Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 161 of 311
Found at i:54926955 original size:25 final size:25
Alignment explanation
Indices: 54926927--54926974 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54926917 ATATATAAAC
* * *
54926927 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54926952 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54926975 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54929437 original size:765 final size:765
Alignment explanation
Indices: 54927914--54929445 Score: 2895
Period size: 764 Copynumber: 2.0 Consensus size: 765
54927904 GGTTGCTGGT
54927914 CACAAAGAATCGGCACCCACCTATCTTCACTGATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
1 CACAAAGAATCGGCACCCACCTATCTTCACTGATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
* *
54927979 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATTTTGAAAAAGAA
66 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTAGATATTGAAAAAGAA
54928044 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
131 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
*
54928109 TAAAACAAAGGAGAAAACGGCACAGCTAGGACCCTAATGCCGAAATTACTAACCTAATACCCTTC
196 TAAAACAAAGGAGAAAACGGCACAGCTAAGACCCTAATGCCGAAATTACTAACCTAATACCCTTC
54928174 TGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAAATCCCTAAA
261 TGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAAATCCCTAAA
*
54928239 ATCTCTCCCTTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGAATC
326 ATCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGAATC
54928304 CACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACACAGG
391 CACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACACAGG
* *
54928369 GAATCGATCCTAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTCACC
456 GAATCGATCCCAGGTATTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTCACC
* *
54928434 CTTGCCACTTTACTATAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCACCTA
521 CTTGCCACTTTACAACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCACCTA
54928499 GCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCATAAG
586 GCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCATAAG
54928564 CCTTCCATAAGCCCATTTACACACCCAAATTATGAATTCCATAATCACATACCAAATTTTAGAAA
651 CCTTCCATAAGCCCATTTACACACCCAAATTATGAATTCCATAATCACATACCAAATTTTAGAAA
* * * *
54928629 AATTACTTAAAATATTAGGAATCGCGAAAAATCCGAAAATCAGGATGTTA
716 AATTACTTAAAATATCAGGAATCACGAAAAACCCAAAAATCAGGATGTTA
* *
54928679 CACAAAGAATTGGCACCCACCTATCTTCACTGATTTTGGC-TTTTTTGCGGTATTTCGGCAGAAG
1 CACAAAGAATCGGCACCCACCTATCTTCACTGATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
*
54928743 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATATGCTAGATATTGAAAAAGAA
66 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTAGATATTGAAAAAGAA
54928808 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
131 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
54928873 TAAAACAAAGGAGAAAACGGCACAGCTAAGACCCTAATGCCGAAATTACTAACCTAATACCCTTC
196 TAAAACAAAGGAGAAAACGGCACAGCTAAGACCCTAATGCCGAAATTACTAACCTAATACCCTTC
54928938 TGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAAATCCCTAAA
261 TGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAAATCCCTAAA
54929003 ATCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGAATC
326 ATCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGAATC
54929068 CACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACACAGG
391 CACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACACAGG
54929133 GAATCGATCCCAGGTATTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTTAGTGGCGTCAC
456 GAATCGATCCCAGGTATTCCCTTATGCTCCACACGCCACCTTTTTAGGAGC-TTAGTGGCGTCAC
54929198 CCTTGCCACTTTACAACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCACCT
520 CCTTGCCACTTTACAACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCACCT
54929263 AGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCATAA
585 AGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCATAA
*
54929328 GCCTTCCATAAGCCCATTTACACACCCAAATTATGAGTTCCATAATCACATACCAAATTTTAGAA
650 GCCTTCCATAAGCCCATTTACACACCCAAATTATGAATTCCATAATCACATACCAAATTTTAGAA
*
54929393 AAATTACTTAAAATATCAGGAATTACGAAAAACCCAAAAATCAGGATGTTA
715 AAATTACTTAAAATATCAGGAATCACGAAAAACCCAAAAATCAGGATGTTA
54929444 CA
1 CA
54929446 TGCCAGCGTC
Statistics
Matches: 749, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
764 458 0.61
765 291 0.39
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (765 bp):
CACAAAGAATCGGCACCCACCTATCTTCACTGATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTAGATATTGAAAAAGAA
AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
TAAAACAAAGGAGAAAACGGCACAGCTAAGACCCTAATGCCGAAATTACTAACCTAATACCCTTC
TGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAAATCCCTAAA
ATCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGAATC
CACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACACAGG
GAATCGATCCCAGGTATTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTCACC
CTTGCCACTTTACAACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCACCTA
GCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCATAAG
CCTTCCATAAGCCCATTTACACACCCAAATTATGAATTCCATAATCACATACCAAATTTTAGAAA
AATTACTTAAAATATCAGGAATCACGAAAAACCCAAAAATCAGGATGTTA
Found at i:54931036 original size:31 final size:31
Alignment explanation
Indices: 54930993--54931109 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
54930983 TCAAGCTCAG
* *
54930993 CATAT-ACTGGGCCAAAGCCTTTACATTATC
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
54931023 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
54931054 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
54931085 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
54931110 TATAAACGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 75 0.95
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:54931362 original size:25 final size:25
Alignment explanation
Indices: 54931328--54931397 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
54931318 CTCTTTTAAT
* *
54931328 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
54931353 AACTGGGGCAAAGCCCTTTTCGGCA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
54931378 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
54931398 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGACA
Found at i:54931648 original size:27 final size:27
Alignment explanation
Indices: 54931604--54931729 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
54931594 CAAAATGGTA
* * *
54931604 AATT-TACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
* * *
54931630 AATTCCACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
54931657 AATTCTACCCTACAGGGGTATTTC-AGT
1 AATTCTACCCTACAGGGGTATTTCGA-T
* * *
54931684 AATTCTACCTTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
54931711 AATTCTACCCTACAGGGGT
1 AATTCTACCCTACAGGGGT
54931730 TGTAACAGCC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.05
27 79 0.95
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGAT
Found at i:54931657 original size:54 final size:54
Alignment explanation
Indices: 54931599--54931729 Score: 167
Period size: 54 Copynumber: 2.4 Consensus size: 54
54931589 ACGGGCAAAA
* *
54931599 TGGTAAATT-TACCCCACAAGGGTATCTC-GATAATTCCACCCTACAGGGGTATTT
1 TGGT-AATTCTACCCTACAGGGGTATCTCAG-TAATTCCACCCTACAGGGGTATTT
* * * *
54931653 TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATCTCAGTAATTCCACCCTACAGGGGTATTT
*
54931707 CGGTAATTCTACCCTACAGGGGT
1 TGGTAATTCTACCCTACAGGGGT
54931730 TGTAACAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 4 0.06
54 63 0.93
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATCTCAGTAATTCCACCCTACAGGGGTATTT
Found at i:54934594 original size:27 final size:27
Alignment explanation
Indices: 54934563--54934629 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
54934553 TAAGGGGTGT
54934563 TACAGGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
54934590 TACAGGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
54934617 TACAGGGGTATTT
1 TACAGGGGTATTT
54934630 TGATATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (27 bp):
TACAGGGGTATTTCGGTAATTCTACCC
Found at i:54934672 original size:27 final size:27
Alignment explanation
Indices: 54934619--54934719 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
54934609 TTCTACCCTA
*
54934619 CAGGGGTATTTTGAT-ATTTTACAAAT
1 CAGGAGTATTTTGATAATTTTACAAAT
*
54934645 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GAGTATTTTGATAATTTTACAAAT
* * **
54934672 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGAGTATTTTGATAATTTTACAAAT
* *
54934699 CAGGGGTATTTTGGTAATTTT
1 CAGGAGTATTTTGATAATTTT
54934720 GTAAACCAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.02
26 12 0.18
27 51 0.78
28 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
CAGGAGTATTTTGATAATTTTACAAAT
Found at i:54934732 original size:27 final size:27
Alignment explanation
Indices: 54934675--54934760 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
54934665 CACAAATCAG
** * *
54934675 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
54934702 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
** * *
54934729 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
54934756 GGGTA
1 GGGTA
54934761 AAATGATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:54935041 original size:27 final size:27
Alignment explanation
Indices: 54934739--54935030 Score: 368
Period size: 27 Copynumber: 10.8 Consensus size: 27
54934729 GGGTATTTCA
*
54934739 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * **
54934766 ATAATTTTGTTAATCGAGAGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
54934793 GTAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
54934820 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
54934847 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
54934874 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
54934901 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
54934928 GTAATTCTATAAATCGAGGGTAAAGCG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ***
54934955 GTAATTCTATAAATCGAGGGTAAAGCA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
54934982 GTAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
54935009 GTAATTCTGTAAATCGATGGTA
1 GTAATTCTGTAAATCGAGGGTA
54935031 CTTTGGTAAT
Statistics
Matches: 231, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 231 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:54939200 original size:50 final size:50
Alignment explanation
Indices: 54939125--54939242 Score: 202
Period size: 50 Copynumber: 2.4 Consensus size: 50
54939115 TATCCCGGAT
* *
54939125 ATGGTCTTTCAT-GGATTCACACATATCGATGCTAATGTCATGTCCCAAAC
1 ATGGTCTTACATGGGA-TCACACATATCGATGCCAATGTCATGTCCCAAAC
54939175 ATGGTCTTACATGGGATCACACATATCGATGCCAATGTCATGTCCCAAAC
1 ATGGTCTTACATGGGATCACACATATCGATGCCAATGTCATGTCCCAAAC
54939225 ATGGTCTTACATGGGATC
1 ATGGTCTTACATGGGATC
54939243 TCATATTGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 62 0.95
51 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
ATGGTCTTACATGGGATCACACATATCGATGCCAATGTCATGTCCCAAAC
Found at i:54940007 original size:32 final size:32
Alignment explanation
Indices: 54939960--54940026 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
54939950 TCATATGTGT
* *
54939960 TTGATATTGAAATGGGCTAGGCCCAACTGATA
1 TTGATATTGAAATGGGCAAGGCCCAACTGAGA
* * *
54939992 TTGATTTTGAGATGGGCAAGGCCCAATTGAGA
1 TTGATATTGAAATGGGCAAGGCCCAACTGAGA
54940024 TTG
1 TTG
54940027 TGATGGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (32 bp):
TTGATATTGAAATGGGCAAGGCCCAACTGAGA
Found at i:54940909 original size:16 final size:16
Alignment explanation
Indices: 54940878--54940911 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54940868 TATTATGCAA
* *
54940878 TAGGAAACATTGTGAT
1 TAGGAAACACTATGAT
54940894 TAGGAAACACTATGAT
1 TAGGAAACACTATGAT
54940910 TA
1 TA
54940912 CTTTAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (16 bp):
TAGGAAACACTATGAT
Found at i:54944766 original size:32 final size:32
Alignment explanation
Indices: 54944715--54944812 Score: 124
Period size: 32 Copynumber: 3.1 Consensus size: 32
54944705 TATATGGGTT
* *
54944715 TGATATTGAAATGGGCTAGGCCCAACTGATAC
1 TGATTTTGAAATGGGCTAGGCCCAATTGATAC
* * *
54944747 TGGTTTTGATATGGGCTAGGCCCAATTGATAT
1 TGATTTTGAAATGGGCTAGGCCCAATTGATAC
* * *
54944779 TGATTCTGAGATGGGCTAGGCCCAATTGAGAC
1 TGATTTTGAAATGGGCTAGGCCCAATTGATAC
54944811 TG
1 TG
54944813 TGATAGGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (32 bp):
TGATTTTGAAATGGGCTAGGCCCAATTGATAC
Found at i:54945791 original size:49 final size:49
Alignment explanation
Indices: 54945684--54945815 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
54945674 GTAGATCAAA
* * * *
54945684 GTCGATGCCATGTCCCAGAC-AGTCTGACATTGATTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCGAG
* * * *
54945732 GCCGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATCTATTG-G
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCGAG
*
54945780 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 -GTCGATGCCATGTCCCAGACAAGTCTTACACTGAC
54945816 ACACAACAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
48 20 0.28
49 51 0.72
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCGAG
Found at i:54946555 original size:20 final size:18
Alignment explanation
Indices: 54946518--54946568 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
54946508 CTATAGCAAC
54946518 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
54946535 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
54946555 TTACAACTTTACAA
1 TCACAA-TTTACAA
54946569 AATAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:54951215 original size:46 final size:46
Alignment explanation
Indices: 54951073--54951331 Score: 204
Period size: 46 Copynumber: 5.5 Consensus size: 46
54951063 GTGCTACTGC
* * * * *
54951073 AAGACATGTCTGTGACATGCATCAGCCAC-ATTATGAGAGCAAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGTGT
* * * * *
54951119 AAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGAGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTGT
* *
54951167 AAGACATGTCTGGGACATGCATCTGCCTCGTGATGTA-AGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTGT
* * *
54951213 AAGACATGTCTGAGACATGCATCGG-CTACGAGAT--GTGTCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCCAGTGT
** * *
54951257 AAGACCATGTCTGGGACATGGCATCGGCCTCGATTTGAATAGTCAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATG-AGAGCCAGTGT
**
54951306 AAGACCATGTCTATGACATGGCATCG
1 AAGA-CATGTCTGGGACAT-GCATCG
54951332 ACATTCTACT
Statistics
Matches: 174, Mismatches: 27, Indels: 21
0.78 0.12 0.09
Matches are distributed among these distances:
44 11 0.06
45 15 0.09
46 62 0.36
47 30 0.17
48 23 0.13
49 33 0.19
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTGT
Found at i:54955695 original size:38 final size:38
Alignment explanation
Indices: 54955650--54955747 Score: 160
Period size: 38 Copynumber: 2.6 Consensus size: 38
54955640 TGTGTATCTA
*
54955650 GTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTG
1 GTAATATATCAGGGTTAAATCCCGCAGGCTTCGTGCTG
*
54955688 GTAATATATCAAGGTTAAATCCCGCAGGCTTCGTGCTG
1 GTAATATATCAGGGTTAAATCCCGCAGGCTTCGTGCTG
* *
54955726 GTATTATATCTGGGTTAAATCC
1 GTAATATATCAGGGTTAAATCC
54955748 TGTAGGCCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (38 bp):
GTAATATATCAGGGTTAAATCCCGCAGGCTTCGTGCTG
Found at i:54955765 original size:38 final size:38
Alignment explanation
Indices: 54955654--54955772 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
54955644 TATCTAGTAA
* *
54955654 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
54955692 TATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * * *
54955730 TATATCTGGGTTAAATCCTGTAGGCCTAGTACTGGTAT
1 TATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
54955768 TATAT
1 TATAT
54955773 TTAGGCCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (38 bp):
TATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:54969633 original size:30 final size:30
Alignment explanation
Indices: 54969597--54969656 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
54969587 TTCCCGAGCC
54969597 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
54969627 TAGGGGCAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
54969657 CATATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:54970153 original size:46 final size:46
Alignment explanation
Indices: 54970079--54970248 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
54970069 TGGTTGAGCA
*
54970079 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATG
* * * * *
54970125 TCCGAACTCGTTGAGTTCAGTCTGAGTT--CGT-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAA-T--G
* * *
54970170 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATG
*
54970218 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCAC
54970249 TTAGGGGCGG
Statistics
Matches: 100, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 2 0.02
45 3 0.03
46 52 0.52
47 26 0.26
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATG
Found at i:54970245 original size:93 final size:93
Alignment explanation
Indices: 54970076--54970246 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
54970066 GGATGGTTGA
*
54970076 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
*
54970141 TCAGTCTGAGTTCGTGAGATGTAACTAG
66 TCAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
54970169 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCC-GAACTCGTTGAG
*
54970233 TTGAGTCCGAGTTC
65 TTCAGTCCGAGTTC
54970247 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
TCAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54977699 original size:46 final size:46
Alignment explanation
Indices: 54977649--54977821 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
54977639 TGGTTGAGCA
54977649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54977695 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
54977740 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54977788 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54977822 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54977805 original size:93 final size:93
Alignment explanation
Indices: 54977646--54977816 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
54977636 GGATGGTTGA
* *
54977646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54977711 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
54977739 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54977804 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54977817 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54979566 original size:40 final size:41
Alignment explanation
Indices: 54979518--54979707 Score: 231
Period size: 41 Copynumber: 4.7 Consensus size: 41
54979508 CGACAAATCA
* * * * *
54979518 GCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
54979558 GCTATATATGGCACTTAGTGCGCGAGATCGAGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
*
54979599 GCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
54979640 GCTATATATGGCACTTAGTGTGTGA-TTTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
54979680 GCTATGTACGACACTTAGTGTGCGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
54979708 ATTAAATATT
Statistics
Matches: 127, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 57 0.45
41 70 0.55
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:54979672 original size:81 final size:82
Alignment explanation
Indices: 54979515--54979707 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 82
54979505 CAACGACAAA
* * *
54979515 TCAGCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTGGCTATATATGGCACTTAGTGC
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGC
54979579 GCGAGATCGAGATAGCT
66 GCGAGATCGAGATAGCT
* * * *
54979596 TCAGCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGC
* * *
54979661 GTGA-TTTGAGATAGCT
66 GCGAGATCGAGATAGCT
** * * *
54979677 TTGGCTATGTACGACACTTAGTGTGCGAGAT
1 TCAGCTATATATGGCACTTAGTGTGCGAGAT
54979708 ATTAAATATT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 61 0.64
82 34 0.36
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (82 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGC
GCGAGATCGAGATAGCT
Found at i:54989315 original size:13 final size:13
Alignment explanation
Indices: 54989297--54989323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54989287 GAAGTAATCG
54989297 CACACAGGCGTGT
1 CACACAGGCGTGT
54989310 CACACAGGCGTGT
1 CACACAGGCGTGT
54989323 C
1 C
54989324 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACAGGCGTGT
Found at i:54992479 original size:20 final size:21
Alignment explanation
Indices: 54992440--54992479 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54992430 GTCATAATGG
54992440 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
54992461 CCACACGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
54992480 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:54994261 original size:16 final size:16
Alignment explanation
Indices: 54994242--54994273 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
54994232 GTTTTTTAGT
54994242 TTTTCGGCTTTTCAGC
1 TTTTCGGCTTTTCAGC
54994258 TTTTCGGCTTTTCAGC
1 TTTTCGGCTTTTCAGC
54994274 CTTTGCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTTCGGCTTTTCAGC
Found at i:54995455 original size:20 final size:21
Alignment explanation
Indices: 54995427--54995469 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
54995417 AAATGACATG
*
54995427 AAATGTTT-GTAATTGTTCTAT
1 AAATGTTTGGTAA-TGCTCTAT
54995448 AAAT-TTTGGTAATGCTCTAT
1 AAATGTTTGGTAATGCTCTAT
54995468 AA
1 AA
54995470 CCCTGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (21 bp):
AAATGTTTGGTAATGCTCTAT
Found at i:54995549 original size:20 final size:19
Alignment explanation
Indices: 54995511--54995551 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
54995501 TGTTACAGTG
54995511 GAGGAGAGAAAATGAAAGA
1 GAGGAGAGAAAATGAAAGA
* *
54995530 GAGGAGAGGAGAATGGAAGA
1 GAGGAGA-GAAAATGAAAGA
54995550 GA
1 GA
54995552 AAAAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.05
Consensus pattern (19 bp):
GAGGAGAGAAAATGAAAGA
Found at i:54996962 original size:22 final size:22
Alignment explanation
Indices: 54996937--54996994 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
54996927 TTTTCTTATT
54996937 ATTTTCTCCCTATTTTGCTACC
1 ATTTTCTCCCTATTTTGCTACC
** * *
54996959 ATTTTACT-ATTATGTTGCTACT
1 ATTTT-CTCCCTATTTTGCTACC
54996981 ATTTTCTCCCTATT
1 ATTTTCTCCCTATT
54996995 GTTAATTTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTTCTCCCTATTTTGCTACC
Found at i:54997028 original size:30 final size:30
Alignment explanation
Indices: 54996993--54997055 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
54996983 TTTCTCCCTA
54996993 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
54997023 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
54997053 TTG
1 TTG
54997056 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:54997178 original size:19 final size:19
Alignment explanation
Indices: 54997132--54997178 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
54997122 GTTAGGAAAT
* **
54997132 ATATATTTTGATGTTTTTT
1 ATATATTTTGATGTATTAC
54997151 AGTAT-TTTTGATGTATTAC
1 A-TATATTTTGATGTATTAC
54997170 ATATATTTT
1 ATATATTTT
54997179 AAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 17 0.74
20 3 0.13
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.62
Consensus pattern (19 bp):
ATATATTTTGATGTATTAC
Found at i:54997209 original size:12 final size:11
Alignment explanation
Indices: 54997178--54997211 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
54997168 ACATATATTT
54997178 TAAAAAT-ATA
1 TAAAAATAATA
54997188 TAAAAATAATA
1 TAAAAATAATA
54997199 TAAAAATTAATA
1 TAAAAA-TAATA
54997211 T
1 T
54997212 GGGCGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 9 0.41
12 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:55008274 original size:43 final size:42
Alignment explanation
Indices: 55008175--55008281 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
55008165 TTAGGGTTAC
* *
55008175 CGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
1 CGAGATTACATGTAAGACCATAGCTGGCATATGGCATCGATA
* * * * *
55008217 TGAGACTT-CGTGTAAGACCATAGCTGGCCTCTTGGCATTGATA
1 CGAGA-TTACATGTAAGACCATAGCTGGCAT-ATGGCATCGATA
55008260 CGAGATTACATGTAAGACCATA
1 CGAGATTACATGTAAGACCATA
55008282 TATGGGGTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (42 bp):
CGAGATTACATGTAAGACCATAGCTGGCATATGGCATCGATA
Found at i:55008304 original size:42 final size:42
Alignment explanation
Indices: 55008175--55008304 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
55008165 TTAGGGTTAC
*
55008175 CGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
1 CGAGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
* * * ** *
55008217 TGAGACTT-CGTGTAAGACCATAGCTGGCCTCTTGGCATTGATA
1 CGAGA-TTACATGTAAGACCATATCTGGGAT-ATGGCATTGATA
* * * *
55008260 CGAGATTACATGTAAGACCATATATGGGGTGTGGCATTGGTA
1 CGAGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
55008302 CGA
1 CGA
55008305 TACTGTGTGT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 37 0.53
43 33 0.47
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
CGAGATTACATGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:55025201 original size:45 final size:47
Alignment explanation
Indices: 55025090--55025347 Score: 160
Period size: 48 Copynumber: 5.5 Consensus size: 47
55025080 TTTGTATGCT
* * *
55025090 AGTGTAAGA-CATGTCTGGAACATGCATCAACCACAT-TATGA-GAG-C
1 AGTGTAAGACCATGTCTGGGACATGCATCAA-CACGTATA-GAGGTGTC
*
55025135 TAGTGTAAGA-CATGTCTGGGACATGCATCAACTACG-A-A-ATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCAAC-ACGTATAGAGGTGTC
* ***
55025180 AGTGAAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAACACGTATAGAGGTGTC
* * * *
55025228 AGTGTAAGACCATGTCTGGGACATGGCATTAGCACAG-ATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAACAC-GTATA-GAG-GTGTC
* ** * * * *
55025277 TAGTGTAAGACCATGTTTGGGACATGGCATCAACTTG-ATGGATGAGCC
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCAACACGTATAGAGGTGTC
*
55025325 AGTGTAAGACTATGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
55025348 CGGCATCGGC
Statistics
Matches: 176, Mismatches: 22, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 20 0.11
46 37 0.21
47 25 0.14
48 44 0.25
49 7 0.04
50 32 0.18
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAACACGTATAGAGGTGTC
Found at i:55025238 original size:48 final size:50
Alignment explanation
Indices: 55025175--55025306 Score: 173
Period size: 48 Copynumber: 2.7 Consensus size: 50
55025165 ACTACGAAAT
* *
55025175 GTGTCAGTGAAAGACCATGTCTGGGACATGGCATTGGCAC-G-TAT-AGA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
*
55025222 GGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGTGA
1 -GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
* *
55025273 GAG-CTAGTGTAAGACCATGTTTGGGACATGGCAT
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCAT
55025307 CAACTTGATG
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 38 0.51
49 2 0.03
50 33 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (50 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
Found at i:55025303 original size:50 final size:48
Alignment explanation
Indices: 55025087--55025354 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 48
55025077 TTATTTGTAT
* *
55025087 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCAACCAC-AT-TATGAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAA-CACGATATGTGAG
*
55025132 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACTACGAAATGT--G
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCAAC-ACGATATGTGAG
* * *** *
55025178 TC-AGTGAAAGACCATGTCTGGGACATGGCATTGGCACG-TAT-AGAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACACGATATGTGAG
* * *
55025223 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGTGAG
1 G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCAACAC-GATATGTGAG
* ** *
55025274 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGAT-GGATGA-
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACACGATATG-TGAG
* * *
55025322 GCCAGTGTAAGACTATGTCTGGGACACGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
55025355 GGCATTATAC
Statistics
Matches: 181, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.06
45 20 0.11
46 40 0.22
47 30 0.17
48 36 0.20
49 7 0.04
50 33 0.18
51 4 0.02
52 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACACGATATGTGAG
Found at i:55033156 original size:45 final size:45
Alignment explanation
Indices: 55033012--55033257 Score: 186
Period size: 45 Copynumber: 5.6 Consensus size: 45
55033002 ATACCATACA
* * * * *
55033012 ATGCCAACATCCCAGACGTGGTCTTACATGTTATCTCAT--ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* * * *
55033055 ATGCC-ACTGTCCCAGACAG-GTTCTTACTCG-AATCA-A-ATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAACCACATAGATCG
* * *
55033096 ATGCCAATGTTCCAGACATGGTCTTACACGTAACCACATAGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* ** * *
55033141 ATGCCAACGTCCCAGATGTGGTCTTACATATAACGACATAGATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* * * * * * *
55033186 ATGTCGACATCCCAGACGTGGTCTTACAAGAAAACA-ATTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACA-TAGATCG
55033231 ATGCCAACGTCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
55033258 TCGGAAACAC
Statistics
Matches: 157, Mismatches: 35, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
41 24 0.15
42 12 0.08
43 22 0.14
44 5 0.03
45 94 0.60
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
Found at i:55036861 original size:39 final size:41
Alignment explanation
Indices: 55036760--55036943 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
55036750 TCGAATGATG
* * *
55036760 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAATA
*
55036800 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAATA
* *
55036840 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
* *
55036879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
* *
55036919 ACCGGGCTATG-CCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55036944 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
39 49 0.39
40 66 0.53
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
Found at i:55036950 original size:39 final size:38
Alignment explanation
Indices: 55036813--55036943 Score: 181
Period size: 39 Copynumber: 3.3 Consensus size: 38
55036803 GGACTAAGAT
* *
55036813 CCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGTTACTAA-ACCGGGCTAAGC
* *
55036852 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAA-CCGGGCTAAG-C
*
55036892 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGC
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAGC
55036931 CCGAAGGCATTTG
1 CCGAAGGCATTTG
55036944 AACGAGTAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
39 47 0.57
40 33 0.40
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGC
Found at i:55036950 original size:79 final size:78
Alignment explanation
Indices: 55036813--55036966 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 78
55036803 GGACTAAGAT
* **
55036813 CCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
55036877 AATCCGGGTTAAGTC
65 AATCC-GGTTAAGTC
* * *
55036892 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGCCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTA
*
55036956 TATCCGGTTAA
65 AATCCGGTTAA
55036967 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 10 0.15
79 56 0.85
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAGTC
Found at i:55054024 original size:31 final size:31
Alignment explanation
Indices: 55053986--55054048 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
55053976 ATGGACCAAT
* *
55053986 CGGCTTCCCTTTAGTAATTCCTTGCTTCCTA
1 CGGCTTCCCTTGAGTAATTCCTTACTTCCTA
55054017 CGGCTTCCCTTGAGTAATTCCTTACTTCCTA
1 CGGCTTCCCTTGAGTAATTCCTTACTTCCTA
55054048 C
1 C
55054049 TCCCTGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.14, C:0.33, G:0.13, T:0.40
Consensus pattern (31 bp):
CGGCTTCCCTTGAGTAATTCCTTACTTCCTA
Found at i:55088128 original size:31 final size:31
Alignment explanation
Indices: 55088090--55088150 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
55088080 TTTTCATATC
55088090 TCATATTTCATAACACTGGGCCGAAGCCTTT
1 TCATATTTCATAACACTGGGCCGAAGCCTTT
**
55088121 TCATATTTCATATTACTGGGCCGAAGCCTT
1 TCATATTTCATAACACTGGGCCGAAGCCTT
55088151 CACTATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TCATATTTCATAACACTGGGCCGAAGCCTTT
Found at i:55088414 original size:25 final size:26
Alignment explanation
Indices: 55088372--55088442 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
55088362 CTCTTTTAAT
*
55088372 AACTAGGGC-AAAGCCCTTTT-GATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
55088396 AACTGGGGTAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
55088422 AACTGGGGCAAAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
55088443 TGCACTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.17
25 11 0.27
26 23 0.56
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:55088434 original size:26 final size:25
Alignment explanation
Indices: 55088359--55088442 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
55088349 CTGGAAGCCT
* *
55088359 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
55088383 AGCCCTTTTGATAAACTGGGGTAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
55088408 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
55088434 AGCCCTTTT
1 AGCCCTTTT
55088443 TGCACTTACT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.13
24 11 0.21
25 11 0.21
26 23 0.44
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:55095342 original size:40 final size:39
Alignment explanation
Indices: 55095311--55095481 Score: 254
Period size: 39 Copynumber: 4.3 Consensus size: 39
55095301 GGACTAAGAT
55095311 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
55095350 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
55095389 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
55095429 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
55095469 CCGAAGGCATTTG
1 CCGAAGGCATTTG
55095482 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 75 0.61
40 48 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:55095359 original size:39 final size:40
Alignment explanation
Indices: 55095258--55095481 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
55095248 TTGAATGATG
* * *
55095258 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
55095297 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
55095338 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55095377 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55095416 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55095455 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55095482 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55095445 original size:79 final size:79
Alignment explanation
Indices: 55095258--55095481 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
55095248 TTGAATGATG
* * * * *
55095258 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
55095320 TTTGTGCGAGATACTAAT
62 TTTGTGCGAGATACTAAA
*
55095338 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
*
55095401 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* * *
55095416 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
55095481 G
65 G
55095482 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 36 0.28
79 55 0.43
80 35 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:55095514 original size:79 final size:79
Alignment explanation
Indices: 55095311--55095506 Score: 220
Period size: 79 Copynumber: 2.5 Consensus size: 79
55095301 GGACTAAGAT
** * * * *
55095311 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
55095375 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
55095389 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
55095453 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
*
55095469 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAAT
55095507 TCTGAAGGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
78 34 0.33
79 43 0.42
80 25 0.25
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:55099013 original size:40 final size:40
Alignment explanation
Indices: 55098958--55099138 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
55098948 TATTCGAATG
* ** *
55098958 ATATCCAGGCTAAGTCCCTTAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
55098998 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
55099038 ATATCCGGGCTAAGTCCCGAAGTCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * * * *
55099078 ATATCCGGGCCAAGACTCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
55099118 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
55099139 ATGCTTGGGT
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 11 0.09
40 110 0.89
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:55126202 original size:30 final size:31
Alignment explanation
Indices: 55126166--55126228 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55126156 CCTTTTCATA
55126166 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
55126196 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
55126227 TT
1 TT
55126229 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:55126475 original size:23 final size:24
Alignment explanation
Indices: 55126417--55126576 Score: 214
Period size: 23 Copynumber: 7.0 Consensus size: 24
55126407 GCTTTATCAT
*
55126417 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
55126442 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
55126466 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55126488 ATAA-TGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55126510 ATAACT--GGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55126531 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55126554 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55126577 CACTTCCTCC
Statistics
Matches: 124, Mismatches: 1, Indels: 21
0.85 0.01 0.14
Matches are distributed among these distances:
21 21 0.17
22 27 0.22
23 41 0.33
24 27 0.22
25 8 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55126517 original size:44 final size:45
Alignment explanation
Indices: 55126438--55126575 Score: 219
Period size: 44 Copynumber: 3.1 Consensus size: 45
55126428 CCTAGCCTCT
55126438 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAG-CC-TTTTAATAACTGGGCATAAGCCC
55126484 TTTAATAA-TGGGGCATAAGCCTTTTAATAACT-GGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCTTTTAATAACTGGGCATAAGCCC
*
55126527 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCTTTTAATAACT-GGGCATAAGCCC
55126573 TTT
1 TTT
55126576 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
43 19 0.22
44 34 0.39
45 9 0.10
46 25 0.29
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (45 bp):
TTTAATAACTGGGGCATAAGCCTTTTAATAACTGGGCATAAGCCC
Found at i:55126645 original size:9 final size:9
Alignment explanation
Indices: 55126631--55126687 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55126621 ACATCATGTG
55126631 CATATCATA
1 CATATCATA
*
55126640 CATATCATGTG
1 CATATCA--TA
55126651 CATATCATA
1 CATATCATA
* *
55126660 CATGTCATGTG
1 CATATCA--TA
55126671 CATATCATA
1 CATATCATA
55126680 CATATCAT
1 CATATCAT
55126688 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55126648 original size:20 final size:20
Alignment explanation
Indices: 55126623--55126689 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
55126613 ATTTATGAAC
55126623 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55126643 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
55126663 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55126683 ATCATGT
1 ATCATGT
55126690 TTATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55126654 original size:11 final size:11
Alignment explanation
Indices: 55126623--55126678 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
55126613 ATTTATGAAC
55126623 ATCATGTGCAT
1 ATCATGTGCAT
*
55126634 ATCA--TACAT
1 ATCATGTGCAT
55126643 ATCATGTGCAT
1 ATCATGTGCAT
*
55126654 ATCA--TACAT
1 ATCATGTGCAT
*
55126663 GTCATGTGCAT
1 ATCATGTGCAT
55126674 ATCAT
1 ATCAT
55126679 ACATATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:55126754 original size:25 final size:25
Alignment explanation
Indices: 55126726--55126773 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55126716 ATATATAAAC
* * *
55126726 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55126751 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55126774 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55134207 original size:31 final size:31
Alignment explanation
Indices: 55134164--55134227 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
55134154 CCTTTTCATA
*
55134164 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
* **
55134195 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
55134226 TT
1 TT
55134228 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCAAAGCCT
Found at i:55134471 original size:23 final size:23
Alignment explanation
Indices: 55134441--55134560 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
55134431 CCTAGCCTTT
55134441 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
55134464 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
55134487 TTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
55134511 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
55134534 TTCTAATAATTGGGGCATAAGCCC
1 TT-TAATAACTGGGGCATAAGCCC
55134558 TTT
1 TTT
55134561 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:55134494 original size:47 final size:47
Alignment explanation
Indices: 55134440--55134560 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
55134430 GCCTAGCCTT
55134440 TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
*
55134487 TTTTAATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
* *
55134534 TTCTAATAATTGGGGCATAAGCCCTTT
1 TTTTAATAACTGGGGCATAAGCCCTTT
55134561 TGCACTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:55134496 original size:24 final size:24
Alignment explanation
Indices: 55134440--55134561 Score: 203
Period size: 24 Copynumber: 5.2 Consensus size: 24
55134430 GCCTAGCCTT
55134440 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
55134464 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
55134487 TTTTAATAACTAGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
55134511 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
55134534 TTCTAATAATTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
55134558 TTTT
1 TTTT
55134562 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 45 0.49
24 46 0.51
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:55134633 original size:9 final size:9
Alignment explanation
Indices: 55134619--55134675 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55134609 ATCTCGTGTG
55134619 CATATCATA
1 CATATCATA
*
55134628 CATATCATGTG
1 CATATCA--TA
55134639 CATATCATA
1 CATATCATA
* *
55134648 CATGTCATGTG
1 CATATCA--TA
55134659 CATATCATA
1 CATATCATA
55134668 CATATCAT
1 CATATCAT
55134676 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55134638 original size:20 final size:20
Alignment explanation
Indices: 55134615--55134677 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
55134605 GAACATCTCG
55134615 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
55134635 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
55134655 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
55134675 TGT
1 TGT
55134678 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:55134741 original size:25 final size:25
Alignment explanation
Indices: 55134713--55134761 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
55134703 CATATATAAA
* * *
55134713 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCAAAACGGTCATTTTT
55134738 ACCTAGGGGCAAAACGGTCATTTT
1 ACCTAGGGGCAAAACGGTCATTTT
55134762 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCAAAACGGTCATTTTT
Found at i:55139035 original size:45 final size:45
Alignment explanation
Indices: 55138984--55139076 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
55138974 TGTGACGTGC
55138984 ATGTATTTTGATGTTTCATGGTAGATTATGAAAGATTT-ATGTGTG
1 ATGTATTTTGATGTTTCATGGTAGATTATGAAAG-TTTGATGTGTG
55139029 ATGTATTTTGATGTTTCATGGTAGATTATGAAAGTTTGATGTGTG
1 ATGTATTTTGATGTTTCATGGTAGATTATGAAAGTTTGATGTGTG
55139074 ATG
1 ATG
55139077 AACATCTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 3 0.06
45 44 0.94
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (45 bp):
ATGTATTTTGATGTTTCATGGTAGATTATGAAAGTTTGATGTGTG
Found at i:55148809 original size:43 final size:41
Alignment explanation
Indices: 55148723--55148860 Score: 190
Period size: 41 Copynumber: 3.3 Consensus size: 41
55148713 TATTCGGGCT
* *
55148723 TTATTGCCTAGCAGGCTTTGTGTCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
*
55148764 TTATTGCCTAGCAGGCTTTATAAGCCAGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTAT--GCCGGTGTATTATATCAGGC
*
55148807 TTATTGCCTAGCAGGCTCTATGCCGGTGTATTAT-TCTAGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATC-AGGC
55148848 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
55148861 AATTTTATGT
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
40 3 0.03
41 47 0.53
43 38 0.43
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
Found at i:55155988 original size:38 final size:38
Alignment explanation
Indices: 55155946--55156145 Score: 213
Period size: 38 Copynumber: 5.0 Consensus size: 38
55155936 TTTCAAATTA
*
55155946 ACATGTATAACCATGGAATATCCACTTAGCACCACGTT
1 ACATGTTTAACCATGGAATATCCACTTAGCACCACGTT
55155984 ACATGTTTAACCAT-GATATATCCACTTAGCACCACGTT
1 ACATGTTTAACCATGGA-ATATCCACTTAGCACCACGTT
* * *
55156022 ACATGTTTAACCGTGGTATAACCACTTAGCACCACGTTAAT
1 ACATGTTTAACCATGGAATATCCACTTAGCACCACG-T--T
* * *
55156063 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACATT
1 --A-C-ATGT-T-TAACCATGGAATATCCACTTAGCACCACGTT
* * *
55156107 ACATGTTTAACCGTGGTATATCCACTTAGCACCATGTT
1 ACATGTTTAACCATGGAATATCCACTTAGCACCACGTT
55156145 A
1 A
55156146 ATGAATCAAT
Statistics
Matches: 137, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
37 2 0.01
38 93 0.68
39 3 0.02
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 25 0.18
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (38 bp):
ACATGTTTAACCATGGAATATCCACTTAGCACCACGTT
Found at i:55156090 original size:85 final size:85
Alignment explanation
Indices: 55155991--55156197 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
55155981 GTTACATGTT
**
55155991 TAACCATGATATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATAACCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATAACCACTTAGCACCA
55156056 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
55156076 TAACCATGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATAACCACTTAGCACCA
*
55156141 TGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
55156161 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGT
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGT
55156198 ATCAATATGT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATAACCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:55156098 original size:47 final size:47
Alignment explanation
Indices: 55156029--55156240 Score: 235
Period size: 47 Copynumber: 4.7 Consensus size: 47
55156019 GTTACATGTT
*
55156029 TAACCGTGGTATAACCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
55156076 TAACCATGGCATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
55156114 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
55156161 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* * *
55156209 TAATCATGGTATATCGACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
55156241 CACGTATAAT
Statistics
Matches: 135, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 25 0.19
39 1 0.01
40 3 0.02
41 1 0.01
42 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 54 0.40
48 40 0.30
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:55156229 original size:48 final size:48
Alignment explanation
Indices: 55156114--55156247 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
55156104 ATTACATGTT
* * *
55156114 TAACCGTGGTATATCCACTTAGCACCATGTTA-ATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * *
55156161 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
55156209 TAATCATGGTATATCGACTTAGCACCACGTTACACGTAT
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTAT
55156248 AATCGTGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 29 0.39
48 46 0.61
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (48 bp):
TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:55156266 original size:133 final size:132
Alignment explanation
Indices: 55156029--55156273 Score: 373
Period size: 133 Copynumber: 1.8 Consensus size: 132
55156019 GTTACATGTT
* *
55156029 TAACCGTGGTATAACCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
1 TAACCGTGGCAGAACCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
* *
55156094 TTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
66 TTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
55156159 TG
131 TG
* * * * * *
55156161 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCGA
1 TAACCGTGGCAGAACCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCATGGCATATCCA
* *
55156226 CTTAGCACCACGTTACACGTATAATCGTGGTATATCCACTTAGCACCA
65 CTTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCA
55156274 CATTTTTTTC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 29 0.29
133 71 0.71
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCAGAACCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
TTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
TG
Found at i:55161352 original size:23 final size:24
Alignment explanation
Indices: 55161326--55161421 Score: 103
Period size: 23 Copynumber: 4.2 Consensus size: 24
55161316 CTCCAATGAC
*
55161326 CTGAAATGGTAAGCTCTAT-CGAG
1 CTGAAATAGTAAGCTCTATACGAG
*
55161349 CTG-AACAGTAAGCTC-ATACGAG
1 CTGAAATAGTAAGCTCTATACGAG
* *
55161371 CCGAAACAGTAAGCTCTAT-CGAG
1 CTGAAATAGTAAGCTCTATACGAG
*
55161394 CTAAAAATAGTAAGCTCT-TACGAG
1 CT-GAAATAGTAAGCTCTATACGAG
55161418 CTGA
1 CTGA
55161422 TATATTGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.03
22 16 0.26
23 22 0.36
24 21 0.34
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (24 bp):
CTGAAATAGTAAGCTCTATACGAG
Found at i:55173833 original size:15 final size:16
Alignment explanation
Indices: 55173812--55173856 Score: 76
Period size: 15 Copynumber: 2.9 Consensus size: 16
55173802 TACGGTATCG
55173812 TATCTTGGATTTCTTC
1 TATCTTGGATTTCTTC
55173828 -ATCTTGGATTT-TTC
1 TATCTTGGATTTCTTC
55173842 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
55173857 TATTTTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.11
15 22 0.81
16 2 0.07
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (16 bp):
TATCTTGGATTTCTTC
Found at i:55173864 original size:15 final size:15
Alignment explanation
Indices: 55173812--55173864 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
55173802 TACGGTATCG
55173812 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
55173827 CATCTTGGATTT-TT
1 TATCTTGGATTTCTT
55173841 CTATCTTGGATTTCTT
1 -TATCTTGGATTTCTT
*
55173857 TATTTTGG
1 TATCTTGG
55173865 TCTTATTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:55186105 original size:50 final size:50
Alignment explanation
Indices: 55186042--55186216 Score: 195
Period size: 49 Copynumber: 3.6 Consensus size: 50
55186032 GAGATGCATC
* *
55186042 AGTGTAAGACCATGTCTGGCACATGGCATCAGCAC-GGATATGTGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTCGA-ATGTGATAGCT
*
55186092 AGTGTAAGACCATGTCTGGGACATGGCGTCAGC-CTCG-ATGATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTCGAATG-TGATAGCT
* * * *
55186140 CAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTTGAGATATG--AGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTCGA-ATGTGATAGCT
55186188 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
55186217 TGGCACCTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
47 30 0.28
48 8 0.07
49 37 0.34
50 34 0.31
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTCGAATGTGATAGCT
Found at i:55186161 original size:49 final size:49
Alignment explanation
Indices: 55185861--55186216 Score: 213
Period size: 46 Copynumber: 7.6 Consensus size: 49
55185851 TGTAAGCAAT
* * * * * *
55185861 TGTAAGA-CATGTCT-CGACAT-GCATCGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGATAGTCAG
* * * * *
55185906 TGTAAGACCATGT-TCGGGACATAGCATCGGCGTTGA-GACG--AGTGCTAG
1 TGTAAGACCATGTCT-GGGACATGGCATCAGCCTCGATGATGATAGT-C-AG
* * * *
55185954 TGTAAGA-CATGTTTGGGACAT-GTATC-GACCTCGA-GACG-TAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAG-CCTCGATGATGAT-AGTCAG
* * *
55186000 TGTAAGA-CATGTCTGGGACAT-GCAT-TGGCTACGA-GATG-CA-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGATGATGATAGTCAG
* *
55186044 TGTAAGACCATGTCTGGCACATGGCATCAGCAC-GGAT-ATGTGATAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGATGA--TGATAGTC-AG
*
55186094 TGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGATAGTCAG
* * * *
55186143 TGTAAGACCATGTTTGGGACATGGCATC-GACTTGA-GAT-ATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGAT-AGTCAG
55186190 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
55186217 TGGCACCTTA
Statistics
Matches: 253, Mismatches: 31, Indels: 52
0.75 0.09 0.15
Matches are distributed among these distances:
44 10 0.04
45 25 0.10
46 60 0.24
47 54 0.21
48 30 0.12
49 38 0.15
50 35 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGATAGTCAG
Found at i:55186214 original size:96 final size:93
Alignment explanation
Indices: 55185952--55186216 Score: 281
Period size: 96 Copynumber: 2.8 Consensus size: 93
55185942 GACGAGTGCT
* * *
55185952 AGTGTAAGA-CATGTTTGGGACAT-GTATCGACCTCGAGACGTAAGCCAGTGTAAGA-CATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CTCGAGATGTGAGCCAGTGTAAGACCATGTCT
* *
55186014 GGGACAT-GCATTGGCTACGAGATGCATC
65 GGGACATGGCATAGCCTACGAGATGCATC
* * * * *
55186042 AGTGTAAGACCATGTCTGGCACATGGCATCAGCAC-GGATATGTGATAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTCGAGATGTG--AGCCAGTGTAAGACCATG
* *
55186106 TCTGGGACATGGCGTCAGCCT-CGATGATGATAGTC
62 TCTGGGACATGGCAT-AGCCTACGA-GATG-CA-TC
* *
55186141 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGATGTGAGCCAGTGTAAGACCATGTCTG
55186206 GGACATGGCAT
66 GGACATGGCAT
55186217 TGGCACCTTA
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
90 9 0.06
91 12 0.08
92 9 0.06
93 2 0.01
94 13 0.09
95 14 0.10
96 37 0.26
97 9 0.06
98 8 0.06
99 30 0.21
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGATGTGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATAGCCTACGAGATGCATC
Found at i:55193808 original size:49 final size:47
Alignment explanation
Indices: 55193596--55193867 Score: 227
Period size: 47 Copynumber: 5.7 Consensus size: 47
55193586 CACATTATGA
* * * *
55193596 GAGCCAGTGTAAGACCATAT-TCGGGACATGGCATCGACGTTGAGACAA
1 GAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGAC-TCGAGAGAT
* *
55193644 GAGCTAGTGTAA-AACATGTCTGGGACAT-GCATCGACT--ACGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGA-GAGAT
* * * * * * *
55193688 GTGTCAATGGAAGTCCATGTCTGGCACATGGCATCAGCACT-GATATG-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGAGA-GAT
* *
55193736 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATGACGAT
1 --GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGA-GA-GAT
* *
55193788 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAGAT
*
55193834 GAGCCAGTGTAAAACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
55193868 TGGCACCTTA
Statistics
Matches: 180, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 14 0.08
46 15 0.08
47 47 0.26
48 22 0.12
49 39 0.22
50 29 0.16
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAGAT
Found at i:55193854 original size:96 final size:94
Alignment explanation
Indices: 55193597--55193867 Score: 293
Period size: 96 Copynumber: 2.9 Consensus size: 94
55193587 ACATTATGAG
* * *
55193597 AGCCAGTGTAAGACCATAT-TCGGGACATGGCATCGACGTTGAGACAAGAGCTAGTGTAAAA-CA
1 AGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGAC-TTGAGATATGAGCTAGTGTAAAACCA
*
55193660 TGTCTGGGACAT-GCATCGACTACGAGATGT
64 TGTCTGGGACATGGCATCGACTACGAGACGT
* * * * * * * *
55193690 -GTCAATGGAAGTCCATGTCTGGCACATGGCATCAGCAC-TGATATGTGAGAGCTAGTGTAAGAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAGATAT--GAGCTAGTGTAAAAC
*
55193753 CATGTCTGGGACATGGCGTCGACCT-CGATGACGAT
62 CATGTCTGGGACATGGCATCGA-CTACGA-GACG-T
*
55193788 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAAACCATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCTAGTGTAAAACCATG
55193853 TCTGGGACATGGCAT
66 TCTGGGACATGGCAT
55193868 TGGCACCTTA
Statistics
Matches: 143, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
92 29 0.20
93 2 0.01
94 15 0.10
95 14 0.10
96 40 0.28
97 7 0.05
98 8 0.06
99 28 0.20
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCTAGTGTAAAACCATG
TCTGGGACATGGCATCGACTACGAGACGT
Found at i:55199357 original size:23 final size:23
Alignment explanation
Indices: 55199321--55199422 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 23
55199311 AAGCTCCTCT
55199321 TGAGCTGATGAACGGTAAGCTCTAA
1 TGAGCTGA--AACGGTAAGCTCTAA
* *
55199346 TGAGTTGAAACGATAAGCTCT-A
1 TGAGCTGAAACGGTAAGCTCTAA
*
55199368 TCAAGCTG-AACGGTAAGCTC-ATA
1 T-GAGCTGAAACGGTAAGCTCTA-A
*
55199391 CGAGCTGAAACGGTAAGCTCT-A
1 TGAGCTGAAACGGTAAGCTCTAA
55199413 TCGAGCTGAA
1 T-GAGCTGAA
55199423 CAATAAGCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
22 19 0.30
23 37 0.59
25 7 0.11
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCTAA
Found at i:55199380 original size:45 final size:45
Alignment explanation
Indices: 55199329--55199441 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
55199319 CTTGAGCTGA
* *
55199329 TGAACGGTAAGCTC-TAATGAGTTGAAACGATAAGCTCTATCAAGC
1 TGAACGGTAAGCTCAT-ACGAGCTGAAACGATAAGCTCTATCAAGC
* *
55199374 TGAACGGTAAGCTCATACGAGCTGAAACGGTAAGCTCTATCGAGC
1 TGAACGGTAAGCTCATACGAGCTGAAACGATAAGCTCTATCAAGC
**
55199419 TGAACAATAAGCTCATACGAGCT
1 TGAACGGTAAGCTCATACGAGCT
55199442 AAAATATCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (45 bp):
TGAACGGTAAGCTCATACGAGCTGAAACGATAAGCTCTATCAAGC
Found at i:55199432 original size:22 final size:23
Alignment explanation
Indices: 55199322--55199441 Score: 106
Period size: 22 Copynumber: 5.2 Consensus size: 23
55199312 AGCTCCTCTT
*
55199322 GAGCTGATGAACGGTAAGCTCTAAT-
1 GAGCTGA--AACGATAAGCTCT-ATC
*
55199347 GAGTTGAAACGATAAGCTCTATC
1 GAGCTGAAACGATAAGCTCTATC
* *
55199370 AAGCTG-AACGGTAAGCTC-ATAC
1 GAGCTGAAACGATAAGCTCTAT-C
*
55199392 GAGCTGAAACGGTAAGCTCTATC
1 GAGCTGAAACGATAAGCTCTATC
*
55199415 GAGCTG-AACAATAAGCTC-ATAC
1 GAGCTGAAACGATAAGCTCTAT-C
55199437 GAGCT
1 GAGCT
55199442 AAAATATCAG
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
21 4 0.05
22 35 0.43
23 35 0.43
24 2 0.02
25 6 0.07
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (23 bp):
GAGCTGAAACGATAAGCTCTATC
Found at i:55203097 original size:23 final size:22
Alignment explanation
Indices: 55203060--55203108 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
55203050 GATCTCAATT
*
55203060 CATAAATAAATTCATACCAAAA
1 CATAAATAAAATCATACCAAAA
*
55203082 CATAAACTAAAATCATACCTAAA
1 CATAAA-TAAAATCATACCAAAA
55203105 CATA
1 CATA
55203109 TGATCAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.22
Consensus pattern (22 bp):
CATAAATAAAATCATACCAAAA
Found at i:55203839 original size:42 final size:43
Alignment explanation
Indices: 55203743--55203907 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
55203733 AACATATACA
* * * * * *
55203743 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AACATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAA-GTCG
* * * * *
55203786 ATGCCACTGTCCGAGACAGGGTCTTACACGAAATTA-AA-TATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAAGT-CG
* * *
55203828 ATGCCAATGTCCCAGACATGGTGTTACACATAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAGAAGTCG
*
55203872 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
55203908 CATAACGAAA
Statistics
Matches: 96, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 39 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAAGTCG
Found at i:55206354 original size:24 final size:24
Alignment explanation
Indices: 55206320--55206397 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 24
55206310 CATGACATTG
55206320 TGCTAAGTGAAATAAGACCATGGCA
1 TGCTAAGTGAAATAAG-CCATGGCA
* *
55206345 T-CTAAGTGAAATGAGCCCACGGCAA
1 TGCTAAGTGAAATAAG-CCATGGC-A
55206370 TGTGCTAAGTGAAATAAGCCAATGGCA
1 --TGCTAAGTGAAATAAGCC-ATGGCA
55206397 T
1 T
55206398 TGTGCTAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
24 19 0.44
25 3 0.07
27 4 0.09
28 17 0.40
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (24 bp):
TGCTAAGTGAAATAAGCCATGGCA
Found at i:55206389 original size:28 final size:28
Alignment explanation
Indices: 55206318--55206407 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 28
55206308 GACATGACAT
*
55206318 TGTGCTAAGTGAAATAAGACCATGGC-A
1 TGTGCTAAGTGAAATAAGCCCATGGCAA
* *
55206345 --T-CTAAGTGAAATGAGCCCACGGCAA
1 TGTGCTAAGTGAAATAAGCCCATGGCAA
* *
55206370 TGTGCTAAGTGAAATAAGCCAATGGCAT
1 TGTGCTAAGTGAAATAAGCCCATGGCAA
55206398 TGTGCTAAGT
1 TGTGCTAAGT
55206408 CAGAAATTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.37
25 2 0.04
27 1 0.02
28 30 0.58
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGCCCATGGCAA
Found at i:55206522 original size:49 final size:49
Alignment explanation
Indices: 55206432--55206582 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 49
55206422 TTGAACCTTA
* * * *
55206432 TGAATAAA-ATAGCTTGGACACAAGTGTGGTACCATGTGAAGGCCACTT
1 TGAAGAAAGATAGTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTT
* * *
55206480 TGAGGAGAGATAGTTTGGTCACAAGTGTAGTACTATGTGAAGGCCACTTT
1 TGAAGAAAGATAGTTTGGTCACAAGTGTGGTACTATGTGAAGGCCAC-TT
* * * *
55206530 GTGAAGAAAGACAGCTTTGGTTACAGGTGTGGTACTATGCGAAGGCCACTT
1 -TGAAGAAAGATAG-TTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTT
55206581 TG
1 TG
55206583 TGAATATGGT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
48 5 0.06
49 34 0.40
50 4 0.05
51 12 0.14
52 30 0.35
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (49 bp):
TGAAGAAAGATAGTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTT
Found at i:55206574 original size:52 final size:51
Alignment explanation
Indices: 55206445--55206586 Score: 180
Period size: 52 Copynumber: 2.8 Consensus size: 51
55206435 ATAAAATAGC
* * * * *
55206445 TTGGACACAAGTGTGGTACCATGTGAAGGCCAC-TT-TGAGGAGAGATAGT
1 TTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGACAGT
*
55206494 TTGGTCACAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAAGACAGCT
1 TTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGACAG-T
* * *
55206546 TTGGTTACAGGTGTGGTACTATGCGAAGGCCACTTTGTGAA
1 TTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA
55206587 TATGGTAGCT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
49 30 0.38
50 2 0.03
51 10 0.12
52 38 0.47
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (51 bp):
TTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGACAGT
Found at i:55206618 original size:51 final size:50
Alignment explanation
Indices: 55206440--55206629 Score: 163
Period size: 51 Copynumber: 3.8 Consensus size: 50
55206430 TATGAATAAA
* * * * * *
55206440 ATAGCTTGGAC-ACAAGTGTGGTACCATGTGAAGGCCACTTTGAGGAGAG
1 ATAGCTTTGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAAAG
* * *
55206489 ATAG-TTTG-GTCACAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAAG
1 ATAGCTTTGACT-ACAAGGGTGGTACTATGTGAAGGCCACTTTGTG-A-AAAG
* ** * *
55206540 ACAGCTTTGGTTAC-AGGTGTGGTACTATGCGAAGGCCACTTTGTGAATATG
1 ATAGCTTTGACTACAAGG-GTGGTACTATGTGAAGGCCACTTTGTGAA-AAG
* *
55206591 GTAGCTTTGACTACAAGGGTGGTACTATGTGCAGGCCAC
1 ATAGCTTTGACTACAAGGGTGGTACTATGTGAAGGCCAC
55206630 CGAGTATCCG
Statistics
Matches: 113, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
48 3 0.03
49 34 0.30
50 1 0.01
51 40 0.35
52 34 0.30
53 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (50 bp):
ATAGCTTTGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAAAG
Found at i:55214252 original size:18 final size:19
Alignment explanation
Indices: 55214217--55214257 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
55214207 CCATTCGTGG
*
55214217 ACCGAGGTGGTGTACAGCC
1 ACCGAGGTGGTGTACAGCA
55214236 ACCGAGG-GGTGGT-CAGCA
1 ACCGAGGTGGT-GTACAGCA
55214254 ACCG
1 ACCG
55214258 CCTAGAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (19 bp):
ACCGAGGTGGTGTACAGCA
Found at i:55216084 original size:29 final size:29
Alignment explanation
Indices: 55216045--55216128 Score: 123
Period size: 30 Copynumber: 2.9 Consensus size: 29
55216035 GCATGAATAT
55216045 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
* * *
55216074 AATGTGATTTGGGCCTAAAGGGGTCATATA
1 AATGTGATTTGGGCCT-AATGGGCCACATA
*
55216104 ATTGTGATTTGGGCCTAATGGGCCA
1 AATGTGATTTGGGCCTAATGGGCCA
55216129 TGTGAATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 23 0.48
30 25 0.52
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACATA
Found at i:55216112 original size:30 final size:29
Alignment explanation
Indices: 55216041--55216129 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
55216031 GTGAGCATGA
*
55216041 ATATAATGTGATTTGGGCCT-AATGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGGCC
* *
55216069 ACATAAATGTGATTTGGGCCTAAAGGGGTC
1 ATAT-AATGTGATTTGGGCCTAAAGGGGCC
*
55216099 ATATAATTGTGATTTGGGCCT-AATGGGCC
1 ATATAA-TGTGATTTGGGCCTAAAGGGGCC
55216128 AT
1 AT
55216130 GTGAATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
28 3 0.06
29 26 0.50
30 23 0.44
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATAATGTGATTTGGGCCTAAAGGGGCC
Found at i:55220316 original size:13 final size:13
Alignment explanation
Indices: 55220300--55220334 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
55220290 TTCTCCATGA
55220300 TCGTTCTGTTCAT
1 TCGTTCTGTTCAT
55220313 TCGTTCTGTTCAT
1 TCGTTCTGTTCAT
55220326 TCGTTCTGT
1 TCGTTCTGT
55220335 AACGCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (13 bp):
TCGTTCTGTTCAT
Found at i:55222999 original size:72 final size:71
Alignment explanation
Indices: 55222879--55223018 Score: 208
Period size: 72 Copynumber: 2.0 Consensus size: 71
55222869 ACATATTGGC
* * * **
55222879 TAGGTAAAAGTACCATGAAGGCAATTGTATTAGGGGTTGGAATATATTTGGCTTCTTTTACTCAA
1 TAGGTAAAAGTACCATGAAGACAATTGTATTAGGGGTTAGAATATATTTGACCCCTTTTAC-CAA
55222944 AAAAGGT
65 AAAAGGT
* *
55222951 TAGGTAAAAGTACCATGAAGACCATTGTATTAGGGGTTAGAATGTATTTGACCCCTTTTACCAAA
1 TAGGTAAAAGTACCATGAAGACAATTGTATTAGGGGTTAGAATATATTTGACCCCTTTTACCAAA
55223016 AAA
66 AAA
55223019 CTGGGTAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 7 0.11
72 54 0.89
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (71 bp):
TAGGTAAAAGTACCATGAAGACAATTGTATTAGGGGTTAGAATATATTTGACCCCTTTTACCAAA
AAAGGT
Found at i:55225090 original size:19 final size:18
Alignment explanation
Indices: 55225061--55225101 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
55225051 TTTTTTTATA
55225061 TAAAAAATAAA-AATATTT
1 TAAAAAATAAACAA-ATTT
55225079 TAAAATAATAAACAAATTT
1 TAAAA-AATAAACAAATTT
55225098 TAAA
1 TAAA
55225102 GTTTAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATAAACAAATTT
Found at i:55227110 original size:64 final size:64
Alignment explanation
Indices: 55226961--55227212 Score: 199
Period size: 68 Copynumber: 3.8 Consensus size: 64
55226951 TACAGATAGT
* ** * * *
55226961 ATGTAGCTAGGTCACATGTATGGTACTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA
*
55227024 TTATG
62 -TA-A
* * * *
55227029 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
55227093 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55227158 AA
63 AA
* * *
55227160 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
55227213 CGAACTATAT
Statistics
Matches: 150, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 25 0.17
65 2 0.01
66 23 0.15
67 33 0.22
68 46 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55231592 original size:46 final size:47
Alignment explanation
Indices: 55231486--55231607 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
55231476 TGTCTTCGAC
** * *
55231486 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
55231536 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
55231582 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
55231608 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:55235886 original size:50 final size:46
Alignment explanation
Indices: 55235815--55235930 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 46
55235805 TGTCTTCGAC
** * *
55235815 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCC----ATATATCTAAT
* * *
55235865 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTAAT
55235911 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
55235931 TCTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 29 0.50
50 29 0.50
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTAAT
Found at i:55237560 original size:16 final size:16
Alignment explanation
Indices: 55237539--55237570 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55237529 ATTGGCAAAA
*
55237539 GCCGAAAAGCTGATAT
1 GCCGAAAAACTGATAT
55237555 GCCGAAAAACTGATAT
1 GCCGAAAAACTGATAT
55237571 TTTGAGAACT
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:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (16 bp):
GCCGAAAAACTGATAT
Found at i:55237828 original size:28 final size:26
Alignment explanation
Indices: 55237797--55237860 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
55237787 AATTACTTGA
* *
55237797 ATACCCCTATGTATGGAAAATTACTATT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
55237825 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
55237851 ATACCCCTAG
1 ATACCCCTAG
55237861 GGTTACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 1 0.03
28 9 0.27
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:55238005 original size:27 final size:26
Alignment explanation
Indices: 55237965--55238070 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
55237955 AGGAAGCGTC
*
55237965 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
55237992 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
** *
55238019 CTGGCAGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* *
55238047 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
55238071 TGGCGTGTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 48 0.74
28 15 0.23
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:55245645 original size:28 final size:26
Alignment explanation
Indices: 55245614--55245677 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
55245604 AATTACTTGA
*
55245614 ATACCCCTATGTATGGAAAATTACTATT
1 ATACCCCTA-G-ATGCAAAATTACTATT
* *
55245642 ATACCCATAGGTGCAAAATTACTATT
1 ATACCCCTAGATGCAAAATTACTATT
55245668 ATACCCCTAG
1 ATACCCCTAG
55245678 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.72
27 1 0.03
28 8 0.25
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACTATT
Found at i:55245822 original size:27 final size:26
Alignment explanation
Indices: 55245782--55245893 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
55245772 AGGAAGCGTC
*
55245782 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
55245809 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
55245836 CTGGGGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTG-AT
* * * *
55245864 CTTGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
55245890 CTGG
1 CTGG
55245894 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.09
27 50 0.71
28 14 0.20
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:55246941 original size:45 final size:45
Alignment explanation
Indices: 55246853--55246980 Score: 159
Period size: 45 Copynumber: 2.8 Consensus size: 45
55246843 ACTTTCGAAG
* * * * * *
55246853 GATACCATAGCATCTTTCAACTATTGTTTTAATCCTTTTCATCAT
1 GATACCATAGCATCTTTCAGCTATGGTCTTACTCATTTCCATCAT
* *
55246898 GATGCCATAGCGTCTTTCAG-TCATGGTCTTACTCATTTCCATCAT
1 GATACCATAGCATCTTTCAGCT-ATGGTCTTACTCATTTCCATCAT
*
55246943 GATACCATAGCATCTTTTAGCTATGGTCTTACTCATTT
1 GATACCATAGCATCTTTCAGCTATGGTCTTACTCATTT
55246981 AGGCGTAAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.97
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (45 bp):
GATACCATAGCATCTTTCAGCTATGGTCTTACTCATTTCCATCAT
Found at i:55251109 original size:29 final size:29
Alignment explanation
Indices: 55251045--55251130 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
55251035 TGGTATCATG
* * *
55251045 ATAGTCGTCACCATCCCTTTTCATAGTTG
1 ATAGCCGTCACCATCCCTTTTCATAATTA
*
55251074 ATGGCCGTCACCA-CCCTTTTCATAATTCA
1 ATAGCCGTCACCATCCCTTTTCATAATT-A
* *
55251103 ATAGCCG-AAGCTATCCCTTTTCATAATT
1 ATAGCCGTCA-CCATCCCTTTTCATAATT
55251131 TGATAACCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 14 0.30
29 19 0.40
30 14 0.30
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (29 bp):
ATAGCCGTCACCATCCCTTTTCATAATTA
Found at i:55251224 original size:29 final size:29
Alignment explanation
Indices: 55251178--55251233 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
55251168 CGATCATAAT
55251178 TTGATGGTCGTCACCATCCCTTTTCATTA
1 TTGATGGTCGTCACCATCCCTTTTCATTA
*
55251207 TTGATGGTCGTCATCATCCCTTTTCAT
1 TTGATGGTCGTCACCATCCCTTTTCAT
55251234 ATTTCGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43
Consensus pattern (29 bp):
TTGATGGTCGTCACCATCCCTTTTCATTA
Found at i:55252738 original size:20 final size:20
Alignment explanation
Indices: 55252715--55252752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55252705 TCGCACTACG
* *
55252715 GTGCCCCTTTTTGCACATTT
1 GTGCCCCTATCTGCACATTT
55252735 GTGCCCCTATCTGCACAT
1 GTGCCCCTATCTGCACAT
55252753 CACTGCTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.34, G:0.16, T:0.37
Consensus pattern (20 bp):
GTGCCCCTATCTGCACATTT
Found at i:55254124 original size:31 final size:31
Alignment explanation
Indices: 55254089--55254160 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
55254079 TGGATATGGG
*
55254089 ACACGCCCGTGTGGGTAGGCCGTGTGGTCAC
1 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
55254120 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
55254151 ACACGCCCGT
1 ACACGCCCGT
55254161 TTCCCAACCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.14, C:0.33, G:0.36, T:0.17
Consensus pattern (31 bp):
ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
Found at i:55254131 original size:18 final size:18
Alignment explanation
Indices: 55254108--55254160 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
55254098 TGTGGGTAGG
55254108 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
* *
55254126 CCGTGTGG----GCA-GG
1 CCGTGTGGTCACACACGC
55254139 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
55254157 CCGT
1 CCGT
55254161 TTCCCAACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
17 2 0.08
18 13 0.50
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (18 bp):
CCGTGTGGTCACACACGC
Found at i:55254174 original size:31 final size:31
Alignment explanation
Indices: 55254108--55254175 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
55254098 TGTGGGTAGG
** **
55254108 CCGTGTGGTCACACACGCCCGTGTGGGCAGG
1 CCGTGTGGTCACACACGCCCGTGTGCCCACC
*
55254139 CCGTGTGGTCACACACGCCCGT-TTCCCAACC
1 CCGTGTGGTCACACACGCCCGTGTGCCC-ACC
55254170 CCGTGT
1 CCGTGT
55254176 AACTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.13, C:0.38, G:0.29, T:0.19
Consensus pattern (31 bp):
CCGTGTGGTCACACACGCCCGTGTGCCCACC
Found at i:55261145 original size:33 final size:33
Alignment explanation
Indices: 55261062--55261155 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 33
55261052 CAGTTTCAAT
* *
55261062 TAGGGCCTTAGCCCATTTCAGAATCATAAATAG
1 TAGGGCCTAAGCCCATTTCAGAATCAGAAATAG
* * * * *
55261095 TGTGGGCCTGAGTCCATTTCAGTAA-CAGCATTAG
1 T-AGGGCCTAAGCCCATTTCAG-AATCAGAAATAG
*
55261129 TAGGGCCTAAGCCCATTACAGAATCAG
1 TAGGGCCTAAGCCCATTTCAGAATCAG
55261156 TACAGTATGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
32 2 0.04
33 20 0.42
34 24 0.50
35 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (33 bp):
TAGGGCCTAAGCCCATTTCAGAATCAGAAATAG
Found at i:55263797 original size:61 final size:62
Alignment explanation
Indices: 55263622--55263802 Score: 195
Period size: 61 Copynumber: 2.9 Consensus size: 62
55263612 CATATAGTTG
* * * ** *
55263622 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTA-CATATATCGTA
* * * *
55263685 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCGTA
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCGTA
* *
55263750 GCTCTCTT-TCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
55263803 CATAGTGTCT
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
61 28 0.29
62 1 0.01
63 18 0.18
64 11 0.11
65 16 0.16
66 24 0.24
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (62 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCGTA
Found at i:55269666 original size:34 final size:34
Alignment explanation
Indices: 55269621--55269712 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
55269611 GTTTCAGTTA
*
55269621 GGGCCTTAGCCCATTTCAGAATCAGAAAT-AGTG
1 GGGCCTAAGCCCATTTCAGAATCAGAAATCAGTG
* * *
55269654 TGGGCCTGAGCCCATTTCA-ATAACA-ATATCAGTG
1 -GGGCCTAAGCCCATTTCAGA-ATCAGAAATCAGTG
*
55269688 GGGCCTAAGCCCATTACAGAATCAG
1 GGGCCTAAGCCCATTTCAGAATCAG
55269713 TACAATATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
33 23 0.48
34 25 0.52
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGAATCAGAAATCAGTG
Found at i:55272425 original size:44 final size:43
Alignment explanation
Indices: 55272293--55272446 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
55272283 TTGTACAATA
* *
55272293 CCAACGTCCCAAACATGGTCTTACATGT-AATCAAATATCGATG
1 CCAATGTCCCAGACATGGTCTTACATGTAAATCAAA-ATCGATG
* ** * ** *
55272336 CCACTGTCCCAGGTAGGGTCTTACA-CAAAATC-ATATACGATG
1 CCAATGTCCCAGACATGGTCTTACATGTAAATCAAAAT-CGATG
*
55272378 CCAATGTCTCAGACATGGTCTTACATGTAAATCACAAATCGATG
1 CCAATGTCCCAGACATGGTCTTACATGTAAATCA-AAATCGATG
* *
55272422 CCAATATCCCAAACATGGTCTTACA
1 CCAATGTCCCAGACATGGTCTTACA
55272447 CGATAACACA
Statistics
Matches: 86, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 28 0.33
44 27 0.31
45 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACATGTAAATCAAAATCGATG
Found at i:55278099 original size:46 final size:46
Alignment explanation
Indices: 55278048--55278219 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
55278038 TGAGCATCCA
55278048 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
* * * * * * *
55278094 AACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GACGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATGC--CCG
* *
55278141 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
* * *
55278187 AGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55278220 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 55 0.56
47 25 0.25
48 5 0.05
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
Found at i:55278200 original size:93 final size:93
Alignment explanation
Indices: 55278041--55278212 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55278031 GGATATTTGA
*
55278041 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
55278106 TGAGTTCGAGTTCGTGAGACGTAACTAG
66 TGAGTCCGAGTTCGTGAGACGTAACTAG
* * *
55278134 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTTGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
55278199 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55278213 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGACGTAACTAG
Found at i:55284296 original size:28 final size:28
Alignment explanation
Indices: 55284230--55284357 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
55284220 CATGAGATTG
* * **
55284230 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
55284259 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55284287 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
55284316 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55284344 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
55284358 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Done.