Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 21
Found at i:579767 original size:22 final size:22
Alignment explanation
Indices: 579689--579767 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
579679 GTATTGATAT
579689 GGGTATCGATACCCATTCATAG
1 GGGTATCGATACCCATTCATAG
*
579711 GGGTATTGATACCCATTCATAG
1 GGGTATCGATACCCATTCATAG
*
579733 GGGTATTGATACCCATTCATAG
1 GGGTATCGATACCCATTCATAG
* *
579755 GGGCATCGGTACC
1 GGGTATCGATACC
579768 TCTTAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (22 bp):
GGGTATCGATACCCATTCATAG
Found at i:580736 original size:30 final size:31
Alignment explanation
Indices: 580686--580759 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
580676 TAAAGGTACG
*
580686 TTTATTAACTCTATTTTTTTTTTAAAATACA
1 TTTATTAACTCTATTTTTTTTTGAAAATACA
*
580717 TTTATTAACTCTA-TTTTTTTTGAAAATACG
1 TTTATTAACTCTATTTTTTTTTGAAAATACA
580747 TTTATTAACTCTA
1 TTTATTAACTCTA
580760 AGACTTGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 28 0.68
31 13 0.32
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTATTAACTCTATTTTTTTTTGAAAATACA
Found at i:583056 original size:32 final size:33
Alignment explanation
Indices: 582994--583059 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
582984 AATGGAAAAA
582994 CACCTTTTCTTCTTTGTGACAAAAAAATGACCG
1 CACCTTTTCTTCTTTGTGACAAAAAAATGACCG
583027 CACCTTTTCTTCTTTGTGAC-AAAAAATGACCG
1 CACCTTTTCTTCTTTGTGACAAAAAAATGACCG
583059 C
1 C
583060 TAAAGCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (33 bp):
CACCTTTTCTTCTTTGTGACAAAAAAATGACCG
Found at i:585241 original size:26 final size:25
Alignment explanation
Indices: 585208--585257 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
585198 TCAGTTTTAA
585208 AAATTTCA-AATAAAT-AAATATATTT
1 AAATTTCATAA-AAATCAAA-ATATTT
585233 AAATATTCATAAAAATCAAAATATT
1 AAAT-TTCATAAAAATCAAAATATT
585258 AGATATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATTTCATAAAAATCAAAATATTT
Found at i:586053 original size:11 final size:11
Alignment explanation
Indices: 586037--586071 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
586027 ATTTTGGATT
*
586037 TGCACCCGACC
1 TGCACCCAACC
586048 TGCACCCAACC
1 TGCACCCAACC
*
586059 TGCACTCAACC
1 TGCACCCAACC
586070 TG
1 TG
586072 TCAAACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.23, C:0.49, G:0.14, T:0.14
Consensus pattern (11 bp):
TGCACCCAACC
Found at i:588201 original size:24 final size:23
Alignment explanation
Indices: 588156--588202 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
588146 AAAAAGTACC
*
588156 AAAAGGGGGTGAATTGGTTAAAT
1 AAAAGGGGGTGAATTGGGTAAAT
588179 AAAAGGGGGTGAATTGGCGTAAAT
1 AAAAGGGGGTGAATTGG-GTAAAT
588203 GATAGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.23
Consensus pattern (23 bp):
AAAAGGGGGTGAATTGGGTAAAT
Found at i:592757 original size:25 final size:25
Alignment explanation
Indices: 592727--592793 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
592717 ATCTAACACC
* * *
592727 GAAAAGAATACCAAATTCAACGCTG
1 GAAAAGGATACCAAATTCAAAGCAG
* *
592752 GAAAAGGATGCCAAATCCAAAGCAG
1 GAAAAGGATACCAAATTCAAAGCAG
*
592777 GAAAAGGGTACCAAATT
1 GAAAAGGATACCAAATT
592794 TGACATCTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (25 bp):
GAAAAGGATACCAAATTCAAAGCAG
Found at i:593957 original size:36 final size:36
Alignment explanation
Indices: 593905--594006 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
593895 GGTCCATAAT
* *
593905 GAATTACCAACATGATCGGTGCTGAACCTACATGAG
1 GAATTACCAACTTGATCGGTGTTGAACCTACATGAG
* * *
593941 GAATTACCAACTTGATCAGTGTTGAGCCTGCATGAG
1 GAATTACCAACTTGATCGGTGTTGAACCTACATGAG
* *
593977 GAATTACCATCTTGATCGGAGTTGAACCTA
1 GAATTACCAACTTGATCGGTGTTGAACCTA
594007 TATACTCAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (36 bp):
GAATTACCAACTTGATCGGTGTTGAACCTACATGAG
Found at i:595883 original size:20 final size:20
Alignment explanation
Indices: 595860--595899 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
595850 GGTTCAGGTT
*
595860 GACTCAAGCCGGTTTGAGTC
1 GACTCAAGCCGGTTCGAGTC
* *
595880 GACTCATGCCTGTTCGAGTC
1 GACTCAAGCCGGTTCGAGTC
595900 ATCTCAAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (20 bp):
GACTCAAGCCGGTTCGAGTC
Found at i:599704 original size:18 final size:17
Alignment explanation
Indices: 599681--599727 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
599671 TGTTTATGAG
599681 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
* *
599699 GGAATTAGAATCTGTCA
1 GGAATTGGAATCTGTAA
599716 GGAATTGGAATC
1 GGAATTGGAATC
599728 CAATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:600353 original size:38 final size:38
Alignment explanation
Indices: 600298--600379 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
600288 TTTCACCCTA
*
600298 AACCCGAACCCGACCCGAATATCACACTTAAAAAAACCC
1 AACCCGAACCCGACCCGAATAGCACACTT-AAAAAACCC
* *
600337 GACCC-AACTCGACCCGAATAGCACACTTAAAAAACCC
1 AACCCGAACCCGACCCGAATAGCACACTTAAAAAACCC
600374 AACCCG
1 AACCCG
600380 TCCCGAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 13 0.34
38 21 0.55
39 4 0.11
ACGTcount: A:0.41, C:0.39, G:0.10, T:0.10
Consensus pattern (38 bp):
AACCCGAACCCGACCCGAATAGCACACTTAAAAAACCC
Found at i:600965 original size:46 final size:46
Alignment explanation
Indices: 600898--600989 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
600888 AAACGCCACC
*
600898 TTAGAAAAGTTCGATCTAGAATGTATCCGCGCGACAGGCTCTTCGT
1 TTAGAAAAGTTCGATCTAGAATGTATCCGCGCGACAGGCTCCTCGT
600944 TTAGAAAAGTTCGATCTAGAATGTATCCGCGCGACAGGCTCCTCGT
1 TTAGAAAAGTTCGATCTAGAATGTATCCGCGCGACAGGCTCCTCGT
600990 CAATCCCCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TTAGAAAAGTTCGATCTAGAATGTATCCGCGCGACAGGCTCCTCGT
Found at i:608357 original size:16 final size:16
Alignment explanation
Indices: 608336--608367 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
608326 CGGTGGCGAT
608336 GGGGAAAGATTTTTGA
1 GGGGAAAGATTTTTGA
*
608352 GGGGAAATATTTTTGA
1 GGGGAAAGATTTTTGA
608368 AGGAGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
GGGGAAAGATTTTTGA
Found at i:619030 original size:20 final size:20
Alignment explanation
Indices: 619002--619052 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
618992 TGCCCAAGAT
*
619002 TCCATTGAGCCTGAAGGAAC
1 TCCACTGAGCCTGAAGGAAC
619022 TCCACTGAGCCTGAAGGAAC
1 TCCACTGAGCCTGAAGGAAC
619042 TCCACTGAGCC
1 TCCACTGAGCC
619053 AAGCTCTCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (20 bp):
TCCACTGAGCCTGAAGGAAC
Found at i:625369 original size:76 final size:79
Alignment explanation
Indices: 625269--625422 Score: 183
Period size: 78 Copynumber: 2.0 Consensus size: 79
625259 TTCAAATTAA
*
625269 TTAAACTCTTATTTAATTAGTT-AAATTAAAGATGC-ATT-AAAGACTTATAATCTGAATTACAC
1 TTAAACTCTTATTTAATTAGTTAAAATTAAAGAT-CTATTAAAAGACTTATAATCAGAATTACAC
625331 TC-TCTAATGTTTAT
65 TCTTCTAATGTTTAT
** * * * *
625345 TTAAACTCTTA-TTAATTTTTTTAAAATTAAATATCTATTAAAAGAGTTGTAATCAGAATTACAT
1 TTAAACTCTTATTTAA-TTAGTTAAAATTAAAGATCTATTAAAAGACTTATAATCAGAATTACAC
*
625409 TCTTCTAATTTTTA
65 TCTTCTAATGTTTA
625423 CTTACTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
75 4 0.06
76 16 0.25
77 13 0.20
78 22 0.34
79 10 0.15
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (79 bp):
TTAAACTCTTATTTAATTAGTTAAAATTAAAGATCTATTAAAAGACTTATAATCAGAATTACACT
CTTCTAATGTTTAT
Found at i:628261 original size:17 final size:17
Alignment explanation
Indices: 628235--628279 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
628225 CCTTTCTTTC
628235 CTTT-GAGAGAAATTCT
1 CTTTCGAGAGAAATTCT
628251 CTTTCGAGAGAAATTCT
1 CTTTCGAGAGAAATTCT
628268 CTTTCGAG-GAAA
1 CTTTCGAGAGAAA
628280 ACTCTCATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (17 bp):
CTTTCGAGAGAAATTCT
Found at i:628285 original size:17 final size:18
Alignment explanation
Indices: 628241--628292 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
628231 TTTCCTTTGA
*
628241 GAGAAATTCTCTTTCGA-
1 GAGAAACTCTCTTTCGAG
*
628258 GAGAAATTCTCTTTCGAG
1 GAGAAACTCTCTTTCGAG
*
628276 GA-AAACTCTCATTCGAG
1 GAGAAACTCTCTTTCGAG
628293 CAACAAACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 30 0.94
18 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (18 bp):
GAGAAACTCTCTTTCGAG
Found at i:630669 original size:25 final size:25
Alignment explanation
Indices: 630641--630714 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
630631 TTTCCAATCC
*
630641 TGGAAAAGGATTCCAAATCCAACGA
1 TGGAAAAGGATACCAAATCCAACGA
* * *
630666 TGGAAAAGGATCCCAAATCCAATGC
1 TGGAAAAGGATACCAAATCCAACGA
* *
630691 TGAAAAATGATACCAAATCCAACG
1 TGGAAAAGGATACCAAATCCAACG
630715 CCAAAAAAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.16
Consensus pattern (25 bp):
TGGAAAAGGATACCAAATCCAACGA
Found at i:630721 original size:25 final size:25
Alignment explanation
Indices: 630644--630724 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
630634 CCAATCCTGG
* ****
630644 AAAAGGATTCCAAATCCAACGATGG
1 AAAAGGATACCAAATCCAACGCCAA
* * **
630669 AAAAGGATCCCAAATCCAATGCTGA
1 AAAAGGATACCAAATCCAACGCCAA
*
630694 AAAATGATACCAAATCCAACGCCAA
1 AAAAGGATACCAAATCCAACGCCAA
630719 AAAAGG
1 AAAAGG
630725 GTATTAATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.48, C:0.22, G:0.16, T:0.14
Consensus pattern (25 bp):
AAAAGGATACCAAATCCAACGCCAA
Found at i:630749 original size:21 final size:20
Alignment explanation
Indices: 630717--630755 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
630707 ATCCAACGCC
630717 AAAAAAGGGTATTAATACTG
1 AAAAAAGGGTATTAATACTG
* *
630737 AAAATAGGAGTATTGATAC
1 AAAAAAGG-GTATTAATAC
630756 CGCCTCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
AAAAAAGGGTATTAATACTG
Found at i:635432 original size:14 final size:14
Alignment explanation
Indices: 635391--635421 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
635381 AACGGATGTA
635391 AACGAACACAAATG
1 AACGAACACAAATG
*
635405 AACGAACATAAATG
1 AACGAACACAAATG
635419 AAC
1 AAC
635422 ATAAATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (14 bp):
AACGAACACAAATG
Found at i:635436 original size:10 final size:10
Alignment explanation
Indices: 635408--635450 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
635398 ACAAATGAAC
635408 GAACATAAAT
1 GAACATAAAT
635418 GAACATAAAT
1 GAACATAAAT
**
635428 GAATGTAAAT
1 GAACATAAAT
*
635438 GCACATAAAT
1 GAACATAAAT
635448 GAA
1 GAA
635451 AATATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (10 bp):
GAACATAAAT
Found at i:635438 original size:20 final size:20
Alignment explanation
Indices: 635413--635450 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
635403 TGAACGAACA
635413 TAAATGAACATAAATGAATG
1 TAAATGAACATAAATGAATG
*
635433 TAAATGCACATAAATGAA
1 TAAATGAACATAAATGAA
635451 AATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.08, G:0.13, T:0.24
Consensus pattern (20 bp):
TAAATGAACATAAATGAATG
Found at i:636657 original size:14 final size:14
Alignment explanation
Indices: 636638--636673 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
636628 ATTGTTTAAT
636638 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
636652 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
636666 TGATTTGT
1 TGATTTGT
636674 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:636802 original size:19 final size:19
Alignment explanation
Indices: 636780--636836 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
636770 AAAAATGACT
*
636780 ATCGCAATGC-AAAATGAAA
1 ATCGCAACGCGAAAAT-AAA
*
636799 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAAATAAA
*
636818 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAAATAAA
636837 TTTGCGTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAAATAAA
Found at i:636888 original size:33 final size:33
Alignment explanation
Indices: 636841--636967 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
636831 ACTAAATTTG
* * *
636841 CGTTACGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
636874 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
636907 CGTTGCGATTTTCATTTAGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
636940 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
636968 AGTCATTTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:636900 original size:19 final size:19
Alignment explanation
Indices: 636876--636967 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
636866 GATTCCCTCG
636876 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
636895 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
636909 TTGCGATTTTCATTTAGCA
1 TTGCGATTTTCATTTCGCA
*
636928 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
636942 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
636961 TTGCGAT
1 TTGCGAT
636968 AGTCATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 12 0.21
16 13 0.23
17 13 0.23
19 19 0.33
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:636914 original size:14 final size:14
Alignment explanation
Indices: 636862--636949 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
636852 TCATTTCGCT
*
636862 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
636876 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
636893 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
* *
636909 TTGCGATTTTCATTTAGCA
1 TTGCGA--TTC-TCT--CG
636928 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
636942 TTGCGATT
1 TTGCGATT
636950 TTCATTTCGC
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 21 0.37
16 12 0.21
17 11 0.19
19 13 0.23
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:636989 original size:20 final size:19
Alignment explanation
Indices: 636951--636994 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
636941 GTTGCGATTT
*
636951 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTACGATAG
*
636970 TCATTTCCGCGTTACGATAG
1 TCATTT-CGCATTACGATAG
*
636990 ACATT
1 TCATT
636995 AAGATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:637033 original size:20 final size:20
Alignment explanation
Indices: 636961--637033 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
636951 TCATTTCGCA
* *
636961 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTACGTG
* * *
636981 TTACGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
637001 ATTGCGA-ACGTCATTTTCGTG
1 -TTGCGATA-GTCATTTACGTG
637022 TTGCGATAGTCA
1 TTGCGATAGTCA
637034 AATGAATGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:639427 original size:194 final size:192
Alignment explanation
Indices: 639037--639429 Score: 693
Period size: 194 Copynumber: 2.0 Consensus size: 192
639027 TGATTTGTTA
639037 ACTTTTAGTTGATAGCCATCTTCCACACATTCGTATACAAAGCTATCTTCAAGTCTTCATTTGTA
1 ACTTTTAGTTGATAGCCATCTTCCACACATTCG-ATACAAAGCTATCTTCAAGTCTTCATTTGTA
*
639102 TCAAAACCATCATCTTTCTTGATACGAATAATTTTGTGTGACAATCACTGCTATCTTTACCACTC
65 TCAAAACAATCATCTTTCTTGATACGAATAATTTTGTGTGACAATCACTGCTATCTTTACCACTC
639167 TTTTCCGTATCTGAAGTAATTCTGGTATATTCCAGTTATACTCTCGTGGCATTTTCTTCGGGG
130 TTTTCCGTATCTGAAGTAATTCTGGTATATTCCAGTTATACTCTCGTGGCATTTTCTTCGGGG
*
639230 ACTTTTAGTTGATAGCCATCTTCCACA-TTTCG-TA-AAAGCTATCTTCAAGTCTTCATTTGTAT
1 ACTTTTAGTTGATAGCCATCTTCCACACATTCGATACAAAGCTATCTTCAAGTCTTCATTTGTAT
639292 CAAAACAATCATCTTTCTTGATACGAATAATTTTTGTGTGACAATCAACTGCTATCTTTACCAAC
66 CAAAACAATCATCTTTCTTGATACGAATAA-TTTTGTGTGACAATC-ACTGCTATCTTTACC-AC
639357 TCTTCTTCCGGTATCTGAAGTAATTCTGGTATATTCCAGTTATACTCTCGTGGCATTTTCTTCGG
128 TCTT-TTCC-GTATCTGAAGTAATTCTGGTATATTCCAGTTATACTCTCGTGGCATTTTCTTCGG
639422 GG
191 GG
639424 ACTTTT
1 ACTTTT
639430 CTTTGGGGAT
Statistics
Matches: 193, Mismatches: 2, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
189 57 0.30
190 17 0.09
191 15 0.08
192 10 0.05
193 31 0.16
194 63 0.33
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (192 bp):
ACTTTTAGTTGATAGCCATCTTCCACACATTCGATACAAAGCTATCTTCAAGTCTTCATTTGTAT
CAAAACAATCATCTTTCTTGATACGAATAATTTTGTGTGACAATCACTGCTATCTTTACCACTCT
TTTCCGTATCTGAAGTAATTCTGGTATATTCCAGTTATACTCTCGTGGCATTTTCTTCGGGG
Found at i:639671 original size:24 final size:24
Alignment explanation
Indices: 639637--639690 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
639627 CTGAAAAATC
639637 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
639661 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
639685 ATCAAA
1 ATCAAA
639691 TTCGAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:640599 original size:21 final size:20
Alignment explanation
Indices: 640575--640710 Score: 94
Period size: 20 Copynumber: 6.7 Consensus size: 20
640565 TCGATTACAT
640575 AAATCGCAATGCGAATTAGG
1 AAATCGCAATGCGAATTAGG
*
640595 AAAATCGCAATGCG-ATTATG
1 -AAATCGCAATGCGAATTAGG
* * * * * *
640615 TATTCTCATTGCGATTTACG
1 AAATCGCAATGCGAATTAGG
* * * *
640635 TAATCGCATTGCGATTTACG
1 AAATCGCAATGCGAATTAGG
* * *
640655 TATTCGCATTGCGAATTAGG
1 AAATCGCAATGCGAATTAGG
* *
640675 AAAATCGCAACGCGAATTTGGG
1 -AAATCGCAATGCGAA-TTAGG
640697 AAATCGCAATGCGA
1 AAATCGCAATGCGA
640711 TAGTCAGAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
19 9 0.10
20 44 0.47
21 37 0.39
22 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (20 bp):
AAATCGCAATGCGAATTAGG
Found at i:640642 original size:80 final size:80
Alignment explanation
Indices: 640538--640689 Score: 211
Period size: 80 Copynumber: 1.9 Consensus size: 80
640528 ATAGTTAGAA
*
640538 TCTCGTTGCGATTTACTAAATCGCAATT-CGA-TTACATAAATCGCAATGCGAATTAGGAAAATC
1 TCTCATTGCGATTTACTAAATCGC-ATTGCGATTTACAT-AATCGCAATGCGAATTAGGAAAATC
*
640601 GCAATGCGATTATGTAT
64 GCAACGCGATTATGTAT
* * *
640618 TCTCATTGCGATTTACGT-AATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCG
1 TCTCATTGCGATTTAC-TAAATCGCATTGCGATTTACATAATCGCAATGCGAATTAGGAAAATCG
640682 CAACGCGA
65 CAACGCGA
640690 ATTTGGGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 3 0.05
80 55 0.86
81 6 0.09
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (80 bp):
TCTCATTGCGATTTACTAAATCGCATTGCGATTTACATAATCGCAATGCGAATTAGGAAAATCGC
AACGCGATTATGTAT
Found at i:640646 original size:20 final size:20
Alignment explanation
Indices: 640543--640668 Score: 98
Period size: 20 Copynumber: 6.3 Consensus size: 20
640533 TAGAATCTCG
640543 TTGCGATTTAC-TAAATCGCAA
1 TTGCGATTTACGT-AATCGC-A
*
640564 TT-CGA-TTACATAAATCGCA
1 TTGCGATTTACGT-AATCGCA
* * * *
640583 ATGCGAATTAGGAAAATCGCA
1 TTGCGATTTACG-TAATCGCA
* * * *
640604 ATGCGA-TTATGTATTCTCA
1 TTGCGATTTACGTAATCGCA
640623 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
640643 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
640663 TTGCGA
1 TTGCGA
640669 ATTAGGAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.18
20 53 0.61
21 18 0.21
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:641716 original size:24 final size:24
Alignment explanation
Indices: 641671--641734 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 24
641661 AATTTATATT
641671 TATTTTTATAATTTTAATTAAAATTAAA
1 TATTTTTAT-A-TTT-ATT-AAATTAAA
*
641699 TATTTTTA-ATTTATTAAATTTAA
1 TATTTTTATATTTATTAAATTAAA
641722 TATTTTTATATTT
1 TATTTTTATATTT
641735 TAATATCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 15 0.44
24 7 0.21
25 3 0.09
26 1 0.03
28 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTTTATATTTATTAAATTAAA
Found at i:641799 original size:17 final size:17
Alignment explanation
Indices: 641777--641809 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
641767 TTAAATATAA
641777 ATTATTATTATAAATAG
1 ATTATTATTATAAATAG
641794 ATTATTATTATAAATA
1 ATTATTATTATAAATA
641810 TTAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTATTATTATAAATAG
Found at i:641903 original size:28 final size:28
Alignment explanation
Indices: 641832--641904 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
641822 CAACTAGAAT
*
641832 TATTAAATTTATTTTTAAAATATAAAAA
1 TATTAAATTTATTTTTAAAATACAAAAA
641860 TA-TAAACTTT-TGTTTTAAAATACAAAAA
1 TATTAAA-TTTAT-TTTTAAAATACAAAAA
641888 TATTAAATTTATTTTTA
1 TATTAAATTTATTTTTA
641905 TTATAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 5 0.12
28 30 0.75
29 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTAAATTTATTTTTAAAATACAAAAA
Found at i:649141 original size:62 final size:62
Alignment explanation
Indices: 649065--649190 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
649055 AAAAAATCAG
649065 ACTCTCCCAAATAAACTCTATCCTTGTAACGCAAAACACCCTTTGAATACTTTCAATTTGGA
1 ACTCTCCCAAATAAACTCTATCCTTGTAACGCAAAACACCCTTTGAATACTTTCAATTTGGA
649127 ACTCTCCCAAATAAACTCTATCCTTGTAACGCAAAACACCCTTTGAATACTTTCAATTTGGA
1 ACTCTCCCAAATAAACTCTATCCTTGTAACGCAAAACACCCTTTGAATACTTTCAATTTGGA
649189 AC
1 AC
649191 ACTAGCAGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (62 bp):
ACTCTCCCAAATAAACTCTATCCTTGTAACGCAAAACACCCTTTGAATACTTTCAATTTGGA
Found at i:664566 original size:46 final size:46
Alignment explanation
Indices: 664480--664824 Score: 352
Period size: 46 Copynumber: 7.5 Consensus size: 46
664470 ATAAACTGAA
* * * * *
664480 GCCATAACTAAAATACATGAACAGATGCATTAAGGCATGAAAGGAT
1 GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* * * *
664526 -TCACTAATTAAAGTGCATAAACGGATGAACTAAGGAATGAAAGGAT
1 GCCA-TAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* * * * * *
664572 GCCATAACTAAAATACATGAAC-AATTGCATTAAGACATGAAAGGAT
1 GCCATAATTAAAGTGCATGAACGGA-TGCACTAAGGCATGAAAGGAT
* *
664618 GGCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGAT
1 GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* * * * *
664664 GCCATAACTAAAATTCATGAATGGATGCATTAAGGCATGAAAGGAT
1 GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* *
664710 GCCATAATTAAAGTGCATGAACGGATGTACTAAGGCATGAAATGAT
1 GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* ** * * * *
664756 TCCATAACAAAAATACATGAACGGATGCATTAAGGCATAAAAGGAT
1 GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
* * *
664802 GCCATAACTAAAATGTATGAACG
1 GCCATAATTAAAGTGCATGAACG
664825 ACATAACTAA
Statistics
Matches: 243, Mismatches: 52, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
45 3 0.01
46 236 0.97
47 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (46 bp):
GCCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGAT
Found at i:664637 original size:26 final size:26
Alignment explanation
Indices: 664607--664736 Score: 86
Period size: 26 Copynumber: 5.5 Consensus size: 26
664597 TGCATTAAGA
664607 CATGAAAGGATGGCATAATTAAAGTG
1 CATGAAAGGATGGCATAATTAAAGTG
* * *
664633 CATGAACGAAT-GC---ACT-AAG-G
1 CATGAAAGGATGGCATAATTAAAGTG
* * * *
664653 CATGAAAGGATGCCATAACTAAAATT
1 CATGAAAGGATGGCATAATTAAAGTG
*
664679 CATGAATGGAT-GC---ATT-AAG-G
1 CATGAAAGGATGGCATAATTAAAGTG
*
664699 CATGAAAGGATGCCATAATTAAAGTG
1 CATGAAAGGATGGCATAATTAAAGTG
*
664725 CATGAACGGATG
1 CATGAAAGGATG
664737 TACTAAGGCA
Statistics
Matches: 76, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
20 20 0.26
21 7 0.09
22 4 0.05
24 6 0.08
25 8 0.11
26 31 0.41
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (26 bp):
CATGAAAGGATGGCATAATTAAAGTG
Found at i:664650 original size:92 final size:91
Alignment explanation
Indices: 664480--664834 Score: 462
Period size: 92 Copynumber: 3.9 Consensus size: 91
664470 ATAAACTGAA
*
664480 GCCATAACTAAAATACATGAACAGATGCATTAAGGCATGAAAGGAT-TCACTAATTAAAGTGCAT
1 GCCATAACTAAAATACATGAACA-ATGCATTAAGGCATGAAAGGATGCCA-TAATTAAAGTGCAT
* * *
664544 AAACGGATGAACTAAGGAATGAAAGGAT
64 GAACGAATGAACTAAGGCATGAAAGGAT
* *
664572 GCCATAACTAAAATACATGAACAATTGCATTAAGACATGAAAGGATGGCATAATTAAAGTGCATG
1 GCCATAACTAAAATACATGAACAA-TGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATG
*
664637 AACGAATGCACTAAGGCATGAAAGGAT
65 AACGAATGAACTAAGGCATGAAAGGAT
* **
664664 GCCATAACTAAAATTCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATG
1 GCCATAACTAAAATACATGAA-CAATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATG
* * *
664729 AACGGATGTACTAAGGCATGAAATGAT
65 AACGAATGAACTAAGGCATGAAAGGAT
* * * * * * *
664756 TCCATAACAAAAATACATGAACGGATGCATTAAGGCATAAAAGGATGCCATAACTAAAATGTATG
1 GCCATAACTAAAATACATGAAC-AATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATG
664821 AACGACAT-AACTAA
65 AACGA-ATGAACTAA
664835 AATGTATGAA
Statistics
Matches: 234, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
91 1 0.00
92 228 0.97
93 5 0.02
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (91 bp):
GCCATAACTAAAATACATGAACAATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATGA
ACGAATGAACTAAGGCATGAAAGGAT
Found at i:664665 original size:20 final size:20
Alignment explanation
Indices: 664632--664711 Score: 52
Period size: 20 Copynumber: 3.7 Consensus size: 20
664622 TAATTAAAGT
* *
664632 GCATGAACGAATGCACTAAG
1 GCATGAAAGGATGCACTAAG
*
664652 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-C---ACT--AAG
* * *
664678 TCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCACTAAG
664698 GCATGAAAGGATGC
1 GCATGAAAGGATGC
664712 CATAATTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
20 25 0.56
21 1 0.02
22 2 0.04
24 3 0.07
25 1 0.02
26 13 0.29
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCACTAAG
Found at i:664822 original size:138 final size:138
Alignment explanation
Indices: 664480--664824 Score: 399
Period size: 138 Copynumber: 2.5 Consensus size: 138
664470 ATAAACTGAA
* * * * *
664480 GCCATAACTAAAATACATGAACAGATGCATTAAGGCATGAAAGGAT-TCACTAATTAAAGTGCAT
1 GCCATAACTAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCCA-TAACTAAAATGTAT
* *
664544 AAACGGATGAACTAAGGAATGAAAGGATGCCATAACTAAAATACATGAACAATTGCATTAAGACA
65 GAACGGATGAACTAAGGAATGAAAGGATGCCATAACTAAAATACATGAACAATTGCACTAAGACA
664609 TGAAAGGAT
130 TGAAAGGAT
* * * * * *
664618 GGCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAAT-TCAT
1 GCCATAACTAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGT-AT
* * * * * * * * * *
664682 GAATGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATGAACGGA-TGTACTAAGGC
65 GAACGGATGAACTAAGGAATGAAAGGATGCCATAACTAAAATACATGAAC-AATTGCACTAAGAC
*
664746 ATGAAATGAT
129 ATGAAAGGAT
* * *
664756 TCCATAACAAAAATACATGAACGGATGCATTAAGGCATAAAAGGATGCCATAACTAAAATGTATG
1 GCCATAACTAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGTATG
664821 AACG
66 AACG
664825 ACATAACTAA
Statistics
Matches: 169, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
138 165 0.98
139 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (138 bp):
GCCATAACTAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGTATG
AACGGATGAACTAAGGAATGAAAGGATGCCATAACTAAAATACATGAACAATTGCACTAAGACAT
GAAAGGAT
Found at i:664866 original size:22 final size:22
Alignment explanation
Indices: 664804--664859 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
664794 AAAAGGATGC
*
664804 CATAACTAAAATGTATGAACGA
1 CATAACTAAAATGTATGAAAGA
664826 CATAACTAAAATGTATGAAAGA
1 CATAACTAAAATGTATGAAAGA
*
664848 CATAACTGAAAT
1 CATAACTAAAAT
664860 TAATGAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (22 bp):
CATAACTAAAATGTATGAAAGA
Found at i:671647 original size:46 final size:46
Alignment explanation
Indices: 671585--671763 Score: 254
Period size: 46 Copynumber: 3.9 Consensus size: 46
671575 TAAACTGAAG
*
671585 CCATAACTAAAATGCATGAAC-AGATGCATTAAGGCATGAAAGGATT
1 CCATAACTAAAATGCATGAACGA-ATGCACTAAGGCATGAAAGGATT
* * *
671631 CCATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATG
1 CCATAACTAAAATGCATGAACGAATGCACTAAGGCATGAAAGGATT
* *
671677 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
1 CCATAACTAAAATGCATGAACGAATGCACTAAGGCATGAAAGGAT-T
* *
671724 -CATAATTAAAGTGCATGAACGAATGCACTAAGGCATGAAA
1 CCATAACTAAAATGCATGAACGAATGCACTAAGGCATGAAA
671764 AAGTGCATGA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 117 0.99
47 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAACTAAAATGCATGAACGAATGCACTAAGGCATGAAAGGATT
Found at i:671648 original size:26 final size:26
Alignment explanation
Indices: 671618--671742 Score: 69
Period size: 26 Copynumber: 5.3 Consensus size: 26
671608 ATGCATTAAG
671618 GCATGAAAGGATTCCATAATTAAAGT
1 GCATGAAAGGATTCCATAATTAAAGT
* * * *
671644 GCATG-AACGAATGC---ACT-AAG-
1 GCATGAAAGGATTCCATAATTAAAGT
* * *
671664 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATTCCATAATTAAAGT
* *
671690 GCATGAACGGA-TGC---ATT-AAG-
1 GCATGAAAGGATTCCATAATTAAAGT
671710 GCATGAAAGGATGT-CATAATTAAAGT
1 GCATGAAAGGAT-TCCATAATTAAAGT
671736 GCATGAA
1 GCATGAA
671743 CGAATGCACT
Statistics
Matches: 71, Mismatches: 15, Indels: 26
0.63 0.13 0.23
Matches are distributed among these distances:
20 15 0.21
21 11 0.15
22 5 0.07
24 6 0.08
25 12 0.17
26 22 0.31
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (26 bp):
GCATGAAAGGATTCCATAATTAAAGT
Found at i:671669 original size:20 final size:20
Alignment explanation
Indices: 671644--671762 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
671634 TAATTAAAGT
*
671644 GCATGAACGAATGCACTAAG
1 GCATGAACGGATGCACTAAG
* *
671664 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATG-C---ACT--AAG
*
671690 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCACTAAG
* *
671710 GCATGAAAGGATGTCATAATTAAAG
1 GCATGAACGGATG-C---ACT-AAG
*
671735 TGCATGAACGAATGCACTAAG
1 -GCATGAACGGATGCACTAAG
671756 GCATGAA
1 GCATGAA
671763 AAAGTGCATG
Statistics
Matches: 77, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
20 32 0.42
21 5 0.06
22 4 0.05
24 6 0.08
25 5 0.06
26 25 0.32
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (20 bp):
GCATGAACGGATGCACTAAG
Found at i:671741 original size:92 final size:92
Alignment explanation
Indices: 671584--671763 Score: 335
Period size: 92 Copynumber: 2.0 Consensus size: 92
671574 CTAAACTGAA
671584 GCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATTCCATAATTAAAGTGCATG
1 GCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATTCCATAATTAAAGTGCATG
671649 AACGAATGCACTAAGGCATGAAAGGAT
66 AACGAATGCACTAAGGCATGAAAGGAT
*
671676 GCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT-CATAATTAAAGTGCAT
1 GCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGAT-TCCATAATTAAAGTGCAT
671740 GAACGAATGCACTAAGGCATGAAA
65 GAACGAATGCACTAAGGCATGAAA
671764 AAGTGCATGA
Statistics
Matches: 86, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
92 85 0.99
93 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (92 bp):
GCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATTCCATAATTAAAGTGCATG
AACGAATGCACTAAGGCATGAAAGGAT
Found at i:671767 original size:32 final size:32
Alignment explanation
Indices: 671731--671795 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
671721 TGTCATAATT
671731 AAAGTGCATGAACGAATGCACTAAGGCATGAA
1 AAAGTGCATGAACGAATGCACTAAGGCATGAA
671763 AAAGTGCATGAACGAATGCACTAAGGCATGAA
1 AAAGTGCATGAACGAATGCACTAAGGCATGAA
671795 A
1 A
671796 GGATGCCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (32 bp):
AAAGTGCATGAACGAATGCACTAAGGCATGAA
Found at i:671789 original size:78 final size:77
Alignment explanation
Indices: 671685--671839 Score: 247
Period size: 78 Copynumber: 2.0 Consensus size: 77
671675 TGCCATAACT
* * * * *
671685 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCATAATTAAAGTGCATGAACGAATGC
1 AAAATGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGC
671750 ACTAAGGCATGA
66 ACTAAGGCATGA
671762 AAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATG
1 AAAA-TGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATG
*
671827 CATTAAGGCATGA
65 CACTAAGGCATGA
671840 GAGGATGCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 4 0.06
78 67 0.94
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (77 bp):
AAAATGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGC
ACTAAGGCATGA
Found at i:671834 original size:46 final size:46
Alignment explanation
Indices: 671762--672143 Score: 514
Period size: 46 Copynumber: 8.3 Consensus size: 46
671752 TAAGGCATGA
*
671762 AAAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACT
1 AAAA-TGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* * * *
671809 AAAATGCATGAACGAATGCATTAAGGCATGAGAGGATGCCATAATT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* *
671855 AAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* * * *
671901 AAAATGCATGAATGGATGCATTAAGGCATGAAAGAAT-CCATAATT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
** *
671946 AATGTGTATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* * * * *
671992 AAAATGCATGAATGGATGCATTACGGCATTAAAGGATGCCATAATT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* * *
672038 AAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGTCATAACT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
* * *
672084 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCTATAACT
1 AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
*
672130 AAAATGTATGAACG
1 AAAATGCATGAACG
672144 ACATAACTGA
Statistics
Matches: 290, Mismatches: 44, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
45 38 0.13
46 248 0.86
47 4 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
AAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACT
Found at i:671876 original size:92 final size:92
Alignment explanation
Indices: 671763--672143 Score: 611
Period size: 92 Copynumber: 4.2 Consensus size: 92
671753 AAGGCATGAA
* * *
671763 AAAGTGCATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGC
1 AAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
*
671828 ATTAAGGCATGAGAGGATGCCATAATT
66 ATTAAGGCATGAAAGGATGCCATAATT
*
671855 AAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
1 AAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
*
671920 ATTAAGGCATGAAAGAAT-CCATAATT
66 ATTAAGGCATGAAAGGATGCCATAATT
* *
671946 AATGTGTATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
1 AAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
* *
672011 ATTACGGCATTAAAGGATGCCATAATT
66 ATTAAGGCATGAAAGGATGCCATAATT
* *
672038 AAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGTCATAACTAAAATGCATGAATGGATGC
1 AAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
* *
672103 ATTAAGGCATGAAAGGATGCTATAACT
66 ATTAAGGCATGAAAGGATGCCATAATT
* *
672130 AAAATGTATGAACG
1 AAAGTGCATGAACG
672144 ACATAACTGA
Statistics
Matches: 266, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
91 85 0.32
92 181 0.68
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (92 bp):
AAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGC
ATTAAGGCATGAAAGGATGCCATAATT
Found at i:671983 original size:183 final size:183
Alignment explanation
Indices: 671770--672144 Score: 615
Period size: 183 Copynumber: 2.0 Consensus size: 183
671760 GAAAAAGTGC
671770 ATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGG
1 ATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGG
* * *
671835 CATGAGAGGATGCCATAATTAAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATGCCATAAC
66 CATGAAAGGATGCCATAATTAAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGCCATAAC
671900 TAAAATGCATGAATGGATGCATTAAGGCATGAAAGAATCCATAATTAATGTGT
131 TAAAATGCATGAATGGATGCATTAAGGCATGAAAGAATCCATAATTAATGTGT
* * * *
671953 ATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGATGCATTACGG
1 ATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGG
* *
672018 CATTAAAGGATGCCATAATTAAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGTCATAAC
66 CATGAAAGGATGCCATAATTAAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGCCATAAC
* * * **
672083 TAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCTATAACTAAAATGT
131 TAAAATGCATGAATGGATGCATTAAGGCATGAAAGAAT-CCATAATTAATGTGT
672137 ATGAACGA
1 ATGAACGA
672145 CATAACTGAA
Statistics
Matches: 176, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
183 158 0.90
184 18 0.10
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (183 bp):
ATGAACGAATGCACTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGG
CATGAAAGGATGCCATAATTAAAGTGCATGAACGGATGCACTAAGGAATGAAAGGATGCCATAAC
TAAAATGCATGAATGGATGCATTAAGGCATGAAAGAATCCATAATTAATGTGT
Found at i:682555 original size:19 final size:19
Alignment explanation
Indices: 682531--682571 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
682521 TTATTGTTTT
682531 TTTGAAATTAAT-ATTTAAA
1 TTTG-AATTAATGATTTAAA
*
682550 TTTGAATTATTGATTTAAA
1 TTTGAATTAATGATTTAAA
682569 TTT
1 TTT
682572 AAACTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TTTGAATTAATGATTTAAA
Found at i:686651 original size:21 final size:22
Alignment explanation
Indices: 686626--686667 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
686616 AATCACATCA
*
686626 TATTTTTTAAACACCC-TAACG
1 TATTTTTCAAACACCCGTAACG
*
686647 TATTTTTCATACACCCGTAAC
1 TATTTTTCAAACACCCGTAAC
686668 CTTGAGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (22 bp):
TATTTTTCAAACACCCGTAACG
Found at i:686935 original size:20 final size:19
Alignment explanation
Indices: 686887--686935 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
686877 AAATATATAT
686887 AATATATATAGTTTTTGAA
1 AATATATATAGTTTTTGAA
686906 ACATAT-TATAGTTTTTGAA
1 A-ATATATATAGTTTTTGAA
686925 AATATAATATA
1 AATAT-ATATA
686936 TGTTATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (19 bp):
AATATATATAGTTTTTGAA
Found at i:686985 original size:5 final size:5
Alignment explanation
Indices: 686973--687225 Score: 435
Period size: 5 Copynumber: 50.8 Consensus size: 5
686963 GTATACACAT
686973 TATT- TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
687022 TATTA TATTA TATTATA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
687074 TATTA TA-T- TATTA TATTA TA-T- TATTA TATTA TATTATA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA
687122 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
687172 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
687222 TATT
1 TATT
687226 TAAGTTTATT
Statistics
Matches: 240, Mismatches: 0, Indels: 17
0.93 0.00 0.07
Matches are distributed among these distances:
3 4 0.02
4 8 0.03
5 216 0.90
6 4 0.02
7 8 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:696447 original size:15 final size:15
Alignment explanation
Indices: 696407--696450 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
696397 TTTTATTACA
* *
696407 ATATTTATAT-TATT
1 ATATATATATATAAT
696421 ATATAT-TATATAAT
1 ATATATATATATAAT
696435 ATATATATATATAAT
1 ATATATATATATAAT
696450 A
1 A
696451 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 3 0.12
14 14 0.54
15 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATATATAAT
Found at i:696452 original size:18 final size:16
Alignment explanation
Indices: 696407--696450 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
696397 TTTTATTACA
*
696407 ATAT-TTATATTAT-T
1 ATATATTATATAATAT
696421 ATATATTATATAATAT
1 ATATATTATATAATAT
696437 ATATA-TATATAATA
1 ATATATTATATAATA
696451 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 17 0.63
16 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTATATAATAT
Found at i:696516 original size:16 final size:16
Alignment explanation
Indices: 696469--696527 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
696459 AAATGTATAT
696469 AATATATGATTTTTGAA
1 AATATAT-ATTTTTGAA
*
696486 AATATAAAATTTTTTGAA
1 AATAT-ATA-TTTTTGAA
*
696504 AATATATAGTTTTGAA
1 AATATATATTTTTGAA
*
696520 AACATATA
1 AATATATA
696528 ATATATATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 14 0.39
17 8 0.22
18 14 0.39
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (16 bp):
AATATATATTTTTGAA
Found at i:696516 original size:18 final size:18
Alignment explanation
Indices: 696469--696516 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
696459 AAATGTATAT
*
696469 AATATAT-GATTTTTGAA
1 AATATATAGTTTTTTGAA
* *
696486 AATATAAAATTTTTTGAA
1 AATATATAGTTTTTTGAA
696504 AATATATAGTTTT
1 AATATATAGTTTT
696517 GAAAACATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (18 bp):
AATATATAGTTTTTTGAA
Found at i:696602 original size:19 final size:21
Alignment explanation
Indices: 696570--696618 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
696560 AACATATATA
696570 ATATATATAATTTT-GAAAAC
1 ATATATATAATTTTAGAAAAC
* *
696590 ATAT-TATAGTTTTAGAAAAT
1 ATATATATAATTTTAGAAAAC
696610 ATAATATAT
1 AT-ATATAT
696619 GTTGTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 11 0.46
21 2 0.08
22 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
ATATATATAATTTTAGAAAAC
Found at i:696684 original size:20 final size:20
Alignment explanation
Indices: 696659--696740 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
696649 ACGTTTTATT
*
696659 TATTATATTATATATATATA
1 TATTATATTATTTATATATA
696679 TATTATATTATTTATAGTAT-
1 TATTATATTATTTATA-TATA
696699 TATT-TATTATTTA-ATATTA
1 TATTATATTATTTATATA-TA
696718 TATTATATTA-TTAT-TA-A
1 TATTATATTATTTATATATA
696735 TATTAT
1 TATTAT
696741 TTTTCGGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
17 9 0.16
18 2 0.04
19 18 0.32
20 24 0.43
21 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTATATTATTTATATATA
Found at i:696702 original size:3 final size:3
Alignment explanation
Indices: 696658--696741 Score: 52
Period size: 3 Copynumber: 27.7 Consensus size: 3
696648 TACGTTTTAT
*
696658 TTA TTA -TA TTA TATA TATA TATA TTA -TA TTA TT- TATA GTA TTA TTTA
1 TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA T-TA TTA TTA -TTA
* *
696705 TTA TTTA ATA TTA -TA TTA -TA TTA TTA TTA ATA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
696742 TTTCGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 40 0.61
4 17 0.26
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:696720 original size:39 final size:39
Alignment explanation
Indices: 696658--696742 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
696648 TACGTTTTAT
*
696658 TTATTATATTATATATATATATATTATATTATT-TATAGTA
1 TTATT-TATTATATATATATATATTATATTATTAT-TAATA
*
696698 TTATTTATTATTTA-ATATTATATTATATTATTATTAATA
1 TTATTTATTATATATATA-TATATTATATTATTATTAATA
696737 TTATTT
1 TTATTT
696743 TTCGGTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
38 3 0.07
39 32 0.78
40 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (39 bp):
TTATTTATTATATATATATATATTATATTATTATTAATA
Found at i:698374 original size:42 final size:43
Alignment explanation
Indices: 698326--698408 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
698316 TAATTAGAGT
* *
698326 TCCTAATTTTTAGAATTTTATTTT-TAACTTTATAATTGAGAC
1 TCCTAATTTTTAGAATCTCATTTTCTAACTTTATAATTGAGAC
** *
698368 TCCTAATTTTTTTAATCTCGTTTTCTAACTTTATAATTGAG
1 TCCTAATTTTTAGAATCTCATTTTCTAACTTTATAATTGAG
698409 GCCTCTAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 19 0.54
43 16 0.46
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (43 bp):
TCCTAATTTTTAGAATCTCATTTTCTAACTTTATAATTGAGAC
Found at i:698379 original size:43 final size:42
Alignment explanation
Indices: 698326--698408 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
698316 TAATTAGAGT
* *
698326 TCCTAATTTTTAGAATTTTATTTT-TAACTTTATAATTGAGAC
1 TCCTAATTTTT-GAATCTCATTTTCTAACTTTATAATTGAGAC
* *
698368 TCCTAATTTTTTTAATCTCGTTTTCTAACTTTATAATTGAG
1 TCCTAA-TTTTTGAATCTCATTTTCTAACTTTATAATTGAG
698409 GCCTCTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 14 0.40
43 21 0.60
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (42 bp):
TCCTAATTTTTGAATCTCATTTTCTAACTTTATAATTGAGAC
Found at i:698422 original size:43 final size:42
Alignment explanation
Indices: 698345--698556 Score: 153
Period size: 43 Copynumber: 4.9 Consensus size: 42
698335 TTAGAATTTT
*
698345 ATTTT-TAACTTTATAATTGA-GACTCCTAATTTTTTTAATCTC
1 ATTTTCTAACTTTATAATTGAGGCCT-CTAA-TTTTTTAATCTC
* *
698387 GTTTTCTAACTTTATAATTGAGGCCTCTAAGTTTTTTTTTTCAGTCTC
1 ATTTTCTAACTTTATAATTGAGGCCTCTAA-----TTTTTT-AATCTC
* * * *
698435 ATTTTCTATCTTTATAATTGGGGCCCCTAATATTTTTAATCCC
1 ATTTTCTAACTTTATAATTGAGGCCTCTAAT-TTTTTAATCTC
* * * * *
698478 ATTTTTTAGCTTCATAATTGAAG-CTCTCAAGTTTTTTTATCTC
1 ATTTTCTAACTTTATAATTGAGGCCTCT-AA-TTTTTTAATCTC
* * *
698521 ACTTTCTACCTTTATAAATGAGGTCC-CTAATTTTTT
1 ATTTTCTAACTTTATAATTGAGG-CCTCTAATTTTTT
698557 CAAATTTATA
Statistics
Matches: 135, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
42 13 0.10
43 72 0.53
44 11 0.08
45 1 0.01
47 7 0.05
48 31 0.23
ACGTcount: A:0.24, C:0.17, G:0.09, T:0.50
Consensus pattern (42 bp):
ATTTTCTAACTTTATAATTGAGGCCTCTAATTTTTTAATCTC
Found at i:698495 original size:91 final size:90
Alignment explanation
Indices: 698345--698515 Score: 218
Period size: 91 Copynumber: 1.9 Consensus size: 90
698335 TTAGAATTTT
* * * * * *
698345 ATTTTTAACTTTATAATTGAGACTCCTAATTTTTTTAATCTCGTTTTCTAACTTTATAATTGAGG
1 ATTTTTAACTTTATAATTGAGACCCCTAATATTTTTAATCCCATTTTCTAACTTCATAATTGAAG
698410 C-CTCTAAGTTTTTTTTTTCAGTCTC
66 CTCTC-AAGTTTTTTTTTTCAGTCTC
* * * * *
698435 ATTTTCTATCTTTATAATTGGGGCCCCTAATATTTTTAATCCCATTTTTTAGCTTCATAATTGAA
1 ATTTT-TAACTTTATAATTGAGACCCCTAATATTTTTAATCCCATTTTCTAACTTCATAATTGAA
698500 GCTCTCAAGTTTTTTT
65 GCTCTCAAGTTTTTTT
698516 ATCTCACTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 5 0.07
91 60 0.88
92 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.51
Consensus pattern (90 bp):
ATTTTTAACTTTATAATTGAGACCCCTAATATTTTTAATCCCATTTTCTAACTTCATAATTGAAG
CTCTCAAGTTTTTTTTTTCAGTCTC
Found at i:702934 original size:135 final size:132
Alignment explanation
Indices: 702549--702942 Score: 400
Period size: 132 Copynumber: 3.0 Consensus size: 132
702539 AAATAAATCC
* * * *
702549 CTTTTTTTTCCAGATTTGATCTTCCCTAAGGAATAATGAAACAAGTCTGTCTCGATTCAATCTTC
1 CTTTTTTTTCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTC
** * * * ***
702614 GCTGAAAAACAGTAGAATAAATCAACGTTTCCAGATCTGAATTTCCCTGAAGAAGCAGCATAACA
66 ATTG-AAAACAGTAGAATGAATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACA
702679 TAT
130 TAT
** * * * * * *
702682 CCCTTTTTTCCATATTTGATCTTCCTTGAGGAACAGTAGAACAA-TCTACCTTGATTCAATCTTC
1 CTTTTTTTTCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTC
* * * * * *
702746 CTTGTAAAACAATATAATGAAAT-AACATTTCCATATCTGCATTTCCCTGAAAAAGTAGTGGAAC
66 ATTG-AAAACAGTAGAATG-AATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAAC
702810 ATAACT
129 AT-A-T
*
702816 TTTTTTTTCTCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTT
1 CTTTTTTT-TCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTT
* * * * *
702881 CATTGAAGGACAGTGGAATGAATCACCGTTTGCAGATCTG-ATTTAGCCT-AAAAAGTAGTGGA
65 CATTGAA-AACAGTAGAATGAATCAACGTTTCCAGATCTGAATTT-CCCTGAAAAAGTAGTGGA
702943 GTAGATCCGT
Statistics
Matches: 208, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
132 65 0.31
133 39 0.19
134 6 0.03
135 54 0.26
136 44 0.21
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (132 bp):
CTTTTTTTTCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTC
ATTGAAAACAGTAGAATGAATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACAT
AT
Found at i:702956 original size:135 final size:133
Alignment explanation
Indices: 702493--702942 Score: 406
Period size: 135 Copynumber: 3.4 Consensus size: 133
702483 AAGAAAAGTG
* * * * * * * * * * *
702493 GAATGACTCAACATTTCTAGATATGATTTTCCCTGAAGAAGCAGCGAAATAAATCCCTTTTTTTT
1 GAATGAATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACATAT-CCTTTTTTTT
* * * * **
702558 CCAGATTTGATCTTCCCTAAGGAATAATGAAACAAGTCTGTCTCGATTCAATCTTCGCTGAAAAA
65 CCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTCATTG-AAAA
702623 CAGTA
129 CAGTA
* * * *** *
702628 GAATAAATCAACGTTTCCAGATCTGAATTTCCCTGAAGAAGCAGCATAACATATCC-CTTTTTTC
1 GAATGAATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACATATCCTTTTTTTTC
* * * * * * *
702692 CATATTTGATCTTCCTTGAGGAACAGTAGAACAA-TCTACCTTGATTCAATCTTCCTTGTAAAAC
66 CAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTCATTG-AAAAC
*
702756 AATA
130 AGTA
* * * * * *
702760 TAATGAAAT-AACATTTCCATATCTGCATTTCCCTGAAAAAGTAGTGGAACATAACTTTTTTTTT
1 GAATG-AATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACATATC-CTTTTTTT
702824 CTCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTCATTGAAG
64 -TCCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTCATTGAA-
* *
702889 GACAGTG
127 AACAGTA
* * *
702896 GAATGAATCACCGTTTGCAGATCTG-ATTTAGCCT-AAAAAGTAGTGGA
1 GAATGAATCAACGTTTCCAGATCTGAATTT-CCCTGAAAAAGTAGTGGA
702943 GTAGATCCGT
Statistics
Matches: 253, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
132 67 0.26
133 37 0.15
134 7 0.03
135 98 0.39
136 44 0.17
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (133 bp):
GAATGAATCAACGTTTCCAGATCTGAATTTCCCTGAAAAAGTAGTGGAACATATCCTTTTTTTTC
CAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGATTCAATCTTCATTGAAAACA
GTA
Found at i:703862 original size:19 final size:19
Alignment explanation
Indices: 703840--703884 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
703830 AACATCATAG
703840 GAAAGAAAAAAGAGAAAAA
1 GAAAGAAAAAAGAGAAAAA
* * **
703859 GAAATAAAAAGGAGAGCAA
1 GAAAGAAAAAAGAGAAAAA
703878 GAAAGAA
1 GAAAGAA
703885 TACTCACCGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
GAAAGAAAAAAGAGAAAAA
Found at i:711344 original size:2 final size:2
Alignment explanation
Indices: 711337--711370 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
711327 ATCAATACAA
711337 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
711371 TGTTTACTTT
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):
AT
Found at i:713870 original size:21 final size:21
Alignment explanation
Indices: 713844--713891 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
713834 ATGTTCTTTC
713844 ATTTTTATTT-TCACTTTTTTT
1 ATTTTTATTTATCA-TTTTTTT
*
713865 ATTTTT-TTTATTATTTTTTT
1 ATTTTTATTTATCATTTTTTT
*
713885 CTTTTTA
1 ATTTTTA
713892 AAATTAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTTTATTTATCATTTTTTT
Found at i:720189 original size:21 final size:19
Alignment explanation
Indices: 720161--720206 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
720151 TCATTGAATC
720161 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
720181 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
720200 ACTTAGT
1 A-TTAGT
720207 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:738204 original size:14 final size:14
Alignment explanation
Indices: 738184--738232 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
738174 AAGTTCTTTC
738184 ATTTTTATTTTCATT
1 ATTTTTATTTT-ATT
738199 -TTTTTATTTTATT
1 ATTTTTATTTTATT
* *
738212 ATTATTATTTTTTT
1 ATTTTTATTTTATT
*
738226 CTTTTTA
1 ATTTTTA
738233 CAATTAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 3 0.10
14 26 0.90
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTATTTTATT
Found at i:738221 original size:22 final size:22
Alignment explanation
Indices: 738188--738230 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
738178 TCTTTCATTT
738188 TTATTTTCATTTTTTTATTTTA
1 TTATTTTCATTTTTTTATTTTA
*
738210 TTATTATT-ATTTTTTTCTTTT
1 TTATT-TTCATTTTTTTATTTT
738231 TACAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
TTATTTTCATTTTTTTATTTTA
Found at i:748389 original size:18 final size:18
Alignment explanation
Indices: 748366--748408 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
748356 GATATCCTTA
748366 TCTTTAGTAGTAATGAGT
1 TCTTTAGTAGTAATGAGT
748384 TCTTTAGTAGTAATGAGT
1 TCTTTAGTAGTAATGAGT
748402 TCTTTAG
1 TCTTTAG
748409 GAACCCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (18 bp):
TCTTTAGTAGTAATGAGT
Found at i:749876 original size:13 final size:13
Alignment explanation
Indices: 749858--749890 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
749848 TAAGATTTTC
749858 TTTGAAAATCAAT
1 TTTGAAAATCAAT
749871 TTTG-AAATCAAT
1 TTTGAAAATCAAT
749883 TTTGAAAA
1 TTTGAAAA
749891 ATCACTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:755705 original size:13 final size:13
Alignment explanation
Indices: 755687--755719 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
755677 TAATATTTTC
755687 TTTGAAAATCAAT
1 TTTGAAAATCAAT
755700 TTTG-AAATCAAT
1 TTTGAAAATCAAT
755712 TTTGAAAA
1 TTTGAAAA
755720 ATTACTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:767875 original size:17 final size:18
Alignment explanation
Indices: 767843--767878 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
767833 TTTTCTTTCA
767843 TTTTATTTACTTTTTAAG
1 TTTTATTTACTTTTTAAG
767861 TTTTATTTA-TTTTTAAG
1 TTTTATTTACTTTTTAAG
767878 T
1 T
767879 ATAATTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTATTTACTTTTTAAG
Found at i:767885 original size:17 final size:18
Alignment explanation
Indices: 767847--767885 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
767837 CTTTCATTTT
* *
767847 ATTTACTTTTTAAGTTTT
1 ATTTACTTTTTAAGTATA
767865 ATTTA-TTTTTAAGTATA
1 ATTTACTTTTTAAGTATA
767882 ATTT
1 ATTT
767886 CTATCATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTACTTTTTAAGTATA
Found at i:768901 original size:11 final size:11
Alignment explanation
Indices: 768882--768913 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
768872 CTTGGGAAAA
768882 ATGAGAAAGTG
1 ATGAGAAAGTG
*
768893 ATGAAAAAGTG
1 ATGAGAAAGTG
768904 ATGAGAAAGT
1 ATGAGAAAGT
768914 TGTATCCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (11 bp):
ATGAGAAAGTG
Found at i:774868 original size:196 final size:196
Alignment explanation
Indices: 774524--774891 Score: 492
Period size: 196 Copynumber: 1.9 Consensus size: 196
774514 TACAATGGGC
*
774524 CATGATTTGAATAAATGTGAAAAAGTGCAAGTTTGATCTGTTCAATTGAAAATAAATCTTTCATC
1 CATGATTTGAATAAATGTGAAAAAGTGCAAGTTTGATCTGTTCAATTGAAAATAAATATTTCATC
* * * *
774589 GCATACTCTAATTTGGTATAAAATGCTTTATATCTAAAATGATGATTTGTAGGTTAGTTATATAA
66 GAATACTCTAAGTTGGTATAAAATGCTTTATATATAAAATGATGATTTGCAGGTTAGTTATATAA
*
774654 TGAGAGAAAGACTTTAATAAGTCTATTTTATGCATTCATATAAAGCATCTCGGTGGAAAAAAGGT
131 TGAGAGAAAGAATTTAATAAGTCTATTTTATGCATTCATATAAAGCATCTCGGTGGAAAAAAGGT
774719 A
196 A
* * * **
774720 CATGATTTGAATGAATGTGAAAAAGTTTCATGTTTGAT-TGGTTTGATT-AAAAGTAAATATTTC
1 CATGATTTGAATAAATGTGAAAAAG-TGCAAGTTTGATCT-GTTCAATTGAAAA-TAAATATTTC
* * * * * *
774783 ATCGAATACTCTGAGTTGGTA-AAATTGCTTTATATATGAACT-ATTGATTTGCATGTTATTTAT
63 ATCGAATACTCTAAGTTGGTATAAAATGCTTTATATATAAAATGA-TGATTTGCAGGTTAGTTAT
* * *
774846 ATGATGAGTGAAAGAATTTAATAAGTCTATTTTATGTATTCATATA
127 ATAATGAGAGAAAGAATTTAATAAGTCTATTTTATGCATTCATATA
774892 TCATATATGA
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
195 1 0.01
196 104 0.70
197 43 0.29
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (196 bp):
CATGATTTGAATAAATGTGAAAAAGTGCAAGTTTGATCTGTTCAATTGAAAATAAATATTTCATC
GAATACTCTAAGTTGGTATAAAATGCTTTATATATAAAATGATGATTTGCAGGTTAGTTATATAA
TGAGAGAAAGAATTTAATAAGTCTATTTTATGCATTCATATAAAGCATCTCGGTGGAAAAAAGGT
A
Found at i:789309 original size:59 final size:59
Alignment explanation
Indices: 789212--789334 Score: 185
Period size: 59 Copynumber: 2.1 Consensus size: 59
789202 TGACTTGAGT
* *
789212 AAATTTCGAGACCAAAATACAAGTTTCCAATATCTATATGCTTTTTAGAAAGTTGAAGG
1 AAATTTCGAGACCAAAATACAAGTTTCCAATATATATATACTTTTTAGAAAGTTGAAGG
* * *
789271 AAATTTGGGGACCAAAATACAAGTTTCCAGA-ATATATATACTTTTTAGAAAGTTGTAGG
1 AAATTTCGAGACCAAAATACAAGTTTCCA-ATATATATATACTTTTTAGAAAGTTGAAGG
789330 AAATT
1 AAATT
789335 CCCAAGTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 57 0.98
60 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (59 bp):
AAATTTCGAGACCAAAATACAAGTTTCCAATATATATATACTTTTTAGAAAGTTGAAGG
Found at i:799963 original size:14 final size:15
Alignment explanation
Indices: 799944--799985 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
799934 ATGAAACTTG
799944 TATGAATTGTTT-TT
1 TATGAATTGTTTATT
799958 TATGAATTTGTATTATT
1 TATGAA-TTGT-TTATT
*
799975 TATAAATTGTT
1 TATGAATTGTT
799986 CTATGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 6 0.25
17 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (15 bp):
TATGAATTGTTTATT
Found at i:817609 original size:76 final size:76
Alignment explanation
Indices: 817483--817635 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
817473 ACACTATACT
817483 AACCAATTCCGAAATAGTAATATCGCATGACTACCATCCTTGCACAAAGAGTGCCGAAAGTATGC
1 AACCAATTCCGAAATAGTAATATCGCATGACTACCATCCTTGCACAAAGAGTGCCGAAAGTATGC
817548 AAGTTACTAAC
66 AAGTTACTAAC
817559 AACCAATTCCGAAATAGTAATATCGCATGACTACCATCCTTGCACAAAGAGTGCCGAAAGTATGC
1 AACCAATTCCGAAATAGTAATATCGCATGACTACCATCCTTGCACAAAGAGTGCCGAAAGTATGC
817624 AAGTTACTAAC
66 AAGTTACTAAC
817635 A
1 A
817636 TGAATATACA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (76 bp):
AACCAATTCCGAAATAGTAATATCGCATGACTACCATCCTTGCACAAAGAGTGCCGAAAGTATGC
AAGTTACTAAC
Found at i:817734 original size:20 final size:20
Alignment explanation
Indices: 817709--817747 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
817699 ACATACATAG
*
817709 TGCTACAGTAAACAAAATAT
1 TGCTACAATAAACAAAATAT
817729 TGCTACAATAAACAAAATA
1 TGCTACAATAAACAAAATA
817748 CAGCTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (20 bp):
TGCTACAATAAACAAAATAT
Found at i:817753 original size:20 final size:20
Alignment explanation
Indices: 817710--817754 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
817700 CATACATAGT
* **
817710 GCTACAGTAAACAAAATATT
1 GCTACAATAAACAAAATACA
817730 GCTACAATAAACAAAATACA
1 GCTACAATAAACAAAATACA
817750 GCTAC
1 GCTAC
817755 TATACCACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.20
Consensus pattern (20 bp):
GCTACAATAAACAAAATACA
Found at i:822316 original size:23 final size:24
Alignment explanation
Indices: 822289--822336 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
822279 TACCTCTTCA
*
822289 TCTAGATGAAA-A-CTAGTAATTCT
1 TCTAGA-GAAACATCTAGAAATTCT
822312 TCTAGAGAAACATCTAGAAATTCT
1 TCTAGAGAAACATCTAGAAATTCT
822336 T
1 T
822337 GAACTATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 7 0.32
24 11 0.50
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (24 bp):
TCTAGAGAAACATCTAGAAATTCT
Found at i:826537 original size:20 final size:21
Alignment explanation
Indices: 826512--826604 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
826502 TTTTCCCAAT
*
826512 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
826532 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
826553 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
826573 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
826594 TCGCAATGCGA
1 TCGCAATGCGA
826605 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:826619 original size:41 final size:41
Alignment explanation
Indices: 826512--826604 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
826502 TTTTCCCAAT
826512 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
826553 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
826594 TCGCAATGCGA
1 TCGCAATGCGA
826605 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:828367 original size:18 final size:18
Alignment explanation
Indices: 828323--828367 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
828313 TCCACTTCGG
*
828323 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
828341 AAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
828359 GAGCCATCA
1 GAGCCATCA
828368 TTGATCGACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.44, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:828892 original size:19 final size:20
Alignment explanation
Indices: 828838--828904 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
828828 TAGTTTACTT
* *
828838 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
828858 TCGTAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
828878 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
828897 TCGCAACG
1 TCGCAACG
828905 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 14 0.38
20 23 0.62
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:828912 original size:14 final size:14
Alignment explanation
Indices: 828893--828943 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
828883 ATGCGAAATG
828893 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
828907 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
828923 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
828939 AAAAT
1 AAAAT
828944 TTTCGCGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 14 0.45
16 8 0.26
18 9 0.29
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:828935 original size:32 final size:33
Alignment explanation
Indices: 828877--828943 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 33
828867 GGAAATGGCT
828877 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
828910 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
828942 AT
1 AT
828944 TTTCGCGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.53
33 16 0.47
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:828959 original size:14 final size:14
Alignment explanation
Indices: 828949--829006 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
828939 AAAATTTTCG
828949 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
828963 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
828979 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
828995 CGTTGCTATTTT
1 CGTTGCGATTTT
829007 CATTTCGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:828980 original size:32 final size:33
Alignment explanation
Indices: 828944--829022 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
828934 ACGACAAAAT
*
828944 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
828976 TTTCGCATTGCGATTTTGTCGTTGCTATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
829009 TTTCGTATTGCGAT
1 TTTCGCATTGCGAT
829023 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 25 0.58
33 18 0.42
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:829040 original size:20 final size:19
Alignment explanation
Indices: 829007--829060 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
828997 TTGCTATTTT
*
829007 CATTTCGTATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
829026 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
829046 CATTTCGCGTTGCGA
1 CATTTCGCATTGCGA
829061 ATTTAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:830993 original size:14 final size:16
Alignment explanation
Indices: 830974--831048 Score: 61
Period size: 14 Copynumber: 4.7 Consensus size: 16
830964 CGAAATGGCT
830974 ATCGCAA-CGAGA-AA
1 ATCGCAAGCGAGAGAA
*
830988 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA-GAA
831006 ATCGCAATGCGA-ATGAA
1 ATCGCAA-GCGAGA-GAA
831023 ATCGCAA-CGAGA-AA
1 ATCGCAAGCGAGAGAA
831037 ATCGCAATGCGA
1 ATCGCAA-GCGA
831049 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
14 16 0.30
15 3 0.06
16 8 0.15
17 12 0.23
18 14 0.26
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (16 bp):
ATCGCAAGCGAGAGAA
Found at i:831009 original size:18 final size:18
Alignment explanation
Indices: 830986--831048 Score: 82
Period size: 17 Copynumber: 3.8 Consensus size: 18
830976 CGCAACGAGA
830986 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
831004 AAATCGCAATGCG-AATG
1 AAATCGCAATGCGAAATG
*
831021 AAATCGCAA--CGAGA--
1 AAATCGCAATGCGAAATG
831035 AAATCGCAATGCGA
1 AAATCGCAATGCGA
831049 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 9 0.22
15 2 0.05
16 4 0.10
17 13 0.32
18 13 0.32
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:831111 original size:20 final size:19
Alignment explanation
Indices: 831072--831121 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
831062 TTGCGATTCT
*
831072 CGTTGCGATAACCATTTCG
1 CGTTGCGATAGCCATTTCG
831091 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCA-TTTCG
831111 CGTTGCGATAG
1 CGTTGCGATAG
831122 TCAATGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (19 bp):
CGTTGCGATAGCCATTTCG
Found at i:832192 original size:24 final size:23
Alignment explanation
Indices: 832137--832194 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
832127 AGTCAGTATT
* *
832137 CGAAATTTGATCTTGGTCATACC
1 CGAAATTTGATATTGGTCATACA
* *
832160 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTC-ATACA
*
832184 CGAATTTTGAT
1 CGAAATTTGAT
832195 GATGTTCAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (23 bp):
CGAAATTTGATATTGGTCATACA
Found at i:834569 original size:19 final size:19
Alignment explanation
Indices: 834547--834638 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
834537 GGAAATTACT
834547 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
834566 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
834580 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
834599 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
834613 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
834632 ATCGCAA
1 ATCGCAA
834639 CGAGGGAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:834589 original size:33 final size:33
Alignment explanation
Indices: 834547--834673 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
834537 GGAAATTACT
834547 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
834580 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
834612 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
834646 ATCGCAATACGAAATGAGAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
834674 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:834659 original size:66 final size:66
Alignment explanation
Indices: 834548--834680 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
834538 GAAATTACTA
* *
834548 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
834613 T
66 T
* *
834614 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATACGAAATGAGAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
834679 T
66 T
834680 T
1 T
834681 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
T
Found at i:834695 original size:19 final size:20
Alignment explanation
Indices: 834673--834714 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
834663 GAATCGCAAC
*
834673 GCGAATT-TAATTTCGCGTT
1 GCGAATTCTAATTTCGCATT
*
834692 GCG-ATTCTCATTTCGCATT
1 GCGAATTCTAATTTCGCATT
834711 GCGA
1 GCGA
834715 TTCCCTCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
GCGAATTCTAATTTCGCATT
Found at i:834715 original size:19 final size:19
Alignment explanation
Indices: 834682--834748 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
834672 CGCGAATTTA
*
834682 ATTTCGCGTTGCGATTCTC
1 ATTTCGCATTGCGATTCTC
834701 ATTTCGCATTGCGATTC-C
1 ATTTCGCATTGCGATTCTC
* *
834719 --CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTCTC
834734 ATTTCGCATTGCGAT
1 ATTTCGCATTGCGAT
834749 AGTACTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 8 0.21
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
19 23 0.59
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
ATTTCGCATTGCGATTCTC
Found at i:834874 original size:14 final size:14
Alignment explanation
Indices: 834855--834891 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
834845 CATCAATTAA
834855 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
834869 ACAAATCACCTTTT
1 ACAAATCAACTTTT
834883 ACAAATCAA
1 ACAAATCAA
834892 TTAAACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:836320 original size:21 final size:21
Alignment explanation
Indices: 836254--836320 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
836244 GTGAATCGGG
*
836254 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
836274 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
836296 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
836317 CTCT
1 CTCT
836321 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:836339 original size:42 final size:41
Alignment explanation
Indices: 836254--836376 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
836244 GTGAATCGGG
* * * * *
836254 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
836296 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
836338 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
836377 TGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:838461 original size:19 final size:19
Alignment explanation
Indices: 838361--838461 Score: 88
Period size: 19 Copynumber: 5.5 Consensus size: 19
838351 TCTTTTGGTT
*
838361 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
838380 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
838400 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
838418 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
838433 GAAATGAAAATCGCAACTGC
1 GAAATGAAAATCGCAAC-GC
838453 GAAAT-AAAA
1 GAAATGAAAA
838462 AATTGCAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.15
15 2 0.03
18 2 0.03
19 29 0.43
20 24 0.36
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:838469 original size:21 final size:20
Alignment explanation
Indices: 838422--838462 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
838412 GCGACCAGAC
*
838422 AATCGCAAC-GCGAAATGAA
1 AATCGCAACTGCGAAATAAA
838441 AATCGCAACTGCGAAATAAA
1 AATCGCAACTGCGAAATAAA
838461 AA
1 AA
838463 ATTGCAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (20 bp):
AATCGCAACTGCGAAATAAA
Found at i:838473 original size:20 final size:19
Alignment explanation
Indices: 838422--838474 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
838412 GCGACCAGAC
* *
838422 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATAAA
838441 AATCGCAACTGCGAAATAAAA
1 AATCGCAA-TGCGAAAT-AAA
*
838462 AATTGCAATGCGA
1 AATCGCAATGCGA
838475 TTTTGGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.28
20 12 0.41
21 9 0.31
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATAAA
Found at i:838504 original size:20 final size:19
Alignment explanation
Indices: 838470--838537 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
838460 AAAATTGCAA
**
838470 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
838489 TGCGAATTTTTATTTCGCGT
1 TGCG-ATTTTTATTTCGCGT
**
838509 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
838529 TGCGATTTT
1 TGCGATTTT
838538 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.29
20 29 0.71
ACGTcount: A:0.12, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:839123 original size:20 final size:20
Alignment explanation
Indices: 839098--839151 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
839088 GATTTTGTAT
839098 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
839118 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
839138 TATCGCATTGCGAT
1 TATCGCATTGCGAT
839152 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:839170 original size:61 final size:61
Alignment explanation
Indices: 839058--839172 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
839048 CGCTATGTAA
* * * ** *
839058 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
839119 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
839173 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:839295 original size:20 final size:19
Alignment explanation
Indices: 839270--839333 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
839260 CAACGCGAAT
*
839270 TTGCGATAATGGAGATCGCG
1 TTGCGA-AATAGAGATCGCG
* *
839290 TTGCGAATTAGCGATCGCG
1 TTGCGAAATAGAGATCGCG
* * *
839309 TTGCGAATTAGCGATCGCA
1 TTGCGAAATAGAGATCGCG
839328 TTGCGA
1 TTGCGA
839334 TTTTGTTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (19 bp):
TTGCGAAATAGAGATCGCG
Found at i:839307 original size:19 final size:19
Alignment explanation
Indices: 839283--839333 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
839273 CGATAATGGA
839283 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
839302 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
*
839321 GATCGCATTGCGA
1 GATCGCGTTGCGA
839334 TTTTGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (19 bp):
GATCGCGTTGCGAATTAGC
Done.