: 937182--937264 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
937172 GAATCAACTA
937182 CCAACTATCAGTTATTTGCCAAATACTCCCTAAATAAATAG
1 CCAACTATCAGTTATTTGCCAAATACTCCCTAAATAAATAG
937223 CCAACTATCAGTTATTTGCCAAATACTCCCTAAATAAATAG
1 CCAACTATCAGTTATTTGCCAAATACTCCCTAAATAAATAG
937264 C
1 C
937265 AAGTATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (41 bp):
CCAACTATCAGTTATTTGCCAAATACTCCCTAAATAAATAG
Found at i:937972 original size:15 final size:15
Alignment explanation
Indices: 937948--937987 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
937938 TTACCTGCGT
937948 AAAC-ACATTCAACG
1 AAACAACATTCAACG
937962 AAACAACATTCAACG
1 AAACAACATTCAACG
937977 AAACAACATTC
1 AAACAACATTC
937988 TTATACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.15
Consensus pattern (15 bp):
AAACAACATTCAACG
Found at i:939158 original size:162 final size:162
Alignment explanation
Indices: 938878--939638 Score: 853
Period size: 162 Copynumber: 4.8 Consensus size: 162
938868 ACTATTTGTT
* **** * *
938878 GATT-TTTCCCCATCCTTCACCGAATTCTTGCCTTCATTCGAGTTTGATTGCTGGTTCAAATCGA
1 GATTCTTT-CCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGC
* * * * * * *
938942 TTTTACTTGCACCATTATCAGTACCCCCTTTTGATCCATCGATTCGATCTCCTCCATGGTCTTTC
65 TCTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCATGATCTTTC
* *
939007 CCACTAATTGTATTTCTTTTTGCTTCACCACTC
130 CCACTATTTGTATTTCCTTTTGCTTCACCACTC
* * * *
939040 GATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAGCCTGATTGCTGGTGCAAATCGCT
1 GATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGCT
*
939105 CTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGAACTCCTCCATGATCTTTCC
66 CTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCATGATCTTTCC
939170 CACTATTTG-ATTTTCCTTTTGCTTCACCACTC
131 CACTATTTGTA-TTTCCTTTTGCTTCACCACTC
* *
939202 -AGTTCTTTCCCATCCTTTACCAAATTCTTGCCTTCATTAGAACCCGATTGCCGG-T----TCG-
1 GA-TTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGC
* *
939260 -------A--ATCAATATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTC
65 TCTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCATGATCTTTC
*
939316 CCACTATTTGTATTTCCGTTTGCTTCACCACTC
130 CCACTATTTGTATTTCCTTTTGCTTCACCACTC
* * * * *
939349 -AGTTCTTTCCCATCCTTTACCGAATTCTTGCCTTCATTTGAACCCGATTGCCGGTTCAAACCAC
1 GA-TTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGC
* * * * * ** * * *
939413 TCTTACTGGCATCACTAACAGAAACCTGTTTTGATCCATCAATTTGATCTCTTCCGTTATCTTTC
65 TCTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCATGATCTTTC
939478 CCACTATTTGTATTTCCTTTTGCTTCACCACTC
130 CCACTATTTGTATTTCCTTTTGCTTCACCACTC
* * * * *
939511 GATTCTTTCCCATCCTTCACC-AAGTCGTTGCCTCCATTCGAACCCGATCGCCGGTTCATATTGC
1 GATTCTTTCCCATCCTTCACCAAATTC-TTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGC
* ** * * *
939575 TCTTACTTGCATCATTATCAGCA-CCCCTCTCCGATCCATCAGTTTGATCTCTTCCATTATCTTT
65 TCTTACTAGCATCATTATCAGCACCCCCT-TTTGATCCATCAATTTGATCTCCTCCATGATCTTT
939639 AATAGAATCG
Statistics
Matches: 519, Mismatches: 58, Indels: 44
0.84 0.09 0.07
Matches are distributed among these distances:
147 134 0.26
148 2 0.00
149 1 0.00
152 1 0.00
157 3 0.01
161 9 0.02
162 365 0.70
163 4 0.01
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.38
Consensus pattern (162 bp):
GATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGATTGCCGGTTCAAATCGCT
CTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCATGATCTTTCC
CACTATTTGTATTTCCTTTTGCTTCACCACTC
Found at i:939386 original size:147 final size:148
Alignment explanation
Indices: 939113--939568 Score: 569
Period size: 147 Copynumber: 3.0 Consensus size: 148
939103 CTCTTACTAG
* * *
939113 CATCATTATCAGCACCCCCTTTTGATCCATCAATTTGAACTCCTCCATGATCTTTCCCACTATTT
1 CATCAATATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTCCCACTATTT
939178 G-ATTTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCCTTTACCAAATTCTTGCCTTCATTAG
66 GTA-TTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCCTTTACC-AATTCTTGCCTTCATTAG
*
939242 AACCCGATTGCCGGTTC-GA
129 AACCCGATTGCCGGTTCAAA
939261 -ATCAATATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTCCCACTATTT
1 CATCAATATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTCCCACTATTT
* *
939325 GTATTTCCGTTTGCTTCACCACTCAGTTCTTTCCCATCCTTTACCGAATTCTTGCCTTCATTTGA
66 GTATTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCCTTTACC-AATTCTTGCCTTCATTAGA
939390 ACCCGATTGCCGGTTCAAA
130 ACCCGATTGCCGGTTCAAA
* * ** * *
939409 CCACTCTTACTGGCATCACTAACAGAAACCTGTTTTGATCCATCAATTTGATCTCTTCCGTTATC
1 -CA-TC--A-----AT-A-T--CAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATC
* *
939474 TTTCCCACTATTTGTATTTCCTTTTGCTTCACCACTC-GATTCTTTCCCATCCTTCACCAAGTCG
53 TTTCCCACTATTTGTATTTCCTTTTGCTTCACCACTCAG-TTCTTTCCCATCCTTTACCAATTC-
* * *
939538 TTGCCTCCATTCGAACCCGATCGCCGGTTCA
116 TTGCCTTCATTAGAACCCGATTGCCGGTTCA
939569 TATTGCTCTT
Statistics
Matches: 271, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
147 137 0.51
148 2 0.01
150 1 0.00
151 2 0.01
153 1 0.00
158 2 0.01
159 1 0.00
160 1 0.00
161 5 0.02
162 119 0.44
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.37
Consensus pattern (148 bp):
CATCAATATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTCCCACTATTT
GTATTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCCTTTACCAATTCTTGCCTTCATTAGAA
CCCGATTGCCGGTTCAAA
Found at i:939523 original size:309 final size:309
Alignment explanation
Indices: 938957--939567 Score: 861
Period size: 309 Copynumber: 2.0 Consensus size: 309
938947 CTTGCACCAT
* * *
938957 TATCAGTACCCCCTTTTGATCCATCGATTCGATCTCCTCCATGGTCTTTCCCACTAATTGTATTT
1 TATCAGCACCCCCTTTTGATCCATCAATTCGATCTCCTCCATGATCTTTCCCACTAATTGTATTT
** * *
939022 CTTTTTGCTTCACCACTCGATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAGCCTGA
66 CCGTTTGCTTCACCACTCGATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGA
* * * * * * *
939087 TTGCTGGTGCAAATCGCTCTTACTAGCATCATTATCAGCACCCCCTTTTGATCCATCAATTTGAA
131 TTGCCGGTGCAAACCACTCTTACTAGCATCACTAACAGAAACCCCTTTTGATCCATCAATTTGAA
939152 CTCCTCCATGATCTTTCCCACTATTTGATTTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCC
196 CTCCTCCATGATCTTTCCCACTATTTGATTTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCC
* * * *
939217 TTTACCAAATTC-TTGCCTTCATTAGAACCCGATTGCCGGTTCGAATCAA
261 TTCACC-AAGTCGTTGCCTCCATTAGAACCCGATCGCCGGTTCGAATCAA
* * *
939266 TATCAGCACCCCCTTTTGATCCATCAATTTGATCTCCTCCGTGATCTTTCCCACTATTTGTATTT
1 TATCAGCACCCCCTTTTGATCCATCAATTCGATCTCCTCCATGATCTTTCCCACTAATTGTATTT
* * *
939331 CCGTTTGCTTCACCACTC-AGTTCTTTCCCATCCTTTACCGAATTCTTGCCTTCATTTGAACCCG
66 CCGTTTGCTTCACCACTCGA-TTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCG
* * **
939395 ATTGCCGGTTCAAACCACTCTTACTGGCATCACTAACAGAAACCTGTTTTGATCCATCAATTTGA
130 ATTGCCGGTGCAAACCACTCTTACTAGCATCACTAACAGAAACCCCTTTTGATCCATCAATTTGA
* * * *
939460 TCTCTTCCGTTATCTTTCCCACTATTTG-TATTTCCTTTTGCTTCACCACTC-GATTCTTTCCCA
195 ACTCCTCCATGATCTTTCCCACTATTTGAT-TTTCCTTTTGCTTCACCACTCAG-TTCTTTCCCA
*
939523 TCCTTCACCAAGTCGTTGCCTCCATTCGAACCCGATCGCCGGTTC
258 TCCTTCACCAAGTCGTTGCCTCCATTAGAACCCGATCGCCGGTTC
939568 ATATTGCTCT
Statistics
Matches: 265, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
308 7 0.03
309 258 0.97
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.38
Consensus pattern (309 bp):
TATCAGCACCCCCTTTTGATCCATCAATTCGATCTCCTCCATGATCTTTCCCACTAATTGTATTT
CCGTTTGCTTCACCACTCGATTCTTTCCCATCCTTCACCAAATTCTTGCCTTCATTCGAACCCGA
TTGCCGGTGCAAACCACTCTTACTAGCATCACTAACAGAAACCCCTTTTGATCCATCAATTTGAA
CTCCTCCATGATCTTTCCCACTATTTGATTTTCCTTTTGCTTCACCACTCAGTTCTTTCCCATCC
TTCACCAAGTCGTTGCCTCCATTAGAACCCGATCGCCGGTTCGAATCAA
Found at i:940987 original size:20 final size:20
Alignment explanation
Indices: 940962--941035 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
940952 TTTTCCCAAT
*
940962 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
940982 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
941003 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
941023 TCGCAACGCGAAT
1 TCGCAACGCGAAT
941036 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:941005 original size:21 final size:21
Alignment explanation
Indices: 940979--941054 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
940969 GCGAATAAGT
940979 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
941000 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
941020 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* *
941041 AAATCACAATGCGA
1 AAATCGCAACGCGA
941055 TAATACAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:941007 original size:41 final size:41
Alignment explanation
Indices: 940962--941054 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
940952 TTTTCCCAAT
940962 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
941003 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
941044 TCACAATGCGA
1 TCGCAATGCGA
941055 TAATACAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:941090 original size:20 final size:20
Alignment explanation
Indices: 941065--941137 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
941055 TAATACAAAA
* *
941065 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
941085 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
941105 TCGTAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
*
941125 TCGCAACACGATA
1 TCGCAACGCGATA
941138 ATACATAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:941353 original size:22 final size:22
Alignment explanation
Indices: 941325--941368 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
941315 CACTCTCTCA
941325 CCCATCTCCCGACG-AATCCGTC
1 CCCATCT-CCGACGAAATCCGTC
*
941347 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
941369 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.18, C:0.48, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:941654 original size:20 final size:20
Alignment explanation
Indices: 941629--941666 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
941619 CGATTCTCTC
941629 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
941649 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
941667 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:943009 original size:18 final size:18
Alignment explanation
Indices: 942983--943027 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
942973 TCTACTTCGG
**
942983 GAGCCATCACCTTGCCCA
1 GAGCCATCACCTCACCCA
*
943001 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
943019 GAGCCATCA
1 GAGCCATCA
943028 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:943530 original size:20 final size:20
Alignment explanation
Indices: 943505--943557 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
943495 TAGTTAACTT
943505 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
943525 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
*
943545 TCGCAATGCGAAA
1 TCGCAACGCGAAA
943558 TGAAAACCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:943607 original size:32 final size:32
Alignment explanation
Indices: 943552--943622 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
943542 CTATCGCAAT
* *
943552 GCGAAATGAAAACCGCAACGACAAAATCGCAGC
1 GCGAAATGAAAA-CGCAACGACAAAATCACAAC
943585 GCGAAATGAAATA-GCAACGACAAAATCACAAC
1 GCGAAATGAAA-ACGCAACGACAAAATCACAAC
943617 GCGAAA
1 GCGAAA
943623 CACAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 23 0.66
33 11 0.31
34 1 0.03
ACGTcount: A:0.49, C:0.24, G:0.20, T:0.07
Consensus pattern (32 bp):
GCGAAATGAAAACGCAACGACAAAATCACAAC
Found at i:943674 original size:14 final size:14
Alignment explanation
Indices: 943651--943708 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
943641 TTGTGTTTCG
*
943651 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
943665 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
943681 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
943697 CGTTGCGATTTT
1 CGTTGCGATTTT
943709 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:943693 original size:32 final size:33
Alignment explanation
Indices: 943646--943795 Score: 180
Period size: 33 Copynumber: 4.4 Consensus size: 33
943636 GCGATTTGTG
* *
943646 TTTCGCGTTGTGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
943678 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
943711 TTTCGCATTGCGATAGCCATTTCCG-CGTTGCGA-TTTCA
1 TTTCGCATTGCGAT-----TTT--GTCGTTGCGATTTTCA
**
943749 TTTCGCGCTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
943782 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
943796 AGCCATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
31 1 0.01
32 33 0.32
33 39 0.38
38 20 0.20
39 8 0.08
40 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.45
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:943740 original size:39 final size:39
Alignment explanation
Indices: 943697--943835 Score: 159
Period size: 39 Copynumber: 3.7 Consensus size: 39
943687 GCGATTTTGT
943697 CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
* *
943736 CGTTGCGA-TTTCATTTCGC---GC--T-GCGATTT-TG
1 CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
943767 TCGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
1 -CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
** *
943807 CGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATTTTCA-TTTCGCATTGCGAT
943836 TTTAAGTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
31 1 0.01
32 14 0.17
33 12 0.14
35 2 0.02
36 2 0.02
38 12 0.14
39 26 0.31
40 14 0.17
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.40
Consensus pattern (39 bp):
CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTCCG
Found at i:943749 original size:71 final size:71
Alignment explanation
Indices: 943665--943838 Score: 303
Period size: 71 Copynumber: 2.4 Consensus size: 71
943655 GTGATTTTGT
*
943665 CGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
943730 TTTCCG
66 TTTCCG
*
943736 CGTTGCGATTTCATTTCGCGCTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
943801 TTTCCG
66 TTTCCG
*
943807 CGTTGCGATAGTCATTTTCGCGTTGCGATTTT
1 CGTTGCGAT-TTCA-TTTCGCGTTGCGATTTT
943839 AAGTTTCGTG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
71 78 0.80
72 3 0.03
73 16 0.16
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (71 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATAGCCA
TTTCCG
Found at i:943814 original size:20 final size:19
Alignment explanation
Indices: 943709--943835 Score: 88
Period size: 20 Copynumber: 6.8 Consensus size: 19
943699 TTGCGATTTT
*
943709 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
**
943728 CATTTCCGCGTTGCGAT-TT
1 CATTT-CGCGTTGCGATAGC
*
943747 CATTTCGCGCTGCGAT---
1 CATTTCGCGTTGCGATAGC
***
943763 --TTT-GTCGTTGCGATTTT
1 CATTTCG-CGTTGCGATAGC
*
943780 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
943799 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
943819 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
943836 TTTAAGTTTC
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
13 1 0.01
14 11 0.13
18 10 0.11
19 26 0.30
20 36 0.41
21 3 0.03
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:945852 original size:33 final size:33
Alignment explanation
Indices: 945805--945920 Score: 124
Period size: 33 Copynumber: 3.4 Consensus size: 33
945795 AAAACAGACT
* ***
945805 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
945838 ATCGCAATGTGAAATGAAAATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
*
945876 ATCGCAATGCGAAATAAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
945909 ATCGCAATGCGA
1 ATCGCAATGCGA
945921 TTTTCATTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
33 36 0.52
34 1 0.01
35 2 0.03
36 2 0.03
37 1 0.01
38 27 0.39
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:945856 original size:19 final size:19
Alignment explanation
Indices: 945834--945920 Score: 112
Period size: 19 Copynumber: 4.8 Consensus size: 19
945824 ATCGCAACGA
*
945834 GAAAATCGCAATGTGAAAT
1 GAAAATCGCAATGCGAAAT
*
945853 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
945872 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
945891 AAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
945905 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
945921 TTTTCATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 45 0.75
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:945890 original size:38 final size:33
Alignment explanation
Indices: 945824--945920 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 33
945814 CGAAATGGCT
* *
945824 ATCGCAACGAGAAAATCGCAATGTGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATAAAA
*
945857 ATCGTAATGCGAAATGAAAATCGCAATGCGAAATAAAA
1 ATCGCAA--CG--A-GAAAATCGCAATGCGAAATAAAA
945895 ATCGCAACGAGAAAATCGCAATGCGA
1 ATCGCAACGAGAAAATCGCAATGCGA
945921 TTTTCATTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
33 22 0.40
34 1 0.02
35 2 0.04
36 2 0.04
37 1 0.02
38 27 0.49
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAATAAAA
Found at i:945964 original size:20 final size:20
Alignment explanation
Indices: 945939--945976 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
945929 TCGCATTGCG
*
945939 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
945959 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
945977 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:947058 original size:24 final size:24
Alignment explanation
Indices: 947031--947084 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
947021 GTATTCGAAA
* *
947031 TTTGATCTTAGTCAATACCCGGAC
1 TTTGATATTAGTCAATACACGGAC
* *
947055 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTAGTCAATACACGGAC
947079 TTTGAT
1 TTTGAT
947085 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTAGTCAATACACGGAC
Found at i:947275 original size:12 final size:12
Alignment explanation
Indices: 947258--947282 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
947248 CATATATCCT
947258 GAAGAAGAAAAA
1 GAAGAAGAAAAA
947270 GAAGAAGAAAAA
1 GAAGAAGAAAAA
947282 G
1 G
947283 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:950965 original size:20 final size:19
Alignment explanation
Indices: 950934--951108 Score: 92
Period size: 20 Copynumber: 9.8 Consensus size: 19
950924 TCTTTTGGTT
950934 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
950953 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
950974 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
950993 G--A-G--AATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
951007 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
951021 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
951037 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
951054 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
951074 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
951093 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
951109 TGCGATTTTT
Statistics
Matches: 125, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
14 31 0.25
15 1 0.01
16 4 0.03
17 4 0.03
18 1 0.01
19 35 0.28
20 47 0.38
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:951002 original size:14 final size:14
Alignment explanation
Indices: 950983--951019 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
950973 GGAAATGACT
950983 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
950997 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
951011 ATCGCAACG
1 ATCGCAACG
951020 CGAAATGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:951047 original size:47 final size:48
Alignment explanation
Indices: 950959--951052 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 48
950949 ACGAGATAAT
* *
950959 GAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
*
951007 GAGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
951053 CGAAATGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
47 29 0.67
48 14 0.33
ACGTcount: A:0.38, C:0.26, G:0.26, T:0.11
Consensus pattern (48 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
Found at i:951065 original size:19 final size:19
Alignment explanation
Indices: 951043--951113 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
951033 GCGACCAGAC
951043 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
951062 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
951082 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
951101 AATCGCAATGCGA
1 AATCGCAACGCGA
951114 TTTTTGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
19 30 0.62
20 18 0.38
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Done.