Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 308 of 427
Found at i:89414140 original size:51 final size:51
Alignment explanation
Indices: 89413965--89414142 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 51
89413955 ACTAGTGCCT
* * * *
89413965 CAAGTGTGGTACTATGTGAAGGCCATTTTGAGAAG-AGATAGCTTGGTC-A
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGACTA
* *
89414014 CAAGTGTGGTACTGTGTGAAGGCCACTTTGTGAAGAAAGATATCTTTGA-TCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGACT-A
* * *
89414066 CAAGTGTGGTACTACGTAAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGACTA
* * *
89414117 CAAGGGTGGTATTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
89414143 CGGGTATCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 32 0.30
51 42 0.39
52 34 0.31
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGACTA
Found at i:89417771 original size:26 final size:26
Alignment explanation
Indices: 89417740--89417847 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
89417730 TGAAATGCCC
89417740 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
89417766 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
89417792 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
89417818 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
89417844 ATCA
1 ATCA
89417848 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:89423079 original size:52 final size:50
Alignment explanation
Indices: 89422957--89423126 Score: 236
Period size: 52 Copynumber: 3.4 Consensus size: 50
89422947 ACTAGTGCCT
*
89422957 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGACA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGG-CA
*
89423006 CAAGTGTGGTACTATGTGAAGGCCAATTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGG-CA
* *
89423058 CAAGTGTGGTACTATGTGAAGGCCACTTGGTGAAGAAGGTAGCTTTGGCTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGC-A
* *
89423109 CAAGGGTAGTACTATGTG
1 CAAGTGTGGTACTATGTG
89423127 CAGGTCACCG
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 33 0.30
50 1 0.01
51 36 0.33
52 39 0.36
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGCA
Found at i:89425963 original size:39 final size:39
Alignment explanation
Indices: 89425698--89425952 Score: 390
Period size: 39 Copynumber: 6.5 Consensus size: 39
89425688 TAATGGAGAA
*
89425698 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGATGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
89425737 TTATATCCGAGCTAAGT-CCGAAGGAATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
89425775 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
89425814 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
89425853 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
89425892 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
89425931 TTATAT-CGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
89425953 CATGCTTTGT
Statistics
Matches: 202, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 39 0.19
39 151 0.75
40 12 0.06
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:89425969 original size:117 final size:116
Alignment explanation
Indices: 89425697--89425952 Score: 390
Period size: 116 Copynumber: 2.2 Consensus size: 116
89425687 ATAATGGAGA
89425697 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGATGGTGTTATATCCGAGCTAAGTCCGAAGGA
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGATGGTGTTATATCCGAGCTAAGTCCGAAGGA
*
89425762 ATTCGTGCTAGTGTTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGT
66 ATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * *
89425813 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGATGGTGTTATATCCGAGCTAAGT-CCGAAGG
* * * *
89425878 CATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGT
65 AATTCGTGCTAGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
89425930 ATTATAT-CGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
89425953 CATGCTTTGT
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
116 59 0.46
117 49 0.39
118 19 0.15
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (116 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGATGGTGTTATATCCGAGCTAAGTCCGAAGGA
ATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:89431875 original size:19 final size:19
Alignment explanation
Indices: 89431839--89431881 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89431829 ATTTTTATTT
*
89431839 AATA-TTAATATAATTATA
1 AATATTTAATATAACTATA
* *
89431857 ATTATTTAATATTACTATA
1 AATATTTAATATAACTATA
89431876 AATATT
1 AATATT
89431882 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTTAATATAACTATA
Found at i:89438843 original size:24 final size:24
Alignment explanation
Indices: 89438798--89438844 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
89438788 AAATAATCTA
* * * *
89438798 AAATAATCAGTGTTTTATTGAAAC
1 AAATAAACAGAGTTTAACTGAAAC
89438822 AAATAAACAGAGTTTAACTGAAA
1 AAATAAACAGAGTTTAACTGAAA
89438845 GATTATTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (24 bp):
AAATAAACAGAGTTTAACTGAAAC
Found at i:89444790 original size:91 final size:91
Alignment explanation
Indices: 89444628--89444835 Score: 247
Period size: 91 Copynumber: 2.3 Consensus size: 91
89444618 CGGACACTCT
* * * *
89444628 AGTTTGTAGATGAACCACTAGTGTTTGTTGGTTAATATATTGCCAGTAGGTTGTGAATGCACAAC
1 AGTTTGTAGATGAACCACCAATGTTTGTAGGTTAATACATTGCCAGTAGGTTGTGAATGCACAAC
* *
89444693 ACATTTGCATATAAAAGCTGCCTATA
66 ACATTTGAAAATAAAAGCTGCCTATA
* * * *
89444719 AGTTTGTTGATGAACTACCAATTTTTGTAGGTTAATACATTGCTAGTAGGTTGTGAATGCACAAC
1 AGTTTGTAGATGAACCACCAATGTTTGTAGGTTAATACATTGCCAGTAGGTTGTGAATGCACAAC
** *
89444784 GTATTTGAAAATAAAAGTTGCC-ACTA
66 ACATTTGAAAATAAAAGCTGCCTA-TA
* * * *
89444810 AATTTGTGGATAAACCACCAGTGTTT
1 AGTTTGTAGATGAACCACCAATGTTT
89444836 ACAGTTTGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 1 0.01
91 96 0.99
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (91 bp):
AGTTTGTAGATGAACCACCAATGTTTGTAGGTTAATACATTGCCAGTAGGTTGTGAATGCACAAC
ACATTTGAAAATAAAAGCTGCCTATA
Found at i:89444974 original size:38 final size:39
Alignment explanation
Indices: 89444927--89445030 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 39
89444917 GTATAGAAAT
*
89444927 AGTAAACATGCTTAACATGTATTCGGTTT-AACAGTAAC
1 AGTAGACATGCTTAACATGTATTCGGTTTCAACAGTAAC
* *
89444965 AGTAGACATGCTTATCATGTATTC-ATTTCAACAGTAAC
1 AGTAGACATGCTTAACATGTATTCGGTTTCAACAGTAAC
* * * *
89445003 AATAGGCATGTTTAATATGTATTCGGTT
1 AGTAGACATGCTTAACATGTATTCGGTT
89445031 CAATAGTGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
37 3 0.05
38 50 0.91
39 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (39 bp):
AGTAGACATGCTTAACATGTATTCGGTTTCAACAGTAAC
Found at i:89448250 original size:38 final size:38
Alignment explanation
Indices: 89448193--89448305 Score: 145
Period size: 38 Copynumber: 3.0 Consensus size: 38
89448183 GTATAGAAAT
* *
89448193 AGTAGACATGCTTAACATGTATTCAGTTTAACAATAAC
1 AGTAGACATGTTTAACATGTATTCAGTTCAACAATAAC
* *
89448231 AGTAGATATGTTTATCATGTATTCAGTTCAACAATAAC
1 AGTAGACATGTTTAACATGTATTCAGTTCAACAATAAC
* * * **
89448269 AATAGGCACGTTTAACATGTATTTGGTTCAACAATAA
1 AGTAGACATGTTTAACATGTATTCAGTTCAACAATAA
89448306 TGGTAGGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (38 bp):
AGTAGACATGTTTAACATGTATTCAGTTCAACAATAAC
Found at i:89451970 original size:18 final size:18
Alignment explanation
Indices: 89451938--89451972 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89451928 GCTATTTTTA
* *
89451938 TATATATATATATTATAT
1 TATAGATATAGATTATAT
89451956 TATAGATATAGATTATA
1 TATAGATATAGATTATA
89451973 GACTATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
TATAGATATAGATTATAT
Found at i:89452259 original size:10 final size:10
Alignment explanation
Indices: 89452246--89452270 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
89452236 AAAGTTAATT
89452246 TATGTTAAAA
1 TATGTTAAAA
89452256 TATGTTAAAA
1 TATGTTAAAA
89452266 TATGT
1 TATGT
89452271 CATAGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (10 bp):
TATGTTAAAA
Found at i:89452622 original size:31 final size:31
Alignment explanation
Indices: 89452557--89452622 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
89452547 AAAGTACATG
*
89452557 GACTAAATTTCAAATTTATGAAGAATACACA
1 GACTAAATTTCAAATTTATGAAGAATACAAA
* *
89452588 GACTAAA-TTCTAAATTTACT-TAGAGTACAAA
1 GACTAAATTTC-AAATTTA-TGAAGAATACAAA
89452619 GACT
1 GACT
89452623 TGTTGCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.10
31 26 0.87
32 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (31 bp):
GACTAAATTTCAAATTTATGAAGAATACAAA
Found at i:89453098 original size:22 final size:21
Alignment explanation
Indices: 89453073--89453125 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
89453063 GTAGTAATAT
*
89453073 AATAGCTAAAT-GACAACAAAAC
1 AATAGCAAAATAG-CAAC-AAAC
*
89453095 AATATCAAAATAGCAACAAAC
1 AATAGCAAAATAGCAACAAAC
*
89453116 AATAACAAAA
1 AATAGCAAAA
89453126 CAACAGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.48
22 13 0.48
23 1 0.04
ACGTcount: A:0.64, C:0.17, G:0.06, T:0.13
Consensus pattern (21 bp):
AATAGCAAAATAGCAACAAAC
Found at i:89454284 original size:60 final size:58
Alignment explanation
Indices: 89454150--89454297 Score: 163
Period size: 60 Copynumber: 2.5 Consensus size: 58
89454140 TACTATTTGA
* * * *
89454150 CAAATTTAGCTACCAAATTGAACAAAAAAAGCTTAGGGGCCAAATTAGAAGAAAGTGT
1 CAAATTTAGGTACCAAATTGAACAAAAAAAGCTTAGCGACCAAAATAGAAGAAAGTGT
* * * * * *
89454208 CAAGTTCAGGTGCCAAATTGAACACCAAAAAAGCTTAGCTACCAAAATAGGAA-AAATTTT
1 CAAATTTAGGTACCAAATTGAACA--AAAAAAGCTTAGCGACCAAAATA-GAAGAAAGTGT
*
89454268 CAAATTTAGGTACCAAATTGGACAAAAAAA
1 CAAATTTAGGTACCAAATTGAACAAAAAAA
89454298 AGCATAGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
58 26 0.36
60 44 0.60
61 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (58 bp):
CAAATTTAGGTACCAAATTGAACAAAAAAAGCTTAGCGACCAAAATAGAAGAAAGTGT
Found at i:89455818 original size:3 final size:3
Alignment explanation
Indices: 89455812--89455855 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
89455802 AAGAAGATAC
89455812 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
89455856 AAATTGAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:89458824 original size:38 final size:38
Alignment explanation
Indices: 89458781--89458924 Score: 126
Period size: 38 Copynumber: 3.6 Consensus size: 38
89458771 TGTATAACCG
89458781 TATCCACTTAGCACCACGTTACATATTTAACCGTGGTA
1 TATCCACTTAGCACCACGTTACATATTTAACCGTGGTA
* ** *
89458819 TATCCACTTAACACCACGTTAATGAATCAATATATGTAATTGTGGCA
1 TATCCACTTAGCACCACG-T--T--A-C-ATAT-T-TAACCGTGGTA
* * *
89458866 TATACACTTAGCACCACATTACATGTTTAACCGTGGTA
1 TATCCACTTAGCACCACGTTACATATTTAACCGTGGTA
* *
89458904 TATTCACTTTGCACCACGTTA
1 TATCCACTTAGCACCACGTTA
89458925 ATGAATCAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
38 43 0.52
39 2 0.02
40 3 0.04
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 4 0.05
46 2 0.02
47 23 0.28
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (38 bp):
TATCCACTTAGCACCACGTTACATATTTAACCGTGGTA
Found at i:89458965 original size:47 final size:48
Alignment explanation
Indices: 89458893--89459015 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
89458883 ATTACATGTT
*
89458893 TAACCGTGGTATAT-TCACTTTGCACCACGTTA-ATGAATCAATAT-ATG
1 TAACCGTGGTATATCT-ACTTAGCACCACGTTACATGAATCAATATGA-G
* * *
89458940 TAACCGTGGCATATCTACTTAGCACCATGTTACATGTATCAATATGAG
1 TAACCGTGGTATATCTACTTAGCACCACGTTACATGAATCAATATGAG
* *
89458988 TAATCGTGGTATATCCACTTAGCACCAC
1 TAACCGTGGTATATCTACTTAGCACCAC
89459016 ACTTTTTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
47 27 0.42
48 37 0.57
49 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (48 bp):
TAACCGTGGTATATCTACTTAGCACCACGTTACATGAATCAATATGAG
Found at i:89458973 original size:85 final size:84
Alignment explanation
Indices: 89458785--89458976 Score: 294
Period size: 85 Copynumber: 2.3 Consensus size: 84
89458775 TAACCGTATC
*
89458785 CACTTAGCACCACGTTACATATTTAACCGTGGTATATCCACTTAACACCACGTTAATGAATCAAT
1 CACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCACGTTAATGAATCAAT
**
89458850 ATATGTAATTGTGGCATAT
66 ATATGTAACCGTGGCATAT
* * **
89458869 ACACTTAGCACCACATTACATGTTTAACCGTGGTATATTCACTTTGCACCACGTTAATGAATCAA
1 -CACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCACGTTAATGAATCAA
89458934 TATATGTAACCGTGGCATAT
65 TATATGTAACCGTGGCATAT
*
89458954 CTACTTAGCACCATGTTACATGT
1 C-ACTTAGCACCACGTTACATGT
89458977 ATCAATATGA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 1 0.01
85 96 0.99
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (84 bp):
CACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAACACCACGTTAATGAATCAAT
ATATGTAACCGTGGCATAT
Found at i:89465564 original size:27 final size:28
Alignment explanation
Indices: 89465507--89465576 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
89465497 AAATTTGTAC
**
89465507 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89465535 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89465562 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89465577 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89473549 original size:27 final size:28
Alignment explanation
Indices: 89473492--89473561 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
89473482 AAATTTGTAC
* **
89473492 AGCACTATGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89473520 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
89473547 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
89473562 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:89473572 original size:27 final size:27
Alignment explanation
Indices: 89473515--89473573 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
89473505 CGAATTTGAT
* *
89473515 TATATAGCACTAAGTGTGCGAGCTGAT
1 TATATAGCACTAAGTGTGCGAGCTCAC
89473542 TATATAGCACTAAGTGTGCG-GACTCAC
1 TATATAGCACTAAGTGTGCGAG-CTCAC
89473569 TATAT
1 TATAT
89473574 GCTTATGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (27 bp):
TATATAGCACTAAGTGTGCGAGCTCAC
Found at i:89478853 original size:16 final size:16
Alignment explanation
Indices: 89478797--89478857 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
89478787 AATTTTTTTA
*
89478797 TATAAAAAACATAAAAT
1 TATAAAAAATA-AAAAT
* *
89478814 TAT-AAAAATTATAAT
1 TATAAAAAATAAAAAT
* **
89478829 TTTTTAAAATAAAAAT
1 TATAAAAAATAAAAAT
89478845 TATAAAAAATAAA
1 TATAAAAAATAAA
89478858 CTCATTAAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
15 6 0.18
16 24 0.73
17 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TATAAAAAATAAAAAT
Found at i:89479096 original size:19 final size:20
Alignment explanation
Indices: 89479074--89479116 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
89479064 TTTTTTCATA
89479074 TTTTGATATTTTAAA-A-TTT
1 TTTTGA-ATTTTAAAGAGTTT
89479093 TTTTGAATTTTAAAGAGTTT
1 TTTTGAATTTTAAAGAGTTT
89479113 TTTT
1 TTTT
89479117 TTCATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTGAATTTTAAAGAGTTT
Found at i:89479578 original size:16 final size:17
Alignment explanation
Indices: 89479534--89479580 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
89479524 TATTTTTGAA
*
89479534 TTTTAAAGAATTTTTATT
1 TTTTAAA-ATTTTTTATT
89479552 TTTCATAAAATTTTTTA-T
1 TTT--TAAAATTTTTTATT
89479570 TTTTAAAATTT
1 TTTTAAAATTT
89479581 ATGTTTTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 8 0.31
18 7 0.27
19 7 0.27
20 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTTTTATT
Found at i:89486625 original size:49 final size:49
Alignment explanation
Indices: 89486528--89486653 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
89486518 AGATGCCGAC
* *
89486528 GCCATGTCCCAGACATGGTCTTACAGTGGCTTTCATATAGCGAGGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCATATAGCGAGGTCGAT
* **
89486578 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATTG-GTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATATAGCGAG-GTCGAT
*
89486627 GCCATGCCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
89486654 ACACACCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.77
50 15 0.22
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCATATAGCGAGGTCGAT
Found at i:89486779 original size:46 final size:46
Alignment explanation
Indices: 89486713--89486839 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 46
89486703 TATATCGCGA
* * *
89486713 GGCCGATACATGTCCCAGACATGTCTTATACTAGCTCTCGT-CTTAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGC-T-AT
* *
89486760 -GCCGATGCATGTCCTAGACATGTCTTACACTAACTCTCATGCTAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAT
**
89486805 GGTTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
89486840 ACACATATCA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 2 0.03
46 66 0.96
47 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAT
Found at i:89493023 original size:21 final size:20
Alignment explanation
Indices: 89492989--89493028 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
89492979 CTCTTGAAAT
*
89492989 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
89493009 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
89493029 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:89493648 original size:44 final size:44
Alignment explanation
Indices: 89493585--89493696 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
89493575 TGTCGATGCC
* ** *
89493585 ATGTCCCAGACAGGTCTTACACTGACACGTCACAAGCTGACGCA
1 ATGTCCCAGACAGGTCTTACACTAACACACCACAAGCTAACGCA
*
89493629 ATGTCCCAGACAGGTCTTACACTAACACACCACAAGCTAACGCC
1 ATGTCCCAGACAGGTCTTACACTAACACACCACAAGCTAACGCA
* *
89493673 ATGTCTCAGGCAGGTCTTACACTA
1 ATGTCCCAGACAGGTCTTACACTA
89493697 GCTTGTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (44 bp):
ATGTCCCAGACAGGTCTTACACTAACACACCACAAGCTAACGCA
Found at i:89495377 original size:21 final size:22
Alignment explanation
Indices: 89495353--89495411 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
89495343 CTACCGTTAA
89495353 AACT-AGGAGTTCTATCGATAC
1 AACTCAGGAGTTCTATCGATAC
*
89495374 AACTCTGG-GTTCTA-CTGATAC
1 AACTCAGGAGTTCTATC-GATAC
*
89495395 AACTCA-GACTTCTATCG
1 AACTCAGGAGTTCTATCG
89495412 GTAGAACGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (22 bp):
AACTCAGGAGTTCTATCGATAC
Found at i:89495760 original size:121 final size:120
Alignment explanation
Indices: 89495488--89495762 Score: 291
Period size: 121 Copynumber: 2.3 Consensus size: 120
89495478 TATCGATACA
* * *
89495488 ACCAGAGTTATACCGATAACTTGAGAACTTCTACTGAAATAAGTCAAAACAATAGCCAAAATTTA
1 ACCAGAGTTCTACCGAT-ACTTGAGAACTTCTACGGAAACAAGTCAAAACAATAGCCAAAATTTA
* * ** **
89495553 GCCCCTCCGGCACTTCTACCGATATTTTCTAGGTTCTACCGATACTAGTTGAAACC
65 GCCCCGCCGGCACTTCTACCGATATCTGATAGGTTCTACCGATACTAAATGAAACC
* ** * * * *
89495609 ACCAGGGTTCTATTGCTACCTTGAGGACTTCTACGGAAACAAGTCAAAATAGTAGCCAAAATTTA
1 ACCAGAGTTCTACCGATA-CTTGAGAACTTCTACGGAAACAAGTCAAAACAATAGCCAAAATTTA
* ** * * *
89495674 GCCTCGCTTGCACTTCTACCGATACTCTGATGGGTTCTACTGGTACTAAATGAAACC
65 GCCCCGCCGGCACTTCTACCGATA-TCTGATAGGTTCTACCGATACTAAATGAAACC
**
89495731 -CTCAGAGTTCTACCGATACAGGAGAACTTCTA
1 AC-CAGAGTTCTACCGATACTTGAGAACTTCTA
89495763 TCAATAGAAC
Statistics
Matches: 122, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
120 1 0.01
121 85 0.70
122 36 0.30
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (120 bp):
ACCAGAGTTCTACCGATACTTGAGAACTTCTACGGAAACAAGTCAAAACAATAGCCAAAATTTAG
CCCCGCCGGCACTTCTACCGATATCTGATAGGTTCTACCGATACTAAATGAAACC
Found at i:89496029 original size:18 final size:18
Alignment explanation
Indices: 89496008--89496045 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
89495998 GAACTCAAGG
89496008 TTCCAATTCTTCTCAATA
1 TTCCAATTCTTCTCAATA
89496026 TTCCAATTCTTCTCAATA
1 TTCCAATTCTTCTCAATA
89496044 TT
1 TT
89496046 TTACTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCCAATTCTTCTCAATA
Found at i:89497886 original size:40 final size:40
Alignment explanation
Indices: 89497812--89498032 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
89497802 AACCCAAGTA
* *
89497812 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
89497851 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
89497891 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
89497931 CCTTCGGGACTTAGCCCGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
89497971 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89498010 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89498033 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.23
40 122 0.75
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89506342 original size:40 final size:40
Alignment explanation
Indices: 89506268--89506488 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
89506258 AACCCAAGTA
* *
89506268 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
89506307 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
89506347 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
89506387 CCTTCGGGACTTAGCCCGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
89506427 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89506466 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89506489 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.23
40 122 0.75
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89509482 original size:18 final size:18
Alignment explanation
Indices: 89509455--89509492 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
89509445 TATGTTTGCA
89509455 AAGAAATTCAA-AAAGCTC
1 AAGAAATTCAACAAAG-TC
*
89509473 AAGAAGTTCAACAAAGTC
1 AAGAAATTCAACAAAGTC
89509491 AA
1 AA
89509493 AAGATTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (18 bp):
AAGAAATTCAACAAAGTC
Found at i:89520541 original size:22 final size:22
Alignment explanation
Indices: 89520511--89520555 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
89520501 ATTGTATGGT
*
89520511 TTATGAAT-GCATGATAATTGCA
1 TTATGAATGGCATGA-AAATGCA
*
89520533 TTATTAATGGCATGAAAATGCA
1 TTATGAATGGCATGAAAATGCA
89520555 T
1 T
89520556 GAAATGCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
TTATGAATGGCATGAAAATGCA
Found at i:89524704 original size:40 final size:40
Alignment explanation
Indices: 89524621--89524788 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
89524611 AAATTTAAAG
* * * ** *
89524621 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
89524661 ATATTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
89524701 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
89524741 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
89524781 ATATCCGG
1 ATATCCGG
89524789 TTATATTCCA
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.04
40 98 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:89540263 original size:40 final size:40
Alignment explanation
Indices: 89540197--89540347 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
89540187 AAATTTAAAG
* * *
89540197 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
89540236 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
89540276 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
89540316 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
89540348 ACGTGATTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:89541149 original size:23 final size:23
Alignment explanation
Indices: 89541123--89541171 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
89541113 ACCAAAATTC
89541123 ATAGGAATGGAATTAAATAGTGA
1 ATAGGAATGGAATTAAATAGTGA
89541146 ATAGGAATGGAATTAAATAGTGA
1 ATAGGAATGGAATTAAATAGTGA
89541169 ATA
1 ATA
89541172 AGCTATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (23 bp):
ATAGGAATGGAATTAAATAGTGA
Found at i:89555048 original size:43 final size:42
Alignment explanation
Indices: 89554971--89555124 Score: 200
Period size: 42 Copynumber: 3.6 Consensus size: 42
89554961 TACTGTACCA
* * *
89554971 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
* * * *
89555013 ATGCTAATAGCCCAGCTATGGTCTTACAAGAAATCTCATACCG
1 ATGC-CATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
* * * *
89555056 ATGCCATATCCCAAATATGGTCTTATACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
89555098 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
89555125 CATAATCTCA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 59 0.63
43 35 0.37
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
Found at i:89561871 original size:294 final size:294
Alignment explanation
Indices: 89561342--89561909 Score: 825
Period size: 294 Copynumber: 1.9 Consensus size: 294
89561332 AGGCTATTAC
* * *
89561342 AATAGTAGCCAAAGTTCAGCCTCCCCTGCACTTCTACCAATACTCTGATATGTTCTACTTATACC
1 AATAGTAGCCAAAGTTCAGCCTCCCCTGCACTTCTACCAATACTCTAATAGGTTCTACTGATACC
* * *
89561407 AAATGAAACCCTTAGAGTTCTACCAATACAGGAGAACTTCTACAGATAGAACAAGCCTGACGGTC
66 AAATGAAACCCTCAAAGTTCTACCAATACAGGAGAACTTCTACAGATAGAACAAGCCCGACGGTC
* * * *
89561472 ATATTTTAGAAAGACTTTTACCAATACAAGACCTCTTCTATCGATACAACGAAGCTGCGGACTGC
131 ATATTTTAGAAAGACTTCTACCAATACAAGACCTCTTCTATCCATACAACGAAGCTGCAGACTAC
* * * * *
89561537 ATTTGATGCTAATTTTTATGGCTGCAATAACTCTAATTTGTTTCTAGCGGCTACAAAAGTTCACA
196 ATTTAATGCTAATTTTTATGGCTGCAACAACTCTAATTTGTTTCTAACGGCTACAAAAGTCCAAA
89561602 AGGTTGTTAGAGGATTTCTACCAAAACAAGTCAA
261 AGGTTGTTAGAGGATTTCTACCAAAACAAGTCAA
* * * * *
89561636 AATAGTAGCCAAATTTCAGCCTCTCCTGCACTTCTATCGATACTCTAATGGGTTCTACTGATACC
1 AATAGTAGCCAAAGTTCAGCCTCCCCTGCACTTCTACCAATACTCTAATAGGTTCTACTGATACC
* * * ** *
89561701 AAATGAAACCCTCAAAGTTCTAGCGATACATGAGAACTTCTATTGATAGAACAAGCCCGATGGTC
66 AAATGAAACCCTCAAAGTTCTACCAATACAGGAGAACTTCTACAGATAGAACAAGCCCGACGGTC
* *
89561766 ATATTTTGGAAAGACTTCTACCAATACAAGA-CTCCTTCTA-CCATTACAACGAAGCTGTAGACT
131 ATATTTTAGAAAGACTTCTACCAATACAAGACCT-CTTCTATCCA-TACAACGAAGCTGCAGACT
* * *
89561829 ACATTTAATGCTAGTTTTTATGGTTGCAACGACTCTAATTTGTTTCTAACGGCTACAAAAGTCCA
194 ACATTTAATGCTAATTTTTATGGCTGCAACAACTCTAATTTGTTTCTAACGGCTACAAAAGTCCA
89561894 AAAGGTTGTTAGAGGA
259 AAAGGTTGTTAGAGGA
89561910 CTTAAATAAA
Statistics
Matches: 241, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
293 4 0.02
294 237 0.98
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (294 bp):
AATAGTAGCCAAAGTTCAGCCTCCCCTGCACTTCTACCAATACTCTAATAGGTTCTACTGATACC
AAATGAAACCCTCAAAGTTCTACCAATACAGGAGAACTTCTACAGATAGAACAAGCCCGACGGTC
ATATTTTAGAAAGACTTCTACCAATACAAGACCTCTTCTATCCATACAACGAAGCTGCAGACTAC
ATTTAATGCTAATTTTTATGGCTGCAACAACTCTAATTTGTTTCTAACGGCTACAAAAGTCCAAA
AGGTTGTTAGAGGATTTCTACCAAAACAAGTCAA
Found at i:89562869 original size:105 final size:105
Alignment explanation
Indices: 89562678--89562872 Score: 239
Period size: 105 Copynumber: 1.9 Consensus size: 105
89562668 CAGATTGTTA
* * *
89562678 TGATCTTAAATCAACTAACCTTTGTAAAATCAACTGTGAACATAGCTCATCAAGCTATTTAAGAG
1 TGATATTAAAGCAACAAACCTTTGTAAAATCAACTGTGAACATAGCTCATCAAGCTATTTAAGAG
* *
89562743 TTGCAATCTTAAACCAGCTAACTTAAAGATGAATAGGTTG
66 TTACAATCTTAAACCAACTAACTTAAAGATGAATAGGTTG
* * * * * * *
89562783 TGATATTAAAGCAACAAACCTTTGTAAAAT-TAGTCGTGAACGTAGGTCATCATGCTGTTTAGGA
1 TGATATTAAAGCAACAAACCTTTGTAAAATCAACT-GTGAACATAGCTCATCAAGCTATTTAAGA
* * *
89562847 TTTACGATCTTAAATCAACTAACTTA
65 GTTACAATCTTAAACCAACTAACTTA
89562873 CTTTAATTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
104 2 0.03
105 72 0.97
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (105 bp):
TGATATTAAAGCAACAAACCTTTGTAAAATCAACTGTGAACATAGCTCATCAAGCTATTTAAGAG
TTACAATCTTAAACCAACTAACTTAAAGATGAATAGGTTG
Found at i:89569864 original size:67 final size:66
Alignment explanation
Indices: 89569786--89569910 Score: 182
Period size: 67 Copynumber: 1.9 Consensus size: 66
89569776 TTTAACAAAA
*
89569786 TTTTTTCTCTCATTTTCTCTCTTGCCAAA-CACCACTTTTT-TTCTTCAAAACACATGGTCTGCC
1 TTTTTTCTCTCAGTTTCTCTCTTG-CAAAGCACCA-TTTTTCTTCTTCAAAACACATGGTCTGCC
89569849 ATT
64 ATT
* *
89569852 TTTTTTCCTCTCAGTTTCTCTCTTGCAAAGCACTATTTTTCTTCTTCAAAACATATGGT
1 TTTTTT-CTCTCAGTTTCTCTCTTGCAAAGCACCATTTTTCTTCTTCAAAACACATGGT
89569911 TCTCTCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
66 15 0.28
67 38 0.72
ACGTcount: A:0.20, C:0.26, G:0.07, T:0.46
Consensus pattern (66 bp):
TTTTTTCTCTCAGTTTCTCTCTTGCAAAGCACCATTTTTCTTCTTCAAAACACATGGTCTGCCAT
T
Found at i:89577178 original size:14 final size:13
Alignment explanation
Indices: 89577159--89577189 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
89577149 AAATTATAAC
89577159 TTAATTAATCTTAA
1 TTAATTAAT-TTAA
89577173 TTAATTAATTTAA
1 TTAATTAATTTAA
89577186 TTAA
1 TTAA
89577190 ACATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTTAA
Found at i:89577346 original size:17 final size:17
Alignment explanation
Indices: 89577326--89577360 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89577316 ACTTTTTTCT
89577326 TAATTAAAATTTAATAA
1 TAATTAAAATTTAATAA
* *
89577343 TAATTAAAGTTTTATAA
1 TAATTAAAATTTAATAA
89577360 T
1 T
89577361 TTAGTCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAATTAAAATTTAATAA
Found at i:89581001 original size:21 final size:21
Alignment explanation
Indices: 89580977--89581031 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
89580967 TCAATAATTT
89580977 ATAATTATTTTTATAAACTTC
1 ATAATTATTTTTATAAACTTC
* * *
89580998 ATAATTTTTTTTGTAAATTTC
1 ATAATTATTTTTATAAACTTC
* *
89581019 -TAATAAATTTTAT
1 ATAATTATTTTTAT
89581032 GATTTTTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
ATAATTATTTTTATAAACTTC
Found at i:89584553 original size:15 final size:15
Alignment explanation
Indices: 89584530--89584568 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
89584520 CAACTTCTCT
* *
89584530 TAATTATAATGAAAA
1 TAATAATAATCAAAA
*
89584545 TAATAATAATCCAAA
1 TAATAATAATCAAAA
89584560 TAATAATAA
1 TAATAATAA
89584569 GAAGGAAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (15 bp):
TAATAATAATCAAAA
Found at i:89585487 original size:29 final size:29
Alignment explanation
Indices: 89585423--89585528 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
89585413 TTCACATACC
* * *
89585423 TGTATTTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
89585451 T-TCCTATGACCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
89585480 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
89585509 TTTATATGGCCCATTAGGCC
1 TGTATATGGCCCATTAGGCC
89585529 TAGCCACATT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.23
29 48 0.74
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:89588153 original size:9 final size:8
Alignment explanation
Indices: 89588139--89588186 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
89588129 TAAACATTTG
89588139 TTTTATAT
1 TTTTATAT
89588147 ATTTTATAT
1 -TTTTATAT
*
89588156 TTTTCATTT
1 TTTT-ATAT
89588165 GTTTTATAT
1 -TTTTATAT
89588174 ATTTTATAT
1 -TTTTATAT
89588183 TTTT
1 TTTT
89588187 CTACGTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 8 0.24
9 22 0.65
10 4 0.12
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTATAT
Found at i:89588167 original size:27 final size:27
Alignment explanation
Indices: 89588133--89588187 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
89588123 ATTAATTAAA
89588133 CATTTGTTTTATATATTTTATATTTTT
1 CATTTGTTTTATATATTTTATATTTTT
89588160 CATTTGTTTTATATATTTTATATTTTT
1 CATTTGTTTTATATATTTTATATTTTT
89588187 C
1 C
89588188 TACGTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (27 bp):
CATTTGTTTTATATATTTTATATTTTT
Found at i:89588291 original size:14 final size:14
Alignment explanation
Indices: 89588265--89588311 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
89588255 TCTTTATATT
89588265 TTTTATAAATTTATA
1 TTTTAT-AATTTATA
89588280 TTTTATAATTTAGT-
1 TTTTATAATTTA-TA
* *
89588294 TTTTATATTTTTTA
1 TTTTATAATTTATA
89588308 TTTT
1 TTTT
89588312 TAAGAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 20 0.71
15 7 0.25
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTATAATTTATA
Found at i:89588308 original size:30 final size:30
Alignment explanation
Indices: 89588274--89588349 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
89588264 TTTTTATAAA
* * *
89588274 TTTATATTTTATAATTTAGT-TTTTATATTT
1 TTTATATTTTAAAATTTAGTAATTT-TACTT
89588304 TTTAT-TTTTAAGAATTTAGTAATTTTACTT
1 TTTATATTTTAA-AATTTAGTAATTTTACTT
*
89588334 TTCATATTTTAAAATT
1 TTTATATTTTAAAATT
89588350 CAAGTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.13
30 25 0.64
31 9 0.23
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTATATTTTAAAATTTAGTAATTTTACTT
Found at i:89588568 original size:26 final size:26
Alignment explanation
Indices: 89588516--89588568 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
89588506 AAATAAGACT
* *
89588516 ATATTTTTAAAAAAAATTTAGTCAAA
1 ATATTTTTAAAAAAAATATAGTAAAA
89588542 ATATTTTTAAAAATAAATATA-TAAAA
1 ATATTTTTAAAAA-AAATATAGTAAAA
89588568 A
1 A
89588569 CTAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATTTTTAAAAAAAATATAGTAAAA
Found at i:89593875 original size:135 final size:135
Alignment explanation
Indices: 89593633--89593907 Score: 532
Period size: 135 Copynumber: 2.0 Consensus size: 135
89593623 ATGTGGCACT
*
89593633 TATGTGCAAGTTTTCCATGTATCCAATAGTATTCCGAGTGTTCAATGGGTAATGCAATAGATGAG
1 TATGTGCAAGTTTTCCATGTATCCAATAGTATTCCAAGTGTTCAATGGGTAATGCAATAGATGAG
89593698 GTGATGAAAGTCCTAGTGAGGGCATGTTAAAGAAGGTATGATCATATGATATATTACGGGTAAGT
66 GTGATGAAAGTCCTAGTGAGGGCATGTTAAAGAAGGTATGATCATATGATATATTACGGGTAAGT
89593763 ACAGG
131 ACAGG
*
89593768 TATGTGCAAGTTTTCCATGTATCCAATAGTATTCCAAGTGTTCAATGGGTAATGCAATGGATGAG
1 TATGTGCAAGTTTTCCATGTATCCAATAGTATTCCAAGTGTTCAATGGGTAATGCAATAGATGAG
89593833 GTGATGAAAGTCCTAGTGAGGGCATGTTAAAGAAGGTATGATCATATGATATATTACGGGTAAGT
66 GTGATGAAAGTCCTAGTGAGGGCATGTTAAAGAAGGTATGATCATATGATATATTACGGGTAAGT
89593898 ACAGG
131 ACAGG
89593903 TATGT
1 TATGT
89593908 ATACTAAACT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (135 bp):
TATGTGCAAGTTTTCCATGTATCCAATAGTATTCCAAGTGTTCAATGGGTAATGCAATAGATGAG
GTGATGAAAGTCCTAGTGAGGGCATGTTAAAGAAGGTATGATCATATGATATATTACGGGTAAGT
ACAGG
Found at i:89596831 original size:40 final size:40
Alignment explanation
Indices: 89596746--89596896 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89596736 AATTGAATGA
* * *
89596746 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89596786 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89596827 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89596866 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89596897 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89596910 original size:40 final size:40
Alignment explanation
Indices: 89596783--89596912 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89596773 ATGCTGGAAA
* * * *
89596783 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89596823 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89596863 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89596903 TTATATCCGG
1 TTATATCCGG
89596913 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89604841 original size:40 final size:40
Alignment explanation
Indices: 89604756--89604906 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89604746 AATTGAATGA
* * *
89604756 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89604796 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89604837 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89604876 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89604907 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89604920 original size:40 final size:40
Alignment explanation
Indices: 89604793--89604922 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89604783 ATGCTGGAAA
* * * *
89604793 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89604833 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89604873 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89604913 TTATATCCGG
1 TTATATCCGG
89604923 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89606346 original size:306 final size:305
Alignment explanation
Indices: 89605794--89606405 Score: 1147
Period size: 306 Copynumber: 2.0 Consensus size: 305
89605784 ATTAAAGGCT
89605794 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAAT
1 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAAT
* * *
89605859 TATCCAGAAAGAATTAGGAGTCATGCCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTT
66 TATCCAGAAAGAATTAGGAGACATACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTA
*
89605924 GGAACAAACGACCAGTTAAAGCCCTGTACAGAGAGATATTCAAGTTATACGCGCGAAGGTCAGAG
131 GAAACAAACGACCAGTTAAAGCCCTGTACAGAGAGATATTCAAGTTATACGCGCGAAGGTCAGAG
89605989 CAGTCGATCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAAT
196 CAGTCGATCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAAT
89606054 TCTAGAAATAAATCCATGGATGGATATATGAGTCTAAATTCAGGG
261 TCTAGAAATAAATCCATGGATGGATATATGAGTCTAAATTCAGGG
89606099 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGT-CCCTGTCGCAACTTTAAAAATTTACTATAAAT
1 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAAT
89606163 TATCCA-AAAGAATTAGGAGACATACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTA
66 TATCCAGAAAGAATTAGGAGACATACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTA
89606227 GAAACAAACGCACCAGCATTAAAGCCCTGTACAGAGAGATATTCAAGTTATACGCGCGAAGGTCA
131 GAAACAAACG-ACCAG--TTAAAGCCCTGTACAGAGAGATATTCAAGTTATACGCGCGAAGGTCA
89606292 GAGCAGTCGATCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAA
193 GAGCAGTCGATCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAA
89606357 AATTCTAGAAATAAATCCATGGATGGATATATGAGTCTAAATTCAGGG
258 AATTCTAGAAATAAATCCATGGATGGATATATGAGTCTAAATTCAGGG
89606405 A
1 A
89606406 AAATTTACGA
Statistics
Matches: 300, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
303 64 0.21
304 43 0.14
305 32 0.11
306 161 0.54
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (305 bp):
ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAAT
TATCCAGAAAGAATTAGGAGACATACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTA
GAAACAAACGACCAGTTAAAGCCCTGTACAGAGAGATATTCAAGTTATACGCGCGAAGGTCAGAG
CAGTCGATCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAAT
TCTAGAAATAAATCCATGGATGGATATATGAGTCTAAATTCAGGG
Found at i:89613411 original size:40 final size:40
Alignment explanation
Indices: 89613326--89613476 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89613316 AATTGAATGA
* * *
89613326 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89613366 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89613407 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89613446 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89613477 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89613490 original size:40 final size:40
Alignment explanation
Indices: 89613363--89613492 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89613353 ATGCTGGAAA
* * * *
89613363 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89613403 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89613443 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89613483 TTATATCCGG
1 TTATATCCGG
89613493 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89621395 original size:40 final size:40
Alignment explanation
Indices: 89621310--89621460 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
89621300 AATTGAATGA
* * *
89621310 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
89621350 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89621391 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89621430 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89621461 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89621474 original size:40 final size:40
Alignment explanation
Indices: 89621347--89621476 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89621337 ATGCTGGAAA
* * * *
89621347 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89621387 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89621427 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89621467 TTATATCCGG
1 TTATATCCGG
89621477 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89626057 original size:2 final size:2
Alignment explanation
Indices: 89626050--89626098 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
89626040 TCTTTCTTCA
*
89626050 TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89626092 TC TC TC T
1 TC TC TC T
89626099 TTCTTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:89635380 original size:126 final size:126
Alignment explanation
Indices: 89634973--89635717 Score: 809
Period size: 126 Copynumber: 5.9 Consensus size: 126
89634963 AAGCAGGATG
* * *
89634973 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGTTGACAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * * * *
89635038 TTGAAGCGTTTTTTTACTCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTGTAAAAAT
66 TTGAAGCG-TTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTA-TTTTTCTAAAAAC
* * * * * * * * *
89635101 TATTGTCGAAAAAGAGTGTCCAGCTAGAAGCTTTTGTCAACACTTTTGCTGACAATGCATCTTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * *
89635166 TTGAAGCGTTTTTTA--C-ATTATTTCATAACTATCTTTT-TAAATTTTTTTTC-AAAAAC
66 TTGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTTCTAAAAAC
* * * * *
89635222 TATTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * * *
89635287 TTGAAGCGTTTTTTACCCTATTTTTTCAAAATTGTATTTTCAATATTATTTTTCTAGAAAC
66 TTGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTTCTAAAAAC
* * * * *
89635348 TACTATAGAAAAAGAGCATCTAGCTAGGAGCTTTCTTCAATACTTTTGTTGATAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * *
89635413 TCT-AAGCATTTTTTACCCTATTTTTTCAAAACTGTATTTTCAAAATTATTTTTCTAGAAAC
66 T-TGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTTCTAAAAAC
* * * * *
89635474 TACTATAGAAAAAGAGCGTCTAGCTAGGAGCTTTCTTCAATACTTTTGCTAATAATGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * * * *
89635539 TTGAAGCGTTTTTTACCCAATTTTTTTAGAACCATCTTCTCAAAATTATTTTTTTAAAAAC
66 TTGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTTCTAAAAAC
** * * * * * *
89635600 TACTGTAGAAAAAGAGTATCCAGCTGGGAACTTTTTTCAGTACTTTTGCTGACAGTACATCTTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * * * * ** *
89635665 TTGAGGCGCTTTTGAACCTATTTTTTCATAACCGTCTTCTCAAAATTATTTTT
66 TTGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTT
89635718 TCACAAACTT
Statistics
Matches: 521, Mismatches: 89, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
121 73 0.14
122 5 0.01
123 6 0.01
124 33 0.06
125 12 0.02
126 323 0.62
127 8 0.02
128 61 0.12
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTCTAGCTAGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTTACCCTATTTTTTCAAAACTATCTTTTCAAAATTATTTTTCTAAAAAC
Found at i:89635520 original size:252 final size:249
Alignment explanation
Indices: 89634973--89635777 Score: 900
Period size: 252 Copynumber: 3.2 Consensus size: 249
89634963 AAGCAGGATG
*
89634973 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGTTGACAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* * *
89635038 TTGAAGCGTTTTTTTACTCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTGTAAAAATTA
66 TTGAAGCG-TTTTTTACCCTATTTTTTCAGAACCATCTTCTCAAAATTA-TTTTTCTAAAAACTA
* * * * * *
89635103 TTGTCGAAAAAGAGTGTCCAGCTAGAAGCTTTTGTCAACACTTTTGCTGACAATGCATCTTGCTT
129 CTGTAGAAAAAGAGTATCCAGCTAGGAGCTTTT-TCAATACTTTTGCTGACAGTGCATCTTGCTT
* * * *
89635168 GAAGCGTTTTTTA-C-ATTATTTCATAACTATCTTTT-TAAATTTTTTTTCAAAAAC
193 GAAGCGTTTTTTACCTATTTTTTCATAACTGTCTTTTCAAAATTATTTTTCAAAAAC
* * *
89635222 TATTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTTAGTACTTTTGCTGACAGTACATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *** * * * *
89635287 TTGAAGCGTTTTTTACCCTATTTTTTCAAAATTGTATTTTCAATATTATTTTTCTAGAAACTACT
66 TTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCTAAAAACTACT
* * * * * *
89635352 ATAGAAAAAGAGCATCTAGCTAGGAGCTTTCTTCAATACTTTTGTTGATAGTGCATCCTGCTCT-
131 GTAGAAAAAGAGTATCCAGCTAGGAGCTTT-TTCAATACTTTTGCTGACAGTGCATCTTGCT-TG
* * * *
89635416 AAGCATTTTTTACCCTATTTTTTCAAAACTGTATTTTCAAAATTATTTTTCTAGAAAC
194 AAGCGTTTTTTA-CCTATTTTTTCATAACTGTCTTTTCAAAATTATTTTTC-AAAAAC
* * * * * * *
89635474 TACTATAGAAAAAGAGCGTCTAGCTAGGAGCTTTCTTCAATACTTTTGCTAATAATGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* * *
89635539 TTGAAGCGTTTTTTACCCAATTTTTTTAGAACCATCTTCTCAAAATTATTTTTTTAAAAACTACT
66 TTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCTAAAAACTACT
* * * *
89635604 GTAGAAAAAGAGTATCCAGCTGGGAACTTTTTTCAGTACTTTTGCTGACAGTACATCTTGCTTGA
131 GTAGAAAAAGAGTATCCAGCTAGGAGC-TTTTTCAATACTTTTGCTGACAGTGCATCTTGCTTGA
* ** * * *
89635669 GGCGCTTTTGAACCTATTTTTTCATAACCGTCTTCTCAAAATTATTTTTTCACAAAC
195 AGCG-TTTTTTACCTATTTTTTCATAACTGTCTTTTCAAAATTA-TTTTTCAAAAAC
* * * * * * * *
89635726 TTC-GGACAAAAATAGAGTCCAGTTGGGAGCTTTTTTTCCAATACTTTTGCTG
1 TACTGTAGAAAAAGAGCGTCTAGCTGGGAGC-TTTTTT-CAGTACTTTTGCTG
89635778 TTTGTACAAA
Statistics
Matches: 457, Mismatches: 86, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
247 73 0.16
248 34 0.07
249 70 0.15
250 17 0.04
251 31 0.07
252 205 0.45
253 27 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (249 bp):
TACTGTAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCTAAAAACTACT
GTAGAAAAAGAGTATCCAGCTAGGAGCTTTTTCAATACTTTTGCTGACAGTGCATCTTGCTTGAA
GCGTTTTTTACCTATTTTTTCATAACTGTCTTTTCAAAATTATTTTTCAAAAAC
Found at i:89635902 original size:28 final size:28
Alignment explanation
Indices: 89635867--89635954 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
89635857 TAAACCTAAT
*
89635867 TTTTTTAAAATTCCTAAACCCTAATTTA
1 TTTTTTAAAATTCCTAAACCTTAATTTA
89635895 TTTTTTAAAATTCCTAAACCTTAATTTA
1 TTTTTTAAAATTCCTAAACCTTAATTTA
* * *
89635923 TTTTTTAAAATCCCTAAATCTTGATTTA
1 TTTTTTAAAATTCCTAAACCTTAATTTA
89635951 TTTT
1 TTTT
89635955 CTCTTAAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.51
Consensus pattern (28 bp):
TTTTTTAAAATTCCTAAACCTTAATTTA
Found at i:89638510 original size:66 final size:65
Alignment explanation
Indices: 89638440--89638582 Score: 150
Period size: 66 Copynumber: 2.2 Consensus size: 65
89638430 TAAGACATAC
89638440 ATACTGACTTGGGTC-ACATGACCAACT-ACACGCCCGTGTGTCTAGGC-CGTGCCAAATCT-GT
1 ATACTGACTTGGG-CAACATGACCAACTCACACGCCCGTGTG-CTAGGCACGTGCC-AAT-TAG-
89638501 AGGGT
61 AGGGT
** * * * *
89638506 ATACTGACTTATGCAACATGGCCAAGTCACACGCCTGTGTGCTAGGCAGTGTGCCAATTAGAGGG
1 ATACTGACTTGGGCAACATGACCAACTCACACGCCCGTGTGCTAGGCA-CGTGCCAATTAGAGGG
89638571 T
65 T
89638572 ATACTGACTTG
1 ATACTGACTTG
89638583 TACCACAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
65 1 0.02
66 43 0.66
67 16 0.25
68 5 0.08
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (65 bp):
ATACTGACTTGGGCAACATGACCAACTCACACGCCCGTGTGCTAGGCACGTGCCAATTAGAGGGT
Found at i:89642341 original size:48 final size:48
Alignment explanation
Indices: 89642286--89642417 Score: 185
Period size: 48 Copynumber: 2.7 Consensus size: 48
89642276 CACAATCGAT
* * *
89642286 AAGTACCTAGACCATGGCCTGAAGCCAAATCAAGGTAACTTATC-CCTG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTCC-G
*
89642334 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTCCG
*
89642382 AAATACACCTATACCATGGCCCGAAGCCAAATCAAG
1 AAGT--ACCTATACCATGGCCCGAAGCCAAATCAAG
89642418 TTATAATTCG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 44 0.59
49 2 0.03
50 29 0.39
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.19
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTCCG
Found at i:89644178 original size:11 final size:11
Alignment explanation
Indices: 89644162--89644186 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89644152 AAAAACAACC
89644162 TAAACAAACTT
1 TAAACAAACTT
89644173 TAAACAAACTT
1 TAAACAAACTT
89644184 TAA
1 TAA
89644187 GGAAATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAACAAACTT
Found at i:89649775 original size:18 final size:17
Alignment explanation
Indices: 89649747--89649780 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89649737 GACCTTAGCC
89649747 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
89649764 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
89649781 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:89649780 original size:6 final size:6
Alignment explanation
Indices: 89649768--89649861 Score: 66
Period size: 6 Copynumber: 15.3 Consensus size: 6
89649758 AAGAAACATT
* * * *
89649768 ATCAGA ATTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
89649817 ATTATA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
89649862 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
5 3 0.05
6 55 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:89649829 original size:31 final size:31
Alignment explanation
Indices: 89649791--89649861 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
89649781 TCAAAATGAG
* * *
89649791 AATCAGAATCAGAATCAGGTGACAGAATTAT
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
*
89649822 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
89649853 AATCAGAAT
1 AATCAGAAT
89649862 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:89650026 original size:27 final size:27
Alignment explanation
Indices: 89649996--89650052 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
89649986 GTGACGAAGT
* *
89649996 CACCAG-ATACAGATATTGTGGCAGAGC
1 CACCAGAAT-CAGATAATGTGGCAAAGC
89650023 CACCAGAATCAGATAATGTGGCAAAGC
1 CACCAGAATCAGATAATGTGGCAAAGC
89650050 CAC
1 CAC
89650053 TTAACAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (27 bp):
CACCAGAATCAGATAATGTGGCAAAGC
Found at i:89650449 original size:28 final size:28
Alignment explanation
Indices: 89650356--89650465 Score: 145
Period size: 27 Copynumber: 4.0 Consensus size: 28
89650346 TCGATCAGTC
* * *
89650356 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
* *
89650383 TACAGATA-TTGTGGCAGAGCCACCAG-
1 AACAGATATTTGTGGCATAGCCACCAGA
*
89650409 AACAGATATTTGTGGCATAACCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
89650437 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
89650465 A
1 A
89650466 CGCTTCCTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.09
27 39 0.53
28 28 0.38
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (28 bp):
AACAGATATTTGTGGCATAGCCACCAGA
Found at i:89650738 original size:27 final size:27
Alignment explanation
Indices: 89650708--89650848 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 27
89650698 TACACCACAA
89650708 GGGTATCTT-GGTAATTCTACCCTACAG
1 GGGTAT-TTCGGTAATTCTACCCTACAG
**
89650735 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
89650762 GGGTATTTCAGCAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
89650789 GGGTATTTCGATAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
**
89650816 GGGTATTTCGGTAATTCTACTATACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
89650843 GGGTAT
1 GGGTAT
89650849 ACAAGGGTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
26 2 0.02
27 100 0.98
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:89650766 original size:54 final size:54
Alignment explanation
Indices: 89650704--89651159 Score: 599
Period size: 54 Copynumber: 8.3 Consensus size: 54
89650694 ATTTTACACC
*
89650704 ACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * * * *
89650758 ACAGGGGTATTTCAGCAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
**
89650812 ACAAGGGTATTTCGGTAATTCTACTATACAGGGGTATACAAGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGG--T---A---T-TTT-GGTAATTCTACCCT
*
89650876 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * *
89650930 ACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * * *
89650984 ACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* *
89651038 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
* * * *
89651092 ACAAGGGTATTTCGGTAATTCTATCCTACAAGGGTATTTCGATAATTCTACCCT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
*
89651146 ACAGGGGTATTTCG
1 ACAAGGGTATTTCG
89651160 ATAACTTTCC
Statistics
Matches: 365, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
53 2 0.01
54 308 0.84
55 2 0.01
56 2 0.01
59 2 0.01
62 2 0.01
63 2 0.01
64 45 0.12
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (54 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
Found at i:89650814 original size:81 final size:81
Alignment explanation
Indices: 89650704--89651159 Score: 662
Period size: 81 Copynumber: 5.5 Consensus size: 81
89650694 ATTTTACACC
* ** *
89650704 ACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTAT
1 ACAAGGGTAT-TTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
* *
89650768 TTCAGCAATTCTACCCT
65 TTCGGTAATTCTACCCT
* * *
89650785 ACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACTATACAGGGGTATA
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC----C------CTA
89650850 CAAGGGTATTTCGGTAATTCTACCCT
56 CAAGGGTATTTCGGTAATTCTACCCT
* *
89650876 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
89650941 TCGGTAATTCTACCCT
66 TCGGTAATTCTACCCT
* *
89650957 ACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
89651022 TCGGTAATTCTACCCT
66 TCGGTAATTCTACCCT
* *
89651038 ACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
*
89651103 TCGGTAATTCTATCCT
66 TCGGTAATTCTACCCT
89651119 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCG
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCG
89651160 ATAACTTTCC
Statistics
Matches: 339, Mismatches: 25, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
80 2 0.01
81 262 0.77
85 1 0.00
87 1 0.00
91 73 0.22
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (81 bp):
ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
TCGGTAATTCTACCCT
Found at i:89650884 original size:37 final size:37
Alignment explanation
Indices: 89650811--89650885 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
89650801 AATTCTACCC
* *
89650811 TACAAGGGTATTTCGGTAATTCTACTATACAGGGGTA
1 TACAAGGGTATTTCGGTAATTCTACCATACAAGGGTA
*
89650848 TACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTA
1 TACAAGGGTATTTCGGTAATTCTACCATACAAGGGTA
89650885 T
1 T
89650886 TTCGGTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (37 bp):
TACAAGGGTATTTCGGTAATTCTACCATACAAGGGTA
Found at i:89651163 original size:27 final size:27
Alignment explanation
Indices: 89650848--89651159 Score: 543
Period size: 27 Copynumber: 11.6 Consensus size: 27
89650838 TACAGGGGTA
89650848 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
89650875 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
*
89650902 TACAGGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
*
89650929 TACAGGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
* *
89650956 TACAGGGGTATTTCGATAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
* *
89650983 TACAGGGGTATTTCGATAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
89651010 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
89651037 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
89651064 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
*
89651091 TACAAGGGTATTTCGGTAATTCTATCC
1 TACAAGGGTATTTCGGTAATTCTACCC
*
89651118 TACAAGGGTATTTCGATAATTCTACCC
1 TACAAGGGTATTTCGGTAATTCTACCC
*
89651145 TACAGGGGTATTTCG
1 TACAAGGGTATTTCG
89651160 ATAACTTTCC
Statistics
Matches: 277, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 277 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
TACAAGGGTATTTCGGTAATTCTACCC
Found at i:89653874 original size:39 final size:39
Alignment explanation
Indices: 89653820--89653982 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
89653810 TGTGAATGAA
89653820 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
89653859 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
89653898 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
89653937 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
89653977 TGTGCG
1 TGTGCG
89653983 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:89653998 original size:40 final size:39
Alignment explanation
Indices: 89653820--89654012 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
89653810 TGTGAATGAA
* *
89653820 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
89653859 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
89653898 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
89653937 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
89653977 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
89654013 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:89656800 original size:39 final size:39
Alignment explanation
Indices: 89656746--89656895 Score: 264
Period size: 39 Copynumber: 3.8 Consensus size: 39
89656736 TGTTCGGGTA
89656746 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
89656785 ATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
89656824 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
89656863 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
89656896 GCCTACCATA
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:89661846 original size:10 final size:10
Alignment explanation
Indices: 89661827--89661858 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
89661817 TTTTAGGATT
89661827 TTAT-TTTAA
1 TTATCTTTAA
89661836 TTATCTTTAA
1 TTATCTTTAA
89661846 TTATCTTTAA
1 TTATCTTTAA
89661856 TTA
1 TTA
89661859 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:89662859 original size:20 final size:20
Alignment explanation
Indices: 89662830--89662898 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
89662820 ACGCATTAGA
*
89662830 CACCGAAGTGTAAATAGAGG
1 CACCGAAGTGCAAATAGAGG
* *
89662850 CACTGAAGTGCAACTAGAGG
1 CACCGAAGTGCAAATAGAGG
* *
89662870 CACCGAAATGCAAACAGAGG
1 CACCGAAGTGCAAATAGAGG
*
89662890 CACCAAAGT
1 CACCGAAGT
89662899 ACAATCCCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.41, C:0.22, G:0.26, T:0.12
Consensus pattern (20 bp):
CACCGAAGTGCAAATAGAGG
Found at i:89682473 original size:40 final size:39
Alignment explanation
Indices: 89682428--89682557 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
89682418 CGGAATATAA
89682428 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * *
89682468 CCGGATAGAATGTC-TTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
89682508 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
89682548 CCGGATATAA
1 CCGGATATAA
89682558 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 70 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:89682572 original size:40 final size:40
Alignment explanation
Indices: 89682444--89682595 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
89682434 ATAACCATGT
* * * *
89682444 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCTA
* ** *
89682484 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCTA
* * *
89682524 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCTA
* * *
89682564 GCATAATTGTCTTCGGGAT-TTAGCCCAGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
89682596 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCTA
Found at i:89692800 original size:17 final size:18
Alignment explanation
Indices: 89692778--89692823 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
89692768 ACTCATTATA
*
89692778 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
89692795 GCCCGATCAAT-AATAAT
1 GCCCGATAAATGAATAAT
89692812 GCCCGATAAATG
1 GCCCGATAAATG
89692824 GTAAATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:89703074 original size:29 final size:29
Alignment explanation
Indices: 89703041--89703143 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
89703031 CCTTCGAGCT
** * *
89703041 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
89703070 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89703099 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
89703128 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
89703144 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:89703082 original size:58 final size:58
Alignment explanation
Indices: 89703014--89703143 Score: 152
Period size: 58 Copynumber: 2.2 Consensus size: 58
89703004 TTTAAGCCCA
* * * * * * *
89703014 CACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATG
1 CACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACG
* * * **
89703072 CACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACG
1 CACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACG
89703130 CACACTTAGTGCCA
1 CACACTTAGTGCCA
89703144 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (58 bp):
CACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACG
Found at i:89711841 original size:29 final size:29
Alignment explanation
Indices: 89711808--89711939 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
89711798 GTGACGAGAT
89711808 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89711837 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89711866 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
89711895 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
89711924 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
89711940 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89719902 original size:29 final size:29
Alignment explanation
Indices: 89719869--89720000 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
89719859 GTGACGAGAT
89719869 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89719898 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89719927 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
89719956 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
89719985 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
89720001 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89731515 original size:29 final size:29
Alignment explanation
Indices: 89731482--89731613 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
89731472 GTGACGAGAT
89731482 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
89731511 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
89731540 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
89731569 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
89731598 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
89731614 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:89733760 original size:29 final size:29
Alignment explanation
Indices: 89733727--89733800 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 29
89733717 CCTTCGAGCT
* *
89733727 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
* ***
89733756 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
**
89733785 CGCACACTTAGTGCCA
1 CGCACACCCAGTGCCA
89733801 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACCCAGTGCCATATATTTCCAGCA
Found at i:89736284 original size:17 final size:18
Alignment explanation
Indices: 89736262--89736307 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
89736252 ATTCGTTATA
*
89736262 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
89736279 GCCCGATTAAT-AATAAT
1 GCCCGATAAATGAATAAT
*
89736296 GGCCGATAAATG
1 GCCCGATAAATG
89736308 GTAAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:89748048 original size:128 final size:127
Alignment explanation
Indices: 89747818--89748058 Score: 301
Period size: 128 Copynumber: 1.9 Consensus size: 127
89747808 ATGGTAGGCT
*
89747818 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAATGTAAGACCATGTCTGG
* * *
89747883 GACATGGCATCGGCATTGAGACAAGTGCCAGTATAAGA-TATGTCTGGCCTCGGGACGTAAGCC
65 GACATGGCATCAGCA-TCAGACAAGAGCCAGTATAAGACTATGTCTGGCCTCGGGACGTAAGCC
* * * *
89747946 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAGAGCCAATGTAAGACCATGTCTGG
* *
89748009 GACATGGCATCAGCA-CAGACATGTGAGAGCTAGTGTAAGACTATGTCTGG
65 GACATGGCATCAGCATCAGACA----AGAGCCAGTATAAGACTATGTCTGG
89748059 GACATGGCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
124 5 0.05
126 35 0.36
128 47 0.48
129 10 0.10
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (127 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAATGTAAGACCATGTCTGGG
ACATGGCATCAGCATCAGACAAGAGCCAGTATAAGACTATGTCTGGCCTCGGGACGTAAGCC
Found at i:89748107 original size:49 final size:49
Alignment explanation
Indices: 89747942--89748220 Score: 299
Period size: 49 Copynumber: 5.8 Consensus size: 49
89747932 TCGGGACGTA
*
89747942 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCTACG-AGATG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAAGATGAT
* * *
89747987 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGACATG-TGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGA-A-GATGAT
* * *
89748036 AGCTAGTGTAAGACTATGTCTGGGACATGGCATTAGCCTCGAAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGAT
* *
89748085 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGACATG-TGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGA-A-GATGAT
* * *
89748135 AGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGAT
* *
89748184 AGCCAGTGTAAGACCATGTTTGGGACATGGCAACAGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
89748221 ACCTTACCCC
Statistics
Matches: 193, Mismatches: 25, Indels: 28
0.78 0.10 0.11
Matches are distributed among these distances:
44 11 0.06
45 14 0.07
46 6 0.03
47 1 0.01
48 6 0.03
49 79 0.41
50 75 0.39
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGAT
Found at i:89748112 original size:99 final size:99
Alignment explanation
Indices: 89747946--89748222 Score: 440
Period size: 99 Copynumber: 2.8 Consensus size: 99
89747936 GACGTAAGCC
* * *
89747946 AGTGTAAGAC-ATGTCTGGGACAT-GCA-TCGGCTACG-AGATG-T-GTCAGTGTAAGACCATGT
1 AGTGTAAGACTATGTCTGGGACATGGCATTAGCCT-CGAAGATGATAGCCAGTGTAAGACCATGT
89748005 CTGGGACATGGCATCAGCACAGACATGTGAGAGCT
65 CTGGGACATGGCATCAGCACAGACATGTGAGAGCT
89748040 AGTGTAAGACTATGTCTGGGACATGGCATTAGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACTATGTCTGGGACATGGCATTAGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
89748105 TGGGACATGGCATCAGCACAGACATGTGAGAGCT
66 TGGGACATGGCATCAGCACAGACATGTGAGAGCT
** *
89748139 AGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACTATGTCTGGGACATGGCATTAGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
*
89748204 TGGGACATGGCAACAGCAC
66 TGGGACATGGCATCAGCAC
89748223 CTTACCCCAT
Statistics
Matches: 170, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
94 10 0.06
95 13 0.08
96 5 0.03
97 9 0.05
98 1 0.01
99 132 0.78
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (99 bp):
AGTGTAAGACTATGTCTGGGACATGGCATTAGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCACAGACATGTGAGAGCT
Found at i:89751134 original size:19 final size:19
Alignment explanation
Indices: 89751110--89751156 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
89751100 AGAGGTATAT
89751110 CGGTAATTTTGCTCTTTAG
1 CGGTAATTTTGCTCTTTAG
89751129 CGGTAATTTTGCTCTTTAG
1 CGGTAATTTTGCTCTTTAG
*
89751148 GGGTAATTT
1 CGGTAATTT
89751157 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (19 bp):
CGGTAATTTTGCTCTTTAG
Found at i:89751809 original size:27 final size:27
Alignment explanation
Indices: 89751779--89751840 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
89751769 GGGCAAAATG
89751779 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
89751806 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
89751833 GTAATTTT
1 GTAATTTT
89751841 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:89751956 original size:28 final size:27
Alignment explanation
Indices: 89751794--89751958 Score: 154
Period size: 27 Copynumber: 6.1 Consensus size: 27
89751784 TTTACCCCAC
* *
89751794 AAGGGTATTTCAGTAATTTTAC--CCT
1 AAGGGTATTTCGGTAATTTTACAAACT
** * *
89751819 ACAGGGGTATTTTAGTAATTTTTCAAACC
1 A-A-GGGTATTTCGGTAATTTTACAAACT
* *
89751848 ATGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
89751875 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
89751902 GAGGGTATTTCAGTATTTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
89751929 AAGGGTATTTCGGTAATTTTAGTAAACT
1 AAGGGTATTTCGGTAATTTTA-CAAACT
89751957 AA
1 AA
89751959 AGTATTCTAA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 104 0.90
28 7 0.06
29 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:89756918 original size:21 final size:21
Alignment explanation
Indices: 89756885--89756924 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89756875 AACCGATAAC
* *
89756885 TTAAGAAACTTTCACAAAACT
1 TTAAAAAAATTTCACAAAACT
*
89756906 TTAAAAAAATTTCTCAAAA
1 TTAAAAAAATTTCACAAAA
89756925 TAGGGGACAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (21 bp):
TTAAAAAAATTTCACAAAACT
Found at i:89758330 original size:28 final size:29
Alignment explanation
Indices: 89758298--89758352 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
89758288 CTTCAAAGCA
*
89758298 CTGATAT-CATGGCTCGAA-GCCAAATCAG
1 CTGATATGCATGGC-CCAAGGCCAAATCAG
89758326 CTGATATGCATGGCCCAAGGCCAAATC
1 CTGATATGCATGGCCCAAGGCCAAATC
89758353 GGCATAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (29 bp):
CTGATATGCATGGCCCAAGGCCAAATCAG
Found at i:89763833 original size:40 final size:39
Alignment explanation
Indices: 89763652--89763803 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
89763642 AATGTTCGAG
89763652 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
89763691 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
89763730 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
89763769 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
89763804 GGTTACCATA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:89771851 original size:40 final size:39
Alignment explanation
Indices: 89771670--89771821 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
89771660 AATGTTCGAG
89771670 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
89771709 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
89771748 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
89771787 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
89771822 GGTTACCATA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:89781680 original size:28 final size:28
Alignment explanation
Indices: 89781619--89781716 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
89781609 TCACAAATTG
** * *
89781619 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
89781648 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
89781676 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
89781704 GCACTAAGTGTGC
1 GCACTAAGTGTGC
89781717 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:89789350 original size:28 final size:28
Alignment explanation
Indices: 89789289--89789386 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
89789279 TCACAAATTG
** * *
89789289 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
89789318 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
89789346 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
89789374 GCACTAAGTGTGC
1 GCACTAAGTGTGC
89789387 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:89797417 original size:24 final size:24
Alignment explanation
Indices: 89797383--89797434 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
89797373 ATAGAATCAG
* * **
89797383 ACATAACAGTAGATGTTGCCACTA
1 ACATAAAAGTAGAAGTAACCACTA
89797407 ACATAAAAGTAGAAGTAACCACTA
1 ACATAAAAGTAGAAGTAACCACTA
89797431 ACAT
1 ACAT
89797435 GGAGCTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (24 bp):
ACATAAAAGTAGAAGTAACCACTA
Found at i:89803209 original size:13 final size:14
Alignment explanation
Indices: 89803183--89803217 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
89803173 GGTCCTCAAG
89803183 TGTTTTGTGTTTGT
1 TGTTTTGTGTTTGT
89803197 TGTTTTG-GTTTGT
1 TGTTTTGTGTTTGT
*
89803210 TATTTTGT
1 TGTTTTGT
89803218 TGAACCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.03, C:0.00, G:0.26, T:0.71
Consensus pattern (14 bp):
TGTTTTGTGTTTGT
Found at i:89805205 original size:40 final size:40
Alignment explanation
Indices: 89805145--89805243 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
89805135 TCTCACATGT
* *
89805145 TAAGTGCCATACATAGCCGAAGCTATCACAAATCGCACAC
1 TAAGTGCCACAAATAGCCGAAGCTATCACAAATCGCACAC
* * ** *
89805185 TAAGTGCCACAAATATCCGAAGCTTTGTCGAATCGCACAC
1 TAAGTGCCACAAATAGCCGAAGCTATCACAAATCGCACAC
89805225 TAAGTGCCACAAATAGCCG
1 TAAGTGCCACAAATAGCCG
89805244 CTTTGTCATC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.19
Consensus pattern (40 bp):
TAAGTGCCACAAATAGCCGAAGCTATCACAAATCGCACAC
Found at i:89805335 original size:43 final size:43
Alignment explanation
Indices: 89805280--89805361 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
89805270 CCGTATATAC
*
89805280 AATTTATGCAATATCAAAGCACTAAAAGCATAATTATTACAAT
1 AATTTATGCAATATCAAAGCACTAAAAGCATAATAATTACAAT
89805323 AATTTATGCAATATCAAAGCACTAAAAGCATAATAATTA
1 AATTTATGCAATATCAAAGCACTAAAAGCATAATAATTA
89805362 TAATGCTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.29
Consensus pattern (43 bp):
AATTTATGCAATATCAAAGCACTAAAAGCATAATAATTACAAT
Found at i:89808018 original size:24 final size:24
Alignment explanation
Indices: 89807991--89808039 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
89807981 TGTTGCTGTC
* *
89807991 ATCTCTGAATAGGTTGATCTATGA
1 ATCTCTGAACAGGCTGATCTATGA
*
89808015 ATCTCTGAACGGGCTGATCTATGA
1 ATCTCTGAACAGGCTGATCTATGA
89808039 A
1 A
89808040 AATTAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (24 bp):
ATCTCTGAACAGGCTGATCTATGA
Found at i:89809957 original size:43 final size:42
Alignment explanation
Indices: 89809892--89810044 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 42
89809882 CTATTCTACG
** ** *
89809892 TGTAAGACCACATCTGAAACATTGCCATCGACTTCTGTTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGACTT-TGTTTACA
* *
89809935 TGTAAGACCATGTTTGGGACATTGGCATCGTAGC-TGGTTT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-A-CTTTGTTTACA
* * * * *
89809977 TGTAAGACCCTGTCTGGGACAGTGGTATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-CTTTGTTTACA
*
89810020 TGTAAGACCATGTCT-GGATATTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
89810045 GTTGTATATG
Statistics
Matches: 87, Mismatches: 19, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 39 0.45
43 44 0.51
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGACTTTGTTTACA
Found at i:89809995 original size:42 final size:43
Alignment explanation
Indices: 89809928--89810044 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
89809918 ATCGACTTCT
*
89809928 GTTTACATGTAAGACCATGTTTGGGACATTGGCATCG-TAGCTG
1 GTTT-CATGTAAGACCATGTCTGGGACATTGGCATCGATAGCTG
* * * **
89809971 GTTTCATGTAAGACCCTGTCTGGGACAGTGGTATCGATATTTG
1 GTTTCATGTAAGACCATGTCTGGGACATTGGCATCGATAGCTG
* * *
89810014 ATTACATGTAAGACCATGTCT-GGATATTGGC
1 GTTTCATGTAAGACCATGTCTGGGACATTGGC
89810045 GTTGTATATG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 35 0.57
43 26 0.43
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GTTTCATGTAAGACCATGTCTGGGACATTGGCATCGATAGCTG
Found at i:89811883 original size:31 final size:31
Alignment explanation
Indices: 89811845--89811908 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
89811835 GATTCAGTTA
89811845 ATTAAGCCTCTGGTAGATAAGATTAGAAAGT
1 ATTAAGCCTCTGGTAGATAAGATTAGAAAGT
89811876 ATTAAGCCTCTGGTAGATAAGATTAGAAAGT
1 ATTAAGCCTCTGGTAGATAAGATTAGAAAGT
89811907 AT
1 AT
89811909 AGGGCCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (31 bp):
ATTAAGCCTCTGGTAGATAAGATTAGAAAGT
Found at i:89819796 original size:55 final size:55
Alignment explanation
Indices: 89819694--89819837 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
89819684 TGTGACATGG
* * * * * * * * * **
89819694 CCGTGGGCTAACCTTCCAAAACAAAATGGGCGTGCGACATGCGCGTGCCTGGAAA
1 CCGTGGCCGAACCTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGAAA
* * * *
89819749 CCGTGGCCGACCCTGTCAAATTAACACGGGCGTGCAACACGCCCGTGCCAAGCAA
1 CCGTGGCCGAACCTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGAAA
*
89819804 CCGTGGCCGAACTTGCCAAAATAACACGGGCGTG
1 CCGTGGCCGAACCTGCCAAAATAACACGGGCGTG
89819838 GACCTTCATA
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (55 bp):
CCGTGGCCGAACCTGCCAAAATAACACGGGCGTGCAACACGCCCGTGCCAAGAAA
Found at i:89821535 original size:40 final size:40
Alignment explanation
Indices: 89821471--89821638 Score: 248
Period size: 40 Copynumber: 4.2 Consensus size: 40
89821461 TCTTCGGAAT
* * *
89821471 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
89821510 TTAACCCGGGTATAGCAACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
*
89821550 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
89821590 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
89821630 TTAGCCCGG
1 TTAGCCCGG
89821639 GTATCATTCA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 3 0.03
40 114 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:89829949 original size:27 final size:26
Alignment explanation
Indices: 89829919--89830013 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
89829909 CCTTAGAGGC
*
89829919 ATTTTGGTAATTTTACAAGTCGAGGGT
1 ATTTTGGTAATTTTACAAGT-AAGGGT
* *
89829946 ATTTCGGTAATTGTACAAGTTAAGGGT
1 ATTTTGGTAATTTTACAAG-TAAGGGT
* * *
89829973 ATTTTGGTAATTTCACAAATTAGGGGT
1 ATTTTGGTAATTTTAC-AAGTAAGGGT
89830000 ATTTTGGTAATTTT
1 ATTTTGGTAATTTT
89830014 TTTATTACGG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 54 0.95
28 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.43
Consensus pattern (26 bp):
ATTTTGGTAATTTTACAAGTAAGGGT
Found at i:89830367 original size:28 final size:28
Alignment explanation
Indices: 89830311--89830367 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
89830301 TACATACATG
*
89830311 CATATAGCCCATTAGGCCCAATCTCATT
1 CATATAGCCCATTAGGCCCAATCTAATT
*
89830339 CATATGGCCCATTAGGCCCAAATC-AATT
1 CATATAGCCCATTAGGCCC-AATCTAATT
89830367 C
1 C
89830368 CAAGCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (28 bp):
CATATAGCCCATTAGGCCCAATCTAATT
Found at i:89838754 original size:17 final size:18
Alignment explanation
Indices: 89838732--89838766 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
89838722 AAGCTTACAA
89838732 TTGACTAACTACT-GACT
1 TTGACTAACTACTAGACT
89838749 TTGACTAACTACTAGACT
1 TTGACTAACTACTAGACT
89838767 AACAACCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (18 bp):
TTGACTAACTACTAGACT
Done.