Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 154 of 276
Found at i:50078999 original size:26 final size:26
Alignment explanation
Indices: 50078968--50079075 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
50078958 TGAAATGCCC
*
50078968 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
50078994 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
50079020 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
50079046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
50079072 ATCA
1 ATCA
50079076 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:50080596 original size:39 final size:39
Alignment explanation
Indices: 50080542--50080621 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
50080532 TTTCACTTGC
*
50080542 TGGCATGTCAGACATTTCCCTACCAACTCCGTTACTTCT
1 TGGCATGTCAGACATTTCCCTACAAACTCCGTTACTTCT
50080581 TGGCATGTCAGACATTTCCCTACAAACTCCGTTACTTCT
1 TGGCATGTCAGACATTTCCCTACAAACTCCGTTACTTCT
50080620 TG
1 TG
50080622 TTCAAGTCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (39 bp):
TGGCATGTCAGACATTTCCCTACAAACTCCGTTACTTCT
Found at i:50086063 original size:26 final size:26
Alignment explanation
Indices: 50086027--50086135 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
50086017 ATGAAATGCC
* *
50086027 TATCGTGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
50086053 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
50086079 TATCATGGAACATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
50086105 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
50086131 TATCA
1 TATCA
50086136 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:50089065 original size:27 final size:27
Alignment explanation
Indices: 50089021--50089155 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
50089011 GTCACTAGAT
*
50089021 ACAGATAT-TGTGGTAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
50089047 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
50089074 TCAGATA-ATTGTGGCAATAGCCACCAGG
1 ACAGATATA-TGTGGC-AGAGCCACCAGA
*
50089102 ACAGATATATGTGGCAGAGCCACCGGA
1 ACAGATATATGTGGCAGAGCCACCAGA
** * *
50089129 TTAGATAAATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
50089156 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.10
27 44 0.48
28 37 0.41
29 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:50089106 original size:55 final size:55
Alignment explanation
Indices: 50089027--50089158 Score: 203
Period size: 55 Copynumber: 2.4 Consensus size: 55
50089017 AGATACAGAT
* * *
50089027 ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGAT-A
1 ATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
* *
50089081 ATTGTGGCAATAGCCACCAGGACAGATATATGTGGCAGAGCCACCGGATTAGATAA
1 ATTGTGGC-ATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
50089137 ATTGTGGCATAGCCACCAGGAC
1 ATTGTGGCATAGCCACCAGGAC
50089159 GCTTCCTCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 7 0.10
55 55 0.77
56 9 0.13
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (55 bp):
ATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
Found at i:50092236 original size:48 final size:48
Alignment explanation
Indices: 50092183--50092278 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
50092173 ATATATACAT
*
50092183 TATTAAATGAAATGAATTTAAAATATGAAAACAAAATTAAATAAAAGG
1 TATTAAATGAAATGAATTTAAAACATGAAAACAAAATTAAATAAAAGG
*
50092231 TATTAAATGAAATGAATTTAAAACATGAAAACAAAATTAAGTAAAAGG
1 TATTAAATGAAATGAATTTAAAACATGAAAACAAAATTAAATAAAAGG
50092279 AAAAAGGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.26
Consensus pattern (48 bp):
TATTAAATGAAATGAATTTAAAACATGAAAACAAAATTAAATAAAAGG
Found at i:50094164 original size:41 final size:39
Alignment explanation
Indices: 50094001--50094181 Score: 168
Period size: 40 Copynumber: 4.5 Consensus size: 39
50093991 AATCAAGCAT
** ** * * *
50094001 CTTCGGGGTTTAGCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
* * * * *
50094039 CTTCGGGTCTTAACTCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGC-CGGATATAGTCGCTAGCACAAATGC
50094079 CTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCC-GGATATAGTCGCTAGCACAAATGC
* *
50094119 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAGTCGC-TAGCACAAATGC
50094160 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
50094182 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
38 11 0.09
39 18 0.15
40 57 0.48
41 29 0.25
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
Found at i:50097039 original size:39 final size:39
Alignment explanation
Indices: 50096985--50097162 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
50096975 TAATGGAGAA
*
50096985 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
50097024 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
50097063 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
50097102 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCG-AAGGCATTCGTGCTGGTG
50097141 TTATATCCGGGCTTAAAGTCCC
1 TTATATCCGGGC-T-AAGTCCC
50097163 ACATGCTTTG
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 108 0.84
40 19 0.15
41 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:50099551 original size:16 final size:15
Alignment explanation
Indices: 50099526--50099556 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
50099516 ATGTAAAAGC
50099526 TATGGTTTAATTGAT
1 TATGGTTTAATTGAT
50099541 TATGTGTTTAATTGAT
1 TATG-GTTTAATTGAT
50099557 GTGCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (15 bp):
TATGGTTTAATTGAT
Found at i:50100735 original size:43 final size:43
Alignment explanation
Indices: 50100573--50100735 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
50100563 CATAGGATTC
* * *
50100573 CGATATGTGATTTCGTGTAAGACCACGTTTGGAAT-GTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATAG-TGGCAT
* * ** * *
50100616 CGATTTGTGATCTACGTGTAAGACCATGTCTGCTACATTGGCAT
1 CGATATGTGAT-TACGTGTAAGACCACGTCTGGGATAGTGGCAT
* * *
50100660 CG-TATATGACTT-TGTGTAAGACC-CTGTCTGGGATAGTGGAAT
1 CGATATGTGA-TTACGTGTAAGACCAC-GTCTGGGATAGTGGCAT
* *
50100702 CGATATGTGATTACATGTAAGACCACGTTTGGGA
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGA
50100736 CGATGGCAGT
Statistics
Matches: 92, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
42 26 0.28
43 38 0.41
44 28 0.30
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGATAGTGGCAT
Found at i:50105785 original size:12 final size:12
Alignment explanation
Indices: 50105754--50105860 Score: 52
Period size: 12 Copynumber: 8.2 Consensus size: 12
50105744 AATACAAGGA
50105754 ATAATATATATAGT
1 ATAATATA-ATA-T
*
50105768 AAAATATAATAT
1 ATAATATAATAT
* *
50105780 ATAATAAAATTT
1 ATAATATAATAT
* *
50105792 ATAAATAAAATGT
1 AT-AATATAATAT
*
50105805 ATAATAATAGTATAA
1 ATAAT-ATA--ATAT
**
50105820 ATAATATAATGG
1 ATAATATAATAT
*
50105832 ATAATATATATAA
1 ATAATATA-ATAT
*
50105845 ATAAAAATAATAT
1 AT-AATATAATAT
50105858 ATA
1 ATA
50105861 CTATTTTATA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
12 26 0.36
13 25 0.34
14 15 0.21
15 7 0.10
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:50105800 original size:13 final size:13
Alignment explanation
Indices: 50105777--50105823 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
50105767 TAAAATATAA
*
50105777 TATATAATAAAATT
1 TATA-AATAAAATG
50105791 TATAAATAAAATG
1 TATAAATAAAATG
*
50105804 TAT-AATAATA-G
1 TATAAATAAAATG
50105815 TATAAATAA
1 TATAAATAA
50105824 TATAATGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 4 0.13
12 11 0.37
13 11 0.37
14 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (13 bp):
TATAAATAAAATG
Found at i:50105825 original size:27 final size:25
Alignment explanation
Indices: 50105795--50105848 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
50105785 AAAATTTATA
*
50105795 AATAAAATGTATAATAATAGTATAAAT
1 AATAAAATGGATAAT-ATA-TATAAAT
*
50105822 AATATAATGGATAATATATATAAAT
1 AATAAAATGGATAATATATATAAAT
50105847 AA
1 AA
50105849 AAATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.36
26 3 0.12
27 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (25 bp):
AATAAAATGGATAATATATATAAAT
Found at i:50105931 original size:29 final size:30
Alignment explanation
Indices: 50105867--50105945 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
50105857 TATACTATTT
50105867 TATATAACTAGTATTTATAAA-AAAATAAATAA
1 TATATAA--AGTATTTA-AAATAAAATAAATAA
*
50105899 TATATAAAGTATTTAAAATAAATTAAAT-A
1 TATATAAAGTATTTAAAATAAAATAAATAA
* *
50105928 TATAAAAAGGA-TTAAAAT
1 TATATAAAGTATTTAAAAT
50105946 TGAATTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 7 0.16
29 13 0.30
30 16 0.37
32 7 0.16
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (30 bp):
TATATAAAGTATTTAAAATAAAATAAATAA
Found at i:50105933 original size:18 final size:21
Alignment explanation
Indices: 50105893--50105934 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 21
50105883 ATAAAAAAAT
*
50105893 AAATAATATATAAAGTATTTA
1 AAATAATATATAAAGTATATA
50105914 AAATAA-AT-TAAA-TATATA
1 AAATAATATATAAAGTATATA
50105932 AAA
1 AAA
50105935 AGGATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 2 0.10
21 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATAATATATAAAGTATATA
Found at i:50105951 original size:29 final size:30
Alignment explanation
Indices: 50105884--50105945 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
50105874 CTAGTATTTA
* *
50105884 TAAAA-AAA-TAAATAATATATAAAGTATT
1 TAAAATAAATTAAATAATATAAAAAGGATT
50105912 TAAAATAAATTAAAT-ATATAAAAAGGA-T
1 TAAAATAAATTAAATAATATAAAAAGGATT
50105940 TAAAAT
1 TAAAAT
50105946 TGAATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.40
29 13 0.43
30 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (30 bp):
TAAAATAAATTAAATAATATAAAAAGGATT
Found at i:50107495 original size:44 final size:44
Alignment explanation
Indices: 50107441--50107702 Score: 332
Period size: 44 Copynumber: 6.0 Consensus size: 44
50107431 GAACGCCAAG
* *
50107441 CTGA-AATACAGAGACGCCGAATCTGCTACCCTT-GATCTGCTCT
1 CTGACAATACAGAGACGCCAAATCTGCTA-TCTTCGATCTGCTCT
* * * *
50107484 CTGACAATACAGGGACGCCAAACCTTCTATCTTCGATCTGCTCC
1 CTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCT
* *
50107528 CTGACGATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCT
1 CTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCT
* * * * *
50107572 TTGACAATATAGAAACGCCAAATCTGCTATTTTTGATCTGCTCT
1 CTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCT
* * *
50107616 CTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCT
1 CTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCT
*
50107660 CT-AGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTC
1 CTGA-CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTC
50107703 CAAATCTGTT
Statistics
Matches: 187, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
43 7 0.04
44 180 0.96
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (44 bp):
CTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCT
Found at i:50107711 original size:25 final size:25
Alignment explanation
Indices: 50107677--50107727 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
50107667 TACAGAGACG
50107677 CCAAATCTGTTATCTTCGATCTGCT
1 CCAAATCTGTTATCTTCGATCTGCT
50107702 CCAAATCTGTTATCTTCGATCTGCT
1 CCAAATCTGTTATCTTCGATCTGCT
50107727 C
1 C
50107728 TCTGGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (25 bp):
CCAAATCTGTTATCTTCGATCTGCT
Found at i:50107744 original size:69 final size:69
Alignment explanation
Indices: 50107633--50107771 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
50107623 TACAGAGACA
*
50107633 CCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATC
1 CCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGACGCCAAATCTATTATCTTCGATC
50107698 TGCT
66 TGCT
*
50107702 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTATTATCTTCGATC
1 CCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGACGCCAAATCTATTATCTTCGATC
50107767 TGCT
66 TGCT
50107771 C
1 C
50107772 TCTGGCAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (69 bp):
CCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGACGCCAAATCTATTATCTTCGATC
TGCT
Found at i:50107787 original size:113 final size:113
Alignment explanation
Indices: 50107589--50107815 Score: 391
Period size: 113 Copynumber: 2.0 Consensus size: 113
50107579 TATAGAAACG
* * * *
50107589 CCAAATCTGCTATTTTTGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCTATTATCTTCGATC
50107654 TGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
66 TGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* *
50107702 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTATTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCTATTATCTTCGATC
*
50107767 TGCTCTCTGGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
66 TGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
50107815 C
1 C
50107816 TCTGGCAATA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (113 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCTATTATCTTCGATC
TGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
Found at i:50107835 original size:157 final size:157
Alignment explanation
Indices: 50107545--50107858 Score: 493
Period size: 157 Copynumber: 2.0 Consensus size: 157
50107535 TACAGAGATG
* * * * *
50107545 CCAAATCTGCTATCTTCGATCTGCTCTTTGACAATATAGAAACGCCAAATCTGCTATTTTTGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTACTATCTTCGATC
*
50107610 TGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGA
66 TGCTCTCTGGCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGA
* *
50107675 CGCCAAATCTGTTATCTTCGATCTGCT
131 CGCCAAATCTGTCATCTTCGATATGCT
* * * *
50107702 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTATTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTACTATCTTCGATC
* * *
50107767 TGCTCTCTGGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGATA
66 TGCTCTCTGGCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGA
50107832 CGCCAAATCTGTCATCTTCGATATGCT
131 CGCCAAATCTGTCATCTTCGATATGCT
50107859 TTCTGTCAAT
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
157 142 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (157 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTACTATCTTCGATC
TGCTCTCTGGCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATACAGAGA
CGCCAAATCTGTCATCTTCGATATGCT
Found at i:50107884 original size:201 final size:201
Alignment explanation
Indices: 50107511--50107903 Score: 554
Period size: 201 Copynumber: 2.0 Consensus size: 201
50107501 CCAAACCTTC
* * * *
50107511 TATCTTCGATCTGCTCCCTGACGATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTTTGA
1 TATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGA
* * * *
50107576 CAATATAGAAACGCCAAATCTGCTATTTTTGATCTGCTCTCTGTCAATACAGAGACACCAAATCT
66 CAATACAGAAACGCCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCT
* * * * *
50107641 GTTATCTTCGATCTGCTCTCTAGCAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCAA
131 GTCATCTTCGATATGCTCTCTAGCAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTCCAA
50107706 ATCTGT
196 ATCTGT
* * * *
50107712 TATCTTCGATCTGCTCTCTGGCAATACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGG
1 TATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGA
* * * *
50107777 CAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGATACGCCAAATCT
66 CAATACAGAAACGCCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCT
* * *
50107842 GTCATCTTCGATATGCTTTCT-GTCAATAAAGAGACACCAAATCTGCTATCTTTGATTTGCTC
131 GTCATCTTCGATATGCTCTCTAG-CAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTC
50107904 TCTAACAATA
Statistics
Matches: 167, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
200 1 0.01
201 166 0.99
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (201 bp):
TATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGA
CAATACAGAAACGCCAAATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCT
GTCATCTTCGATATGCTCTCTAGCAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTCCAA
ATCTGT
Found at i:50107905 original size:245 final size:245
Alignment explanation
Indices: 50107474--50107943 Score: 692
Period size: 245 Copynumber: 1.9 Consensus size: 245
50107464 TGCTACCCTT
* *
50107474 GATCTGCTCTCTGACAATACAGGGACGCCAAACCTTCTATCTTCGATCTGCTCCCTGACGATACA
1 GATCTGCTCTCTGACAATACAGAGACGCCAAACCTTCTATCTTCGATCTGCTCCCTGACAATACA
* * * *
50107539 GAGATGCCAAATCTGCTATCTTCGATCTGCTCTTTGACAATATAGAAACGCCAAATCTGCTATTT
66 GAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTGCTATCT
* * * * *
50107604 TTGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTAGCAATA
131 TCGATATGCTCTCTGTCAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTAACAATA
* *
50107669 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCAAATCTGTTATCTTC
196 CAGAGACGCCAAATCTATCATCTTCGATCTGCTCCAAATCTGTTATCTTC
* * * *
50107719 GATCTGCTCTCTGGCAATACAGAGACGCCAAATCTAT-TATCTTCGATCTGCTCTCTGGCAATAC
1 GATCTGCTCTCTGACAATACAGAGACGCCAAACCT-TCTATCTTCGATCTGCTCCCTGACAATAC
* * *
50107783 AGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGATACGCCAAATCTG-TCAT
65 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTGCT-AT
* * *
50107847 CTTCGATATGCTTTCTGTCAATAAAGAGACACCAAATCTGCTATCTTTGATTTGCTCTCTAACAA
129 CTTCGATATGCTCTCTGTCAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTAACAA
*
50107912 TATAGAGACGCCAAATCTATCATCTTCGATCT
194 TACAGAGACGCCAAATCTATCATCTTCGATCT
50107944 ACTCTCTGGT
Statistics
Matches: 199, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
244 1 0.01
245 197 0.99
246 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (245 bp):
GATCTGCTCTCTGACAATACAGAGACGCCAAACCTTCTATCTTCGATCTGCTCCCTGACAATACA
GAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTGCTATCT
TCGATATGCTCTCTGTCAATAAAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTAACAATA
CAGAGACGCCAAATCTATCATCTTCGATCTGCTCCAAATCTGTTATCTTC
Found at i:50107989 original size:44 final size:44
Alignment explanation
Indices: 50107702--50107987 Score: 410
Period size: 44 Copynumber: 6.5 Consensus size: 44
50107692 TCGATCTGCT
50107702 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
*
50107746 CCAAATCTATTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
*
50107790 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGATACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
* * * * * *
50107834 CCAAATCTGTCATCTTCGATATGCTTTCTGTCAATAAAGAGACA
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
* * * ** *
50107878 CCAAATCTGCTATCTTTGATTTGCTCTCTAACAATATAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
* * * *
50107922 CCAAATCTATCATCTTCGATCTACTCTCTGGTAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
50107966 CCAAATCTGTTATCTTCGATCT
1 CCAAATCTGTTATCTTCGATCT
50107988 ACATTATCCC
Statistics
Matches: 211, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 211 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (44 bp):
CCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAGACG
Found at i:50120084 original size:14 final size:14
Alignment explanation
Indices: 50120067--50120102 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50120057 AATATAAGGA
50120067 ATAATATATA-TAGT
1 ATAATATATAGT-GT
50120081 ATAATATATAGTGT
1 ATAATATATAGTGT
50120095 ATAATATA
1 ATAATATA
50120103 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (14 bp):
ATAATATATAGTGT
Found at i:50120163 original size:19 final size:19
Alignment explanation
Indices: 50120141--50120206 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
50120131 ATAATGGATA
50120141 ATATATAAATAAAAATAAT
1 ATATATAAATAAAAATAAT
**
50120160 ATATATTACTTTAAATAACTAAT
1 ATATA-TA-AATAAA-AA-TAAT
*
50120183 ATTTATAAA-AATAAATAAT
1 ATATATAAATAA-AAATAAT
50120202 ATATA
1 ATATA
50120207 AAGTATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 13 0.36
20 6 0.17
21 5 0.14
22 4 0.11
23 8 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATAAATAAAAATAAT
Found at i:50120432 original size:30 final size:30
Alignment explanation
Indices: 50120398--50120455 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
50120388 ATAATGGCCA
*
50120398 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTGAAACAAAAATAAAAGG
* ** *
50120428 TTAGGGCCAAATTTTAATAAAAATAAAA
1 TTAGGACCAAATTGAAACAAAAATAAAA
50120456 TGAAAATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
TTAGGACCAAATTGAAACAAAAATAAAAGG
Found at i:50120958 original size:7 final size:7
Alignment explanation
Indices: 50120942--50120975 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50120932 GTAAAAGAAA
50120942 AATCTGT
1 AATCTGT
*
50120949 AATCTAT
1 AATCTGT
50120956 AATCTGT
1 AATCTGT
50120963 GAATCTGT
1 -AATCTGT
50120971 AATCT
1 AATCT
50120976 ATTTCTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (7 bp):
AATCTGT
Found at i:50120967 original size:15 final size:14
Alignment explanation
Indices: 50120942--50120975 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
50120932 GTAAAAGAAA
50120942 AATCTGTAATCTAT
1 AATCTGTAATCTAT
*
50120956 AATCTGTGAATCTGT
1 AATCTGT-AATCTAT
50120971 AATCT
1 AATCT
50120976 ATTTCTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (14 bp):
AATCTGTAATCTAT
Found at i:50131807 original size:46 final size:46
Alignment explanation
Indices: 50131750--50131981 Score: 313
Period size: 46 Copynumber: 5.0 Consensus size: 46
50131740 GTGTGCTCTC
*
50131750 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50131796 TGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50131842 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* ***
50131888 TGACATGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
50131934 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
50131980 TG
1 TG
50131982 TCAAAGATAA
Statistics
Matches: 168, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:50135379 original size:34 final size:34
Alignment explanation
Indices: 50135336--50135405 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
50135326 TTATGCTTTC
*
50135336 GGATTACCACACGAGCGAACACACACTCGTGTAG
1 GGATTACCACACGAGCGAACACACACGCGTGTAG
50135370 GGATTACCACACGAGCGAACACACACGCGTGTAG
1 GGATTACCACACGAGCGAACACACACGCGTGTAG
50135404 GG
1 GG
50135406 TCAATAGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (34 bp):
GGATTACCACACGAGCGAACACACACGCGTGTAG
Found at i:50138549 original size:39 final size:40
Alignment explanation
Indices: 50138432--50138616 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
50138422 GCTACTCGTT
*
50138432 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50138472 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
50138512 CCAATGCCTTCGGG-CTTCGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
50138551 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50138592 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50138617 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50138600 original size:79 final size:80
Alignment explanation
Indices: 50138432--50138616 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
50138422 GCTACTCGTT
* *
50138432 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
50138496 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * * **
50138513 CAATGCCTTCGGG-CTTCGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
50138576 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
50138592 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
50138617 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:50142464 original size:7 final size:6
Alignment explanation
Indices: 50142433--50142462 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
50142423 TTCAAAATAC
50142433 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
50142463 TAGAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:50149243 original size:20 final size:20
Alignment explanation
Indices: 50149218--50149255 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50149208 TCACAAAATA
*
50149218 ACCAAAAAACCAAACATATC
1 ACCAAAAAACAAAACATATC
*
50149238 ACCAAAACACAAAACATA
1 ACCAAAAAACAAAACATA
50149256 CCTATTTACC
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:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (20 bp):
ACCAAAAAACAAAACATATC
Found at i:50150303 original size:41 final size:42
Alignment explanation
Indices: 50150195--50150352 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
50150185 ATATTATACA
* * * * **
50150195 ATGCCAACGTCCCAGACATGGTCTTACATGCTATCACATATTA
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCAAATATCG
* *
50150238 ATGCCATTGTCCCAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATATCG
* * * * *
50150279 ATGTCGATGTCCCAGACATAGTCTTACACATAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAATCAAATATCG
* * *
50150322 ATGCCAATGTCCTAGACGTGGCCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
50150353 GAACACATAT
Statistics
Matches: 91, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
41 24 0.26
42 16 0.18
43 51 0.56
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCAAATATCG
Found at i:50155441 original size:17 final size:17
Alignment explanation
Indices: 50155401--50155433 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50155391 AAATTTATAT
*
50155401 TTTTCTTTTTTTTTTCA
1 TTTTCTTTTATTTTTCA
50155418 TTTTCTTTTATTTTTC
1 TTTTCTTTTATTTTTC
50155434 TTCTTCTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTATTTTTCA
Found at i:50156941 original size:20 final size:21
Alignment explanation
Indices: 50156898--50156943 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
50156888 ACTATTTTTT
50156898 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
50156918 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
50156937 TATGGGC
1 TATGGGC
50156944 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:50157017 original size:60 final size:60
Alignment explanation
Indices: 50156936--50157074 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
50156926 AACTGTGTTA
* * * *
50156936 ATATGGGCAAGGCCCAATATA-TCTCGA-CTTGTAATAGGGCTACGGCCCAGATTAATGCTC
1 ATATGGGCTAGGCCCAGTATATTCT-GATATTGTAA-AGGGCTACGGCCCAGATTAATACTC
* * * *
50156996 ATATGGGCTAGGCCCAGTATATTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATATTCTGATATTGTAAAGGGCTACGGCCCAGATTAATACTC
*
50157056 ATATGGGCTAAGTCCCAGT
1 ATATGGGCT-AGGCCCAGT
50157075 TAACACTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 50 0.75
61 17 0.25
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAGTATATTCTGATATTGTAAAGGGCTACGGCCCAGATTAATACTC
Found at i:50161118 original size:14 final size:13
Alignment explanation
Indices: 50161080--50161132 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
50161070 TATATTTTTC
50161080 TTTTT-TTTTC-A
1 TTTTTCTTTTCTA
50161091 TTTTCTCTTATTCTA
1 TTTT-TCTT-TTCTA
50161106 TTTTTCTTCTTCTTA
1 TTTTTCTT-TTC-TA
50161121 TTTTTCTTTTCT
1 TTTTTCTTTTCT
50161133 CCCCTATAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 4 0.11
12 1 0.03
13 3 0.08
14 13 0.36
15 15 0.42
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTTTCTA
Found at i:50165116 original size:15 final size:15
Alignment explanation
Indices: 50165096--50165125 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50165086 ATCACAAACA
50165096 TACCAATTCATCAAT
1 TACCAATTCATCAAT
50165111 TACCAATTCATCAAT
1 TACCAATTCATCAAT
50165126 ATCATTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
TACCAATTCATCAAT
Found at i:50170187 original size:22 final size:22
Alignment explanation
Indices: 50170162--50170206 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50170152 AAGTAAGGTT
50170162 AGTAAGTAATTAATGTTTGATA
1 AGTAAGTAATTAATGTTTGATA
50170184 AGTAAGTAATTAATGTTTGATA
1 AGTAAGTAATTAATGTTTGATA
50170206 A
1 A
50170207 AAATGACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (22 bp):
AGTAAGTAATTAATGTTTGATA
Found at i:50171417 original size:28 final size:29
Alignment explanation
Indices: 50171385--50171499 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
50171375 TACCTGTATT
*
50171385 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
50171413 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
** *
50171442 TGGCCCATTCGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
50171471 TGGCCCATT-AGACCC-AGTCACATTCATA
1 TGGCCCATTAAG-CCCAAATCACATTCATA
50171499 T
1 T
50171500 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:50171442 original size:29 final size:29
Alignment explanation
Indices: 50171379--50171486 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
50171369 TTCACATACC
* * *
50171379 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
50171407 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
50171436 TGTATATGGCCCATTCGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
50171465 TTTATATGGCCCATTAGACCCA
1 TGTATATGGCCCATTAGGCCCA
50171487 GTCACATTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 49 0.72
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:50171977 original size:34 final size:34
Alignment explanation
Indices: 50171929--50171997 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
50171919 AATAGTTTTT
*
50171929 TCTTTATCACGTACTCCTTAGATCTGCATTAATC
1 TCTTGATCACGTACTCCTTAGATCTGCATTAATC
*
50171963 TCTTGATCACGTACTTCTTAGATCTGCATTAATC
1 TCTTGATCACGTACTCCTTAGATCTGCATTAATC
50171997 T
1 T
50171998 TACTTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (34 bp):
TCTTGATCACGTACTCCTTAGATCTGCATTAATC
Found at i:50173028 original size:16 final size:16
Alignment explanation
Indices: 50173007--50173039 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50172997 AAAAATTCAA
50173007 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
50173023 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
50173039 G
1 G
50173040 GCGTTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:50176954 original size:40 final size:40
Alignment explanation
Indices: 50176888--50177036 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 40
50176878 GACTAAGATT
** * * * *
50176888 CGAAGGCATTCGTGCGAGTTACTATATCTGGGCTATGTCC
1 CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
* *
50176928 CGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACC
1 CGAAGGCATTTATGCGAGTTG-CTATATCCGGGCTAAGACC
*
50176968 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
1 CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
* * *
50177008 CGAAGGCATTTGTACGAGTTGTTATATCC
1 CGAAGGCATTTATGCGAGTTGCTATATCC
50177037 AGCTAAATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 91 0.97
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
Found at i:50177033 original size:80 final size:80
Alignment explanation
Indices: 50176888--50177036 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
50176878 GACTAAGATT
* * * * *
50176888 CGAAGGCATTCGTGCGAGTTACTATATCTGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTAT
1 CGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATACGAGTGATTAT
50176953 ATCCGGGCTAAGACC
66 ATCCGGGCTAAGACC
* * *
50176968 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-TTA
1 CGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATACGAG-TGATTA
50177032 TATCC
65 TATCC
50177037 AGCTAAATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 58 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (80 bp):
CGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTATACGAGTGATTAT
ATCCGGGCTAAGACC
Found at i:50181933 original size:29 final size:29
Alignment explanation
Indices: 50181901--50181989 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
50181891 AATCATATTC
*
50181901 ATATGGCCCATTAGGCCCAAATCACCTAT
1 ATATGGCCCATTAGGCCCAAATCACATAT
* * * *
50181930 ATATGCCCCATTCGGCCTAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATAT
*
50181959 ATATGGCCCATTAGGCCC-AGTCACAT-T
1 ATATGGCCCATTAGGCCCAAATCACATAT
50181986 ATAT
1 ATAT
50181990 TCATGCTCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 39 0.76
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATAT
Found at i:50184615 original size:45 final size:45
Alignment explanation
Indices: 50184469--50184624 Score: 147
Period size: 45 Copynumber: 3.4 Consensus size: 45
50184459 GCGTACTATA
* * * *
50184469 ACTCAAATCAACGAGCTCAGGCGTTTGCATCCATAAGTGAACTCGA
1 ACTCAACTCAACGAGTTCAGACGTTT-CATCCATAAGTGAACTCGG
* * * * * *
50184515 ACTCAACTCAACGAGTTTGGATGCCTAGTTACAT--TTCA-CGAACTCGG
1 ACTCAACTCAACGAG-TT-CA-GAC--GTTTCATCCATAAGTGAACTCGG
50184562 ACTCAACTCAACGAGTTCAGACGTTTCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGTTCAGACGTTTCATCCATAAGTGAACTCGG
50184607 ACTCAACTCAACGAGTTC
1 ACTCAACTCAACGAGTTC
50184625 GGATGCCCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 6 0.07
44 4 0.05
45 27 0.31
46 16 0.18
47 23 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (45 bp):
ACTCAACTCAACGAGTTCAGACGTTTCATCCATAAGTGAACTCGG
Found at i:50188164 original size:35 final size:35
Alignment explanation
Indices: 50188116--50188186 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
50188106 ATAACAGTAG
* * * * *
50188116 GAGGTTGATTTTCAGTCGGCACTGCCCTTTCAGCA
1 GAGGTCGACTTTCAGTCGCCACCGCCCCTTCAGCA
50188151 GAGGTCGACTTTCAGTCGCCACCGCCCCTTCAGCA
1 GAGGTCGACTTTCAGTCGCCACCGCCCCTTCAGCA
50188186 G
1 G
50188187 GAGCTAGCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.25
Consensus pattern (35 bp):
GAGGTCGACTTTCAGTCGCCACCGCCCCTTCAGCA
Found at i:50189800 original size:93 final size:93
Alignment explanation
Indices: 50189689--50189860 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
50189679 GCCCATAAGT
* * * **
50189689 GAACTCGGACTCAGCTCAATGAGCTCGGGTGTTTGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGTTTGCATCCATAAGTGAACTCAAACTCAACTCAA
50189754 CGAGTTCAAATGCCTAGTTATATTTCAC
66 CGAGTTCAAATGCCTAGTTATATTTCAC
* * *
50189782 GAACTCGAACTCAACTCAACGAGTTCGGACGTTTGCATCTATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGTTTGCATCCATAAGTGAACTCAAACTCAACTCAA
*
50189847 CGAGTTCAGATGCC
66 CGAGTTCAAATGCC
50189861 CAAATATCCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACGTTTGCATCCATAAGTGAACTCAAACTCAACTCAA
CGAGTTCAAATGCCTAGTTATATTTCAC
Found at i:50189848 original size:46 final size:46
Alignment explanation
Indices: 50189683--50189858 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 46
50189673 TAACCTGCCC
* * * * * *
50189683 ATAAGTGAACTCGGACTCAGCTCAATGAGCTCGGGTGTTTGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTTGCATCT
* ** * * * *
50189729 ATAAGTGAACTCAAACTCAACTCAACGAGTTCAAATGCCTAGTTATAT
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG-TTTG-CATCT
* * * *
50189777 TTCA-CGAACTC-GAACTCAACTCAACGAGTTCGGACGTTTGCATCT
1 ATAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGATGTTTGCATCT
*
50189822 ATAAGTGAACTCAGACTCAACTCAACGAGTTCAGATG
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
50189859 CCCAAATATC
Statistics
Matches: 96, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
45 5 0.05
46 58 0.60
47 29 0.30
48 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (46 bp):
ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTTGCATCT
Found at i:50198896 original size:93 final size:93
Alignment explanation
Indices: 50198768--50198939 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
50198758 GCCCATAAGT
* * * *
50198768 GAACTCGGACTCAACTCAACAAGATCGGGCGTTCGCATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
50198833 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
50198861 GAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
50198926 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
50198940 AAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGATCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50198935 original size:46 final size:46
Alignment explanation
Indices: 50198760--50198935 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
50198750 TGTAACCCGC
* * * *
50198760 CCATAAGTGAACTCGGACTCAACTCAACAAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
50198806 CCATAATTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** *
50198852 ACATCTCTCGAACTCTGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50198899 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50198936 TGCCAAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50200778 original size:15 final size:15
Alignment explanation
Indices: 50200752--50200807 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
50200742 CAAGGAAACC
50200752 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
50200767 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
50200782 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
50200797 GAATAAAGAAA
1 GAATAAAGAAA
50200808 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:50203789 original size:46 final size:46
Alignment explanation
Indices: 50203732--50203898 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
50203722 TGTAACCCGC
*
50203732 CCATAAGTGAACTCGGACTCAACTCAGCAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
* * * * *
50203778 CCATAATTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--GCGTTCGCAT
* *** * * * *
50203824 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
50203871 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
50203899 GAGTTCGGAT
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.63
47 32 0.34
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
Found at i:50203870 original size:93 final size:93
Alignment explanation
Indices: 50203740--50203911 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
50203730 GCCCATAAGT
* * * *
50203740 GAACTCGGACTCAACTCAGCAAGCTCGGGCGTTCGCATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50203805 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
50203833 GAACTCGGACTCAACTCAACAAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
50203898 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
50203912 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50214433 original size:21 final size:22
Alignment explanation
Indices: 50214407--50214458 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
50214397 GCAGTTAGTG
50214407 TTGAGTTTAGAAAATGA-AAT-A
1 TTGAGTTTAGAAAAT-ACAATCA
*
50214428 TTGAGTTT-GAAAATACAATCG
1 TTGAGTTTAGAAAATACAATCA
50214449 TTGAGTTTAG
1 TTGAGTTTAG
50214459 TTTGGCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
21 16 0.59
22 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (22 bp):
TTGAGTTTAGAAAATACAATCA
Found at i:50215270 original size:35 final size:35
Alignment explanation
Indices: 50215215--50215316 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 35
50215205 TTTATCACAG
* * *
50215215 TGGCATGTTTAACATTCGAATCAAAATCAGAATAA
1 TGGCATGCTTAACATGCGAATCAAAATCAAAATAA
* * *
50215250 TGGCATGCTTAGCATGCGAATCATAATTAAAATAA
1 TGGCATGCTTAACATGCGAATCAAAATCAAAATAA
* *
50215285 TAGCATG-TTCAACATCCGAATCAGAATATCAA
1 TGGCATGCTT-AACATGCGAATCA-AA-ATCAA
50215317 TAAATCAATG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 2 0.04
35 46 0.87
36 1 0.02
37 4 0.08
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (35 bp):
TGGCATGCTTAACATGCGAATCAAAATCAAAATAA
Found at i:50216804 original size:21 final size:21
Alignment explanation
Indices: 50216778--50216818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50216768 AAGATAAAAT
50216778 ATAAATCACATACGTACATAA
1 ATAAATCACATACGTACATAA
* *
50216799 ATAAATCGCATACGTGCATA
1 ATAAATCACATACGTACATA
50216819 CCTATGTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
ATAAATCACATACGTACATAA
Found at i:50220294 original size:28 final size:27
Alignment explanation
Indices: 50220263--50220354 Score: 105
Period size: 28 Copynumber: 3.4 Consensus size: 27
50220253 TCATTATTAG
50220263 CCACAAAGGCATCCCTTTCCATAGACCA
1 CCACAAAGGCATCCCTTTCCATAGA-CA
* *
50220291 CCACAAAGACATCCCTTTCCATAGATCG
1 CCACAAAGGCATCCCTTTCCATAGA-CA
* * * *
50220319 CCACAAAGGCTTCCATTT-CAAATACA
1 CCACAAAGGCATCCCTTTCCATAGACA
50220345 CCACAAAGGC
1 CCACAAAGGC
50220355 TTCCATTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.20
27 4 0.07
28 40 0.73
ACGTcount: A:0.35, C:0.36, G:0.11, T:0.18
Consensus pattern (27 bp):
CCACAAAGGCATCCCTTTCCATAGACA
Found at i:50221675 original size:26 final size:26
Alignment explanation
Indices: 50221639--50221693 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
50221629 ATACTTAATC
50221639 AAATTCTTATACTTTACACTTGCTCA
1 AAATTCTTATACTTTACACTTGCTCA
50221665 AAATTCTTATACTTTACACTTGCTCA
1 AAATTCTTATACTTTACACTTGCTCA
50221691 AAA
1 AAA
50221694 CTTACTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (26 bp):
AAATTCTTATACTTTACACTTGCTCA
Found at i:50221703 original size:24 final size:25
Alignment explanation
Indices: 50221637--50221705 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
50221627 TTATACTTAA
*
50221637 TCAAATTCTTATACTTTACACTTGC
1 TCAAAATCTTATACTTTACACTTGC
50221662 TCAAAATTCTTATACTTTACACTTGC
1 TCAAAA-TCTTATACTTTACACTTGC
50221688 TCAAAA-CTTACT-CTTTAC
1 TCAAAATCTTA-TACTTTAC
50221706 GCCTTACTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 10 0.24
25 6 0.15
26 25 0.61
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (25 bp):
TCAAAATCTTATACTTTACACTTGC
Found at i:50222517 original size:13 final size:13
Alignment explanation
Indices: 50222495--50222538 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 13
50222485 TTAATAACCC
50222495 TTTTTTC-TTTCT
1 TTTTTTCTTTTCT
50222507 TTTTTTCCTTTTCTTT
1 TTTTTT-CTTTTC--T
50222523 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
50222536 TTT
1 TTT
50222539 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 4 0.14
15 6 0.21
16 7 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:50222526 original size:15 final size:15
Alignment explanation
Indices: 50222502--50222543 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
50222492 CCCTTTTTTC
50222502 TTTC-TTTTTTTCCT
1 TTTCTTTTTTTTCCT
*
50222516 TTTCTTTTTTTTTCT
1 TTTCTTTTTTTTCCT
50222531 TTTCTTTTATTTT
1 TTTCTTTT-TTTT
50222544 TAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTTTTTTTTCCT
Found at i:50222605 original size:21 final size:22
Alignment explanation
Indices: 50222563--50222611 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
50222553 TTTAATTAAT
**
50222563 AAATAAATAAAAACATTTAATA
1 AAATAAATAAAAACATGAAATA
*
50222585 AAATAAA-AAAAATATGAAATA
1 AAATAAATAAAAACATGAAATA
50222606 ATAATA
1 A-AATA
50222612 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAATAAAAACATGAAATA
Found at i:50222954 original size:23 final size:22
Alignment explanation
Indices: 50222923--50222978 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
50222913 GTCATTAGGA
* *
50222923 AATTCTGATTTGAATTCAAATTC
1 AATTTTGATTTG-ATTAAAATTC
* *
50222946 AATTTTGATATGATTAAAATTT
1 AATTTTGATTTGATTAAAATTC
*
50222968 AATTTTTATTT
1 AATTTTGATTT
50222979 TAAAACTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
AATTTTGATTTGATTAAAATTC
Found at i:50228768 original size:13 final size:13
Alignment explanation
Indices: 50228750--50228784 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
50228740 TTAATTTATT
50228750 AATATTTTAATGA
1 AATATTTTAATGA
50228763 AATATTTTAATGA
1 AATATTTTAATGA
50228776 AATATTTTA
1 AATATTTTA
50228785 TTTTTATTAT
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:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (13 bp):
AATATTTTAATGA
Found at i:50231110 original size:17 final size:17
Alignment explanation
Indices: 50231067--50231113 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
50231057 AAATTCATGA
*
50231067 AAATG-ATGGTAT-ATG
1 AAATGAATGATATAATG
*
50231082 AAAT-ATTGATATAATG
1 AAATGAATGATATAATG
50231098 AAATGAATGATATAAT
1 AAATGAATGATATAAT
50231114 TTTATGAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAATGAATGATATAATG
Found at i:50232907 original size:15 final size:16
Alignment explanation
Indices: 50232887--50232918 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
50232877 TAATATAAAG
50232887 TGAATTGA-AATATAT
1 TGAATTGAGAATATAT
50232902 TGAATTGAGAATATAT
1 TGAATTGAGAATATAT
50232918 T
1 T
50232919 TGATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (16 bp):
TGAATTGAGAATATAT
Found at i:50232942 original size:20 final size:20
Alignment explanation
Indices: 50232904--50232943 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50232894 AAATATATTG
*
50232904 AATTGAGAATATATTTGATT
1 AATTGAGAATATATCTGATT
50232924 AATTGA-AATATATACTGATT
1 AATTGAGAATATAT-CTGATT
50232944 GAAAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (20 bp):
AATTGAGAATATATCTGATT
Found at i:50233301 original size:18 final size:18
Alignment explanation
Indices: 50233278--50233373 Score: 122
Period size: 18 Copynumber: 5.3 Consensus size: 18
50233268 TAAATAAAGG
50233278 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
50233296 TACTGAATAATTGACTAT
1 TACTGAATAACTGATTAT
* *
50233314 TACTGAATAAAC-GACTGT
1 TACTGAAT-AACTGATTAT
*
50233332 TACTGAATAAATGATTAT
1 TACTGAATAACTGATTAT
*
50233350 TACTGAATAACTGATTAA
1 TACTGAATAACTGATTAT
50233368 TACTGA
1 TACTGA
50233374 TGACTGACTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 2 0.03
18 63 0.94
19 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:50237838 original size:77 final size:76
Alignment explanation
Indices: 50237741--50237896 Score: 276
Period size: 77 Copynumber: 2.0 Consensus size: 76
50237731 TTTACTATTT
*
50237741 ATAAAAGATATTTATATAATAAATAAATTTAATTATGACAAGTATATGGAGATGATGATATACAA
1 ATAAAAGATATTTATATAATAAATAAATTTAATTATAACAAGTATATGGAGATGATGATATACAA
50237806 ATATAAAATAA
66 ATATAAAATAA
*
50237817 ATAATAAGATATTTATATAATAAATAAATTTAATTATAACAAGTGTATGGAGATGATGATATACA
1 ATAA-AAGATATTTATATAATAAATAAATTTAATTATAACAAGTATATGGAGATGATGATATACA
*
50237882 AATGTAAAATAA
65 AATATAAAATAA
50237894 ATA
1 ATA
50237897 TTTGTTATTT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 4 0.05
77 72 0.95
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (76 bp):
ATAAAAGATATTTATATAATAAATAAATTTAATTATAACAAGTATATGGAGATGATGATATACAA
ATATAAAATAA
Found at i:50239550 original size:27 final size:27
Alignment explanation
Indices: 50239520--50239606 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
50239510 GTGATGAAGT
* *
50239520 CACCAGATATAGATATTGTGGTAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
50239547 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
50239574 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
50239601 CACCAG
1 CACCAG
50239607 GACACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 7 0.13
27 45 0.83
28 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:50241838 original size:15 final size:16
Alignment explanation
Indices: 50241818--50241878 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 16
50241808 TAATATAAAG
50241818 TGAATTGAAATATAT-
1 TGAATTGAAATATATC
50241833 TGAATTGAGAATATATC
1 TGAATTGA-AATATATC
50241850 TGATTAGTTGAAATATATAC
1 TGA--A-TTGAAATATAT-C
50241870 TG-ATTGAAA
1 TGAATTGAAA
50241879 ACTGAAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.20
16 13 0.32
17 4 0.10
19 8 0.20
20 7 0.17
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (16 bp):
TGAATTGAAATATATC
Found at i:50241847 original size:16 final size:15
Alignment explanation
Indices: 50241818--50241867 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
50241808 TAATATAAAG
50241818 TGAATTGAAATATAT
1 TGAATTGAAATATAT
50241833 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
50241849 CTGATTAGTTGAAATATAT
1 -TGA--A-TTGAAATATAT
50241868 ACTGATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:50241872 original size:20 final size:20
Alignment explanation
Indices: 50241837--50241874 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50241827 ATATATTGAA
50241837 TTGAGAATATATCTGATTAG
1 TTGAGAATATATCTGATTAG
50241857 TTGA-AATATATACTGATT
1 TTGAGAATATAT-CTGATT
50241875 GAAAACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGAGAATATATCTGATTAG
Found at i:50242235 original size:18 final size:18
Alignment explanation
Indices: 50242212--50242304 Score: 107
Period size: 18 Copynumber: 5.2 Consensus size: 18
50242202 ATAAAGGTAT
50242212 TGAATAACTGATTATTAC
1 TGAATAACTGATTATTAC
* * *
50242230 TGAATAATTGACTGTTAC
1 TGAATAACTGATTATTAC
* *
50242248 TGAATAAAC-GACTGTTAC
1 TGAAT-AACTGATTATTAC
*
50242266 TGAATAAATGATTATTAC
1 TGAATAACTGATTATTAC
*
50242284 TGAATAACTGATTAATAC
1 TGAATAACTGATTATTAC
50242302 TGA
1 TGA
50242305 TGACTGACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 2 0.03
18 60 0.94
19 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAATAACTGATTATTAC
Found at i:50254156 original size:14 final size:15
Alignment explanation
Indices: 50254137--50254165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50254127 AAAGTTAAAA
50254137 TGGA-TTTTCTTGTC
1 TGGATTTTTCTTGTC
50254151 TGGATTTTTCTTGTC
1 TGGATTTTTCTTGTC
50254166 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.59
Consensus pattern (15 bp):
TGGATTTTTCTTGTC
Found at i:50256304 original size:24 final size:24
Alignment explanation
Indices: 50256268--50256322 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
50256258 ACACCTTCAT
* *
50256268 ATACATATCCACATGAACACATAC
1 ATACATATACACATAAACACATAC
* *
50256292 ATACTTATACACATAAACACATAT
1 ATACATATACACATAAACACATAC
50256316 ATACATA
1 ATACATA
50256323 CCTTCCACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:50260726 original size:27 final size:26
Alignment explanation
Indices: 50260691--50260802 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
50260681 AGCATGGCTG
* *
50260691 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
50260717 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
50260745 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
50260772 CCAGATCAGATAAATGTGGCATAGTCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
50260799 CCAG
1 CCAG
50260803 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.06
27 54 0.70
28 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50260755 original size:54 final size:54
Alignment explanation
Indices: 50260691--50260802 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
50260681 AGCATGGCTG
* *
50260691 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAAATGTGGCAGAGCCA
* * *
50260745 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGTCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCA
50260799 CCAG
1 CCAG
50260803 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCA
Found at i:50262223 original size:25 final size:24
Alignment explanation
Indices: 50262190--50262246 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
50262180 AACTCTTACT
50262190 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
50262216 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
50262240 CCTTATC
1 CCTTATC
50262247 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:50262252 original size:24 final size:25
Alignment explanation
Indices: 50262190--50262253 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
50262180 AACTCTTACT
*
50262190 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
50262216 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
50262240 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
50262254 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:50262583 original size:9 final size:9
Alignment explanation
Indices: 50262560--50262610 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
50262550 AAAATTCATT
50262560 GAAAATCACA
1 GAAAATC-CA
50262570 G-AAATCCA
1 GAAAATCCA
50262578 GAAAATCCA
1 GAAAATCCA
* *
50262587 AAAAATCCC
1 GAAAATCCA
*
50262596 GAAAATCCC
1 GAAAATCCA
50262605 GAAAAT
1 GAAAAT
50262611 TGGGGCGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 3 0.08
9 33 0.89
10 1 0.03
ACGTcount: A:0.55, C:0.24, G:0.10, T:0.12
Consensus pattern (9 bp):
GAAAATCCA
Found at i:50268561 original size:27 final size:26
Alignment explanation
Indices: 50268526--50268637 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
50268516 AGCATGGCTG
* *
50268526 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
50268552 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
*
50268580 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
50268607 CCAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
50268634 CCAG
1 CCAG
50268638 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.70
28 18 0.24
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50268590 original size:54 final size:54
Alignment explanation
Indices: 50268526--50268637 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
50268516 AGCATGGCTG
* * * *
50268526 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAT-CAAATAAATGTGGCAGAGCCA
* *
50268580 CCAGAACAGATATATGTGGCAAAGCCACCAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGATCAAATAAATGTGGCAGAGCCA
50268634 CCAG
1 CCAG
50268638 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGATCAAATAAATGTGGCAGAGCCA
Found at i:50270047 original size:25 final size:24
Alignment explanation
Indices: 50270031--50270082 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 24
50270021 TTGCTTCTTG
50270031 ATCAGCTCCTAAATCTTCTCCCCTT
1 ATCAGCTCCTAAATCTTCT-CCCTT
50270056 ATCAGCTCCTAAATCTTCTCCCTT
1 ATCAGCTCCTAAATCTTCTCCCTT
50270080 ATC
1 ATC
50270083 CCCTCCTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.37
Consensus pattern (24 bp):
ATCAGCTCCTAAATCTTCTCCCTT
Found at i:50270088 original size:24 final size:25
Alignment explanation
Indices: 50270031--50270089 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
50270021 TTGCTTCTTG
*
50270031 ATCAGCTCCTAAATCTTCTCCCCTT
1 ATCACCTCCTAAATCTTCTCCCCTT
*
50270056 ATCAGCTCCTAAATCTTCT-CCCTT
1 ATCACCTCCTAAATCTTCTCCCCTT
*
50270080 ATCCCCTCCT
1 ATCACCTCCT
50270090 TACTCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.19, C:0.42, G:0.03, T:0.36
Consensus pattern (25 bp):
ATCACCTCCTAAATCTTCTCCCCTT
Found at i:50294587 original size:11 final size:11
Alignment explanation
Indices: 50294573--50294598 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50294563 CATGAGATAT
50294573 TCGAGAAAGTA
1 TCGAGAAAGTA
50294584 TCGAGAAAGTA
1 TCGAGAAAGTA
50294595 TCGA
1 TCGA
50294599 CGTTCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (11 bp):
TCGAGAAAGTA
Found at i:50294783 original size:42 final size:43
Alignment explanation
Indices: 50294712--50294815 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 43
50294702 TATCGACTCA
*
50294712 TGATTTACATGTAGGACCATGTCCGGGACA-TCGGCATCG-TATT
1 TGATTT-CATGTAAGACCATGTCCGGGACAGT-GGCATCGATATT
* * *
50294755 TGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCCGGGACAGTGGCATCGATATT
*
50294798 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
50294816 CGTCTAGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCCGGGACAGTGGCATCGATATT
Found at i:50294832 original size:43 final size:43
Alignment explanation
Indices: 50294677--50294833 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
50294667 TGTGTTATTG
* *
50294677 TGTAAGACCATGTGTGGGACGTTGGTATCGACTCA--TGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-T-ATTTGA-TTACA
* * * * * *
50294721 TGTAGGACCATGTCCGGGACATCGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
*
50294763 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTACA
* *
50294806 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
50294834 TGTACGGGTT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 36 0.40
44 24 0.27
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:50300587 original size:44 final size:43
Alignment explanation
Indices: 50300524--50300609 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 43
50300514 CATGTGAGCC
*
50300524 AAAATGTCGTGTAGGTACCTCAGGGATGGTGGGAGAACTGATA
1 AAAATGTCGTGTAGGTACCTCAGGAATGGTGGGAGAACTGATA
50300567 NAAAATGTCGTGTAGGTACCTCAGGAATGGTGGGAGAACTGAT
1 -AAAATGTCGTGTAGGTACCTCAGGAATGGTGGGAGAACTGAT
50300610 GCCTTGGAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.23
Consensus pattern (43 bp):
AAAATGTCGTGTAGGTACCTCAGGAATGGTGGGAGAACTGATA
Found at i:50303574 original size:39 final size:40
Alignment explanation
Indices: 50303530--50303697 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
50303520 CGGGCTTTAT
* * *
50303530 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
50303569 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
50303609 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
50303649 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
50303690 CCGGATAT
1 CCGGATAT
50303698 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:50303680 original size:41 final size:40
Alignment explanation
Indices: 50303553--50303697 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
50303543 CTCGCACAAG
* * * * *
50303553 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
50303593 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
50303633 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
50303674 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
50303698 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:50304928 original size:38 final size:38
Alignment explanation
Indices: 50304886--50304961 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
50304876 CAAGAACTCC
*
50304886 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
50304924 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
50304962 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
Found at i:50319371 original size:65 final size:65
Alignment explanation
Indices: 50319290--50319447 Score: 316
Period size: 65 Copynumber: 2.4 Consensus size: 65
50319280 AAACTTTGCT
50319290 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGAGATCGCTTCCGGAATACATCCGTACTTATGTC
1 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGAGATCGCTTCCGGAATACATCCGTACTTATGTC
50319355 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGAGATCGCTTCCGGAATACATCCGTACTTATGTC
1 TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGAGATCGCTTCCGGAATACATCCGTACTTATGTC
50319420 TTCGTGAGGTTTTCACCTCCGCATGGGC
1 TTCGTGAGGTTTTCACCTCCGCATGGGC
50319448 ATAAAGAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 93 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (65 bp):
TTCGTGAGGTTTTCACCTCCGCATGGGCTAGGAGATCGCTTCCGGAATACATCCGTACTTATGTC
Found at i:50322041 original size:10 final size:10
Alignment explanation
Indices: 50322026--50322053 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50322016 AGTAACCTGG
50322026 AAACCAACGA
1 AAACCAACGA
50322036 AAACCAACGA
1 AAACCAACGA
50322046 AAACCAAC
1 AAACCAAC
50322054 CAACCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.32, G:0.07, T:0.00
Consensus pattern (10 bp):
AAACCAACGA
Found at i:50326638 original size:40 final size:40
Alignment explanation
Indices: 50326583--50326760 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
50326573 CGGATGATAA
* *
50326583 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
50326623 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50326663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50326703 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
50326743 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50326761 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.13
40 112 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50338589 original size:40 final size:40
Alignment explanation
Indices: 50338534--50339031 Score: 903
Period size: 40 Copynumber: 12.5 Consensus size: 40
50338524 CGGATGATAA
* *
50338534 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
50338574 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338614 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338654 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338694 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338734 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338774 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338814 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338854 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50338894 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50338934 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50338974 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
50339014 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50339032 TACTTGGTTT
Statistics
Matches: 448, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
39 17 0.04
40 430 0.96
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50341373 original size:32 final size:32
Alignment explanation
Indices: 50341337--50341400 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
50341327 AATGCACGGT
50341337 TATTATCATTTTTGAGCAAATGTTCTCTCATC
1 TATTATCATTTTTGAGCAAATGTTCTCTCATC
50341369 TATTATCATTTTTGAGCAAATGTTCTCTCATC
1 TATTATCATTTTTGAGCAAATGTTCTCTCATC
50341401 CTTTCAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (32 bp):
TATTATCATTTTTGAGCAAATGTTCTCTCATC
Found at i:50346029 original size:44 final size:44
Alignment explanation
Indices: 50345958--50346533 Score: 744
Period size: 44 Copynumber: 13.1 Consensus size: 44
50345948 GAATCCTGCG
* * *
50345958 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* ** *
50346002 GATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * *
50346046 GATTTGGTATCTCTGTGTTGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
50346090 GATTTGGCATCTCTGTATTAGCAGGGAGCAAATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
50346134 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
50346178 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* *
50346222 GATTTGGCGTCTCTGTATTGGC-GAAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAG-AGAGCAGATCGAAGATAGCA
* * * *
50346266 GATTTGGCATCTCTGTGTTGACAGAGAGTAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* *
50346310 GATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* *
50346354 GATTTGG-AGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCA
1 GATTTGGCA-TCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * * *
50346398 GATTTGGCGTCTCTGTATTGTCATAGGGAAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
50346442 GATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-GATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-CA
* *
50346486 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
50346530 GATT
1 GATT
50346534 GGTGTTCTCG
Statistics
Matches: 470, Mismatches: 56, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
43 3 0.01
44 466 0.99
45 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
Found at i:50349447 original size:131 final size:132
Alignment explanation
Indices: 50349193--50349431 Score: 300
Period size: 131 Copynumber: 1.8 Consensus size: 132
50349183 AATTTTTTTT
* * * * * *
50349193 AAATTCTTTAAAACGAAGACAAGATTCGATATTTGGCAATTTGCGGAATCGTGCCCTAACATGTT
1 AAATCCTTTAAAACGAAGACAAGACTCGATATTTGACAATTCGCGGAATCATGCCCTAACATGCT
*
50349258 GGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCGAAGTTTCACTCATGCCTTCT
66 GGGTTGCAATTTCGCGTTTGCTCAAAACAATCGAATATCCCTTCGAAGTTTCACTCATGCCTTCT
50349323 AA
131 AA
* * * * * *
50349325 AAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCT
1 AAATCCTTTAAAACGAAGACAAGACTCGATATTTGACAATTCGCGGAATCATGCCCTAACATGCT
** ** * *
50349389 GGGTTGTGATTTTTCGTTTGTTCAAAACAATCGAATATTCCTT
66 GGGTTGCAATTTCGCGTTTGCTCAAAACAATCGAATATCCCTT
50349432 TAGGTTTTGA
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
131 53 0.60
132 35 0.40
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
AAATCCTTTAAAACGAAGACAAGACTCGATATTTGACAATTCGCGGAATCATGCCCTAACATGCT
GGGTTGCAATTTCGCGTTTGCTCAAAACAATCGAATATCCCTTCGAAGTTTCACTCATGCCTTCT
AA
Found at i:50351445 original size:26 final size:24
Alignment explanation
Indices: 50351393--50351452 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
50351383 GTTATGGCCA
*
50351393 AAAAGTTTATAATTTATATGTTAT
1 AAAAGTTTATAATTAATATGTTAT
50351417 AAAAGTGTTATAATATAATTAT-TTAT
1 AAAAGT-TTATAAT-TAA-TATGTTAT
*
50351443 AAAAATTTAT
1 AAAAGTTTAT
50351453 GGCCAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 11 0.35
26 11 0.35
27 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
AAAAGTTTATAATTAATATGTTAT
Found at i:50351980 original size:12 final size:12
Alignment explanation
Indices: 50351963--50351992 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
50351953 AACCACACAC
50351963 CCGTGTGCTAGG
1 CCGTGTGCTAGG
50351975 CCGTGTGCTAGG
1 CCGTGTGCTAGG
50351987 CCGTGT
1 CCGTGT
50351993 CATCGACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.27, G:0.40, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:50355396 original size:21 final size:23
Alignment explanation
Indices: 50355365--50355413 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
50355355 TTTATAAAGG
50355365 TTATATTTTAATAAATTT-TATA
1 TTATATTTTAATAAATTTATATA
* *
50355387 TTAT-TTTTAATTAATTTATGTA
1 TTATATTTTAATAAATTTATATA
50355409 TTATA
1 TTATA
50355414 AAAAGGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATATTTTAATAAATTTATATA
Found at i:50368390 original size:39 final size:40
Alignment explanation
Indices: 50368295--50368556 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
50368285 TTGAATGATG
*
50368295 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
50368333 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
50368374 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
50368413 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50368452 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
50368491 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
50368530 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50368557 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50381817 original size:49 final size:49
Alignment explanation
Indices: 50381745--50381842 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
50381735 CTTGTTATGG
* *
50381745 CCACTGTAAGATCCTTCTAATGCCATTCAACCTAGCTAATGTTCTTACC
1 CCACTATAAGATCCTTCTAATGCCATTCAACCTAGCTAATGCTCTTACC
50381794 CCACTATAAGATCCTTCTAATGCCATTCAACCTAGCTAATGCTCTTACC
1 CCACTATAAGATCCTTCTAATGCCATTCAACCTAGCTAATGCTCTTACC
50381843 GCTTTCATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (49 bp):
CCACTATAAGATCCTTCTAATGCCATTCAACCTAGCTAATGCTCTTACC
Found at i:50383498 original size:47 final size:47
Alignment explanation
Indices: 50383410--50383673 Score: 211
Period size: 47 Copynumber: 5.7 Consensus size: 47
50383400 GGTAAGGTGT
*
50383410 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCAAGC
* * **
50383457 CGATGCCATGTTCAAGACATGGTCTTACACTGGCTATCATCTTGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATC-TCAAGC
** * * * *
50383505 TAATG-CATGTCCCAGACAT-GTCTGACACTGGCTAACATTTCGAGCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAG-C
* * *
50383551 CGATG-TATGTCCCAGACAT-GTCTTACGCTAGC-ACTCATCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTCAA-GC
** * * * ***
50383597 CGATGCCATGTCCTGGACATGGTCTTATACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-CTCAAGC
*
50383645 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
50383674 AGCACATACA
Statistics
Matches: 170, Mismatches: 38, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
45 4 0.02
46 66 0.39
47 73 0.43
48 26 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAGC
Found at i:50383673 original size:140 final size:140
Alignment explanation
Indices: 50383417--50383673 Score: 363
Period size: 140 Copynumber: 1.8 Consensus size: 140
50383407 TGTCGATGCC
* * * *
50383417 ATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTTCAAGACATGGTCT
1 ATGTCCCAGACATGGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCAAGACATGGTCT
**
50383482 TACACTGGCTATCATCTTGTAGCTAATGCATGTCCCAGACATGTCTGACACTGGCTAACATTTCG
66 TACACTGGCTATCATAATGTAGCTAATGCATGTCCCAGACATGTCTGACACTGGCTAACATTTCG
50383547 AGCCCGATGT
131 AGCCCGATGT
* * **
50383557 ATGTCCCAGACAT-GTCTTACGCTAGCACTCATCTCAATGCCGATGCCATGTCCTGGACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCACACATCTCAA-GCCGATGCCATGTCCAAGACATGGTC
* * * * *
50383621 TTATACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACATGTCTTACACT
65 TTACACTGGCTATCATAATGTAGCTAATGCATGTCCCAGACATGTCTGACACT
50383674 AGCACATACA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
139 20 0.20
140 81 0.80
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (140 bp):
ATGTCCCAGACATGGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCAAGACATGGTCT
TACACTGGCTATCATAATGTAGCTAATGCATGTCCCAGACATGTCTGACACTGGCTAACATTTCG
AGCCCGATGT
Found at i:50386666 original size:39 final size:40
Alignment explanation
Indices: 50386599--50386766 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
50386589 CTCGTTCAAG
* * * **
50386599 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAAA
*
50386638 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* *
50386678 GGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* *
50386718 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
50386758 TGCCTTCGG
1 TGCCTTCGG
50386767 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.25
40 88 0.75
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
Found at i:50386779 original size:40 final size:40
Alignment explanation
Indices: 50386639--50386766 Score: 229
Period size: 40 Copynumber: 3.2 Consensus size: 40
50386629 CTCATACAAT
50386639 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
50386679 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
* * *
50386719 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
50386759 GCCTTCGG
1 GCCTTCGG
50386767 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:50389782 original size:54 final size:53
Alignment explanation
Indices: 50389691--50389798 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 53
50389681 ATATATATAG
***
50389691 CACATAGGGCAAAACAATCATTTTACCATGTAGGGGCATTTCAGTCATTTTAC
1 CACATAGGGCAAAACAATCATTTTACCATGTAGGGGCAAAACAGTCATTTTAC
* *
50389744 CACATAAGGGCAAAACAGTTATTTTACCTCATG-A-GGGCAAAACAGTCATTTTAC
1 CACAT-AGGGCAAAACAATCATTTTA-C-CATGTAGGGGCAAAACAGTCATTTTAC
50389798 C
1 C
50389799 TGAATAAGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 5 0.11
54 36 0.77
55 2 0.04
56 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (53 bp):
CACATAGGGCAAAACAATCATTTTACCATGTAGGGGCAAAACAGTCATTTTAC
Found at i:50389799 original size:27 final size:27
Alignment explanation
Indices: 50389696--50389799 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
50389686 TATAGCACAT
*
50389696 AGGGCAAAACAATCATTTTA-C-CATG
1 AGGGCAAAACAGTCATTTTACCTCATG
*** * *
50389721 TAGGGGCATTTCAGTCATTTTACCACATA
1 -A-GGGCAAAACAGTCATTTTACCTCATG
*
50389750 AGGGCAAAACAGTTATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATG
50389777 AGGGCAAAACAGTCATTTTACCT
1 AGGGCAAAACAGTCATTTTACCT
50389800 GAATAAGGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.90
28 2 0.03
29 3 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCTCATG
Found at i:50395092 original size:12 final size:12
Alignment explanation
Indices: 50395075--50395109 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
50395065 GTTATCTACA
50395075 GCGGCGTTTTTT
1 GCGGCGTTTTTT
50395087 GCGGCGTTTTTT
1 GCGGCGTTTTTT
50395099 GCGGCGCTTTT
1 GCGGCG-TTTT
50395110 ATAAGGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.00, C:0.20, G:0.34, T:0.46
Consensus pattern (12 bp):
GCGGCGTTTTTT
Found at i:50397001 original size:13 final size:13
Alignment explanation
Indices: 50396962--50397003 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
50396952 ATGTGTGAAC
50396962 CCCTAGGTGCGAA
1 CCCTAGGTGCGAA
*
50396975 CCCTACTTGTGCGAA
1 CCCTA--GGTGCGAA
50396990 CCCTAGGTGCGAA
1 CCCTAGGTGCGAA
50397003 C
1 C
50397004 TTTGTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (13 bp):
CCCTAGGTGCGAA
Found at i:50397013 original size:28 final size:28
Alignment explanation
Indices: 50396944--50397018 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
50396934 TATCTATGCA
*
50396944 AACTTTGTATGTGTGAACCCCTAGGTGCG
1 AACTTTGTATGTGAGAA-CCCTAGGTGCG
* ** *
50396973 AACCCTACT-TGTGCGAACCCTAGGTGCG
1 AA-CTTTGTATGTGAGAACCCTAGGTGCG
50397001 AACTTTGTATGTGAGAAC
1 AACTTTGTATGTGAGAAC
50397019 TCTAAGTACG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
27 3 0.08
28 21 0.58
29 9 0.25
30 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (28 bp):
AACTTTGTATGTGAGAACCCTAGGTGCG
Found at i:50405184 original size:17 final size:17
Alignment explanation
Indices: 50405164--50405205 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
50405154 TTTCAAACTT
* *
50405164 AAATTTTTTAAAGCTAG
1 AAATTTTTGAAAGCTAA
50405181 AAATTTTTGAAAGCTAA
1 AAATTTTTGAAAGCTAA
50405198 AAATTTTT
1 AAATTTTT
50405206 AGAGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (17 bp):
AAATTTTTGAAAGCTAA
Found at i:50411388 original size:30 final size:30
Alignment explanation
Indices: 50411354--50411416 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
50411344 ATTTATTTTA
50411354 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
50411384 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
50411414 TTG
1 TTG
50411417 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Done.