Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_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: 961865
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:633088 original size:42 final size:41
Alignment explanation
Indices: 633042--633164 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 41
633032 ATGTTAAAAA
*
633042 CATTTGCGGCGTTTTTTGTCAAAACGCCACTAAAGTACGCAT
1 CATTTGCGGCGTTTTTTG-CAAAACGCCACTAAAGTACGAAT
* ** * *
633084 CATTTGCGGCGTTTGTTAGCAAAACGCTGCTAAATTACTAAT
1 CATTTGCGGCGTTT-TTTGCAAAACGCCACTAAAGTACGAAT
* *
633126 -ACTTTGCGGCG-TTTCTACGAAAACGCCACTAAAGTACGA
1 CA-TTTGCGGCGTTTTTTGC-AAAACGCCACTAAAGTACGA
633165 GGCTATAGCG
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
40 2 0.03
41 19 0.29
42 41 0.63
43 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CATTTGCGGCGTTTTTTGCAAAACGCCACTAAAGTACGAAT
Found at i:633573 original size:57 final size:57
Alignment explanation
Indices: 633507--633637 Score: 244
Period size: 57 Copynumber: 2.3 Consensus size: 57
633497 ATTAAAACAG
*
633507 AAGTACTTATGCATAAAACTACTTAACAACAAAACACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAAAAACAAAACACATTATAATTTAGAAACATTA
*
633564 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAAAAACAAAACACATTATAATTTAGAAACATTA
633621 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
633638 CAGTCTTCAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAAAAACAAAACACATTATAATTTAGAAACATTA
Found at i:634752 original size:41 final size:42
Alignment explanation
Indices: 634707--634812 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
634697 CATGTTTTTG
* * * *
634707 CGGCGTTTATACAATAAACGTCGCTATAT-TAC-ACTATATTA
1 CGGCGTTTTTACTATAAACGCCGCTAAATGT-CTACTATATTA
*
634748 CGGCGTTTTTAGCTA-AAACGCCGCTAAATGTCTACTATATTG
1 CGGCGTTTTTA-CTATAAACGCCGCTAAATGTCTACTATATTA
634790 CGGCGTTTTTACTATAAACGCCG
1 CGGCGTTTTTACTATAAACGCCG
634813 TTATTGTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
41 26 0.46
42 30 0.54
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
CGGCGTTTTTACTATAAACGCCGCTAAATGTCTACTATATTA
Found at i:637697 original size:14 final size:14
Alignment explanation
Indices: 637678--637708 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
637668 TAATTTATTT
637678 GAACGAAATTAACC
1 GAACGAAATTAACC
637692 GAACGAAATTAACC
1 GAACGAAATTAACC
637706 GAA
1 GAA
637709 TTTCATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (14 bp):
GAACGAAATTAACC
Found at i:637756 original size:26 final size:26
Alignment explanation
Indices: 637722--637851 Score: 106
Period size: 26 Copynumber: 4.9 Consensus size: 26
637712 CATTCTTTAA
637722 CATTAATCGAACCGAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
*
637748 CGTTAATCGAACCGAAATTTATTTTGA-
1 CATTAATCGAACCGAAA-TTA-TTTGAC
* * * *
637775 AATT-AT-TAACCGAATTTTTTTATTT-AA
1 CATTAATCGAACCGAA----ATTATTTGAC
637802 CATTAATCGAACCGAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
* *
637828 CGTTAATCGAACCAAAATTTATTT
1 CATTAATCGAACCGAAA-TTATTT
637852 AAAAATTATT
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
25 13 0.16
26 35 0.43
27 17 0.21
28 10 0.12
29 7 0.09
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (26 bp):
CATTAATCGAACCGAAATTATTTGAC
Found at i:637785 original size:80 final size:80
Alignment explanation
Indices: 637699--637927 Score: 352
Period size: 80 Copynumber: 2.9 Consensus size: 80
637689 ACCGAACGAA
** *
637699 ATTAACCGAATTTCATTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAA
1 ATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
**
637764 ATTTATTTTGAAATT
66 ATTTATTTAAAAATT
*
637779 ATTAACCGAATTTTTTTATTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
1 ATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
637844 ATTTATTTAAAAATT
66 ATTTATTTAAAAATT
* * *
637859 ATTAACCG-ATTTTTTTCTTTAACCATTAATCGAACTGAAATTATTTGACTGTTAATCGCACCCA
1 ATTAACCGAATTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCGTTAATCG-AACCA
637923 AAATT
64 AAATT
637928 ATTAACCGAA
Statistics
Matches: 137, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 13 0.09
80 115 0.84
81 9 0.07
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (80 bp):
ATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
ATTTATTTAAAAATT
Found at i:638079 original size:94 final size:93
Alignment explanation
Indices: 637981--638152 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 93
637971 AATCGAACCA
* * * *
637981 AAATTTATTTGAAAATTATTAACCGAATCAAATCA-ACTGATTTTTTTCTTTAACCATTAATAAA
1 AAATTTATTTAAAAATTATTAACAGAATAAAAT-ATA-TGA-TTTTTTCCTTAACCATTAATAAA
638045 ACCGAAA-TTATTTGACCGTTAATCGAATTG
63 ACCGAAATTTATTTGACCGTTAATCGAATTG
* * **
638075 AAATTTATTTAAAAATTATTAACAGAATAAAATATATTATTTTTTCCTTAACCGTTAATCGAACC
1 AAATTTATTTAAAAATTATTAACAGAATAAAATATATGATTTTTTCCTTAACCATTAATAAAACC
638140 GAAATTTATTTGA
66 GAAATTTATTTGA
638153 AAATTATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 26 0.38
93 11 0.16
94 31 0.46
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (93 bp):
AAATTTATTTAAAAATTATTAACAGAATAAAATATATGATTTTTTCCTTAACCATTAATAAAACC
GAAATTTATTTGACCGTTAATCGAATTG
Found at i:638131 original size:66 final size:68
Alignment explanation
Indices: 638059--638220 Score: 199
Period size: 66 Copynumber: 2.4 Consensus size: 68
638049 AAATTATTTG
* *
638059 ACCGTTAATCGAATTGAAATTTATTTAAAAATTATTAA-CAGAATAAAA-TATA-T-TATTTTTT
1 ACCGTTAATCGAACTGAAATTTATTTAAAAATTATTAACCA-AATAAAATTA-ACTGAATTTTTT
638120 CCT-TA
64 -CTGTA
* * **
638125 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAATCGAATTAACTGAATTTTTTCT
1 ACCGTTAATCGAACTGAAATTTATTTAAAAATTATTAACCAAATAAAATTAACTGAATTTTTTCT
638190 GTA
66 GTA
*
638193 ACCATTAATCGAACTGAAATTTATTTAA
1 ACCGTTAATCGAACTGAAATTTATTTAA
638221 CCAAATAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
66 41 0.50
67 7 0.09
68 34 0.41
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (68 bp):
ACCGTTAATCGAACTGAAATTTATTTAAAAATTATTAACCAAATAAAATTAACTGAATTTTTTCT
GTA
Found at i:639648 original size:136 final size:139
Alignment explanation
Indices: 639398--639679 Score: 471
Period size: 136 Copynumber: 2.1 Consensus size: 139
639388 CTTGCCGCCG
* * * * * *
639398 CCGTTCATCGACGGCAAAAATCCTTTATTTTATAAATCCGAAAGCTCTTTTAATCTAGTTTTTAA
1 CCGTTCAACGACAGCAAAAATCCATTATTTTAAAAATCCGAAAGCTCTTTTAATCTAGGTTTAAA
*
639463 AAATCAAAACATTTTTTTATAACAAATGAGCCTCGGGGGCTAGATCTACAAAAGAAGATCCCGAC
66 AAATCAAAACATTTTTTTATAACAAATGAGCATCGGGGGCTAGATCTACAAAAGAAGATCCCGAC
639528 CAAGCCCCT
131 CAAGCCCCT
639537 CCGTTCAACGACAGCAAAAAT-CATT-TTTTAAAAATCCGAAAGCTCTTTTAATCTAGGTTTAAA
1 CCGTTCAACGACAGCAAAAATCCATTATTTTAAAAATCCGAAAGCTCTTTTAATCTAGGTTTAAA
*
639600 AAATC-AAACGTTTTTTTATAACAAATGAGCATCGGGGGCTAGATCTACAAAAGAAGATCCCGAC
66 AAATCAAAACATTTTTTTATAACAAATGAGCATCGGGGGCTAGATCTACAAAAGAAGATCCCGAC
639664 CAAGCCCCT
131 CAAGCCCCT
639673 CCGTTCA
1 CCGTTCA
639680 TCGGCTAAAA
Statistics
Matches: 135, Mismatches: 8, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
136 73 0.54
137 40 0.30
138 3 0.02
139 19 0.14
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (139 bp):
CCGTTCAACGACAGCAAAAATCCATTATTTTAAAAATCCGAAAGCTCTTTTAATCTAGGTTTAAA
AAATCAAAACATTTTTTTATAACAAATGAGCATCGGGGGCTAGATCTACAAAAGAAGATCCCGAC
CAAGCCCCT
Found at i:642354 original size:6 final size:6
Alignment explanation
Indices: 642343--642370 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
642333 AGGTTGTGTA
642343 AATTTT AATTTT AATTTT AATTTT AATT
1 AATTTT AATTTT AATTTT AATTTT AATT
642371 AGGGAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:644671 original size:25 final size:25
Alignment explanation
Indices: 644643--644693 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
644633 GCATAAGTTC
644643 AGTAAAATTTAGAATTCATAAAAAT
1 AGTAAAATTTAGAATTCATAAAAAT
644668 AGTAAAATTTAGAATTCATAAAAAT
1 AGTAAAATTTAGAATTCATAAAAAT
644693 A
1 A
644694 TCTCAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
AGTAAAATTTAGAATTCATAAAAAT
Found at i:652591 original size:2 final size:2
Alignment explanation
Indices: 652584--652625 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
652574 AAATAAATAA
652584 AT AT 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 AT AT
652626 TATTTTTCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:653300 original size:2 final size:2
Alignment explanation
Indices: 653289--653344 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
653279 AATATTCAAT
653289 TA TA -A 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
653330 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
653345 CTTTACACGC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:657865 original size:23 final size:22
Alignment explanation
Indices: 657822--657865 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
657812 ATCTCATAGG
*
657822 GGAACCGATTCCCCCACAGGAT
1 GGAACCGATTCCCCCAAAGGAT
*
657844 GGAATCGATTCCCCCTAAAGGA
1 GGAACCGATTCCCCC-AAAGGA
657866 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.16
Consensus pattern (22 bp):
GGAACCGATTCCCCCAAAGGAT
Found at i:659319 original size:23 final size:23
Alignment explanation
Indices: 659291--659358 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
659281 ATTATTATAT
659291 GGCACTACGGTGCAATTATACGC
1 GGCACTACGGTGCAATTATACGC
* * *
659314 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTATACGC
* **
659337 GGCATTTTGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
659359 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:661697 original size:16 final size:16
Alignment explanation
Indices: 661676--661718 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
661666 GGTAATTAAA
661676 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
661692 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
661709 GAGTGATAAG
1 GATTGATAAG
661719 AACTAATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:662660 original size:22 final size:21
Alignment explanation
Indices: 662608--662668 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
662598 GATTTCTGGG
662608 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
662629 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
662650 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
662669 CTCAAGCGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 24 0.63
22 14 0.37
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:662746 original size:23 final size:22
Alignment explanation
Indices: 662702--662746 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
662692 AATCTCATAG
* *
662702 GGGAACCGATTCCTCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
662724 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
662747 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:664203 original size:23 final size:23
Alignment explanation
Indices: 664169--664221 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
664159 CATTATTATA
664169 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
664192 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
664215 TGGCACT
1 TGGCACT
664222 TTGATGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:664229 original size:23 final size:23
Alignment explanation
Indices: 664169--664237 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
664159 CATTATTATA
* *
664169 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGATGCAATTCTACG
*
664192 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGATGCAATTCTACG
** *
664215 TGGCACTTTGATGCAATTATACG
1 TGGCACTCCGATGCAATTCTACG
664238 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
TGGCACTCCGATGCAATTCTACG
Found at i:675654 original size:22 final size:20
Alignment explanation
Indices: 675623--675681 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
675613 TAAATTTAGT
675623 AAAAAGAAAAAGAA-AAATGGA
1 AAAAAGAAAAA-AATAAAT-GA
675644 AAAAAGAAAAAAAATAAATGA
1 AAAAAG-AAAAAAATAAATGA
* *
675665 AAAAACAAATAAATAAA
1 AAAAAGAAAAAAATAAA
675682 ATAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 10 0.29
21 15 0.44
22 9 0.26
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAAAATAAATGA
Found at i:675667 original size:20 final size:22
Alignment explanation
Indices: 675623--675669 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
675613 TAAATTTAGT
*
675623 AAAAAGAAAAAGAA-AAATGGA
1 AAAAAGAAAAAAAATAAATGGA
675644 AAAAAGAAAAAAAATAAAT-GA
1 AAAAAGAAAAAAAATAAATGGA
675665 AAAAA
1 AAAAA
675670 CAAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (22 bp):
AAAAAGAAAAAAAATAAATGGA
Found at i:675668 original size:15 final size:14
Alignment explanation
Indices: 675650--675728 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 14
675640 TGGAAAAAAG
675650 AAAAAAAATAAATGA
1 AAAAAAAATAAAT-A
675665 AAAAACAAATAAATA
1 AAAAA-AAATAAATA
*
675680 AAATAAAATAAAATA
1 AAAAAAAAT-AAATA
*
675695 AAATAAAAA-ATAGTA
1 AAA-AAAAATA-AATA
675710 AATAAAAAATGAAATA
1 AA-AAAAAAT-AAATA
675726 AAA
1 AAA
675729 TGAAAAGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 5 0.09
15 29 0.55
16 18 0.34
17 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (14 bp):
AAAAAAAATAAATA
Found at i:675685 original size:5 final size:5
Alignment explanation
Indices: 675645--675739 Score: 63
Period size: 5 Copynumber: 18.8 Consensus size: 5
675635 AAAAATGGAA
* *
675645 AAAAG AAAA- AAAAT -AAAT GAAAAA ACAAAT -AAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT
* * * *
675694 AAAAT AAAA- AATAGT AAATAA AAAAT GAAAT AAAAT GAAAAG AAAA
1 AAAAT AAAAT AA-AAT AAA-AT AAAAT AAAAT AAAAT -AAAAT AAAA
675740 AAAGAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
4 14 0.19
5 43 0.60
6 15 0.21
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:675687 original size:20 final size:21
Alignment explanation
Indices: 675636--675749 Score: 81
Period size: 22 Copynumber: 5.1 Consensus size: 21
675626 AAGAAAAAGA
*
675636 AAAATGGAAAAAAGAAAAAAAAT
1 AAAAT-GAAAAAA-AAATAAAAT
675659 -AAATGAAAAAACAAAT-AAAT
1 AAAATGAAAAAA-AAATAAAAT
*
675679 AAAAT-AAAATAAAATAAAAT
1 AAAATGAAAAAAAAATAAAAT
*
675699 AAAAAATAGTAAATAAAAAATGAAAT
1 --AAAAT-G-AAA-AAAAAATAAAAT
*
675725 AAAATGAAAAGAAAAAAAGAAAT
1 AAAATGAAAA-AAAAATA-AAAT
675748 AA
1 AA
675750 TAACAAGAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.05
20 13 0.18
21 15 0.20
22 17 0.23
23 7 0.09
24 5 0.07
25 3 0.04
26 10 0.14
ACGTcount: A:0.77, C:0.01, G:0.08, T:0.14
Consensus pattern (21 bp):
AAAATGAAAAAAAAATAAAAT
Found at i:677037 original size:15 final size:14
Alignment explanation
Indices: 677015--677063 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
677005 TTATTTCAAA
677015 AAAAAATATTTTTC
1 AAAAAATATTTTTC
*
677029 AGAATAATATATTTTC
1 A-AAAAATAT-TTTTC
677045 AAAAAATATTTTTC
1 AAAAAATATTTTTC
677059 AAAAA
1 AAAAA
677064 CTTTATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.35
15 14 0.45
16 6 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (14 bp):
AAAAAATATTTTTC
Found at i:677089 original size:27 final size:26
Alignment explanation
Indices: 677050--677117 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
677040 TTTTCAAAAA
**
677050 ATAT-TTTTCAAAAACTTTATTATATAT
1 ATATGTTTTCAAAAAAATTA-TA-ATAT
677077 ATATGTTTT-AAAAAAATTATAATAT
1 ATATGTTTTCAAAAAAATTATAATAT
677102 ATATGTTTTCAAAAAA
1 ATATGTTTTCAAAAAA
677118 TGTTTTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 13 0.35
26 8 0.22
27 12 0.32
28 4 0.11
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (26 bp):
ATATGTTTTCAAAAAAATTATAATAT
Found at i:677123 original size:38 final size:37
Alignment explanation
Indices: 677079--677191 Score: 122
Period size: 37 Copynumber: 3.0 Consensus size: 37
677069 TTATATATAT
677079 ATGTTTTAAAAAAATTATAATATATATGTTTTCAAAAA
1 ATGTTTT-AAAAAATTATAATATATATGTTTTCAAAAA
* *
677117 ATGTTTTCAAAAACTAT-ATAATATATGTTTTC-AAAA
1 ATGTTTTAAAAAATTATAAT-ATATATGTTTTCAAAAA
* * * *
677153 ATGTTTTCAAAAACTATATATTATTTATATTTTCAAAAA
1 ATGTTTT-AAAAAAT-TATAATATATATGTTTTCAAAAA
677192 CTATATATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
36 13 0.21
37 24 0.39
38 20 0.32
39 5 0.08
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (37 bp):
ATGTTTTAAAAAATTATAATATATATGTTTTCAAAAA
Found at i:677126 original size:66 final size:62
Alignment explanation
Indices: 677031--677153 Score: 167
Period size: 62 Copynumber: 1.9 Consensus size: 62
677021 TATTTTTCAG
*
677031 AATAATATATTTTCAAAAAATATTTTTCAAAAACTTTATTATATATATATGTTTTAAAAAAATTA
1 AATAATATATTTTCAAAAAATAGTTTTCAAAAAC--TA-TATA-ATATATGTTTTAAAAAAATTA
677096 T
62 T
* *
677097 AATATATATGTTTTCAAAAAAT-GTTTTCAAAAACTATATAATATATGTTTTCAAAAA
1 AATA-ATATATTTTCAAAAAATAGTTTTCAAAAACTATATAATATATGTTTTAAAAAA
677154 TGTTTTCAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
62 16 0.30
63 4 0.08
64 2 0.04
66 15 0.28
67 16 0.30
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (62 bp):
AATAATATATTTTCAAAAAATAGTTTTCAAAAACTATATAATATATGTTTTAAAAAAATTAT
Found at i:677141 original size:37 final size:38
Alignment explanation
Indices: 677079--677191 Score: 151
Period size: 36 Copynumber: 3.0 Consensus size: 38
677069 TTATATATAT
* *
677079 ATGTTTTAAAAAAAT-TATAATATATATGTTTTCAAAAA
1 ATGTTTTCAAAAACTATAT-ATATATATGTTTTCAAAAA
677117 ATGTTTTCAAAAACTATATA-ATATATGTTTTC-AAAA
1 ATGTTTTCAAAAACTATATATATATATGTTTTCAAAAA
* *
677153 ATGTTTTCAAAAACTATATATTATTTATATTTTCAAAAA
1 ATGTTTTCAAAAACTATATA-TATATATGTTTTCAAAAA
677192 CTATATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
36 24 0.36
37 12 0.18
38 24 0.36
39 7 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (38 bp):
ATGTTTTCAAAAACTATATATATATATGTTTTCAAAAA
Found at i:677158 original size:12 final size:12
Alignment explanation
Indices: 677141--677165 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
677131 TATATAATAT
677141 ATGTTTTCAAAA
1 ATGTTTTCAAAA
677153 ATGTTTTCAAAA
1 ATGTTTTCAAAA
677165 A
1 A
677166 CTATATATTA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:677160 original size:36 final size:36
Alignment explanation
Indices: 677100--677271 Score: 158
Period size: 36 Copynumber: 5.1 Consensus size: 36
677090 AAATTATAAT
677100 ATATATGTTTTCAAAAAATGTTTTCAAAAACTATATA
1 ATATATGTTTTC-AAAAATGTTTTCAAAAACTATATA
677137 ATATATGTTTTCAAAAATGTTTTCAAAAACTATAT-
1 ATATATGTTTTCAAAAATGTTTTCAAAAACTATATA
*
677172 AT-TA---TTT-----ATATTTTCAAAAACTATATA
1 ATATATGTTTTCAAAAATGTTTTCAAAAACTATATA
*
677199 TTATATATGTTTTCAAAAA--TTTTC-AAAAGTATATA
1 --ATATATGTTTTCAAAAATGTTTTCAAAAACTATATA
* *
677234 ATACATATATTTTC-GAAATGTTTTC-AAAACTATATA
1 AT--ATATGTTTTCAAAAATGTTTTCAAAAACTATATA
677270 AT
1 AT
677272 TTATATATAT
Statistics
Matches: 114, Mismatches: 5, Indels: 33
0.75 0.03 0.22
Matches are distributed among these distances:
26 18 0.16
29 2 0.02
30 2 0.02
31 3 0.03
33 5 0.04
34 5 0.04
35 21 0.18
36 45 0.39
37 12 0.11
38 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (36 bp):
ATATATGTTTTCAAAAATGTTTTCAAAAACTATATA
Found at i:677186 original size:26 final size:26
Alignment explanation
Indices: 677156--677217 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
677146 TTCAAAAATG
*
677156 TTTTCAAAAACTATATATTATTTATA
1 TTTTCAAAAACTATATATTATATATA
*
677182 TTTTCAAAAACTATATATTATATATG
1 TTTTCAAAAACTATATATTATATATA
677208 TTTTCAAAAA
1 TTTTCAAAAA
677218 TTTTCAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTCAAAAACTATATATTATATATA
Found at i:677278 original size:36 final size:35
Alignment explanation
Indices: 677181--677290 Score: 114
Period size: 36 Copynumber: 3.0 Consensus size: 35
677171 TATTATTTAT
*
677181 ATTTTCAAAAACTATAT-ATTATATATGTTTTCAAAA
1 ATTTTC-AAAACTATATAATT-TATATATTTTCAAAA
* ** *
677217 ATTTTCAAAAGTATATAATACATATATTTTCGAAAT
1 ATTTTCAAAACTATATAATTTATATATTTTC-AAAA
*
677253 GTTTTCAAAACTATATAATTTATATATATTTTCAAAA
1 ATTTTCAAAACTATATAA-TT-TATATATTTTCAAAA
677290 A
1 A
677291 CCATTTTCTA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
35 18 0.31
36 27 0.46
37 4 0.07
38 10 0.17
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (35 bp):
ATTTTCAAAACTATATAATTTATATATTTTCAAAA
Found at i:677338 original size:30 final size:31
Alignment explanation
Indices: 677275--677339 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
677265 ATATAATTTA
*
677275 TATATATTTTCAAAAACCATTTTCTAAAAAT
1 TATATATTTTCAAAAAACATTTTCTAAAAAT
*
677306 TATAT-TTTTCCAAAAAACATTTTC-AAATAT
1 TATATATTTT-CAAAAAACATTTTCTAAAAAT
677336 TATA
1 TATA
677340 CTATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (31 bp):
TATATATTTTCAAAAAACATTTTCTAAAAAT
Found at i:677348 original size:2 final size:2
Alignment explanation
Indices: 677332--677408 Score: 138
Period size: 2 Copynumber: 38.5 Consensus size: 2
677322 ACATTTTCAA
677332 AT AT -T AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
677374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
677409 AAAAAGTAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 70 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:678237 original size:85 final size:85
Alignment explanation
Indices: 678088--678753 Score: 791
Period size: 85 Copynumber: 7.8 Consensus size: 85
678078 ATGCGTCATC
* * * * ** * *
678088 GAGCTGAATGGAATCGAACTCGACA-GTTTTTGTTGACATATATCTTTTCTCGACTTAAGCTATG
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* * * * **
678152 TTATGAATTTGACATGCCCAT
65 CTGTAAATTTGATATGCCTTT
* * * *
678173 GAGCTGAATAG-AATCAAACTCGAAGGTCTTTATTGATAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAAT-GTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
678237 TTGTAAA-TTGCATATGCCTTT
65 CTGTAAATTTG-ATATGCCTTT
* * *
678258 GAGTTGAATGTAATCGAACTCGAAGGTCTTTGTCGACAGATAACCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
**
678323 TGTAAATTTGACGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
678343 AAGCTGAATGTAATCAAACTTGAAGGTCTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
678408 CTGTAAAGTTGATATGCTTTT
65 CTGTAAATTTGATATGCCTTT
* *
678429 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGCTGACAGATAACCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
678494 TGTAAATTTGATGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
678514 GAGCTGAGTGTAATCAAACTTGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGA
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
678579 TGTAAATTGGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
678599 GAGCTAAATGCAATCGAACTTGAAGGTCTTTTGTTGACAAATAACCCTTCTCGCATTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
**
678664 CTACAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* *
678685 GAGCTGAATATAATCGAACTC-ATAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
678749 TTGTA
65 CTGTA
678754 CTTGGCTGGG
Statistics
Matches: 499, Mismatches: 74, Indels: 16
0.85 0.13 0.03
Matches are distributed among these distances:
84 5 0.01
85 346 0.69
86 148 0.30
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:678451 original size:171 final size:169
Alignment explanation
Indices: 678088--678753 Score: 827
Period size: 171 Copynumber: 3.9 Consensus size: 169
678078 ATGCGTCATC
* * * * * ** * *
678088 GAGCTGAATGGAATCGAACTCGACA-GTTTTTGTTGACATATATCTTTTCTCGACTTAAGCTATG
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTCGACAGATAACCCTTCTCGCCTTGAGCTATG
* * * ** ** * * *
678152 TTATGAATTTGACATGCCCATGAGCTGAATAG-AATCAAACTCGAAGGTCTTTATTGATAGATAA
65 CTGTAAATTTGATGTGCCTTTGAGCTGAAT-GTAATCAAACTTGAAGGTCTTTGTTGACAGATAA
678216 CCCTTCTCGCCTTGAGTTATGTTGTAAATTGCATATGCCTTT
129 CCCTTCTCGCCTTGAGTTATGTTGTAAATTG-ATATGCCTTT
* *
678258 GAGTTGAATGTAATCGAACTCGAAGGTCTTTGTCGACAGATAACCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTCGACAGATAACCCTTCTCGCCTTGAGCTATGC
* * *
678323 TGTAAATTTGACGTGCCTTTAAGCTGAATGTAATCAAACTTGAAGGTCTTTTGCTGACAGATAAC
66 TGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTTGAAGGTC-TTTGTTGACAGATAAC
* *
678388 CCTTCTCGCCTTGAGTTATGCTGTAAAGTTGATATGCTTTT
130 CCTTCTCGCCTTGAGTTATGTTGTAAA-TTGATATGCCTTT
*
678429 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-CTGACAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTC-GACAGATAACCCTTCTCGCCTTGAGCTATG
* *
678493 CTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCAAACTTGAAGGTCTTGGTTGACAGATAAC
65 CTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTTGAAGGTCTTTGTTGACAGATAAC
* *
678558 CCTTCTCGCCTTGAGCTATGATGTAAATTGGATATGCCTTT
130 CCTTCTCGCCTTGAGTTATGTTGTAAATT-GATATGCCTTT
* * * * * * *
678599 GAGCTAAATGCAATCGAACTTGAAGGTCTTTTGTTGACAAATAACCCTTCTCGCATTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTCGACAGATAACCCTTCTCGCCTTGAGCTATG
** * * * *
678664 CTACAAATTTGATATGCCTTTGAGCTGAATATAATCGAAC-TCATAGGTCTTTGTTGACAGATAA
65 CTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTTGA-AGGTCTTTGTTGACAGATAA
678728 CCCTTCTCGCCTTGAGTTATGTTGTA
129 CCCTTCTCGCCTTGAGTTATGTTGTA
678754 CTTGGCTGGG
Statistics
Matches: 434, Mismatches: 53, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
169 4 0.01
170 166 0.38
171 261 0.60
172 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (169 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTCGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTTGAAGGTCTTTGTTGACAGATAACC
CTTCTCGCCTTGAGTTATGTTGTAAATTGATATGCCTTT
Found at i:678627 original size:256 final size:256
Alignment explanation
Indices: 678172--678753 Score: 844
Period size: 256 Copynumber: 2.3 Consensus size: 256
678162 GACATGCCCA
* * * *
678172 TGAGCTGAATAGAATCAAACTCGAAGGTCTTTATTGATAGATAACCCTTCTCGCCTTGAGTTATG
1 TGAGCTGAATATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* * *
678237 TTGTAAATTGCATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTCGACAGATAAC
66 TTGTAAATTGCATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTGGTCGACAGATAAC
* * * * * *
678302 CCTTCTTGCCTTGAGCTATGCTGTAAATTTGACGTGCCTTTAAGCTGAATGTAATCAAACTTGAA
131 CCTTCTCGCCTTGAGCTATGATGTAAATTGGACATGCCTTTAAGCTAAATGCAATCAAACTTGAA
* * ** *
678367 GGTCTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAGTTGATATGCTTT
196 GGTCTTTTGCTGACAAATAACCCTTCTCGCATTGAGTTATGCTACAAAGTTGATATGCCTT
* * * *
678428 TGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGCTGACAGATAACCCTTCTCGCCTTGAGCTATG
1 TGAGCTGAATATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* * * * *
678493 CTGTAAATTTG-ATGTGCCTTTGAGCTGAGTGTAATCAAACTTGAAGGTCTTGGTTGACAGATAA
66 TTGTAAA-TTGCATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTGGTCGACAGATAA
* * *
678557 CCCTTCTCGCCTTGAGCTATGATGTAAATTGGATATGCCTTTGAGCTAAATGCAATCGAACTTGA
130 CCCTTCTCGCCTTGAGCTATGATGTAAATTGGACATGCCTTTAAGCTAAATGCAATCAAACTTGA
* *
678622 AGGTCTTTTGTTGACAAATAACCCTTCTCGCATTGAGTTATGCTACAAATTTGATATGCCTT
195 AGGTCTTTTGCTGACAAATAACCCTTCTCGCATTGAGTTATGCTACAAAGTTGATATGCCTT
678684 TGAGCTGAATATAATCGAACTC-ATAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
1 TGAGCTGAATATAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
678748 GTTGTA
65 GTTGTA
678754 CTTGGCTGGG
Statistics
Matches: 287, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
255 1 0.00
256 283 0.99
257 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (256 bp):
TGAGCTGAATATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
TTGTAAATTGCATATGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTGGTCGACAGATAAC
CCTTCTCGCCTTGAGCTATGATGTAAATTGGACATGCCTTTAAGCTAAATGCAATCAAACTTGAA
GGTCTTTTGCTGACAAATAACCCTTCTCGCATTGAGTTATGCTACAAAGTTGATATGCCTT
Found at i:679075 original size:58 final size:61
Alignment explanation
Indices: 678992--679147 Score: 183
Period size: 65 Copynumber: 2.5 Consensus size: 61
678982 AGCTTTGAAT
* * *
678992 TGGATATCCTTCGTTGTGAATTTGAAATCCAATG-GT-TGTTT-CCAAATTGATTTTGAGC
1 TGGATATCCTTCGTTGTGAAGTTGAAATCCAATGAGTAAGTTTACCAAATTGACTTTGAGC
* * * *
679050 TGGATATCCTTCGTCGTGAAGTTGAAATCTAATCTTGAGTAAGTTTCACCAAATTGGCTTTGAGT
1 TGGATATCCTTCGTTGTGAAGTTGAAATCCAA---TGAGTAAGTTT-ACCAAATTGACTTTGAGC
*
679115 TGGATATCATTCGTTGTGAAGTTGAAATCCAAT
1 TGGATATCCTTCGTTGTGAAGTTGAAATCCAAT
679148 CTCAAGCTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
58 29 0.36
61 2 0.02
62 3 0.04
63 4 0.05
65 43 0.53
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (61 bp):
TGGATATCCTTCGTTGTGAAGTTGAAATCCAATGAGTAAGTTTACCAAATTGACTTTGAGC
Found at i:679440 original size:64 final size:64
Alignment explanation
Indices: 679355--679707 Score: 516
Period size: 64 Copynumber: 5.5 Consensus size: 64
679345 ACATTGTTTC
**
679355 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTT
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
679419 GAGTCCAATAT-TTGTCACTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCTT-TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * *
679483 AAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATAAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
679547 GAGTCCAATAT-TCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCT-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
679611 GAGTCCAATAT-TCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAGTTGTTTATT
1 GAGTCCAATATCT-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
**
679675 GAGTCCAATATAC-TTCATTGTGAAGTTGAAATT
1 GAGTCCAATAT-CTTTCGCTGTGAAGTTGAAATT
679708 AACTATAAAA
Statistics
Matches: 264, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
63 2 0.01
64 261 0.99
65 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (64 bp):
GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:679572 original size:192 final size:192
Alignment explanation
Indices: 679355--679707 Score: 575
Period size: 192 Copynumber: 1.8 Consensus size: 192
679345 ACATTGTTTC
679355 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTG
1 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTG
* * *
679420 AGTCCAATATT-TGTCACTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTTA
66 AGTCCAATATTCT-TCACTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAGTTGTTTATTA
* * *
679484 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATAAAACTGGAAAGTTGTTTGTT
130 AGTCCAATATACTTCATTGTGAAGTTGAAATTGACTCTGAATAAAACTGGAAAGTTGTTTGTT
**
679547 GAGTCCAATAT-TCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCT-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTT
** *
679611 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAGTTGTTTATTG
65 GAGTCCAATATTCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAGTTGTTTATTA
679676 AGTCCAATATACTTCATTGTGAAGTTGAAATT
130 AGTCCAATATACTTCATTGTGAAGTTGAAATT
679708 AACTATAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
191 1 0.01
192 146 0.99
193 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (192 bp):
GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCATTTGTTG
AGTCCAATATTCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAGTTGTTTATTAA
GTCCAATATACTTCATTGTGAAGTTGAAATTGACTCTGAATAAAACTGGAAAGTTGTTTGTT
Found at i:682883 original size:172 final size:172
Alignment explanation
Indices: 682559--682879 Score: 366
Period size: 172 Copynumber: 1.9 Consensus size: 172
682549 ATTTAAGTTT
** *
682559 TGTCGAAACGATTTTTAAAATGAAGAGTGCGAGATTTAGAAAACCACGTCATTTTTAATTTATCT
1 TGTCGAAACGATTTTTAAAATGAAGAGAACGAGATTTAGAAAACCACATCATTTTTAATTTATCT
* ** * *
682624 CTTTTTGATTGAATTTTTAATTAAAAACAATGAGATTTTAGAAAAACTCTCATTTCGAAAAATTA
66 CTTTTTAATTGAATTTTTAATTAAAAACAACAAGATTGTA-AAAAACTATCATTTCGAAAAATTA
* * *
682689 GAAATTTCTTTACGATAAAACATCCCTAACGGAGTCGTCAAAC
130 GAAATTCCCTTACAATAAAACATCCCTAACGGAGTCGTCAAAC
* * * *
682732 TGTCGAAACGATTTTT-AAGTGAGGGGAACGAGATTTTGAAAACCACATCAATTTTTAA-TTAT-
1 TGTCGAAACGATTTTTAAAATGAAGAGAACGAGATTTAGAAAACCACATC-ATTTTTAATTTATC
* * **
682794 TTTATTTATAATTGAA-TTTTAATTAAAAACAACAAGAATTGT-AAAACCTATTGTTTC-AAAAA
65 TCT-TTT-TAATTGAATTTTTAATTAAAAACAACAAG-ATTGTAAAAAACTATCATTTCGAAAAA
*
682856 TTTGGAAATTCCCTTACAATAAAA
127 -TTAGAAATTCCCTTACAATAAAA
682880 ACATATGGTT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
170 5 0.04
171 32 0.26
172 51 0.41
173 35 0.28
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (172 bp):
TGTCGAAACGATTTTTAAAATGAAGAGAACGAGATTTAGAAAACCACATCATTTTTAATTTATCT
CTTTTTAATTGAATTTTTAATTAAAAACAACAAGATTGTAAAAAACTATCATTTCGAAAAATTAG
AAATTCCCTTACAATAAAACATCCCTAACGGAGTCGTCAAAC
Found at i:685969 original size:20 final size:21
Alignment explanation
Indices: 685944--685987 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
685934 TTACCAATAT
*
685944 AACATGT-AAAAAAATGATAA
1 AACATGTCAAAAAAATGACAA
*
685964 AACATGTCTAAAAAATGACAA
1 AACATGTCAAAAAAATGACAA
685985 AAC
1 AAC
685988 CGGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.18
Consensus pattern (21 bp):
AACATGTCAAAAAAATGACAA
Found at i:686271 original size:183 final size:181
Alignment explanation
Indices: 685610--686424 Score: 1058
Period size: 182 Copynumber: 4.5 Consensus size: 181
685600 AATAGGTGCC
* *
685610 AAAATGACAAAGTCGGTAAAACGCTATCGGATATGTGTCG--AGTGTCGATAATTTAATATAAGT
1 AAAATGACAAA-ACCGTAAAACGCTATCGGATATGT-T-GAAAGTGTCGATAATTTAATATAAGT
* * * * *
685673 ATCGAAACTTTCTGAGTTTAAAAGAGAAGAAGTTATAACGCCTATAAAGTGTCGATACTTTAAAA
63 ATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAA
*
685738 AAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACTTGTCTCA
128 AAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAAC-AGTCTCA
* * * * * * *
685793 AAAATGACAAAACCGGAAAAAGTTATCGGATATATTAAAAGTGTCAATAATTTAATATTAGTATC
1 AAAATGACAAAACCGTAAAACGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATC
**
685858 GACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAA
66 GACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAAA
* ** * * * *
685923 TGTATCGATCCTTACCAATATAACATGTAAAAAAATGATAAAACATGTCTAA
131 TATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACA-GTCTCA
* * * * *
685975 AAAATGACAAAACCGGAAAAAGTTATCAGATATGTTAAAAGTGTCGATAATTTAATATAAGTATC
1 AAAATGACAAAACCGTAAAACGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATC
* * * * **
686040 GACACTTTCTGAATTTAAAAGAGAAAAAGTTATTGCGCTTAAAAAGTGTCAACACTTTATGAAAA
66 GACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAAA
* * *
686105 TATATCGATTCATAACAATATAACAGGTAAAAATATGGTAAAACAGATCTCA
131 TATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAG-TCTCA
* * *
686157 AAATTGACAAAACCAGTAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTAT
1 AAAATGACAAAACC-GTAAAACGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
* * *
686222 CGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAA
65 CGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAA
* * * *
686287 ATATATCAATTCACAACAATATAACAGATAAAAATATGATAAAACAAGTCCCA
130 ATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAAC-AGTCTCA
* * * *
686340 AAATTGACAAAACCAGTAAAACGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
1 AAAATGACAAAACC-GTAAAACGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
*
686405 CGACACTTTCTGAAATTAAA
65 CGACACTTTCTGAATTTAAA
686425 CTAAAAAGTG
Statistics
Matches: 559, Mismatches: 67, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
181 2 0.00
182 320 0.57
183 235 0.42
184 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (181 bp):
AAAATGACAAAACCGTAAAACGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATC
GACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAAAAAAA
TATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAGTCTCA
Found at i:686472 original size:163 final size:163
Alignment explanation
Indices: 686265--686586 Score: 452
Period size: 162 Copynumber: 2.0 Consensus size: 163
686255 TAGCGCCTAT
*
686265 AAAGTGTCGATACTTTAAAAAAATATATCAATTCACAACAATATAAC-AGATAAAAATATGATAA
1 AAAGTGTCGACACTTTAAAAAAATATATCAATTCACAACAATATAACAAG-TAAAAATATGATAA
* * *
686329 AACA-AGTCCCAAAATTGACAAAACCAGTAAAACGATACCAGATATGTTGAAAGTGTCGATAATT
65 AA-ATAGTCCCAAAAATGACAAAACCAG-AAAAAGATACCAGATATATTGAAAGTGTCGATAATT
*
686393 TAATATAAGTATCGACACTTTCTGAAATTAAACTAA
128 CAATATAAGTATCGACACTTTCTGAAATTAAACTAA
** * * *
686429 AAAGTGTCGACACTTTATGAAAATGTATCGA-TCATAACAATATAACAAGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTAAAAAAATATATCAATTCACAACAATATAACAAGTAAAAATATGATAAA
* * * *
686493 AATGGTCTCAAAAATGACAAAACCAGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTCAA
66 AATAGTCCCAAAAATGACAAAACCAGAAAAAGATACCAGATATATTGAAAGTGTCGATAATTCAA
* *
686558 TATTAGTATCGACACTTTCTGAATTTAAA
131 TATAAGTATCGACACTTTCTGAAATTAAA
686587 AGAGAAGAAG
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
162 62 0.44
163 50 0.36
164 28 0.20
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (163 bp):
AAAGTGTCGACACTTTAAAAAAATATATCAATTCACAACAATATAACAAGTAAAAATATGATAAA
AATAGTCCCAAAAATGACAAAACCAGAAAAAGATACCAGATATATTGAAAGTGTCGATAATTCAA
TATAAGTATCGACACTTTCTGAAATTAAACTAA
Found at i:686664 original size:162 final size:159
Alignment explanation
Indices: 686496--686819 Score: 468
Period size: 162 Copynumber: 2.0 Consensus size: 159
686486 TGATAAAAAT
*
686496 GGTCTCAAAAATGACAAAACCAGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTCAATAT
1 GGTCTCAAAAATGACAAAACCAGAAAAAGTTACCGGATATATTGAAAATGTCGATAATTCAATAT
* *
686561 TAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTT
66 AAGTATCGACACTTTCTGAATTT-AAA-AG-AGAAGTTATAACGCTTAAAAAGTGTCGACACTTT
* ** *
686626 ATTAAAATGTATCGATCCTTACCAATATAACA
128 ATGAAAATGTATCGATCCAGAACAATATAACA
* * * * *
686658 GGTCTCAAAAATGACAAAATCGGAAAAAGTTTCCGGATATGTTGAAAATGTCGATAATTTAATAT
1 GGTCTCAAAAATGACAAAACCAGAAAAAGTTACCGGATATATTGAAAATGTCGATAATTCAATAT
* * * * *
686723 AAGTATTGATACTTTCTGAATTTAAAAGAGAAGTTATAACGTTTATAAAGTGTTGACACTTTATG
66 AAGTATCGACACTTTCTGAATTTAAAAGAGAAGTTATAACGCTTAAAAAGTGTCGACACTTTATG
686788 AAAATGTATCGATCCAGAACAATATAACA
131 AAAATGTATCGATCCAGAACAATATAACA
686817 GGT
1 GGT
686820 AAAAATATAA
Statistics
Matches: 145, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
159 61 0.42
160 2 0.01
161 3 0.02
162 79 0.54
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (159 bp):
GGTCTCAAAAATGACAAAACCAGAAAAAGTTACCGGATATATTGAAAATGTCGATAATTCAATAT
AAGTATCGACACTTTCTGAATTTAAAAGAGAAGTTATAACGCTTAAAAAGTGTCGACACTTTATG
AAAATGTATCGATCCAGAACAATATAACA
Found at i:687314 original size:18 final size:19
Alignment explanation
Indices: 687291--687335 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
687281 TAGTTAATAT
687291 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
687309 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
687328 TTTTAGGT
1 TTATAGGT
687336 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:687464 original size:5 final size:5
Alignment explanation
Indices: 687454--687478 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
687444 TGTAAGCAAT
687454 ATTTG ATTTG ATTTG ATTTG ATTTG
1 ATTTG ATTTG ATTTG ATTTG ATTTG
687479 CGCAAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATTTG
Found at i:688468 original size:15 final size:15
Alignment explanation
Indices: 688450--688487 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
688440 AAGGCTTGAA
*
688450 GGGTGAATTCAATTG
1 GGGTGAATTCAACTG
688465 GGGTGAATTCAACTG
1 GGGTGAATTCAACTG
*
688480 GGCTGAAT
1 GGGTGAAT
688488 ATGTCCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (15 bp):
GGGTGAATTCAACTG
Found at i:688649 original size:22 final size:22
Alignment explanation
Indices: 688599--688653 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
688589 AATGTTTTTG
688599 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
688621 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
688643 CTTTTATTATA
1 -TTTTATTATA
688654 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 10 0.36
23 3 0.11
24 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:689354 original size:18 final size:18
Alignment explanation
Indices: 689331--689369 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
689321 GAAAAAATTT
*
689331 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
689349 GAAGAATAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
689367 GAA
1 GAA
689370 ATGAGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:690865 original size:19 final size:19
Alignment explanation
Indices: 690837--690885 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
690827 AAATGCATGG
690837 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
690855 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
690874 ATAATTTTGTAT
1 TTAATTTTGTAT
690886 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:691575 original size:199 final size:199
Alignment explanation
Indices: 691235--693499 Score: 3537
Period size: 199 Copynumber: 11.5 Consensus size: 199
691225 GTAAACTTAT
691235 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
** *
691300 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
691365 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
691430 AAAC
196 AAAA
*
691434 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
691499 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
691564 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
691629 AAAA
196 AAAA
* * * * * *
691633 GTGTTGAAACATTTGTAACAAGTGTCGATCTCAAAAACATCAAAAACTATAATTATAATGT-A-A
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
** * *
691696 --T--ATTAGCAATATAACCGGTCTAAATATACATGTTTTTTAGAAAACCGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
691757 TCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATATATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
691822 AAAA
196 AAAA
*
691826 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
691891 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACGGGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
691956 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
692021 AAAA
196 AAAA
* * *
692025 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
692090 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTAAGAAAACCGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
692155 TCGACACAAATCTAATAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
692220 AAAA
196 AAAA
* * *
692224 GTGTCGATACATTTATAACAAGTGTCTATCCCAAAAATATCGAAAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
692289 GGTAAATTAGCAATATAACCGGTCTAAATATATCGGTTTTTGAGAAAATATGTGTA-AAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
692353 TCGACACAAATCAAACAAGTGACGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
692418 AAAA
196 AAAA
** * ** * *
692422 GTGTCGAT-C--CCA-AA-AA----C-AT-CC-AAAAC--C-ATAATTATAA-TGTAA--TAGGT
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA-AT
* * * *
692469 A---AA-TTGGAAATATAACCGGTCTAAATATATCGGTTTTTGAGAAAACAGGTGTAAAAAAAGT
65 AGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
692530 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
692595 AAAAA
195 AAAAA
* * * * *
692600 ATGTTGATACATTTGTAACAAGTGTCGATCCCAAAAAAATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
692665 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACCGGTGTACAAAGAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
692730 TCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
692795 AAAA
196 AAAA
692799 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
692864 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
692929 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
692994 AAAA
196 AAAA
*
692998 GTGTCGATACATTTATAACAAGTGTCGATTCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
693063 GGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
693128 TCAACACAAAT-AGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCTCT
131 TCGACACAAATCA-AACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
693192 AAAAA
195 AAAAA
* * * *
693197 GTGTCGATACATTTGTAACAACTGTCGATCCCAAAAACATCGAAAACTATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
693262 GGTAAATTAGCAATATAACCGGTCTAAATATATCGGTTTTTGAGAAAACCGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * * *
693327 TCGACACAAATCGAGCAAGTGTCAATACTTTTGGTCCAAAATGTATTTCAAAACAAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
693392 AAAA
196 AAAA
* * * *
693396 GTGTTGATACATTTACAACAAGTGTCGATCCCAAAAAAATCGAAAACCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* **
693461 GGTAAATTAACAATATAATTGGTCTAAATATACCGGTTT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTT
693500 AAATTAAAAA
Statistics
Matches: 1900, Mismatches: 134, Indels: 64
0.91 0.06 0.03
Matches are distributed among these distances:
177 46 0.02
178 84 0.04
179 1 0.00
180 2 0.00
181 2 0.00
182 6 0.00
183 10 0.01
184 1 0.00
186 4 0.00
187 3 0.00
188 4 0.00
189 3 0.00
190 4 0.00
192 1 0.00
193 185 0.10
194 7 0.00
195 5 0.00
196 2 0.00
197 3 0.00
198 86 0.05
199 1441 0.76
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:693875 original size:15 final size:15
Alignment explanation
Indices: 693855--693889 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
693845 AATTTTTTCT
693855 CAACCCACCTCTTCC
1 CAACCCACCTCTTCC
* *
693870 CAACCCAGCTCTTCT
1 CAACCCACCTCTTCC
693885 CAACC
1 CAACC
693890 AAAACCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.54, G:0.03, T:0.20
Consensus pattern (15 bp):
CAACCCACCTCTTCC
Found at i:695081 original size:12 final size:12
Alignment explanation
Indices: 695047--695081 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
695037 CAAGCGGTAA
*
695047 ATGAAGATGACG
1 ATGAAGATGATG
695059 ATGAAGATGATG
1 ATGAAGATGATG
*
695071 ATGATGATGAT
1 ATGAAGATGAT
695082 CCAAACAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:697349 original size:199 final size:199
Alignment explanation
Indices: 696493--697348 Score: 1331
Period size: 199 Copynumber: 4.3 Consensus size: 199
696483 CAAATAAAAC
* * *
696493 AAGTGTCGGTACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
696558 TAGGTAAATTATTC-ATGTAAAAGGTCTAAATATACTGGTTTTTGAGAAAATAGGTGTACAAAAA
66 TAGGTAAATTA-GCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
696622 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCA
696687 CTAAA
195 CTAAA
* *
696692 AAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *
696757 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
66 TAGGTAAATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
696822 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCAC
*
696887 TAAC
196 TAAA
* * *
696891 AAGTGTCGATACATATATAATAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * *
696956 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAACAG
66 TAGGTAAATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
** ** * *
697021 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCAC
697086 -ATAA
196 TA-AA
* * * * *
697090 AAGTTTCGATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAACGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * *
697155 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAA
66 TAGGTAAATTA-GCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
697219 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCA
697284 CTAAA
195 CTAAA
* * *
697289 AAGTATCGATACATTTATAACAATTGTTGATCCCAAAAACATCGAAAAACATAATTATAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
697349 CCAAATGTCT
Statistics
Matches: 606, Mismatches: 47, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
198 2 0.00
199 602 0.99
200 2 0.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCAC
TAAA
Found at i:700287 original size:199 final size:194
Alignment explanation
Indices: 699882--700420 Score: 629
Period size: 198 Copynumber: 2.7 Consensus size: 194
699872 GTATCAACCC
* ** * ** * * *
699882 CAAAAATATCGAAACAAATAATTATAATATAATATTTAAATTAACAATGTAACCAGTATACATAT
1 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
* * * * *
699947 ACCGG-TTAATTATAAAATAGGTAAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTT
66 ACCGGTTTTATGAGAAAATAGGTCAA-ATAAAGTATCGACACTTTATAA-TTTGTGTCGATAC-T
* * * * * *
700011 TTTTCCAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGAT
128 TTTTCCAAATGAATGCACAAACAGGTGCAAGAATAAAGTGTCGATACATTTAAAATTATATCGAT
700076 CA
193 CA
* * *
700078 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATTT
1 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
*
700143 ACCGGTTTTATGAGAAAATAGGTCAGAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACAT
66 ACCGGTTTTATGAGAAAATAGGTCA-AATAAAGTATCGACACTT-TATAATTTGTGTCGATAC-T
*
700208 TTTGTCCATAATGAATGC-CCAACGAGGTGCAAGAATAACA-TGTCGATACATTTAAAATTATAT
128 TTT-TCCA-AATGAATGCACAAAC-AGGTGCAAGAATAA-AGTGTCGATACATTTAAAATTATAT
700271 CGATCA
189 CGATCA
* * *
700277 CAAAAACATCGAAA-CGAAAATTACAATGTTATAGGTAAATTTACAATGT-ACCTGGTATAAATA
1 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC-GGTATAAATA
* * *
700340 TACCAGTTTTATGAGAAAATAGGTCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATACG
65 TACCGGTTTTATGAGAAAATAGGTC-AAATAAAGTATCGACA-CTTTATAATTTGTGTCGATAC-
700405 TTTTTCCAGAATGAAT
127 TTTTTCCA-AATGAAT
700421 TAGGAATGCC
Statistics
Matches: 296, Mismatches: 37, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
196 58 0.20
197 63 0.21
198 110 0.37
199 64 0.22
200 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (194 bp):
CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
ACCGGTTTTATGAGAAAATAGGTCAAATAAAGTATCGACACTTTATAATTTGTGTCGATACTTTT
TCCAAATGAATGCACAAACAGGTGCAAGAATAAAGTGTCGATACATTTAAAATTATATCGATCA
Found at i:700467 original size:14 final size:13
Alignment explanation
Indices: 700448--700479 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
700438 GTGCAATAAG
700448 TAAATATACCGGT
1 TAAATATACCGGT
700461 ATAAATATACCGGT
1 -TAAATATACCGGT
700475 TAAAT
1 TAAAT
700480 GCCTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (13 bp):
TAAATATACCGGT
Found at i:700539 original size:23 final size:23
Alignment explanation
Indices: 700490--700533 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
700480 GCCTATTTTC
* *
700490 TTATATAAGCGCCACCTATTACA
1 TTATATAAACGCCACCTAATACA
*
700513 TTATATAAACGCTACCTAATA
1 TTATATAAACGCCACCTAATA
700534 TGTTATTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (23 bp):
TTATATAAACGCCACCTAATACA
Found at i:706676 original size:13 final size:13
Alignment explanation
Indices: 706658--706682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
706648 TCGAATAAAT
706658 AACTTGTAATTTA
1 AACTTGTAATTTA
706671 AACTTGTAATTT
1 AACTTGTAATTT
706683 TCACTCAAAA
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
AACTTGTAATTTA
Found at i:707161 original size:14 final size:15
Alignment explanation
Indices: 707150--707249 Score: 68
Period size: 14 Copynumber: 6.7 Consensus size: 15
707140 ATAAAAATGG
707150 AAAAAAATAAATGAA
1 AAAAAAATAAATGAA
707165 AAAAAAATAAAT-AA
1 AAAAAAATAAATGAA
**
707179 AAATCAATAAA--AA
1 AAAAAAATAAATGAA
*
707192 TAAAAATAGTAAAT-AA
1 -AAAAA-AATAAATGAA
707208 AAAATAAA-AAAT-AA
1 AAAA-AAATAAATGAA
*
707222 AAAATAAATGAAAAGAA
1 AAAA-AAAT-AAATGAA
707239 AAAAGAAATAA
1 AAAA-AAATAA
707250 TAACAAGAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.03
14 28 0.40
15 22 0.31
16 8 0.11
17 10 0.14
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAATGAA
Found at i:707212 original size:7 final size:7
Alignment explanation
Indices: 707151--707229 Score: 67
Period size: 7 Copynumber: 11.4 Consensus size: 7
707141 TAAAAATGGA
707151 AAAAAAT
1 AAAAAAT
707158 AAATGAAA-
1 AAA--AAAT
707166 AAAAAAT
1 AAAAAAT
707173 AAATAAA-
1 AAA-AAAT
**
707180 AATCAAT
1 AAAAAAT
707187 -AAAAAT
1 AAAAAAT
707193 -AAAAAT
1 AAAAAAT
**
707199 AGTAAAT
1 AAAAAAT
707206 AAAAAAT
1 AAAAAAT
707213 AAAAAAT
1 AAAAAAT
707220 AAAAAAT
1 AAAAAAT
707227 AAA
1 AAA
707230 TGAAAAGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
6 15 0.26
7 34 0.59
8 6 0.10
9 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:710191 original size:23 final size:20
Alignment explanation
Indices: 710138--710216 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
710128 TCGAAATGGA
710138 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACATG
*
710158 GTGCATCGATGCACTAGTGGCA-G
1 GTGCATGGATGCACTA----CATG
* *
710181 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACA-TG
*
710202 GTGCATAGATGCACT
1 GTGCATGGATGCACT
710217 TTGACACCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 15 0.31
23 15 0.31
24 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTACATG
Found at i:713720 original size:182 final size:182
Alignment explanation
Indices: 713405--713857 Score: 678
Period size: 182 Copynumber: 2.5 Consensus size: 182
713395 TTTTACTACT
* * *
713405 GGTTTTGTCATTTAGAGACCAAG-TTTGTCATATTTTTACCTATTATATTGTTAAGGATCGATAC
1 GGTTTTGTCATTTAGAGACC-GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* * * *
713469 ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAGCGT
65 ATTTTTATAAAGTATCGACACTTTATTAGAGCTATAACTTCTTCTCTTTTAAATTCCAAAAGCGT
* *
713534 CGATACTTAT-GATAAAGTATCGACACTTTCAACATATCTAGTAGC-TCTTTACC
130 CGATACTTATAG-TAAAGTATCGACACTATCAACATATCTAGTAGCGT-TTAACC
* *
713587 GGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATA
1 GGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
* *
713652 TTTTTATAAAGTATCGAAACTTTATTAGAGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTAGAGCTATAACTTCTTCTCTTTTAAATTCCAAAAGCGTC
*
713717 GATACTTATAGTAAAGTATCGACACTATCAACATATCTGGTAGCGTTTAACC
131 GATACTTATAGTAAAGTATCGACACTATCAACATATCTAGTAGCGTTTAACC
* * * * *
713769 TGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATAC
1 GGTTTTGTCATTTAGAGACCGGTTTTGTCA-TATTTTTACCTGTTATATTGTTATGGATCGATAC
713834 ATTTTTATAAAGTATCGACACTTT
65 ATTTTTATAAAGTATCGACACTTT
713858 CAATATATCT
Statistics
Matches: 245, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
181 1 0.00
182 188 0.77
183 56 0.23
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
GGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
TTTTTATAAAGTATCGACACTTTATTAGAGCTATAACTTCTTCTCTTTTAAATTCCAAAAGCGTC
GATACTTATAGTAAAGTATCGACACTATCAACATATCTAGTAGCGTTTAACC
Found at i:713968 original size:111 final size:112
Alignment explanation
Indices: 713728--714077 Score: 605
Period size: 111 Copynumber: 3.1 Consensus size: 112
713718 ATACTTATAG
* * *
713728 TAAAGTATCGACACTATCAACATATCTGGTAGCG-TTTAACCTGTTTTGTCATTTATAGACCGAT
1 TAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTT-ACCTGTTTTGTCATTTATAGACCGGT
713792 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTA
65 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTA
*
713841 TAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTT
1 TAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
*
713906 TTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTA
66 TTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTA
*
713952 TAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
1 TAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
*
714017 TTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTA
66 TTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTA
714064 TAAAGTATCGACAC
1 TAAAGTATCGACAC
714078 AAACTGACAA
Statistics
Matches: 226, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
111 108 0.48
112 52 0.23
113 63 0.28
114 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
TAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
TTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTA
Found at i:723791 original size:19 final size:20
Alignment explanation
Indices: 723764--723807 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
723754 TGAGACAATG
723764 TTTTATAAAAT-TTA-ATAAT
1 TTTTATAAAATATTATAT-AT
*
723783 TTTTGTAAAATATTATATAT
1 TTTTATAAAATATTATATAT
723803 TTTTA
1 TTTTA
723808 GATATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 10 0.48
20 9 0.43
21 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATAAAATATTATATAT
Found at i:727702 original size:2 final size:2
Alignment explanation
Indices: 727695--727728 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
727685 TCTATGAACC
727695 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
727729 AAAGTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:729219 original size:32 final size:32
Alignment explanation
Indices: 729182--729282 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
729172 TGTGTCTAAG
*
729182 GTGATGATGTGACATATGTCACGTGTATATAA
1 GTGATGATGTGACACATGTCACGTGTATATAA
* * ** **
729214 GTGATGAAGCGACACATGTCATATGTACGTAA
1 GTGATGATGTGACACATGTCACGTGTATATAA
* * *
729246 ATGATTATATGACACATG-CTACGTGTATATAA
1 GTGATGATGTGACACATGTC-ACGTGTATATAA
729278 GTGAT
1 GTGAT
729283 ACTCTACTAT
Statistics
Matches: 51, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
31 1 0.02
32 50 0.98
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (32 bp):
GTGATGATGTGACACATGTCACGTGTATATAA
Found at i:737979 original size:20 final size:20
Alignment explanation
Indices: 737954--738000 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
737944 AGAATAATTA
*
737954 TATCTTTATTATAGT-TTTTT
1 TATCTTTATGATA-TATTTTT
737974 TATCTTTATGATATATTTTT
1 TATCTTTATGATATATTTTT
*
737994 CATCTTT
1 TATCTTT
738001 TTTTCTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (20 bp):
TATCTTTATGATATATTTTT
Found at i:738704 original size:16 final size:17
Alignment explanation
Indices: 738683--738719 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
738673 CGATACGATC
738683 ATATATG-TTTGTATCT
1 ATATATGTTTTGTATCT
738699 ATATATGTTTTGTATCT
1 ATATATGTTTTGTATCT
738716 ATAT
1 ATAT
738720 CTTTGTTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (17 bp):
ATATATGTTTTGTATCT
Found at i:745734 original size:14 final size:15
Alignment explanation
Indices: 745717--745748 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
745707 AGATAAAGTG
745717 AAAATAAAGAA-AGA
1 AAAATAAAGAAGAGA
745731 AAAATAAAGAAGAGA
1 AAAATAAAGAAGAGA
745746 AAA
1 AAA
745749 TAAGTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAATAAAGAAGAGA
Found at i:745749 original size:14 final size:13
Alignment explanation
Indices: 745716--745751 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
745706 AAGATAAAGT
745716 GAAAATAAAGAAA
1 GAAAATAAAGAAA
745729 GAAAAATAAAGAAGA
1 G-AAAATAAAGAA-A
745744 GAAAATAA
1 GAAAATAA
745752 GTAAATAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (13 bp):
GAAAATAAAGAAA
Found at i:745759 original size:22 final size:23
Alignment explanation
Indices: 745732--745774 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
745722 AAAGAAAGAA
745732 AAATAAAGA-AGAGAAAATAAGT
1 AAATAAAGACAGAGAAAATAAGT
* *
745754 AAATAACGACAGATAAAATAA
1 AAATAAAGACAGAGAAAATAA
745775 AGATGAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (23 bp):
AAATAAAGACAGAGAAAATAAGT
Found at i:745846 original size:2 final size:2
Alignment explanation
Indices: 745841--745881 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
745831 AATACAAAGA
745841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
745882 ATAATTTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:746005 original size:2 final size:2
Alignment explanation
Indices: 745998--746081 Score: 79
Period size: 2 Copynumber: 43.5 Consensus size: 2
745988 AAAACAATTA
* * *
745998 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AG AC AC AT GA- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
*
746038 AA AT AT -T A- AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746079 AT A
1 AT A
746082 ATGATAAGGC
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
1 5 0.07
2 63 0.89
3 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:748267 original size:37 final size:37
Alignment explanation
Indices: 748185--748361 Score: 293
Period size: 37 Copynumber: 4.8 Consensus size: 37
748175 AAAAGTTGTA
*
748185 TTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTG
*
748221 TTTCAAGGGAAACTGTCTCAAGAGAGACGAGATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTG
* *
748258 TTTCAAGGGAAACTGTCTCAATAGAGACAAGATTTGG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTG
* *
748295 TTTCAAGGAAAACTGTCTCAAGAAAGACAAGATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTG
748332 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
748362 TGGTGAGCAT
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 29 0.22
37 100 0.78
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (37 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTG
Found at i:748929 original size:110 final size:110
Alignment explanation
Indices: 748783--748986 Score: 291
Period size: 110 Copynumber: 1.9 Consensus size: 110
748773 AATGGGGAAA
* * * *
748783 TTATTTGTTGATAACCAGTCGCCCCTTCGTTATGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
1 TTATTTGTTGACAACCAGTCGCCCCTTCATCATGAAGTTGAGCTTGTATTGTCTCGAGTCCAATA
* *
748848 TCTTTTGTTGTGAAATTGAAATTGACTCTGAATGAAACTGAAAAG
66 TCCTTTGATGTGAAATTGAAATTGACTCTGAATGAAACTGAAAAG
* * * *
748893 TTATTTGTTGACAATCAGTCGCCCCTTCATCGTGAAGTTGAGCTTGTATTGTCTTGGGTCCAATA
1 TTATTTGTTGACAACCAGTCGCCCCTTCATCATGAAGTTGAGCTTGTATTGTCTCGAGTCCAATA
* * *
748958 TCCTTTGATGTGAAGTTTAAATTGGCTCT
66 TCCTTTGATGTGAAATTGAAATTGACTCT
748987 AAAATTGGGA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 81 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (110 bp):
TTATTTGTTGACAACCAGTCGCCCCTTCATCATGAAGTTGAGCTTGTATTGTCTCGAGTCCAATA
TCCTTTGATGTGAAATTGAAATTGACTCTGAATGAAACTGAAAAG
Found at i:750220 original size:95 final size:95
Alignment explanation
Indices: 750050--750232 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 95
750040 AATATGTAAA
* *
750050 CACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGG
1 CACCTTTATCAGGTTAGCCGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGG
*
750115 GATAGATCAAGCTTTATTGTATAGTATAAT
66 GACAGATCAAGCTTTATTGTATAGTATAAT
* * * * *
750145 CACCTTTATCAGGTTAGCCGAATATTATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTATAGG
1 CACCTTTATCAGGTTAGCCGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGG
750210 GACA-ACTCAAGCTTTATTGTATA
66 GACAGA-TCAAGCTTTATTGTATA
750233 TATGTAATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 1 0.01
95 78 0.99
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (95 bp):
CACCTTTATCAGGTTAGCCGAATATTATCCATAAAGCCAGGGCATTTAACCAATTGCCTTAGAGG
GACAGATCAAGCTTTATTGTATAGTATAAT
Found at i:754112 original size:14 final size:14
Alignment explanation
Indices: 754094--754129 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
754084 AAGATAAAGT
754094 GAAAATAAAGAA-A
1 GAAAATAAAGAAGA
754107 GCAAAATAAAGAAGA
1 G-AAAATAAAGAAGA
754122 GAAAATAA
1 GAAAATAA
754130 GTAAATAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (14 bp):
GAAAATAAAGAAGA
Found at i:754137 original size:22 final size:23
Alignment explanation
Indices: 754110--754152 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
754100 AAAGAAAGCA
754110 AAATAAAGA-AGAGAAAATAAGT
1 AAATAAAGACAGAGAAAATAAGT
* *
754132 AAATAACGACAGATAAAATAA
1 AAATAAAGACAGAGAAAATAA
754153 AGACGAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (23 bp):
AAATAAAGACAGAGAAAATAAGT
Found at i:754324 original size:18 final size:18
Alignment explanation
Indices: 754303--754337 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
754293 GAGAAATATT
754303 ATATAAAAATAAAAAAAA
1 ATATAAAAATAAAAAAAA
* *
754321 ATATACAAGTAAAAAAA
1 ATATAAAAATAAAAAAA
754338 TGAAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
ATATAAAAATAAAAAAAA
Found at i:754487 original size:2 final size:2
Alignment explanation
Indices: 754474--754521 Score: 60
Period size: 2 Copynumber: 23.0 Consensus size: 2
754464 ATAAATAAAA
* *
754474 AT AT AT AC AT AT AT AA ACT GAT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT
754518 AT AT
1 AT AT
754522 CAACTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 38 0.95
3 1 0.03
4 1 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:757224 original size:2 final size:2
Alignment explanation
Indices: 757217--757246 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
757207 ATAATTGATT
757217 TG TG TG TG TG TG TG TG TG TG TG TG TG -G TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
757247 AAAGAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:775534 original size:42 final size:42
Alignment explanation
Indices: 775487--775569 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
775477 GAGCCTAGGA
* *
775487 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGAG
1 AAACTGTAAGACTTACCCTTGCACACAACAAAGGGACCTGAG
*
775529 AAACTGTAAGACTTACCTTTGCACACAACAAAGGGACCTGA
1 AAACTGTAAGACTTACCCTTGCACACAACAAAGGGACCTGA
775570 TGTAACACCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (42 bp):
AAACTGTAAGACTTACCCTTGCACACAACAAAGGGACCTGAG
Found at i:777787 original size:31 final size:33
Alignment explanation
Indices: 777723--777797 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
777713 TATAAATTTA
777723 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
777756 AAAAACGTTTTAAAACTATA--TTATA-TGTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGT-TTTC
*
777787 AAAAATGTTTT
1 AAAAACGTTTT
777798 TTTAACTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 1 0.03
31 19 0.47
33 20 0.50
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (33 bp):
AAAAACGTTTTAAAACTATATGTTATAGTTTTC
Found at i:777840 original size:35 final size:35
Alignment explanation
Indices: 777652--777978 Score: 201
Period size: 36 Copynumber: 9.3 Consensus size: 35
777642 CTATATGATA
* * *
777652 AAAAATGTTTTAAAACTTTATATAATATATATTTC
1 AAAAATGTTTTAAAACTATATATTATATAAATTTC
* * *
777687 AAAGATATTTTCAAAA-TCATATATTATATAAATTTA
1 AAAAATGTTTT-AAAACT-ATATATTATATAAATTTC
* *
777723 AAAAACGTTTTAAAACTATATGTTATAGT---TTTC
1 AAAAATGTTTTAAAACTATATATTATA-TAAATTTC
* *
777756 AAAAACGTTTTAAAAC--TATATTATAT--GTTTC
1 AAAAATGTTTTAAAACTATATATTATATAAATTTC
**
777787 AAAAATGTTTTTTTAACTATATATTATATAAATTT-
1 AAAAATG-TTTTAAAACTATATATTATATAAATTTC
* *
777822 TAAAATGATTTTAAAACTATATATTATATAAGTTTTC
1 AAAAATG-TTTTAAAACTATATATTATATAA-ATTTC
* * **
777859 -AAAATGGGTTTAAAAACTATATAATATATATGGTTTC
1 AAAAAT--GTTTTAAAACTATATATTATATA-AATTTC
** ** * * **
777896 AAAAAAATTCAAAAATTATATAATATATATGTTTTC
1 AAAAATGTTTTAAAACTATATATTATATA-AATTTC
* *
777932 AAAAAATGTTTTCAAAAACCATATATTATAT-ATTTTC
1 -AAAAATGTTTT--AAAACTATATATTATATAAATTTC
777969 -AAAATGTTTT
1 AAAAATGTTTT
777979 CTTTTTAGAA
Statistics
Matches: 235, Mismatches: 38, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
30 1 0.00
31 18 0.08
32 7 0.03
33 19 0.08
34 10 0.04
35 60 0.26
36 65 0.28
37 36 0.15
38 5 0.02
39 14 0.06
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (35 bp):
AAAAATGTTTTAAAACTATATATTATATAAATTTC
Found at i:777875 original size:37 final size:36
Alignment explanation
Indices: 777801--778036 Score: 176
Period size: 37 Copynumber: 6.4 Consensus size: 36
777791 ATGTTTTTTT
* *
777801 AACTATATATTATATAAATTTT-AAAATGATTTTAA
1 AACTATATATTATATAAGTTTTCAAAATGATTTAAA
*
777836 AACTATATATTATATAAGTTTTCAAAATGGGTTTAAA
1 AACTATATATTATATAAGTTTTCAAAAT-GATTTAAA
* * * ** *
777873 AACTATATAATATATATGGTTTCAAAAAAATTCAAA
1 AACTATATATTATATAAGTTTTCAAAATGATTTAAA
* * * *
777909 AATTATATAATATATATGTTTTCAAAAAATGTTTTCAAA
1 AACTATATATTATATAAGTTTTC--AAAATGATTT-AAA
* *
777948 AACCATATATTATAT-A-TTTTCAAAATGTTTTCTTTTTAGAA
1 AACTATATATTATATAAGTTTTCAAAATG------ATTTA-AA
* *
777989 AACCATATATTATAT-AGTTTTCAAAATGATTT-CA
1 AACTATATATTATATAAGTTTTCAAAATGATTTAAA
*
778023 AACTATATAATATA
1 AACTATATATTATA
778037 ATATATATAT
Statistics
Matches: 164, Mismatches: 24, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
34 13 0.08
35 27 0.16
36 34 0.21
37 35 0.21
38 6 0.04
39 15 0.09
40 1 0.01
41 22 0.13
42 11 0.07
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (36 bp):
AACTATATATTATATAAGTTTTCAAAATGATTTAAA
Found at i:777942 original size:13 final size:13
Alignment explanation
Indices: 777924--777949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
777914 TATAATATAT
777924 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
777937 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
777950 CCATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGTTTTCAAAAA
Found at i:777962 original size:73 final size:73
Alignment explanation
Indices: 777834--777972 Score: 167
Period size: 73 Copynumber: 1.9 Consensus size: 73
777824 AAATGATTTT
* * *
777834 AAAACTATATATTATATAAGTTTTCAAAATGGGTTTAAAAACTATATAATATATATGGTTTCAAA
1 AAAACTATATAATATATAAGTTTTCAAAATGGGTTTAAAAACCATATAATATATATAGTTTCAAA
777899 AAAATTCA
66 AAAATTCA
* * * *
777907 AAAATTATATAATATATATGTTTTCAAAAAAT-GTTTTCAAAAACCATAT-AT-TATATATTTTC
1 AAAACTATATAATATATAAGTTTTC--AAAATGGGTTT-AAAAACCATATAATATATATAGTTTC
777969 AAAA
63 AAAA
777973 TGTTTTCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
73 35 0.62
74 6 0.11
75 15 0.27
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (73 bp):
AAAACTATATAATATATAAGTTTTCAAAATGGGTTTAAAAACCATATAATATATATAGTTTCAAA
AAAATTCA
Found at i:778042 original size:2 final size:2
Alignment explanation
Indices: 778026--778063 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
778016 GATTTCAAAC
778026 TA TA TA -A TA TA -A 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
778064 ATAAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:778905 original size:165 final size:165
Alignment explanation
Indices: 778561--779390 Score: 1157
Period size: 165 Copynumber: 5.0 Consensus size: 165
778551 GACAGTAGTG
* * * * * * **
778561 AATGATGTGTCATGGAGCTGATCGTAGTCGAACTCGAATGTCTTT-G-TAACAGATAACCCTTCT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCT
* * * * * * * ***
778624 CGCCTTGAGTTATGCTGTAAATGATGCGCCGTTG-AGCTGAGTGTAGTCGAACTCAAAGGTCTTT
66 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT
* * * * * *
778688 TGTTAGCAGACAACCCTTCTAGACTTAAGTTGTGATGCA
130 TG---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* * *
778727 AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCTTTCT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCT
778792 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
66 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
* *
778857 GGTAGATAGCCCTTCTCGACTTAAGCTATGTTGCA
131 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* *
778892 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTTGGCAGATAACCTTTC
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGT-ATTTGGTTGGCAGATAACCCTTC
778957 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
65 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
* * *
779022 TGGTAGATAGCCCTTCTCAACTTAAGCTATGTTGCA
130 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
** *
779058 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGG-TCACAGATAACCCTCC
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTA-TTTGGTTGGCAGATAACCCTTC
* * * *
779122 TAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
65 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
*
779187 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCG
130 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* *
779223 AATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTC
1 AATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCAGATAACCCTTC
779287 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
65 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
*
779352 TGGCAGATAGCCCTTCTCGACTTAAGCTAAGCTGCA
130 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
779388 AAT
1 AAT
779391 AGTTTGTTTA
Statistics
Matches: 603, Mismatches: 54, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
164 4 0.01
165 320 0.53
166 209 0.35
167 1 0.00
168 46 0.08
169 23 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (165 bp):
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCT
CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
Found at i:779071 original size:331 final size:330
Alignment explanation
Indices: 778561--779390 Score: 1186
Period size: 331 Copynumber: 2.5 Consensus size: 330
778551 GACAGTAGTG
* * * * * **
778561 AATGATGTGTCATGGAGCTGATCGTAGTCGAACTCGAATGTC-TTTG-TAACAGATAACCCTTCT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCT
* * * * * * * ***
778624 CGCCTTGAGTTATGCTGTAAATGATGCGCCGTTG-AGCTGAGTGTAGTCGAACTCAAAGGTCTTT
66 CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT
* * * *
778688 TGTTAGCAGACAACCCTTCT-AGACTTAAGTTGTGATGCAAATGATATGCCTTGGAGCTGAGCGT
130 TG---GCAGATAGCCCTTCTCA-ACTTAAGCTATGATGCAAATGATATGCCTTGGAGCTGAGCGT
* ** * * *
778752 AGTCGAACTCGAAGGTA-TTTGGTTGGCAGATAACCTTTCTCGACTTAAGTTATGCTGCAAATGA
191 AGTCGAACTCAAAGGTATTTTGG-TCACAGATAACCCTCCTAGACTTAAGTTATGCTGCAAATGA
*
778816 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAA
255 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
*
778881 GCTATGTTGCA
320 GCTATGCTGCA
*
778892 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTTGGCAGATAACCTTTC
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTT-GTTGGCAGATAACCCTTC
778957 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
65 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
* * *
779022 TGGTAGATAGCCCTTCTCAACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
130 TGGCAGATAGCCCTTCTCAACTTAAGCTATGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
* * *
779087 GAACTCAAAGGTATTTTGGTCACAGATAACCCTCCTAGCCTTGAGTTATGCTGTAAATGATGTGC
195 GAACTCAAAGGTATTTTGGTCACAGATAACCCTCCTAGACTTAAGTTATGCTGCAAATGATGTGC
779152 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
260 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
*
779217 GCTGCG
325 GCTGCA
779223 AATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTC
1 AATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTC
779287 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
65 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTT
* * *
779352 TGGCAGATAGCCCTTCTCGACTTAAGCTAAGCTGCAAAT
130 TGGCAGATAGCCCTTCTCAACTTAAGCTATGATGCAAAT
779391 AGTTTGTTTA
Statistics
Matches: 450, Mismatches: 42, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
330 117 0.26
331 252 0.56
332 11 0.02
333 1 0.00
334 46 0.10
335 23 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (330 bp):
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCT
CGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
GGCAGATAGCCCTTCTCAACTTAAGCTATGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
AACTCAAAGGTATTTTGGTCACAGATAACCCTCCTAGACTTAAGTTATGCTGCAAATGATGTGCC
CTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
CTGCA
Found at i:785937 original size:31 final size:33
Alignment explanation
Indices: 785873--785947 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
785863 TATAAATTTA
785873 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
785906 AAAAACGTTTTAAAACTATA--TTATA-TGTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGT-TTTC
*
785937 AAAAATGTTTT
1 AAAAACGTTTT
785948 TTTAACTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 1 0.03
31 19 0.47
33 20 0.50
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (33 bp):
AAAAACGTTTTAAAACTATATGTTATAGTTTTC
Found at i:786020 original size:36 final size:35
Alignment explanation
Indices: 785803--786188 Score: 217
Period size: 36 Copynumber: 10.8 Consensus size: 35
785793 TATATGATAA
* *
785803 AAAATGTTTTAAAACTTTATATAATAT-A-TATTTC
1 AAAATGTTTTAAAACTATATATTATATAAGT-TTTC
* * **
785837 AAAGATATTTTCAAAA-TCATATATTATATAAATTTAA
1 AAA-ATGTTTT-AAAACT-ATATATTATATAAGTTTTC
* *
785874 AAAACGTTTTAAAACTATAT-GT-TAT-AGTTTTC
1 AAAATGTTTTAAAACTATATATTATATAAGTTTTC
*
785906 AAAAACGTTTTAAAAC--TATATTATAT--G-TTTC
1 -AAAATGTTTTAAAACTATATATTATATAAGTTTTC
** **
785937 AAAAATGTTTTTTTAACTATATATTATATAAAATTT-
1 -AAAATG-TTTTAAAACTATATATTATATAAGTTTTC
785973 AAAATGATTTTAAAACTATATATTATATAAGTTTTC
1 AAAATG-TTTTAAAACTATATATTATATAAGTTTTC
* * *
786009 AAAATGGTTTTAAAAACTATATAATATATATGGTTTC
1 AAAAT-GTTTT-AAAACTATATATTATATAAGTTTTC
** ** * * *
786046 AAAAAAATTCAAAAATTATATAATATATATGTTTTC
1 -AAAATGTTTTAAAACTATATATTATATAAGTTTTC
786082 AAAAAATGTTTTCAAAAACTATATATTATAT-A-TTTTC
1 --AAAATGTTTT--AAAACTATATATTATATAAGTTTTC
*
786119 AAAATGTTTTCTTTTTAGAAAACCATATATTATAT-AGTTTTC
1 AAAATG------TTTT--AAAACTATATATTATATAAGTTTTC
* * *
786161 AAAATGATTTCAAACTATATAATATATA
1 AAAATGTTTTAAAACTATATATTATATA
786189 TATATATATA
Statistics
Matches: 278, Mismatches: 44, Indels: 59
0.73 0.12 0.15
Matches are distributed among these distances:
31 13 0.05
32 13 0.05
33 21 0.08
34 28 0.10
35 51 0.18
36 54 0.19
37 46 0.17
38 5 0.02
39 15 0.05
41 21 0.08
42 11 0.04
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (35 bp):
AAAATGTTTTAAAACTATATATTATATAAGTTTTC
Found at i:786084 original size:73 final size:72
Alignment explanation
Indices: 785802--786122 Score: 192
Period size: 73 Copynumber: 4.6 Consensus size: 72
785792 CTATATGATA
** * *
785802 AAAAATGTTTT--AAAACTTTATATAATATATA-TTTCAAAGATATTTTCAAAATC-ATATATTA
1 AAAAATGTTTTCAAAAAC--TATATAATATATATTTTCAAA-A-AAATTCAAAAACTATATAATA
* *
785863 TATAA-ATTTA
62 TATAAGTTTTC
* * ** **
785873 AAAAACGTTTT--AAAACTATAT-GT-TATAGTTTTCAAAAACGTTTTAAAACTATAT--TATAT
1 AAAAATGTTTTCAAAAACTATATAATATATA-TTTTCAAAAAAATTCAAAAACTATATAATATAT
785932 --G-TTTC
65 AAGTTTTC
*** * * ** ** *
785937 AAAAATGTTTT-TTTAACTATATATTATATAAAATTT-AAAATGATTTTAAAACTATATATTATA
1 AAAAATGTTTTCAAAAACTATATA--ATATATATTTTCAAAAAAATTCAAAAACTATATAATATA
786000 TAAGTTTTC
64 TAAGTTTTC
*
786009 -AAAATGGTTTT-AAAAACTATATAATATATATGGTTTCAAAAAAATTCAAAAATTATATAATAT
1 AAAAAT-GTTTTCAAAAACTATATAATATATAT--TTTCAAAAAAATTCAAAAACTATATAATAT
*
786072 ATATGTTTTC
63 ATAAGTTTTC
*
786082 AAAAAATGTTTTCAAAAACTATATATTATATATTTTCAAAA
1 -AAAAATGTTTTCAAAAACTATATAATATATATTTTCAAAA
786123 TGTTTTCTTT
Statistics
Matches: 199, Mismatches: 30, Indels: 40
0.74 0.11 0.15
Matches are distributed among these distances:
64 13 0.07
65 8 0.04
66 5 0.03
67 29 0.15
68 10 0.05
69 20 0.10
70 6 0.03
71 21 0.11
72 21 0.11
73 37 0.19
74 5 0.03
75 24 0.12
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (72 bp):
AAAAATGTTTTCAAAAACTATATAATATATATTTTCAAAAAAATTCAAAAACTATATAATATATA
AGTTTTC
Found at i:786092 original size:13 final size:13
Alignment explanation
Indices: 786074--786099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786064 TATAATATAT
786074 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
786087 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
786100 CTATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGTTTTCAAAAA
Found at i:786819 original size:31 final size:31
Alignment explanation
Indices: 786781--786905 Score: 216
Period size: 31 Copynumber: 4.0 Consensus size: 31
786771 CCCGAAGGAC
* *
786781 CAGTCCATA-GATCCTGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
786812 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
786843 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
786874 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
786905 C
1 C
786906 CCTCGACCCT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 90 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:789390 original size:30 final size:29
Alignment explanation
Indices: 789354--789451 Score: 103
Period size: 30 Copynumber: 3.4 Consensus size: 29
789344 GATCAACCAT
789354 TTTACAAAATTATCACCATTTTAAGAAATA
1 TTTACAAAATTATCACCATTTTAA-AAATA
* *
789384 TTTACAAAAATATCACCATTTTCAAAATA
1 TTTACAAAATTATCACCATTTTAAAAATA
* * *
789413 ATTACCAAAA-TGTCACTCTTTTTAAAAA-A
1 TTTA-CAAAATTATCAC-CATTTTAAAAATA
789442 -TTACAAAATT
1 TTTACAAAATT
789452 TTACTTTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.08
28 4 0.07
29 14 0.24
30 36 0.61
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTACAAAATTATCACCATTTTAAAAATA
Found at i:789422 original size:29 final size:29
Alignment explanation
Indices: 789358--789540 Score: 97
Period size: 29 Copynumber: 6.3 Consensus size: 29
789348 AACCATTTTA
*
789358 CAAAATTATCACCATTTTAAGAAATATTTAC
1 CAAAA-TATCACCATTTTAA-AAATAATTAC
* *
789389 AAAAATATCACCATTTTCAAAATAATTAC
1 CAAAATATCACCATTTTAAAAATAATTAC
* *
789418 CAAAATGTCACTC-TTTTTAAAA-AATTA-
1 CAAAATATCAC-CATTTTAAAAATAATTAC
* * * * ** *
789445 CAAAATTTTA-C-TTTAAAAAAAAAAGAAAAA
1 CAAAATATCACCATTT--TAAAAATA-ATTAC
* * * *
789475 GAAAATAGCATCATTTTTAAAATAATTAC
1 CAAAATATCACCATTTTAAAAATAATTAC
** * *
789504 CAAAATATCACCATTTCCAAACTAATTAA
1 CAAAATATCACCATTTTAAAAATAATTAC
789533 CAAAATAT
1 CAAAATAT
789541 AACCCGATCA
Statistics
Matches: 115, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
25 4 0.03
27 12 0.10
28 6 0.05
29 60 0.52
30 25 0.22
31 5 0.04
32 3 0.03
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (29 bp):
CAAAATATCACCATTTTAAAAATAATTAC
Found at i:789590 original size:19 final size:20
Alignment explanation
Indices: 789566--789617 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
789556 TAACGGGTCG
*
789566 GGTCAAACCGGTTCGAAC-C
1 GGTCAAACCGGTTCAAACTC
* *
789585 GGTC-AACTCGGTTTAAACTG
1 GGTCAAAC-CGGTTCAAACTC
789605 GGTCAAACCGGTT
1 GGTCAAACCGGTT
789618 TCAAGCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.11
19 12 0.44
20 9 0.33
21 3 0.11
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (20 bp):
GGTCAAACCGGTTCAAACTC
Found at i:791638 original size:18 final size:18
Alignment explanation
Indices: 791615--791650 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
791605 TTTTTACTCA
791615 TTTATCATATTATATTTT
1 TTTATCATATTATATTTT
791633 TTTATCATATTATATTTT
1 TTTATCATATTATATTTT
791651 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATCATATTATATTTT
Found at i:792164 original size:123 final size:123
Alignment explanation
Indices: 791945--792314 Score: 652
Period size: 123 Copynumber: 3.0 Consensus size: 123
791935 GCATTGGGAT
* * *
791945 AAGTAAACTACCATCTGCTGCCTCGTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATC
1 AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATT
*
792010 TTTTAATCGCAATTGCTTCAAGGTGGTGATCTTTCGATATACTTTTATCACTCCCGGA
66 TTTTAATCGCAATTGCTTCAAGGCGGTGATCTTTCGATATACTTTTATCACTCCCGGA
792068 AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATT
1 AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATT
*
792133 TTTTAATCGCAATTGTTTCAAGGCGGTGATCTTTCGATATACTTTTATCACTCCCGGA
66 TTTTAATCGCAATTGCTTCAAGGCGGTGATCTTTCGATATACTTTTATCACTCCCGGA
*
792191 AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCCCCTTGCGGCCAATT
1 AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATT
* * *
792256 TTTTAATCCCAATTGCTTCAAGACGGTGATCTTTCGATATGCTTTT-TCACTCCCGGA
66 TTTTAATCGCAATTGCTTCAAGGCGGTGATCTTTCGATATACTTTTATCACTCCCGGA
792313 AA
1 AA
792315 TGTTTAAAGG
Statistics
Matches: 237, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
122 13 0.05
123 224 0.95
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (123 bp):
AAGTAAACTACCATCTGTTGCCTCTTACTACCTTGTTGAAGCGCAGCGTCTCCTTGCGGCCAATT
TTTTAATCGCAATTGCTTCAAGGCGGTGATCTTTCGATATACTTTTATCACTCCCGGA
Found at i:792329 original size:46 final size:47
Alignment explanation
Indices: 792279--792368 Score: 137
Period size: 46 Copynumber: 1.9 Consensus size: 47
792269 TGCTTCAAGA
*
792279 CGGTGATCTTTCGATATGCTTTT-TCACTCCCGGAAATGTTTAAAGG
1 CGGTGATCTTTCGATATGCTTTTATCACTCCAGGAAATGTTTAAAGG
* * *
792325 CGGTGATCTTTCTATATGCTTTTATCATTCTAGGAAATGTTTAA
1 CGGTGATCTTTCGATATGCTTTTATCACTCCAGGAAATGTTTAA
792369 GGAATGGCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 22 0.56
47 17 0.44
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (47 bp):
CGGTGATCTTTCGATATGCTTTTATCACTCCAGGAAATGTTTAAAGG
Found at i:796534 original size:2 final size:2
Alignment explanation
Indices: 796527--796617 Score: 88
Period size: 2 Copynumber: 48.5 Consensus size: 2
796517 GCTTTTAGCT
796527 TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
* * * *
796568 TA TT TT TA -A AA TA T- TA T- TA TGA T- TA TA -A GA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
796605 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
796618 TTAATTTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
1 7 0.09
2 68 0.88
3 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:797387 original size:23 final size:24
Alignment explanation
Indices: 797343--797389 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
797333 AATTTTAAAA
797343 TATTTTCATTTAATGTTTACACTT
1 TATTTTCATTTAATGTTTACACTT
*
797367 TATTTT-ATTTCAT-TTTAACACTT
1 TATTTTCATTTAATGTTT-ACACTT
797390 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 12 0.57
24 6 0.29
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTTTCATTTAATGTTTACACTT
Found at i:797898 original size:23 final size:23
Alignment explanation
Indices: 797851--797898 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
797841 AATAACATAT
* **
797851 TAGGTAGTGCTTAGATAATGTAA
1 TAGGTAGCGCTTAGATAATAAAA
*
797874 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTAGATAATAAAA
797897 TA
1 TA
797899 TGCATTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTAGATAATAAAA
Found at i:797955 original size:23 final size:23
Alignment explanation
Indices: 797929--797976 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
797919 ATCAAGTACA
797929 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAGCGCTTAT
**
797952 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAGCGCTTAT
797975 AT
1 AT
797977 TGACCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAATCAAATAGGTAGCGCTTAT
Found at i:797961 original size:87 final size:87
Alignment explanation
Indices: 797815--797976 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
797805 ATGGTATATT
* *
797815 ATTTAACCGAAAATATTATCAAGCACAATAACATATTAGGTAGTGCTTAGATAATGTAATAGGTA
1 ATTTAACCGAAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
797880 GCGCTTATATAATAAAATATGC
66 GCGCTTATATAATAAAATATGC
* * *
797902 ATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
797967 GCGCTTATAT
66 GCGCTTATAT
797977 TGACCTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (87 bp):
ATTTAACCGAAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAATAGGTA
GCGCTTATATAATAAAATATGC
Found at i:799660 original size:18 final size:17
Alignment explanation
Indices: 799637--799670 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
799627 CAATCCACAA
799637 ATTCAAACATTCTAAAAT
1 ATTCAAA-ATTCTAAAAT
*
799655 ATTCAAAATTTTAAAA
1 ATTCAAAATTCTAAAA
799671 CAATAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTCAAAATTCTAAAAT
Found at i:801622 original size:21 final size:21
Alignment explanation
Indices: 801598--801637 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
801588 GTGAACTCCA
*
801598 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
801619 GGGGGGAATCGATTCCCCT
1 GGGGGGAATCGATTCCCCT
801638 TCAAAGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:801666 original size:20 final size:20
Alignment explanation
Indices: 801620--801680 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
801610 TTCCCCTGTG
*
801620 GGGGGAATCGATTCCCCTTCAAA
1 GGGGAAATCGATT-CCC-TC-AA
*
801643 GGGGAAATCGGTTCCCTCAA
1 GGGGAAATCGATTCCCTCAA
*
801663 GGGGAGATCGATTCCCTC
1 GGGGAAATCGATTCCCTC
801681 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.53
21 2 0.06
22 3 0.09
23 11 0.32
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (20 bp):
GGGGAAATCGATTCCCTCAA
Found at i:802547 original size:11 final size:11
Alignment explanation
Indices: 802531--802556 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
802521 ATCTAGCACA
802531 TAAACAAACAC
1 TAAACAAACAC
802542 TAAACAAACAC
1 TAAACAAACAC
802553 TAAA
1 TAAA
802557 TACTTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (11 bp):
TAAACAAACAC
Found at i:803650 original size:182 final size:182
Alignment explanation
Indices: 803185--803800 Score: 909
Period size: 182 Copynumber: 3.4 Consensus size: 182
803175 CAATATATCT
* * * * *
803185 GGTTTTATCATTTCGATACCGGTTTTATCATATTTTTACCTA-TTATATTGTTATGGATCGATAT
1 GGTTTTATCATTTCGAGACCTGTTTTATCATATTATTACC-AGTTATATTGCTATGGATCGATAC
* *
803249 ATTTTCT-TAAAGTATCGACACTTTTTAGACGCTATAATTTCTTCTCTTTTAAATTACGAAAGTG
65 ATTTT-TATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATTACAAAAGTG
*
803313 TCGATACTTATATTAATTTATCGACACTTTCAATATATATGGTATCTTTTTACC
129 TCGATACTTATATTAATTTATCGACACTTTCAATATATATGGTAGCTTTTTACC
* * * * *
803367 GG-TTTATCATTTCGAGACCTCTTTTGTCATATTATTACCGGATATATTACTATGGATCGATACA
1 GGTTTTATCATTTCGAGACCTGTTTTATCATATTATTACCAGTTATATTGCTATGGATCGATACA
* * *
803431 TTTGTATAAAGTATCGACACTTTTCAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
**
803496 GATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTACC
131 GATACTTATATTAATTTATCGACACTTTCAATATATATGGTAGCTTTTTACC
* * *
803548 GGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCAGTTATATTGCTATGGATCGACATA
1 GGTTTTATCATTTCGAGACCTGTTTTATCATATTATTACCAGTTATATTGCTATGGATCGATACA
803613 TTTTTATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
* **
803678 GATACTTATATTAATTTATCGACACTTTCAATATATTTGGTAGCGCTTTACC
131 GATACTTATATTAATTTATCGACACTTTCAATATATATGGTAGCTTTTTACC
* * * *
803730 GGTTTTATCATAAT-GACACC-GATTTTATCATATTTTTACCTGTTATATTGCTATGGATCGATA
1 GGTTTTATCAT-TTCGAGACCTG-TTTTATCATATTATTACCAGTTATATTGCTATGGATCGATA
803793 CATTTTTA
64 CATTTTTA
803801 ATTTGTATCG
Statistics
Matches: 391, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
180 1 0.00
181 161 0.41
182 228 0.58
183 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (182 bp):
GGTTTTATCATTTCGAGACCTGTTTTATCATATTATTACCAGTTATATTGCTATGGATCGATACA
TTTTTATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTC
GATACTTATATTAATTTATCGACACTTTCAATATATATGGTAGCTTTTTACC
Found at i:825343 original size:34 final size:32
Alignment explanation
Indices: 825276--825377 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
825266 AAGAAATTTA
*
825276 TTTTTATGTTAGTAT-TTT-TTAAATAGTTATT
1 TTTTTAT-TTAATATATTTATTAAATAGTTATT
825307 TTTTTATATTAATATATTTATGTAAATA-TTATT
1 TTTTTAT-TTAATATATTTAT-TAAATAGTTATT
*
825340 TTTTTATTTAAATAATATTTA-TAATTA-TTATT
1 TTTTTATTT-AAT-ATATTTATTAAATAGTTATT
*
825372 TATTTA
1 TTTTTA
825378 GAATTATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
31 13 0.21
32 20 0.32
33 16 0.26
34 13 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (32 bp):
TTTTTATTTAATATATTTATTAAATAGTTATT
Found at i:825351 original size:19 final size:19
Alignment explanation
Indices: 825323--825359 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
825313 TATTAATATA
*
825323 TTTATGTAAATATTATTTT
1 TTTATGTAAATAATATTTT
*
825342 TTTATTTAAATAATATTT
1 TTTATGTAAATAATATTT
825360 ATAATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATGTAAATAATATTTT
Found at i:825369 original size:32 final size:32
Alignment explanation
Indices: 825295--825377 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 32
825285 TAGTATTTTT
825295 TAAATAGTTATTTTTTTATATTAATATATTTATG
1 TAAATA-TTATTTTTTTATATTAATATATTTA-G
825329 TAAATATTATTTTTTTAT-TTAAATAATATTTA-
1 TAAATATTATTTTTTTATATT-AAT-ATATTTAG
* *
825361 TAATTATTATTTATTTA
1 TAAATATTATTTTTTTA
825378 GAATTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 17 0.38
33 15 0.33
34 13 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (32 bp):
TAAATATTATTTTTTTATATTAATATATTTAG
Found at i:827128 original size:21 final size:21
Alignment explanation
Indices: 827098--827145 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
827088 GCAGGGGTAC
* *
827098 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
827119 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
827140 ATGCCA
1 ATGCCA
827146 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:827175 original size:21 final size:21
Alignment explanation
Indices: 827149--827242 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
827139 TATGCCATCT
* *
827149 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
827170 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
827191 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
827212 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
827233 CCGCAGGGTT
1 CCGCAGGGTT
827243 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:827823 original size:33 final size:34
Alignment explanation
Indices: 827764--827860 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
827754 TAAATGTTTT
*
827764 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
827798 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
827831 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
827861 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Done.