Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 84 of 93
Found at i:32402670 original size:1 final size:1
Alignment explanation
Indices: 32402666--32402704 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
32402656 CATTTTTTGC
* * *
32402666 AAAAAAAAAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32402705 TACAATTCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:32410168 original size:28 final size:29
Alignment explanation
Indices: 32410127--32410184 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
32410117 TAAATTAATT
32410127 ATATATATAAATTTTTATTT-TATATATTA
1 ATATATATAAATTTTT-TTTATATATATTA
*
32410156 ATATATAT-AATTTTTTTTATATGTATTA
1 ATATATATAAATTTTTTTTATATATATTA
32410184 A
1 A
32410185 GAAGAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 3 0.11
28 16 0.59
29 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
ATATATATAAATTTTTTTTATATATATTA
Found at i:32414736 original size:33 final size:33
Alignment explanation
Indices: 32414699--32414764 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
32414689 ATACTGTTAC
32414699 ATGATTGAAATCAAGCCTTAACCAATCTCAATT
1 ATGATTGAAATCAAGCCTTAACCAATCTCAATT
32414732 ATGATTGAAATCAAGCCTTAACCAATCTCAATT
1 ATGATTGAAATCAAGCCTTAACCAATCTCAATT
32414765 GGCTACAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (33 bp):
ATGATTGAAATCAAGCCTTAACCAATCTCAATT
Found at i:32418531 original size:15 final size:15
Alignment explanation
Indices: 32418511--32418542 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32418501 GGGTTCTTCC
*
32418511 AAGAAAAATAAGAAG
1 AAGAAAAACAAGAAG
32418526 AAGAAAAACAAGAAG
1 AAGAAAAACAAGAAG
32418541 AA
1 AA
32418543 ATAGATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAACAAGAAG
Found at i:32420817 original size:14 final size:12
Alignment explanation
Indices: 32420796--32420829 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
32420786 GCTCGGTTAA
32420796 TATTTTTATTATT
1 TATTTTTATT-TT
32420809 TACTTTTTATTTT
1 TA-TTTTTATTTT
32420822 TATTTTTA
1 TATTTTTA
32420830 CAAAATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 6 0.30
14 8 0.40
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:32420827 original size:5 final size:6
Alignment explanation
Indices: 32420796--32420829 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
32420786 GCTCGGTTAA
32420796 TATTTT TATTATT TACTTTT TATTTT TATTTT TA
1 TATTTT TATT-TT TA-TTTT TATTTT TATTTT TA
32420830 CAAAATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.62
7 8 0.31
8 2 0.08
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:32424250 original size:22 final size:22
Alignment explanation
Indices: 32424208--32424276 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
32424198 GTTTTGGTAA
*
32424208 TTTTTGAAAATTACGTTACTAG
1 TTTTTGAAAATTACGTGACTAG
*
32424230 TTTTT-AAATATTGCGTGACTAG
1 TTTTTGAAA-ATTACGTGACTAG
32424252 TTTTTGATAAGACATTACGTGACTA
1 TTTTTG--AA-A-ATTACGTGACTA
32424277 ATTGATAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 3 0.08
22 21 0.55
25 2 0.05
26 12 0.32
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (22 bp):
TTTTTGAAAATTACGTGACTAG
Found at i:32424294 original size:22 final size:23
Alignment explanation
Indices: 32424255--32424297 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32424245 TGACTAGTTT
32424255 TTGATAAGACATTACGTGACTAA
1 TTGATAAGACATTACGTGACTAA
* *
32424278 TTGAT-AGGCATTGCGTGACT
1 TTGATAAGACATTACGTGACT
32424298 TGTTAGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (23 bp):
TTGATAAGACATTACGTGACTAA
Found at i:32424312 original size:23 final size:23
Alignment explanation
Indices: 32424283--32424343 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
32424273 ACTAATTGAT
* *
32424283 AGGCATTGCGTGACTTGTTAGTA
1 AGGCATTGCGTAACTAGTTAGTA
32424306 AGGCATTGCGTAACTAGTTAGTA
1 AGGCATTGCGTAACTAGTTAGTA
*
32424329 AGGCATTGTGTAACT
1 AGGCATTGCGTAACT
32424344 TAGGCATTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (23 bp):
AGGCATTGCGTAACTAGTTAGTA
Found at i:32425985 original size:29 final size:30
Alignment explanation
Indices: 32425948--32426022 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 30
32425938 GTTTTGGAAT
* *
32425948 ATGGTGTGTAATAACAATA-TTTTTTCAAC
1 ATGGCGTGTAACAACAATATTTTTTTCAAC
* *
32425977 ATGGCGTGTAACAATAATATTTTTTTTCAAT
1 ATGGCGTGTAACAACAATA-TTTTTTTCAAC
32426008 ATGGCGTGTAACAAC
1 ATGGCGTGTAACAAC
32426023 CTAACCATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 16 0.41
31 23 0.59
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (30 bp):
ATGGCGTGTAACAACAATATTTTTTTCAAC
Found at i:32426060 original size:45 final size:45
Alignment explanation
Indices: 32426008--32426245 Score: 271
Period size: 45 Copynumber: 5.3 Consensus size: 45
32425998 TTTTTTCAAT
*
32426008 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTTC
1 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTAC
* *
32426053 ATGGCGTGTAACAACCTAACCAT-AGCGTGTCACATGTTTTTGTAC
1 ATGGCGTGTAACAACCTAACCATGA-CATGTCACATATTTTTGTAC
* * *
32426098 ATGGCATGTAACAACCTAACCATGCCATGTCACATGTTTTTGTAC
1 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTAC
* ** *
32426143 ATGGCGTGTAACAACTTAACCATGATGTGTCACATATTTTTGCAC
1 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTAC
* * * * * * * * * *
32426188 ATGACATGTAATAACTTAACTATGACGTGTAATATGTTTTTGTAT
1 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTAC
*
32426233 ATGACGTGTAACA
1 ATGGCGTGTAACA
32426246 TCATGACGTA
Statistics
Matches: 166, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
44 1 0.01
45 165 0.99
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (45 bp):
ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTAC
Found at i:32426152 original size:90 final size:90
Alignment explanation
Indices: 32426008--32426245 Score: 307
Period size: 90 Copynumber: 2.6 Consensus size: 90
32425998 TTTTTTCAAT
* * *
32426008 ATGGCGTGTAACAACCTAACCATGACATGTCACATATTTTTGTTCATGGCGTGTAACAACCTAAC
1 ATGGCATGTAACAACCTAACCATGACATGTCACATGTTTTTGTACATGGCGTGTAACAACCTAAC
* *
32426073 CAT-AGCGTGTCACATGTTTTTGTAC
66 CATGA-CGTGTCACATATTTTTGCAC
* *
32426098 ATGGCATGTAACAACCTAACCATGCCATGTCACATGTTTTTGTACATGGCGTGTAACAACTTAAC
1 ATGGCATGTAACAACCTAACCATGACATGTCACATGTTTTTGTACATGGCGTGTAACAACCTAAC
*
32426163 CATGATGTGTCACATATTTTTGCAC
66 CATGACGTGTCACATATTTTTGCAC
* * * * * * * * *
32426188 ATGACATGTAATAACTTAACTATGACGTGTAATATGTTTTTGTATATGACGTGTAACA
1 ATGGCATGTAACAACCTAACCATGACATGTCACATGTTTTTGTACATGGCGTGTAACA
32426246 TCATGACGTA
Statistics
Matches: 129, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
90 128 0.99
91 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (90 bp):
ATGGCATGTAACAACCTAACCATGACATGTCACATGTTTTTGTACATGGCGTGTAACAACCTAAC
CATGACGTGTCACATATTTTTGCAC
Found at i:32429081 original size:2 final size:2
Alignment explanation
Indices: 32429074--32429108 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
32429064 CTTTAACTTT
*
32429074 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32429109 TTACCGACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32443976 original size:21 final size:22
Alignment explanation
Indices: 32443950--32443993 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
32443940 CAATAGAGAT
32443950 GGAAAAGAATTA-GGAACAAAA
1 GGAAAAGAATTAGGGAACAAAA
*
32443971 GGAAAAGAATTAGGGAAGAAAA
1 GGAAAAGAATTAGGGAACAAAA
32443993 G
1 G
32443994 CAAAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.02, G:0.30, T:0.09
Consensus pattern (22 bp):
GGAAAAGAATTAGGGAACAAAA
Found at i:32447089 original size:201 final size:201
Alignment explanation
Indices: 32446732--32447316 Score: 1046
Period size: 201 Copynumber: 2.9 Consensus size: 201
32446722 CAGGGGTGTA
* * * *
32446732 CCTTGGCAAGAATCTTCTTTTCCTCCTCTCCCCAATGGTCCCAGCATCCGCCATCAAAAGCTTAA
1 CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCATCCGCCATCAAAAGCTTAA
32446797 ACATAGTTCAGAAGGTTTGGCTAACAACACCATGGCAGCACATCTACGGCGCCAGAAGAATGGGA
66 ACATAGTTCAGAAGGTTTGGCTAACAACACCATGGCAGCACATCTACGGCGCCAGAAGAATGGGA
32446862 ATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCTGTGCAAGCATCA
131 ATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCTGTGCAAGCATCA
32446927 AATATC
196 AATATC
32446933 CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCATCCGCCATCAAAAGCTTAA
1 CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCATCCGCCATCAAAAGCTTAA
*
32446998 ACATAGTTCAGAAGGTTTGGCTAACAAAACCATGGCAGCACATCTACGGCGCCAGAAGAATGGGA
66 ACATAGTTCAGAAGGTTTGGCTAACAACACCATGGCAGCACATCTACGGCGCCAGAAGAATGGGA
32447063 ATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCTGTGCAAGCATCA
131 ATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCTGTGCAAGCATCA
32447128 AATATC
196 AATATC
* *
32447134 CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCA-CCAGCCAACAAAAGCCTA
1 CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCATCC-GCCATCAAAAGCTTA
* *
32447198 AACATAGCTCAGAAGGTTTGGCTAACAACACCATGACAGCACATCTACGGCGCCAGAAGAATGGG
65 AACATAGTTCAGAAGGTTTGGCTAACAACACCATGGCAGCACATCTACGGCGCCAGAAGAATGGG
* * *
32447263 AAAACAACTGTTTTCAATTCAGGTCAGGCATGGCCAGTAACAAGTCGCAGGCCT
130 AATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCT
32447317 ACATCCCGAT
Statistics
Matches: 370, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
200 2 0.01
201 368 0.99
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (201 bp):
CCTTTGCAAGATTCTTCTTTTCCTCCTCTCCGCATTGGTCCCAGCATCCGCCATCAAAAGCTTAA
ACATAGTTCAGAAGGTTTGGCTAACAACACCATGGCAGCACATCTACGGCGCCAGAAGAATGGGA
ATACAAATGTTTTCAATTCAGCTCAGGCATGGCCAGTAACAAGTCGCAGGCCTGTGCAAGCATCA
AATATC
Found at i:32450618 original size:3 final size:3
Alignment explanation
Indices: 32450578--32450607 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32450568 TTGATGAAAG
32450578 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32450608 TTCTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32470808 original size:61 final size:62
Alignment explanation
Indices: 32470718--32470853 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 62
32470708 ATAGTGAAGA
* * *
32470718 TGAATTTCACTTAGTTTAAAAATTATAATAAGAAATT-TTTTT-AA-TTTGGAAGAAGAGAGATT
1 TGAA-TTCATTTAGTTTAAAAACTATAATAAGAAATTCTTTTTAAACTTAGGAA-AAGAGA-ATT
* *
32470780 TGAATTCATTTAGTTTAGAAACTATAATAGGAAATTCTTTTTAAACTTAGGAAAAGAGAATT
1 TGAATTCATTTAGTTTAAAAACTATAATAAGAAATTCTTTTTAAACTTAGGAAAAGAGAATT
*
32470842 CGAATTCTATTT
1 TGAATTC-ATTT
32470854 TTTAAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
61 28 0.44
62 18 0.28
63 12 0.19
64 6 0.09
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (62 bp):
TGAATTCATTTAGTTTAAAAACTATAATAAGAAATTCTTTTTAAACTTAGGAAAAGAGAATT
Found at i:32471518 original size:6 final size:6
Alignment explanation
Indices: 32471507--32471537 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32471497 ATCCTCTCTA
32471507 CCCACC CCCACC CCCACC CCCACC CCCACC C
1 CCCACC CCCACC CCCACC CCCACC CCCACC C
32471538 TGCCACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.84, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCACC
Found at i:32484871 original size:6 final size:6
Alignment explanation
Indices: 32484823--32484880 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
32484813 GAGTTACAAT
* * *
32484823 AAAAGA AAAATA AAAATA AAAAGACA CAAAAGA GAAGAGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG--A -AAAAGA -AAAAGA AAAAGA AAAAGA
32484875 AAAAGA
1 AAAAGA
32484881 GACGTAGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.73
7 6 0.14
8 1 0.02
9 5 0.11
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:32485033 original size:48 final size:52
Alignment explanation
Indices: 32484972--32485078 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 52
32484962 TAAAAAATTT
* * *
32484972 ATTTTGAGTGGGCCA-T-TAATA-ATATATAATAAATAAATATTTTCAAAAA
1 ATTTGGAGTGGGCCATTATAAAATATATATAAAAAATAAATATTTTCAAAAA
*
32485021 ATTTGGAG-GGGCCATTGATAAAATATATATAAAAAATAAATATTTTTAAAAA
1 ATTTGGAGTGGGCCATT-ATAAAATATATATAAAAAATAAATATTTTCAAAAA
*
32485073 TTTTGG
1 ATTTGG
32485079 GGCCATTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 6 0.12
49 8 0.16
51 4 0.08
52 31 0.63
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (52 bp):
ATTTGGAGTGGGCCATTATAAAATATATATAAAAAATAAATATTTTCAAAAA
Found at i:32486516 original size:65 final size:65
Alignment explanation
Indices: 32486412--32486537 Score: 243
Period size: 65 Copynumber: 1.9 Consensus size: 65
32486402 ATGGAAAGAA
*
32486412 GAAAGAGACTAAAACGATCAAATCGGGAACGTGGAGCTTGATGAAGACCATACAAAGCTTTCTTT
1 GAAAGAGACTAAAACAATCAAATCGGGAACGTGGAGCTTGATGAAGACCATACAAAGCTTTCTTT
32486477 GAAAGAGACTAAAACAATCAAATCGGGAACGTGGAGCTTGATGAAGACCATACAAAGCTTT
1 GAAAGAGACTAAAACAATCAAATCGGGAACGTGGAGCTTGATGAAGACCATACAAAGCTTT
32486538 TTTTAATTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (65 bp):
GAAAGAGACTAAAACAATCAAATCGGGAACGTGGAGCTTGATGAAGACCATACAAAGCTTTCTTT
Found at i:32487268 original size:99 final size:99
Alignment explanation
Indices: 32487116--32487311 Score: 286
Period size: 99 Copynumber: 2.0 Consensus size: 99
32487106 TCAATTGAGG
*
32487116 GAGACGGACAAGTTATAAGAAGACTTTCACTATCTGAAAAAAGTGACTTAGGTGGAGAGTTTATG
1 GAGACGGACAAGTTATAAGAAGACTTTCACTATCTGAAAAAAGTGACTTAGGTGAAGAGTTTATG
32487181 AGTTGAAGAGATTGAGGTAAAGGTATTTTAAAAA
66 AGTTGAAGAGATTGAGGTAAAGGTATTTTAAAAA
* * * * * *
32487215 GAGATGGACAAGTTGTTAGAAGACTTTCACTATTTGGAAAAGGTGA-TTCAGGTGAAGAGTTTAT
1 GAGACGGACAAGTTATAAGAAGACTTTCACTATCTGAAAAAAGTGACTT-AGGTGAAGAGTTTAT
* * *
32487279 GAGTTGAATAGATTGAGGTAGAGGTGTTTTAAA
65 GAGTTGAAGAGATTGAGGTAAAGGTATTTTAAA
32487312 TTGAGAGTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 2 0.02
99 84 0.98
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (99 bp):
GAGACGGACAAGTTATAAGAAGACTTTCACTATCTGAAAAAAGTGACTTAGGTGAAGAGTTTATG
AGTTGAAGAGATTGAGGTAAAGGTATTTTAAAAA
Found at i:32490505 original size:32 final size:31
Alignment explanation
Indices: 32490418--32490511 Score: 136
Period size: 30 Copynumber: 3.0 Consensus size: 31
32490408 AGAACTTGAG
* *
32490418 GAAAAAAAAGATTTGAAGAAATTTAATAGAA
1 GAAAGAAAAGACTTGAAGAAATTTAATAGAA
*
32490449 -AAAGAAAAGACTTGAAGAATTTTAATAGAA
1 GAAAGAAAAGACTTGAAGAAATTTAATAGAA
*
32490479 GAAAGAAAGAGACTTGATGAAATTTAATAGAA
1 GAAAGAAA-AGACTTGAAGAAATTTAATAGAA
32490511 G
1 G
32490512 CAGAATTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
30 27 0.48
31 7 0.12
32 22 0.39
ACGTcount: A:0.56, C:0.02, G:0.19, T:0.22
Consensus pattern (31 bp):
GAAAGAAAAGACTTGAAGAAATTTAATAGAA
Found at i:32507874 original size:11 final size:11
Alignment explanation
Indices: 32507858--32507882 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32507848 ATAATTATAA
32507858 TTTTATTTTAT
1 TTTTATTTTAT
32507869 TTTTATTTTAT
1 TTTTATTTTAT
32507880 TTT
1 TTT
32507883 ATTCTCACAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:32519123 original size:24 final size:23
Alignment explanation
Indices: 32519077--32519126 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
32519067 ATCAAGTTCT
* *
32519077 TATATTTTTATCTTGAGTTAAAA
1 TATATTTTTATATTGAGTCAAAA
*
32519100 TATATTTTTATAATTTAGTCAAAA
1 TATATTTTTAT-ATTGAGTCAAAA
32519124 TAT
1 TAT
32519127 TACTTGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (23 bp):
TATATTTTTATATTGAGTCAAAA
Found at i:32523829 original size:88 final size:88
Alignment explanation
Indices: 32523679--32523854 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
32523669 TCAAACTATT
32523679 CCTTTCATCTTTCATTATTTCTAAACATTATAATTAACCTCAATTGACATCCAATAAACTTTATT
1 CCTTTCATCTTTCATTATTTCTAAACATTATAATTAACCTCAATTGACATCCAATAAACTTTATT
32523744 AGTCATCATATCAAAGTATGGGG
66 AGTCATCATATCAAAGTATGGGG
*
32523767 CCTTTCATCTTTCATTATTTCTAAACATTATAATTAACCTCAATTGACATCCAATAAGCTTTATT
1 CCTTTCATCTTTCATTATTTCTAAACATTATAATTAACCTCAATTGACATCCAATAAACTTTATT
32523832 AGTCATCATATCAAAGTATGGGG
66 AGTCATCATATCAAAGTATGGGG
32523855 TATTACACTA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.39
Consensus pattern (88 bp):
CCTTTCATCTTTCATTATTTCTAAACATTATAATTAACCTCAATTGACATCCAATAAACTTTATT
AGTCATCATATCAAAGTATGGGG
Found at i:32524177 original size:17 final size:17
Alignment explanation
Indices: 32524155--32524188 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32524145 GCATACATAC
32524155 ATCATTAAGATATTATT
1 ATCATTAAGATATTATT
*
32524172 ATCATTAGGATATTATT
1 ATCATTAAGATATTATT
32524189 TTTAAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
ATCATTAAGATATTATT
Found at i:32526366 original size:15 final size:15
Alignment explanation
Indices: 32526346--32526375 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32526336 ATTTTTTCCA
*
32526346 AAAAAATTCTCTCTC
1 AAAAAATACTCTCTC
32526361 AAAAAATACTCTCTC
1 AAAAAATACTCTCTC
32526376 TCTCCCTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATACTCTCTC
Found at i:32526373 original size:17 final size:16
Alignment explanation
Indices: 32526344--32526377 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32526334 TTATTTTTTC
*
32526344 CAAAAAAATTCTCTCT
1 CAAAAAAACTCTCTCT
32526360 CAAAAAATACTCTCTCT
1 CAAAAAA-ACTCTCTCT
32526377 C
1 C
32526378 TCCCTATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (16 bp):
CAAAAAAACTCTCTCT
Found at i:32526518 original size:15 final size:15
Alignment explanation
Indices: 32526498--32526535 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32526488 GTATTATTTT
*
32526498 TTTTATTTCTT-TCTA
1 TTTTATTTTTTATC-A
32526513 TTTTATTTTTTATCA
1 TTTTATTTTTTATCA
32526528 TTTTATTT
1 TTTTATTT
32526536 GGACTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTATCA
Found at i:32526620 original size:28 final size:28
Alignment explanation
Indices: 32526589--32526642 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
32526579 TTGTTTAATA
*
32526589 TAACAATTTTATGATGTTTAT-TTATTCT
1 TAAC-ATTTTATGATGTATATATTATTCT
*
32526617 TAACTTTTTATGATGTATATATTATT
1 TAACATTTTATGATGTATATATTATT
32526643 TGATGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (28 bp):
TAACATTTTATGATGTATATATTATTCT
Found at i:32543616 original size:3 final size:3
Alignment explanation
Indices: 32543595--32543647 Score: 52
Period size: 3 Copynumber: 16.0 Consensus size: 3
32543585 AAGGCTTCCC
*
32543595 TGA TGA TGGA TGA TCGA TGA TGAA TGA TGAA TGA TGA CTGA TGA TGG
1 TGA TGA T-GA TGA T-GA TGA TG-A TGA TG-A TGA TGA -TGA TGA TGA
32543642 TGA TGA
1 TGA TGA
32543648 ATATGGGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 28 0.65
4 15 0.35
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:32543616 original size:10 final size:9
Alignment explanation
Indices: 32543595--32543647 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 9
32543585 AAGGCTTCCC
32543595 TGATGATGGA
1 TGATGAT-GA
32543605 TGATCGATGA
1 TGAT-GATGA
32543615 TGAATGATGAA
1 TG-ATGATG-A
32543626 TGATGACTGA
1 TGATGA-TGA
*
32543636 TGATGGTGA
1 TGATGATGA
32543645 TGA
1 TGA
32543648 ATATGGGAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
9 6 0.16
10 22 0.58
11 10 0.26
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.30
Consensus pattern (9 bp):
TGATGATGA
Found at i:32543623 original size:21 final size:21
Alignment explanation
Indices: 32543597--32543638 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32543587 GGCTTCCCTG
*
32543597 ATGATGGATGATCGA-TGATGA
1 ATGATGAATGAT-GACTGATGA
32543618 ATGATGAATGATGACTGATGA
1 ATGATGAATGATGACTGATGA
32543639 TGGTGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.29
Consensus pattern (21 bp):
ATGATGAATGATGACTGATGA
Found at i:32543631 original size:7 final size:7
Alignment explanation
Indices: 32543597--32543638 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
32543587 GGCTTCCCTG
*
32543597 ATGATGG
1 ATGATGA
32543604 ATGATCG-
1 ATGAT-GA
32543611 ATGATGA
1 ATGATGA
32543618 ATGATGA
1 ATGATGA
32543625 ATGATGA
1 ATGATGA
*
32543632 CTGATGA
1 ATGATGA
32543639 TGGTGATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.29
Consensus pattern (7 bp):
ATGATGA
Found at i:32545764 original size:23 final size:23
Alignment explanation
Indices: 32545724--32545769 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32545714 TTAATTGTTA
**
32545724 ATTACTATATTTAATATTAAAAT
1 ATTACTATAAATAATATTAAAAT
* *
32545747 ATTACTATAAATAGTATTCAAAT
1 ATTACTATAAATAATATTAAAAT
32545770 TAATTTCAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTACTATAAATAATATTAAAAT
Found at i:32570864 original size:58 final size:59
Alignment explanation
Indices: 32570800--32570911 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
32570790 TAGGCTTTCC
* * *
32570800 TTTTTCTTTTAACGTAGGAGATTGA-GGTTTGAGGTCATTGATGGCTGAATGCCCTTCT
1 TTTTTCTTTTAACATAGGAGATAGATGGTTTGAGGTCATTGATGACTGAATGCCCTTCT
*
32570858 TTTTTCTTTTTACATAGGAGATAGATGGTTTGAGGTCATTGATGACTGAATGCC
1 TTTTTCTTTTAACATAGGAGATAGATGGTTTGAGGTCATTGATGACTGAATGCC
32570912 TGGATGATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 22 0.45
59 27 0.55
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (59 bp):
TTTTTCTTTTAACATAGGAGATAGATGGTTTGAGGTCATTGATGACTGAATGCCCTTCT
Found at i:32578326 original size:5 final size:5
Alignment explanation
Indices: 32578316--32578361 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
32578306 AGTCATGCAA
*
32578316 AAAAT AAAAT AAAAT AAAAT -AAAT -AAAT -AAAT AAAAG AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
32578362 CTGCTGGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
4 16 0.42
5 22 0.58
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:32578345 original size:8 final size:9
Alignment explanation
Indices: 32578317--32578361 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
32578307 GTCATGCAAA
32578317 AAATAAAAT
1 AAATAAAAT
32578326 AAAATAAAAT
1 -AAATAAAAT
32578336 AAAT-AAAT
1 AAATAAAAT
*
32578344 AAATAAAAG
1 AAATAAAAT
*
32578353 AAAAAAAAT
1 AAATAAAAT
32578362 CTGCTGGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.26
9 14 0.45
10 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:32578350 original size:22 final size:23
Alignment explanation
Indices: 32578317--32578361 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
32578307 GTCATGCAAA
* *
32578317 AAATAAAATAAAATAAAATAAAT
1 AAATAAAATAAAAGAAAAAAAAT
32578340 AAAT-AAATAAAAGAAAAAAAAT
1 AAATAAAATAAAAGAAAAAAAAT
32578362 CTGCTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (23 bp):
AAATAAAATAAAAGAAAAAAAAT
Found at i:32588661 original size:23 final size:23
Alignment explanation
Indices: 32588633--32588677 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
32588623 TATGTTTTCG
*
32588633 ATTTCTCTCTCTCACGTTTTCAT
1 ATTTCTCTCTCTCACGCTTTCAT
* *
32588656 ATTTCTCTTTCTTACGCTTTCA
1 ATTTCTCTCTCTCACGCTTTCA
32588678 ATACACCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.29, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTCTCTCTCTCACGCTTTCAT
Found at i:32589175 original size:44 final size:45
Alignment explanation
Indices: 32589041--32589191 Score: 178
Period size: 45 Copynumber: 3.4 Consensus size: 45
32589031 ACAAGCTTTC
* * * * *
32589041 GTACATGACGTGTCACACACTAACCATGGTTTGTCATAGGTTTTT
1 GTACATGGCGTGTCACACGCTAACCATAGCTTGTCACAGGTTTTT
* * * *
32589086 GTACATGACGTGTAACATGCTAACCATAGCTTGTCACAGGCTTTT
1 GTACATGGCGTGTCACACGCTAACCATAGCTTGTCACAGGTTTTT
* * * *
32589131 GTATATGGTGTGTCACACGCTAATCAT-GCTTGTCACAAGTTTTT
1 GTACATGGCGTGTCACACGCTAACCATAGCTTGTCACAGGTTTTT
32589175 GTACATGGCGTGTCACA
1 GTACATGGCGTGTCACA
32589192 TGTTTTTGTA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 30 0.34
45 59 0.66
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (45 bp):
GTACATGGCGTGTCACACGCTAACCATAGCTTGTCACAGGTTTTT
Found at i:32589200 original size:68 final size:69
Alignment explanation
Indices: 32589117--32589260 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 69
32589107 AACCATAGCT
* *** * * *
32589117 TGTCACAGGCTTTTGTATATGGTGTGTCACACGCTAATCAT-GCTTGTCACAAGTTTTTGTACAT
1 TGTCACAGGCTTTTGTACATAACGTGTAACACGCTAACCATGGCTTATCACAAGTTTTTGTACAT
*
32589181 GGCG
66 GACG
* * * * *
32589185 TGTCACATGTTTTTGTACATAACGTGTAACACGCTAACCATGGTTTATTACAAGTTTTTGTATAT
1 TGTCACAGGCTTTTGTACATAACGTGTAACACGCTAACCATGGCTTATCACAAGTTTTTGTACAT
32589250 GACG
66 GACG
32589254 TGTCACA
1 TGTCACA
32589261 CGCTAATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
68 33 0.53
69 29 0.47
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (69 bp):
TGTCACAGGCTTTTGTACATAACGTGTAACACGCTAACCATGGCTTATCACAAGTTTTTGTACAT
GACG
Found at i:32589210 original size:24 final size:24
Alignment explanation
Indices: 32589161--32589211 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
32589151 TAATCATGCT
**
32589161 TGTCACAAGTTTTTGTACATGGCG
1 TGTCACAAGTTTTTGTACATAACG
*
32589185 TGTCACATGTTTTTGTACATAACG
1 TGTCACAAGTTTTTGTACATAACG
32589209 TGT
1 TGT
32589212 AACACGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (24 bp):
TGTCACAAGTTTTTGTACATAACG
Found at i:32589244 original size:45 final size:45
Alignment explanation
Indices: 32589178--32589301 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 45
32589168 AGTTTTTGTA
* * * *
32589178 CATGGCGTGTCACATGTTTTTGTACATAACGTGTAACACGCTAAC
1 CATGGCTTATCACAAGTTTTTGTACATGACGTGTAACACGCTAAC
* * * * *
32589223 CATGGTTTATTACAAGTTTTTGTATATGACGTGTCACACGCTAAT
1 CATGGCTTATCACAAGTTTTTGTACATGACGTGTAACACGCTAAC
*
32589268 CATGGCTTGTCACAAGTTTTTGTACATGACGTGT
1 CATGGCTTATCACAAGTTTTTGTACATGACGTGT
32589302 GACAAATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (45 bp):
CATGGCTTATCACAAGTTTTTGTACATGACGTGTAACACGCTAAC
Found at i:32589312 original size:69 final size:69
Alignment explanation
Indices: 32589234--32589370 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
32589224 ATGGTTTATT
* * *
32589234 ACAAGTTTTTGTATAT-GACGTGTCACACGCTAATCATGGCTTGTCACA-AGTTTTTGTACATGA
1 ACAAATTTTTGTATATAG-CATGTAACACGCTAATCATGGCTTGTCACAGA-TTTTTGTACATGA
32589297 CGTGTG
64 CGTGTG
* * *
32589303 ACAAATTTTTGTATATAGCATGTAATACGCTAATCATGGCTTGTCACAGATTTTTGTATATGGCG
1 ACAAATTTTTGTATATAGCATGTAACACGCTAATCATGGCTTGTCACAGATTTTTGTACATGACG
32589368 TGT
66 TGT
32589371 AACATCATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
69 58 0.97
70 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (69 bp):
ACAAATTTTTGTATATAGCATGTAACACGCTAATCATGGCTTGTCACAGATTTTTGTACATGACG
TGTG
Found at i:32589333 original size:114 final size:113
Alignment explanation
Indices: 32589081--32589370 Score: 366
Period size: 114 Copynumber: 2.6 Consensus size: 113
32589071 TTGTCATAGG
* * * * * ** *
32589081 TTTTTGTACATGACGTGTAACATGCTAACCATAGCTTGTCACAGGCTTTTGTATATGGTGTGTCA
1 TTTTTGTACATAACATGTAACACGCTAACCATGGCTTATCACAGATTTTTGTATATGGCGTGTCA
* **
32589146 CACGCTAATCATGCTTGTCACAAGTTTTTGTACATGGCGTGTCACATG
66 CACGCTAATCATGCTTGTCACAAGTTTTTGTACATGACGTGTCACAAA
* * * *
32589194 TTTTTGTACATAACGTGTAACACGCTAACCATGGTTTATTACA-AGTTTTTGTATATGACGTGTC
1 TTTTTGTACATAACATGTAACACGCTAACCATGGCTTATCACAGA-TTTTTGTATATGGCGTGTC
*
32589258 ACACGCTAATCATGGCTTGTCACAAGTTTTTGTACATGACGTGTGACAAA
65 ACACGCTAATCAT-GCTTGTCACAAGTTTTTGTACATGACGTGTCACAAA
* * * * *
32589308 TTTTTGTATATAGCATGTAATACGCTAATCATGGCTTGTCACAGATTTTTGTATATGGCGTGT
1 TTTTTGTACATAACATGTAACACGCTAACCATGGCTTATCACAGATTTTTGTATATGGCGTGT
32589371 AACATCATAA
Statistics
Matches: 151, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
113 66 0.44
114 84 0.56
115 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (113 bp):
TTTTTGTACATAACATGTAACACGCTAACCATGGCTTATCACAGATTTTTGTATATGGCGTGTCA
CACGCTAATCATGCTTGTCACAAGTTTTTGTACATGACGTGTCACAAA
Found at i:32603303 original size:16 final size:16
Alignment explanation
Indices: 32603275--32603341 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
32603265 AAGATAAAAA
32603275 TATATT-TTA-TTATT
1 TATATTATTATTTATT
32603289 TATATTATTATTTATT
1 TATATTATTATTTATT
* *
32603305 TTTATTA-GATTT-TT
1 TATATTATTATTTATT
*
32603319 TAAATATTAATAATTTATT
1 T--ATATT-ATTATTTATT
32603338 TATA
1 TATA
32603342 ATTTAATCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.21
15 7 0.17
16 15 0.36
17 4 0.10
18 4 0.10
19 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (16 bp):
TATATTATTATTTATT
Found at i:32603386 original size:32 final size:32
Alignment explanation
Indices: 32603350--32603435 Score: 77
Period size: 32 Copynumber: 2.7 Consensus size: 32
32603340 TAATTTAATC
32603350 ATTAATATTTTAAAATATTAACATTTTATTTT
1 ATTAATATTTTAAAATATTAACATTTTATTTT
* ** * **
32603382 ATTAAT-TATTATTATGATCAATTTTTTATTTT
1 ATTAATATTTTAAAAT-ATTAACATTTTATTTT
* *
32603414 ATT-TTATTTTTAAATATTAACA
1 ATTAATATTTTAAAATATTAACA
32603436 ATTGATGATT
Statistics
Matches: 38, Mismatches: 14, Indels: 5
0.67 0.25 0.09
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (32 bp):
ATTAATATTTTAAAATATTAACATTTTATTTT
Found at i:32604710 original size:2 final size:2
Alignment explanation
Indices: 32604703--32604755 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
32604693 CAAAGACTTT
*
32604703 TA TA TA TA -A CA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32604743 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
32604756 GGGTTTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32606184 original size:60 final size:59
Alignment explanation
Indices: 32606106--32606218 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 59
32606096 TATCTTTATT
32606106 TTTTAAAATATAAATTTAATATACTTATATTTTTTATTGTTAATTTTTA-TATAATATCATC
1 TTTTAAAATATAAATTTAATAT-C--ATATTTTTTATTGTTAATTTTTATTATAATATCATC
** * * *
32606167 TTTT-AAATATATTTTTAATGTCATATTTTTTATTTTTATTTTTTATTATAAT
1 TTTTAAAATATAAATTTAATATCATATTTTTTATTGTTAATTTTTATTATAAT
32606219 CTTATATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 21 0.46
58 6 0.13
59 1 0.02
60 14 0.30
61 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (59 bp):
TTTTAAAATATAAATTTAATATCATATTTTTTATTGTTAATTTTTATTATAATATCATC
Found at i:32606231 original size:33 final size:33
Alignment explanation
Indices: 32606189--32606251 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
32606179 TTTTAATGTC
* * * *
32606189 ATATTTTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTCATGTTTTAATATAATCTT
32606222 ATATATTTTATTTTCATGTTTTAATATAAT
1 ATATATTTTATTTTCATGTTTTAATATAAT
32606252 TTTCTACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (33 bp):
ATATATTTTATTTTCATGTTTTAATATAATCTT
Found at i:32608502 original size:6 final size:6
Alignment explanation
Indices: 32608483--32608515 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
32608473 TCTTAGGTCC
*
32608483 CCACTG CCATTG CCACTG CCACTG CCACTG CCA
1 CCACTG CCACTG CCACTG CCACTG CCACTG CCA
32608516 AATCCCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.48, G:0.15, T:0.18
Consensus pattern (6 bp):
CCACTG
Found at i:32609508 original size:2 final size:2
Alignment explanation
Indices: 32609501--32609581 Score: 73
Period size: 2 Copynumber: 42.0 Consensus size: 2
32609491 ATTTAATACA
* * *
32609501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT NACT -T CT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -A-T AT AT AT
*
32609543 AT -T A- AT AC A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32609582 TTTGTCTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
1 5 0.07
2 63 0.91
4 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32609560 original size:51 final size:50
Alignment explanation
Indices: 32609484--32609584 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 50
32609474 TTATCAAATC
32609484 ACTTCTCATTTAATACAATATATATATATATATATATATATATATATTTT
1 ACTTCTCATTTAATACAATATATATATATATATATATATATATATATTTT
32609534 NACTTCTC-TATTAATACAATATATATATATATATATATATATATATATTTT
1 -ACTTCTCAT-TTAATACAATATATATATATATATATATATATATATATTTT
32609585 GTCTAAATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (50 bp):
ACTTCTCATTTAATACAATATATATATATATATATATATATATATATTTT
Found at i:32626355 original size:26 final size:26
Alignment explanation
Indices: 32626316--32626393 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
32626306 TTATTTGTAA
*
32626316 AATTTAAAATATTAAT-ATTTTATATAT
1 AATTT-AAATATTAATAATATTA-ATAT
*
32626343 AATTTAAATATTATTAATATTAATAT
1 AATTTAAATATTAATAATATTAATAT
* *
32626369 GATTAAAATATTAA-AATATTAATAT
1 AATTTAAATATTAATAATATTAATAT
32626394 TTTANNNNNN
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
25 11 0.24
26 24 0.53
27 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
AATTTAAATATTAATAATATTAATAT
Found at i:32648316 original size:29 final size:29
Alignment explanation
Indices: 32648273--32648336 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
32648263 AGTTTTTATC
*
32648273 TTGGAATTAGATTTTATCTAGGGCTCAAA
1 TTGGAATTAGATTTTATCTAGGCCTCAAA
* *
32648302 TTGGACTTAGTTTTTATCTAGGCCTCAAA
1 TTGGAATTAGATTTTATCTAGGCCTCAAA
32648331 TATGGA
1 T-TGGA
32648337 GTAAGTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (29 bp):
TTGGAATTAGATTTTATCTAGGCCTCAAA
Found at i:32681871 original size:21 final size:21
Alignment explanation
Indices: 32681838--32681883 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32681828 TTAAGTGATT
32681838 AATTTAAGTTATTTTA-GTTA
1 AATTTAAGTTATTTTATGTTA
*
32681858 AATTTAATGTTATTTTATTTTA
1 AATTTAA-GTTATTTTATGTTA
32681880 AATT
1 AATT
32681884 ACTTTAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
AATTTAAGTTATTTTATGTTA
Found at i:32707086 original size:15 final size:16
Alignment explanation
Indices: 32707068--32707098 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32707058 ATTATTATTT
32707068 AAATAATTAA-ATTAA
1 AAATAATTAATATTAA
32707083 AAATAATTAATATTAA
1 AAATAATTAATATTAA
32707099 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATTAATATTAA
Found at i:32707564 original size:17 final size:19
Alignment explanation
Indices: 32707524--32707564 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
32707514 ATTATATTAT
*
32707524 ATATATACTAATACTTTTA
1 ATATATACTAATACTTTAA
*
32707543 GTATATA-T-ATACTTTAA
1 ATATATACTAATACTTTAA
32707560 ATATA
1 ATATA
32707565 ATAAATTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 12 0.63
18 1 0.05
19 6 0.32
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATACTAATACTTTAA
Found at i:32707754 original size:342 final size:344
Alignment explanation
Indices: 32707345--32708323 Score: 1061
Period size: 360 Copynumber: 2.8 Consensus size: 344
32707335 ATAAAGTTTT
* * * * *
32707345 TGAGATTATAATAAT-TTTGGAATCTAACTA-TTTTTTTAATTTCATGTAATTAAAGACAAATTC
1 TGAGATTAGAAT-ATGTTTGAAATATAGCTATTTTTTTTAATTTCATGTAATTAAAGACAAACTC
* * * *
32707408 ATATAATTAATTAAATCAATTTATTAAATTATGATTATTAATTAACTTGAAATATTTTTTAATAT
65 ATATAATTAATTAAATTAATTTATAAAATTATGATTATTAATTAACTTGTAATGTTTTTTAATAT
* *
32707473 ATACATTATATTTATTGAGTTCATTTATAAGAAATATAATTATTATATTATATATATACTAATAC
130 ATACTTTATATATATTGAGTTCATTTATAAGAAATATAATTA-TATATTATATATATA-TAATAC
* *
32707538 TTTTAGTATATATATACTTTAAATATAATAAATTTACTTTTTATTTTATATTTACATTACAAAAT
193 TTTTAGTATATATATACTTTAAATATAATAAATTTACTTTTTATTTTGTATTAACATTACAAAAT
* * *
32707603 TTATAACTTGTAAAATTATTAATTATAATAAATACACTTTTGTTTGTATAAACTTATAAT-AT-A
258 TTATAACTTATAAAATTATTAATTATAATAAATACACCTTTGTTTATATAAACTTATAATAATAA
* *
32707666 C-AAACGT-TAAGAA-AAGTTG
323 CTAAACATCTAAAAATAAGTTG
* * * * *
32707685 TGAGATTTGAATAGTTTTTGAGATATAGTTTTTTTTTTTAATTTCATGTAATTAAAGACAAACTC
1 TGAGATTAGAATA-TGTTTGAAATATAGCTATTTTTTTTAATTTCATGTAATTAAAGACAAACTC
32707750 ATATAATTAATTAAATTAATTTATAAAATTATGATTATTAATT-ACTCTGTAATGTTTTTTAATA
65 ATATAATTAATTAAATTAATTTATAAAATTATGATTATTAATTAACT-TGTAATGTTTTTTAATA
* * *
32707814 TATTTACTTTATATATATTGAGTTCGTTTATAA-ATAATATAATTACTAT-TATACATATAGTAA
129 TA--TACTTTATATATATTGAGTTCATTTATAAGA-AATATAATTA-TATAT-TATATATA-TAT
*
32707877 AATACTTTTAGCGTGTGTACATATATATACTTTAAATATAA-ACATATTTACTTTCTATTTTGTA
188 AATACTTTTA------GT--ATATATATACTTTAAATATAATA-A-ATTTACTTTTTATTTTGTA
* **
32707941 TTAACATTACAAAAATTT-TAACTTATAAAATTATTAATTATAATATATGTACCTTTGTTTATAT
243 TTAACATTAC-AAAATTTATAACTTATAAAATTATTAATTATAATAAATACACCTTTGTTTATAT
**
32708005 AAACTTATAATACATAAACTTAATTATCTAAAAATAAGTTG
307 AAACTTATAATA-AT-AAC-TAAACATCTAAAAATAAGTTG
* ** * * *
32708046 TGAGATTAGAATATGTTTGAAATTTAGCTATTTTTTAAAATTTTATGTAGTTAAGGACAAACTCA
1 TGAGATTAGAATATGTTTGAAATATAGCTATTTTTTTTAATTTCATGTAATTAAAGACAAACTCA
* * * * *
32708111 TATAATTAATTAAATTAATTAATAAAACTGTGATTATTAATTAACTTCTAATGTCTTTTAATATC
66 TATAATTAATTAAATTAATTTATAAAATTATGATTATTAATTAACTTGTAATGTTTTTTAATA--
* * * * *
32708176 TATACTTTATATATATTGGGTTAATTTATAAGAAATATAGTTA-CTATTAT-T-T-TAT-ATGC-
129 TATACTTTATATATATTGAGTTCATTTATAAGAAATATAATTATATATTATATATATATAATACT
* * * * *
32708235 ---ACTA-A-A-ATACTTTAAATGTAAATATATTTACTTTTTATTTTGTATTAACATTATAAAAA
194 TTTAGTATATATATACTTTAAATAT-AATAAATTTACTTTTTATTTTGTATTAACATTACAAAAT
32708294 TTATAACTTATAAAATTATTAATTATAATA
258 TTATAACTTATAAAATTATTAATTATAATA
32708324 TATATATACA
Statistics
Matches: 541, Mismatches: 62, Indels: 74
0.80 0.09 0.11
Matches are distributed among these distances:
337 6 0.01
338 66 0.12
339 4 0.01
340 13 0.02
341 13 0.02
342 90 0.17
343 3 0.01
344 56 0.10
345 2 0.00
349 1 0.00
350 2 0.00
351 1 0.00
352 22 0.04
353 80 0.15
354 9 0.02
355 2 0.00
356 1 0.00
357 3 0.01
358 3 0.01
359 4 0.01
360 136 0.25
361 22 0.04
362 2 0.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (344 bp):
TGAGATTAGAATATGTTTGAAATATAGCTATTTTTTTTAATTTCATGTAATTAAAGACAAACTCA
TATAATTAATTAAATTAATTTATAAAATTATGATTATTAATTAACTTGTAATGTTTTTTAATATA
TACTTTATATATATTGAGTTCATTTATAAGAAATATAATTATATATTATATATATATAATACTTT
TAGTATATATATACTTTAAATATAATAAATTTACTTTTTATTTTGTATTAACATTACAAAATTTA
TAACTTATAAAATTATTAATTATAATAAATACACCTTTGTTTATATAAACTTATAATAATAACTA
AACATCTAAAAATAAGTTG
Found at i:32708308 original size:15 final size:16
Alignment explanation
Indices: 32708277--32708321 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
32708267 TTTTATTTTG
32708277 TATTAACATTATAAAAAT
1 TATTAAC-TTAT-AAAAT
32708295 TA-TAACTTATAAAAT
1 TATTAACTTATAAAAT
32708310 TATTAA-TTATAA
1 TATTAACTTATAA
32708322 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.50
16 7 0.27
17 4 0.15
18 2 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACTTATAAAAT
Found at i:32717546 original size:16 final size:17
Alignment explanation
Indices: 32717525--32717558 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
32717515 AGAATTGAAT
32717525 AGACAAGAAAAAA-AAA
1 AGACAAGAAAAAATAAA
32717541 AGACAAGAAAAAATAAA
1 AGACAAGAAAAAATAAA
32717558 A
1 A
32717559 CAGCATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (17 bp):
AGACAAGAAAAAATAAA
Found at i:32731227 original size:18 final size:18
Alignment explanation
Indices: 32731201--32731260 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
32731191 ATACGTTTAA
*
32731201 TTAATCGTATTATCGTGT
1 TTAAACGTATTATCGTGT
* *
32731219 TTAAACGTATAAACGTGT
1 TTAAACGTATTATCGTGT
* * * *
32731237 TTAATCATGTTATTGTGT
1 TTAAACGTATTATCGTGT
32731255 TTAAAC
1 TTAAAC
32731261 ATATATGTAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (18 bp):
TTAAACGTATTATCGTGT
Found at i:32733169 original size:15 final size:15
Alignment explanation
Indices: 32733151--32733180 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32733141 CTCTTACACC
32733151 TCAATTTCTTCTCTA
1 TCAATTTCTTCTCTA
32733166 TCAATTTCTTCTCTA
1 TCAATTTCTTCTCTA
32733181 AGTTTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (15 bp):
TCAATTTCTTCTCTA
Found at i:32746303 original size:77 final size:76
Alignment explanation
Indices: 32746216--32746368 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 76
32746206 TTTAAGAATG
*
32746216 GTTAAGGAATAATGGGTAAATGATAAAAATACCCTTTATTAAAATTTAAAGATTTTTTTATTAAA
1 GTTAAGGAATAATGGGTAAATGATAAAAATACCCTTTATTAAAATTTAAAGA-TTTTTAATTAAA
32746281 AAA-AAAAAGAA
65 AAACAAAAAGAA
32746292 NGTTAAGGAATAATGGGTAAATGATAAAAATACCCTTTATTAAAATTTAAAGATTTTTAATTAAA
1 -GTTAAGGAATAATGGGTAAATGATAAAAATACCCTTTATTAAAATTTAAAGATTTTTAATTAAA
32746357 AAACAAAAAGAA
65 AAACAAAAAGAA
32746369 CTATGATAAG
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 14 0.19
77 60 0.81
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (76 bp):
GTTAAGGAATAATGGGTAAATGATAAAAATACCCTTTATTAAAATTTAAAGATTTTTAATTAAAA
AACAAAAAGAA
Found at i:32746672 original size:45 final size:44
Alignment explanation
Indices: 32746611--32746703 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 44
32746601 ATTAAATTTA
* * *
32746611 AATAATACTAAATAATATTCTTTGTTACATTTATTATATTCAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATA-TCAAAT
* * * *
32746656 AATAATATTAAGTAATATGCTTTATAATATTTATTATATGAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATATCAAAT
32746700 AATA
1 AATA
32746704 TTTAAATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 9 0.22
45 32 0.78
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (44 bp):
AATAATACTAAATAATATGCTTTATAACATTTATTATATCAAAT
Found at i:32781537 original size:2 final size:2
Alignment explanation
Indices: 32781530--32781562 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32781520 ACAGCCCAAA
32781530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32781563 GTAAGTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32782373 original size:31 final size:31
Alignment explanation
Indices: 32782338--32782508 Score: 193
Period size: 31 Copynumber: 5.5 Consensus size: 31
32782328 AATAAGGAAT
* * *
32782338 AAATGTTGTGAAACACCATGAATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* *
32782369 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* * *
32782400 AAATATTGTGACACGTCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* *
32782431 AAATCTTGTGACACGTCATGCATAACAAGTC-
1 AAATGTTGTGACACGCCATGCATAACAAG-CA
*
32782462 AAATGTTGTGACACGCCATGCATATCAAGTC-
1 AAATGTTGTGACACGCCATGCATAACAAG-CA
* *
32782493 AAATGTTATCACACGC
1 AAATGTTGTGACACGC
32782509 TAACGTTGAC
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
31 124 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGCA
Found at i:32783062 original size:47 final size:47
Alignment explanation
Indices: 32782991--32783145 Score: 237
Period size: 47 Copynumber: 3.3 Consensus size: 47
32782981 TCTCTATTTC
* *
32782991 AAACCATGACTTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
1 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
*
32783038 AAACCATGGCGTGTCAGCTT-TTCAAGCAATG-TTGTGTCACACACTCT
1 AAACCATGGCGTGTCAG-TTGTTCAAGCAATGCCT-TGTCACACACTCT
32783085 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
1 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
32783132 AAA-CATGG-GTGTCA
1 AAACCATGGCGTGTCA
32783146 CCAACTCTGA
Statistics
Matches: 100, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
45 6 0.06
46 8 0.08
47 83 0.83
48 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (47 bp):
AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
Found at i:32783233 original size:47 final size:47
Alignment explanation
Indices: 32783136--32783257 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
32783126 CACTCTAAAC
* * * **
32783136 ATGG-GTGTCACCAACTCTGAACTCTGGCTTGTTATAGTTTCCCTCA
1 ATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCCCTCA
* *
32783182 ATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCTCTCT
1 ATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCCCTCA
* * * * *
32783229 ATGGCATCTCACAAACTTTGAACGCTGGC
1 ATGGCGTGTCACCAACTCTGAACTCTGGC
32783258 GTNTATATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 4 0.06
47 59 0.94
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
ATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCCCTCA
Found at i:32783268 original size:2 final size:2
Alignment explanation
Indices: 32783261--32783302 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32783251 CGCTGGCGTN
32783261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32783303 AAATCAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32784543 original size:26 final size:26
Alignment explanation
Indices: 32784473--32784583 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 26
32784463 TTAATATAAC
*
32784473 TTTTTATATTATATATTTTATTTTAAT
1 TTTTTATATTATATA-TTAATTTTAAT
*
32784500 TCCTTTTACCTA-TATTATATAAATTTTAAT
1 T--TTTTA--TATTA-TATATTAATTTTAAT
* *
32784530 TTTTTATATTTTATTTTAATTTCTAA-
1 TTTTTATATTATATATTAATTT-TAAT
* *
32784556 TTCTTATATTATATATTTTATTTTAAT
1 TTTTTATATTATATA-TTAATTTTAAT
32784583 T
1 T
32784584 ATAACATCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
26 26 0.39
27 12 0.18
28 5 0.08
29 5 0.08
30 12 0.18
31 6 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTTATATTATATATTAATTTTAAT
Found at i:32784564 original size:50 final size:50
Alignment explanation
Indices: 32784466--32784570 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
32784456 CATTTCTTTA
* * *
32784466 ATATAACTTTTTATATTATATATTTTATTTTAATTCCTTTTACCTATATT
1 ATATAAATTTTAATATTATATATTTTATTTTAATTCCTATTACCTATATT
* * * *
32784516 ATATAAATTTTAATTTTTTATATTTTATTTTAATTTCTAATT-CTTATATT
1 ATATAAATTTTAATATTATATATTTTATTTTAATTCCT-ATTACCTATATT
32784566 ATATA
1 ATATA
32784571 TTTTATTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (50 bp):
ATATAAATTTTAATATTATATATTTTATTTTAATTCCTATTACCTATATT
Found at i:32786956 original size:27 final size:27
Alignment explanation
Indices: 32786878--32786958 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
32786868 GTCATGTTTA
* * *
32786878 AAAAATAATATTATTATATACCATATTC
1 AAAAA-AATGTTATTACATACCATGTTC
* * * * *
32786906 AAAAAAATGTTGTCACACATCATGTTG
1 AAAAAAATGTTATTACATACCATGTTC
32786933 AAAAAAATGTTATTACATACCATGTT
1 AAAAAAATGTTATTACATACCATGTT
32786959 TAAGTTGTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 36 0.88
28 5 0.12
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (27 bp):
AAAAAAATGTTATTACATACCATGTTC
Found at i:32787218 original size:124 final size:125
Alignment explanation
Indices: 32786897--32787392 Score: 477
Period size: 124 Copynumber: 4.0 Consensus size: 125
32786887 ATTATTATAT
* ** * * * * *
32786897 ACCATATTCAAAAAAATGTTGTCACACATCATGTTGAAAAAAATGTTATTACATACCATGTTTAA
1 ACCATATTGAAAAAAAAATTGTTACACGTTATGTTGAAAAAAAAGTTATTACATGCCATGTTTAA
* * * * * *
32786962 GTTGTTTAACTCCAAAAG-TTGTGTCCTAGTGAAATACAAAGATGGAAACCAAGTTACAC
66 GATATTTAACTCCAAAAGTTTATATCCTAGTGAAATACAAAGATAGAGACCAAGTTACAC
** * * * * * *
32787021 GTCATGTTG-AGAAAAAATTATT--AC-TTCATATT-AAAAAAAAGTTATTATATGTCATGTTTA
1 ACCATATTGAAAAAAAAATTGTTACACGTT-ATGTTGAAAAAAAAGTTATTACATGCCATGTTTA
* * * * *
32787081 AGATATTTAACTCTAAAAGTTTATGTCCTAGTAAAATACAAAGATAGAGACCAAGTTATAT
65 AGATATTTAACTCCAAAAGTTTATATCCTAGTGAAATACAAAGATAGAGACCAAGTTACAC
* * * *
32787142 GCCATATTGAAAAAAAAATTGTTACACGTTGTGTT-AAAAAAAAGTTATTATATGCTATGTTTAA
1 ACCATATTGAAAAAAAAATTGTTACACGTTATGTTGAAAAAAAAGTTATTACATGCCATGTTTAA
* * * *
32787206 GGTATTTAACTCTAATAGTTTATATCCTAGTGAAATATAAAGATAGAGACCAAGTTACAC
66 GATATTTAACTCCAAAAGTTTATATCCTAGTGAAATACAAAGATAGAGACCAAGTTACAC
* * * * *
32787266 ACCGTATT-AAAAAAAAATGGTTGTTACAAGTTATGTTGATAAAAAAGTTATTACACGCCATATT
1 ACCATATTGAAAAAAAAA---TTGTTACACGTTATGTTGAAAAAAAAGTTATTACATGCCATGTT
* * * * * *
32787330 TAAAATATTTAACTCCAAGAGTTTTATATCCTAATGAAATGCAAAGATAAAGATCAAGTTACA
63 TAAGATATTTAACTCCAAAAG-TTTATATCCTAGTGAAATACAAAGATAGAGACCAAGTTACA
32787393 TATCATGTCT
Statistics
Matches: 304, Mismatches: 57, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
120 41 0.13
121 48 0.16
122 11 0.04
123 17 0.06
124 96 0.32
125 2 0.01
126 15 0.05
127 38 0.12
128 36 0.12
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (125 bp):
ACCATATTGAAAAAAAAATTGTTACACGTTATGTTGAAAAAAAAGTTATTACATGCCATGTTTAA
GATATTTAACTCCAAAAGTTTATATCCTAGTGAAATACAAAGATAGAGACCAAGTTACAC
Found at i:32788600 original size:28 final size:28
Alignment explanation
Indices: 32788560--32788615 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
32788550 AAACTCATTA
* * *
32788560 AACATGGCGTGTAATAATTTTTTTTTTT
1 AACATAGCGTGTAACAACTTTTTTTTTT
*
32788588 AACATAGCTTGTAACAACTTTTTTTTTT
1 AACATAGCGTGTAACAACTTTTTTTTTT
32788616 CAATATGGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.52
Consensus pattern (28 bp):
AACATAGCGTGTAACAACTTTTTTTTTT
Found at i:32788913 original size:125 final size:126
Alignment explanation
Indices: 32788685--32788913 Score: 284
Period size: 125 Copynumber: 1.8 Consensus size: 126
32788675 GTTAAACACA
** * *
32788685 GCATGTAATAACTTTTTTTTTCAACATGGCCTGTAACAATATTTTTTTCAATATAATGTATAACT
1 GCATGTAATAACTTTTTTTTTCAACATAACCTGTAACAATATGTTTTTCAACATAATGTATAACT
* * *
32788750 TGGTCTCTATCTTTGAATTTCACTAAAATATAAGCTCTTGGAGTTGAATATCTTAAGCATG
66 TGATCTCTATCTTTGAATTTCACTAAAACATAAACTCTTGGAGTTGAATATCTTAAGCATG
* * ** * *
32788811 GCATGTAATAA-TTTTTTTTTCAACATAACGTGTAATAACT-TGTTTTTCAACATGGTGTGTAAT
1 GCATGTAATAACTTTTTTTTTCAACATAACCTGTAACAA-TATGTTTTTCAACATAATGTATAAC
* *
32788874 TTGATTTCTATCTTT-ATATTTCACTAAGACATAAACTCTT
65 TTGATCTCTATCTTTGA-ATTTCACTAAAACATAAACTCTT
32788914 AGGATATGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
124 1 0.01
125 73 0.85
126 12 0.14
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (126 bp):
GCATGTAATAACTTTTTTTTTCAACATAACCTGTAACAATATGTTTTTCAACATAATGTATAACT
TGATCTCTATCTTTGAATTTCACTAAAACATAAACTCTTGGAGTTGAATATCTTAAGCATG
Found at i:32789168 original size:22 final size:22
Alignment explanation
Indices: 32789143--32789194 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
32789133 ATATGATTAT
32789143 TTTATTTTTAAAATATTAAATA
1 TTTATTTTTAAAATATTAAATA
** *
32789165 TTTATAATTAAAATTTTAAATA
1 TTTATTTTTAAAATATTAAATA
32789187 -TTATTTTT
1 TTTATTTTT
32789195 TATAATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTTTAAAATATTAAATA
Found at i:32795634 original size:32 final size:34
Alignment explanation
Indices: 32795579--32795656 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
32795569 ATATAATTAG
** *
32795579 TAAAAAAAATTAAATATTAAG-AAAAATAAAAAC
1 TAAAAAAAATTAAATAAGAAGAAAAAAGAAAAAC
32795612 -AAAAAAAATTAAA-AAGAGAGAAAAAAGAAAAAC
1 TAAAAAAAATTAAATAAGA-AGAAAAAAGAAAAAC
32795645 TAACAAAAAATT
1 TAA-AAAAAATT
32795657 CAATCTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 2 0.05
32 15 0.39
33 11 0.29
34 2 0.05
35 8 0.21
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.15
Consensus pattern (34 bp):
TAAAAAAAATTAAATAAGAAGAAAAAAGAAAAAC
Found at i:32795681 original size:44 final size:43
Alignment explanation
Indices: 32795626--32795713 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
32795616 AAAATTAAAA
32795626 AGAGAGAAAAAAGAAAAACTAACAAAAAATTCAATCTCAATTTT
1 AGAGAGAAAAAAGAAAAACT-ACAAAAAATTCAATCTCAATTTT
32795670 NAGAGAGAAAAAAGAAAAACTACAAAAAATTCAATCTCAATTTT
1 -AGAGAGAAAAAAGAAAAACTACAAAAAATTCAATCTCAATTTT
32795714 TTCCCAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 23 0.53
45 20 0.47
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.20
Consensus pattern (43 bp):
AGAGAGAAAAAAGAAAAACTACAAAAAATTCAATCTCAATTTT
Found at i:32796960 original size:105 final size:105
Alignment explanation
Indices: 32796774--32796979 Score: 340
Period size: 105 Copynumber: 2.0 Consensus size: 105
32796764 ACAATTCAGC
* *
32796774 AAATATTTTGAAAAATAAGACTAAGTCAGATAAGGTTAAAAAACTTAGTCATTAAGACTATTTCA
1 AAATATTCTGAAAAATAAGACTAAGTCAAATAAGGTTAAAAAACTTAGTCATTAAGACTATTTCA
32796839 ACTACTACAAGCTGAGAACAAAAGAAAAATAAAGCCCGAG
66 ACTACTACAAGCTGAGAACAAAAGAAAAATAAAGCCCGAG
* * *
32796879 AAATATTCTGAAAAATAAGACTAAGTTAAATAAGGTTAAAAGACTTAGTCATTAAGAGTATTTCA
1 AAATATTCTGAAAAATAAGACTAAGTCAAATAAGGTTAAAAAACTTAGTCATTAAGACTATTTCA
* * *
32796944 ACTACTACAGGTTGAGAAGAAAAGAAAAATAAAGCC
66 ACTACTACAAGCTGAGAACAAAAGAAAAATAAAGCC
32796980 AAGTTACAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 93 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.24
Consensus pattern (105 bp):
AAATATTCTGAAAAATAAGACTAAGTCAAATAAGGTTAAAAAACTTAGTCATTAAGACTATTTCA
ACTACTACAAGCTGAGAACAAAAGAAAAATAAAGCCCGAG
Found at i:32799181 original size:23 final size:24
Alignment explanation
Indices: 32799154--32799201 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
32799144 TAATTACATT
*
32799154 TTCTTAATATGGGGAATGCTAATA
1 TTCTTAATATAGGGAATGCTAATA
32799178 TCTTCTTAATATAGGGAATGCTAA
1 --TTCTTAATATAGGGAATGCTAA
32799202 CCTAGTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (24 bp):
TTCTTAATATAGGGAATGCTAATA
Found at i:32805686 original size:40 final size:40
Alignment explanation
Indices: 32805628--32805703 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
32805618 TAAAAAACAT
* * *
32805628 CAATCGTGGCGAGGTTGAAAA-CTCCACTAGAGTGAATCAC
1 CAATCGTGGCAAGATTGAAAATCT-CACTAAAGTGAATCAC
32805668 CAATCGTGGCAAGATTGAAAATCTCACTAAAGTGAA
1 CAATCGTGGCAAGATTGAAAATCTCACTAAAGTGAA
32805704 AAATAGTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (40 bp):
CAATCGTGGCAAGATTGAAAATCTCACTAAAGTGAATCAC
Found at i:32806213 original size:55 final size:55
Alignment explanation
Indices: 32806147--32806261 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
32806137 ATTGACATAC
* *
32806147 TCCATGTTTGGATCCATATACTGTCATAGTTCATACTAACCATTTGAACAATTCA
1 TCCATGTTTGGATCCATATACTGTCATAGTCCATACCAACCATTTGAACAATTCA
32806202 TCCATGTTTGGATCCATATACTGTCATAGTCCATACCAACCATTTGAACAATTCA
1 TCCATGTTTGGATCCATATACTGTCATAGTCCATACCAACCATTTGAACAATTCA
32806257 TCCAT
1 TCCAT
32806262 TATTTTGAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (55 bp):
TCCATGTTTGGATCCATATACTGTCATAGTCCATACCAACCATTTGAACAATTCA
Found at i:32808079 original size:2 final size:2
Alignment explanation
Indices: 32808072--32808122 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
32808062 TGATAACCCT
32808072 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 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
32808114 TC TC TC TC T
1 TC TC TC TC T
32808123 ATGCTTTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32816120 original size:2 final size:2
Alignment explanation
Indices: 32816099--32816159 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
32816089 CGTTGCTTTA
* * * * * *
32816099 CT CT CT CC CT CC CT CC CT CT CT CT CT CT CT CT CT CT TT NT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32816141 CT C- CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
32816160 TCTTTATTCC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:32818773 original size:16 final size:17
Alignment explanation
Indices: 32818752--32818783 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32818742 AATTAGAGTT
32818752 TTTTTTTTTA-TTTTTC
1 TTTTTTTTTAGTTTTTC
32818768 TTTTTTTTTAGTTTTT
1 TTTTTTTTTAGTTTTT
32818784 ACCCTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.06, C:0.03, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTAGTTTTTC
Found at i:32845225 original size:13 final size:13
Alignment explanation
Indices: 32845207--32845233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32845197 TGCAAGGATG
32845207 GTATGAACCTAAC
1 GTATGAACCTAAC
32845220 GTATGAACCTAAC
1 GTATGAACCTAAC
32845233 G
1 G
32845234 AAAGGAACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (13 bp):
GTATGAACCTAAC
Found at i:32848245 original size:49 final size:49
Alignment explanation
Indices: 32848173--32848271 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
32848163 AAATTGAAAC
* *
32848173 TGGGATGCACATCACTACCATTTACATCATTCTTATGTATCTCTCATGG
1 TGGGATGCACATCACTACCATTTACATCATTCTTATATAACTCTCATGG
*
32848222 TGGGATGCATATCACTACCATTTACATCATTCTTATATAACTCTCATGG
1 TGGGATGCACATCACTACCATTTACATCATTCTTATATAACTCTCATGG
32848271 T
1 T
32848272 AGTTGACTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (49 bp):
TGGGATGCACATCACTACCATTTACATCATTCTTATATAACTCTCATGG
Found at i:32868397 original size:2 final size:2
Alignment explanation
Indices: 32868384--32868414 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32868374 AGCATAAAGA
*
32868384 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32868415 AAAGTTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:32868852 original size:21 final size:21
Alignment explanation
Indices: 32868826--32868867 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32868816 GAAAACTGGT
32868826 GTTGACAGAATGCACAAGACA
1 GTTGACAGAATGCACAAGACA
32868847 GTTGACAGAATGCACAAGACA
1 GTTGACAGAATGCACAAGACA
32868868 ACAATTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (21 bp):
GTTGACAGAATGCACAAGACA
Found at i:32873979 original size:250 final size:249
Alignment explanation
Indices: 32873603--32875321 Score: 1976
Period size: 250 Copynumber: 6.9 Consensus size: 249
32873593 CAATAATAAC
* * * *
32873603 TTTT-AACTATAATCATCTTTATCTTTATTATTCTTTATTT-AAAA-TAACAATTTGAATATCGT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAA-AATTTGTATATCGT
* * * * * * * *
32873665 TACATA-TTTTTAGCTAAATAATATAAATATAAATATTTATTTTTTATTAAAATTAGATTTTTTT
65 TAAACACTTTTGA-CT-GAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTT
* * * * *
32873729 ACTTAATTAACTTATTACGTTAACTCTTACATAGTTATGTTAAGATTTAAAATTTAATTATTTCA
128 ACTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCA
* * *
32873794 CCTTTATAAGTTTTTACATTAATTGTTACAATTTTACGTCAATGCTTATTTATGTCAA
193 CCTTTATAAGTTTTTACATCAATTATTACAGTTTTACGTCAA-GCTTATTTATGTCAA
* * *
32873852 TTTTAAACTATAATTATTTTTATCCTTATTATTCTCTATTTAAAAATTAAAATTTGTATATTGTT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
* *
32873917 AAACACTTTTGACTGAAAAATGTAAATTTAAATATTTATTTTTCACTAAAATTAGA-TTTTTTAC
66 AAACACTTTTGACTG-AGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTAC
* * *
32873981 TTAATTGACTTGTTACGTTAACT-TTCATACATTTACATTAAGATTTAAAATTTAGTTA-TTCTA
130 TTAATTGACTTGTTACGTTAACTCTT-ACACATTTACGTTAAGATTTAAAATTTAATTATTTC-A
* * * *
32874044 TCTTTATAAGTTTTTACATTAATTATTATAGTTTTACGTCAAAGCTTATCTATGTCAA
193 CCTTTATAAGTTTTTACATCAATTATTACAGTTTTACGTC-AAGCTTATTTATGTCAA
*
32874102 TTTTGAACTATAATTATTTTTATTCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
* * *
32874167 AAACATTTTTAGTCTGAGAATATAAATTTAGATA-TT-TTTTTCACTAAAATTAGATTTTTCTTA
66 AAACACTTTT-GACTGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTT-TTA
* * * *
32874230 CTTAATTGACTTCTTACGTTAATTCTTACACATTTACATTAAGATTTAAAATTTAATTTTTTCAC
129 CTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCAC
* * * * *
32874295 TTTTATAAGTTTTTACGA-CAATTCTTATAGTTTTACGTCAAGATTTTTTTATGTCAA
194 CTTTATAAGTTTTTAC-ATCAATTATTACAGTTTTACGTCAAG-CTTATTTATGTCAA
* *
32874352 TTTTGAACTATAATTATTTTTATCCTTATTATTTTTTATTT-AAAATTAAAATTGGTATATCGTT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
* * * * * * *
32874416 AAATACTTTT-ATTTTGAGAATATAAATTTAAATGTTTGTTTTTCACTAGATTATATATTTTTTT
66 AAACACTTTTGA--CTGAGAATATAAATTTAAATATTTATTTTTCACTAAAAT-TAGATTTTTTT
* ** * * *
32874480 ACTTAATTGACTTATTATATTAACTCTTATACATTTATGTTAAGATTTAAAATTTAGTTATTTCA
128 ACTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCA
* * * * *
32874545 CCTTAATAAGTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTTTTTTATGTCAA
193 CCTTTATAAGTTTTTACATCAATTATTACAGTTTTACGTCAAG-CTTATTTATGTCAA
* * * *
32874603 ATTTGAACTATAATTATTTTTATCCTTATTATTTTTTATTTAAAATTTAAAATTTGTATATCATT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
* * * *
32874668 AAATACTTTTAGTCTGAGAATATAAATTTAAATGTTTGTTTTTCACT-AAATTAGA-TTTTTTAC
66 AAACACTTTT-GACTGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTAC
* * ** * *
32874731 TTATTTGGCTTGTTACGTTAACTCTTACACATTTATATTAAGATTTAAAATTTAGTTATTCCACC
130 TTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCACC
* * * * * * *
32874796 TTTATAATTTTTTACGTCAATTGTTACAGTTTTACATAAAGGGTT-TTCTATATCAA
195 TTTATAAGTTTTTACATCAATTATTACAGTTTTACGTCAA-GCTTATT-TATGTCAA
* * *
32874852 TTTTGAACTATAATTATTTGTATCATTATTATTCTTTATTTAAAAATTAAAATTTGTATATTGTT
1 TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
* * * * * * *
32874917 AAACATTTTTAATCTAATAATATAAATTTAAATGTTTGTTTTTTACTAAAATTAGATTTTTTTTT
66 AAACACTTTTGA-CTGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGA--TTTTTTT
* * * *
32874982 ACTTAATTGACTTGTTACATTAACTCTCATACATTTACGTTAAGATTTGAAATTTAATTATTTCA
128 ACTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCA
** * * * *
32875047 TTTTTATAAGTTTTTACATCAATTATTACAGTTTTACGTCAAAACTTATCTATATAAA
193 CCTTTATAAGTTTTTACATCAATTATTACAGTTTTACGTC-AAGCTTATTTATGTCAA
* ** * * * *
32875105 TTTTAAACTATAATTATTTTTATTATTAATT-TTTTTTATTTAAAAGTTAAAATTTATATATTGT
1 TTTTGAACTATAATTATTTTTATCCTT-ATTATTCTTTATTTAAAAATTAAAATTTGTATATCGT
* * * * * * *
32875169 TAAACACTTTTAGTCCGATAATATAAATTTAAATATTTATTTTTTATTAAAATTAAATTTTTTTT
65 TAAACACTTTT-GACTGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTA
* *
32875234 CTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTTAAATTTAATTATTTTAC
129 CTTAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCAC
* * *
32875299 TTTTATGAGTTTTTATATCAATT
194 CTTTATAAGTTTTTACATCAATT
32875322 CTTATTATTT
Statistics
Matches: 1276, Mismatches: 159, Indels: 68
0.85 0.11 0.05
Matches are distributed among these distances:
248 20 0.02
249 272 0.21
250 376 0.29
251 319 0.25
252 79 0.06
253 204 0.16
254 6 0.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (249 bp):
TTTTGAACTATAATTATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTT
AAACACTTTTGACTGAGAATATAAATTTAAATATTTATTTTTCACTAAAATTAGATTTTTTTACT
TAATTGACTTGTTACGTTAACTCTTACACATTTACGTTAAGATTTAAAATTTAATTATTTCACCT
TTATAAGTTTTTACATCAATTATTACAGTTTTACGTCAAGCTTATTTATGTCAA
Found at i:32877227 original size:25 final size:26
Alignment explanation
Indices: 32877198--32877271 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
32877188 TATATAATGT
* *
32877198 AAAAATTTTAAAATTTTTATAAA-CA
1 AAAAATTTTAAAATTTTTAGAAATAA
* * *
32877223 TAAAATTATAAACTTTATTAGAAATAA
1 AAAAATTTTAAAATTT-TTAGAAATAA
32877250 AAATATATTTTAAAATTTTTAG
1 AAA-A-ATTTTAAAATTTTTAG
32877272 GGGACGGGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
25 13 0.35
26 6 0.16
27 3 0.08
28 5 0.14
29 10 0.27
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (26 bp):
AAAAATTTTAAAATTTTTAGAAATAA
Found at i:32894353 original size:65 final size:65
Alignment explanation
Indices: 32894270--32894391 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 65
32894260 AAGAAAATCA
** * * *
32894270 ATTTGATCTGATTTCATATCATCTTATAATGCATGCTTTATAATGCTTTGATGTGATTTTGGTCG
1 ATTTGATCTGACATCATATCATCTTATAATGCATGCTTTATAAGGATTAGATGTGATTTTGGTCG
* *
32894335 ATTTGATCTGACATCATATCATCTTATGATGTATGCTTTATAAGGATTAGATGTGAT
1 ATTTGATCTGACATCATATCATCTTATAATGCATGCTTTATAAGGATTAGATGTGAT
32894392 ATTAGAAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (65 bp):
ATTTGATCTGACATCATATCATCTTATAATGCATGCTTTATAAGGATTAGATGTGATTTTGGTCG
Found at i:32898394 original size:25 final size:26
Alignment explanation
Indices: 32898344--32898395 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
32898334 AATGTACAAT
*
32898344 CAACTGTAACCACATAGAGAAGCACA
1 CAACTGTAACCACATAGAGAAACACA
*
32898370 CAACTGTAACC-TATAGAGAAACACA
1 CAACTGTAACCACATAGAGAAACACA
32898395 C
1 C
32898396 GATTCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.46, C:0.27, G:0.13, T:0.13
Consensus pattern (26 bp):
CAACTGTAACCACATAGAGAAACACA
Found at i:32914734 original size:21 final size:20
Alignment explanation
Indices: 32914698--32914738 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
32914688 CAGACATGAC
*
32914698 AAACACCTTTAACACGTTTA
1 AAACACATTTAACACGTTTA
32914718 AAACACATTTAAACACGTTTA
1 AAACACATTT-AACACGTTTA
32914739 CTTAATCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (20 bp):
AAACACATTTAACACGTTTA
Found at i:32914763 original size:18 final size:18
Alignment explanation
Indices: 32914740--32914779 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
32914730 ACACGTTTAC
32914740 TTAATCGTATTATCGTGT
1 TTAATCGTATTATCGTGT
32914758 TTAATCGTATTATCGTGT
1 TTAATCGTATTATCGTGT
32914776 TTAA
1 TTAA
32914780 ACGTGTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (18 bp):
TTAATCGTATTATCGTGT
Found at i:32917353 original size:3 final size:3
Alignment explanation
Indices: 32917345--32917371 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32917335 ATAAAGTGTA
32917345 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
32917372 TATGGATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:32931279 original size:15 final size:15
Alignment explanation
Indices: 32931261--32931292 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32931251 TAAATGAATA
32931261 ATAATAAAAATAATT
1 ATAATAAAAATAATT
32931276 ATAATAAAAATAATT
1 ATAATAAAAATAATT
32931291 AT
1 AT
32931293 TTATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAAAAATAATT
Found at i:32931375 original size:33 final size:33
Alignment explanation
Indices: 32931329--32931411 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
32931319 CATGTGACGC
* *
32931329 TGACGTAAAATGTTAATATATTATAATTAATAA
1 TGACGTGATATGTTAATATATTATAATTAATAA
* * * *
32931362 TGATGTGATATGTTGATATATTATAATTGATGA
1 TGACGTGATATGTTAATATATTATAATTAATAA
32931395 TGACGTGATATGTTAAT
1 TGACGTGATATGTTAAT
32931412 TTGACATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (33 bp):
TGACGTGATATGTTAATATATTATAATTAATAA
Found at i:32946778 original size:19 final size:19
Alignment explanation
Indices: 32946738--32946778 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32946728 ATTAAAATTT
*
32946738 ATTTAAACTTTTTTGAATA
1 ATTTAAACTTTTTTGAAAA
* *
32946757 ATTTAAATTTTTTTTAAAA
1 ATTTAAACTTTTTTGAAAA
32946776 ATT
1 ATT
32946779 ATATCCTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTAAACTTTTTTGAAAA
Found at i:32947340 original size:16 final size:16
Alignment explanation
Indices: 32947316--32947346 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32947306 ATTTTTAAAA
*
32947316 ATATTAACTTGATAAG
1 ATATAAACTTGATAAG
32947332 ATATAAACTTGATAA
1 ATATAAACTTGATAA
32947347 TTTATGTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
ATATAAACTTGATAAG
Found at i:32947617 original size:15 final size:15
Alignment explanation
Indices: 32947593--32947644 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
32947583 TATTTAAATT
* *
32947593 TAAAATTAATAATTA
1 TAAAAATAATAATAA
*
32947608 TAAAAATAATTATAA
1 TAAAAATAATAATAA
32947623 TAAAAATAA-AATAA
1 TAAAAATAATAATAA
*
32947637 TAATAATA
1 TAAAAATA
32947645 TCAAATATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:32961200 original size:144 final size:144
Alignment explanation
Indices: 32960939--32961269 Score: 439
Period size: 144 Copynumber: 2.3 Consensus size: 144
32960929 TTTTGATGGG
* * * * *
32960939 GTTCAAAATCAATCTAGCACCAATGAACAGGATGATAAGTTATATCTTGTTTCTTCTACACAACA
1 GTTCAAAATCAATCTAGCACCAATGAACAAGATGATGAGTTTTATCATGTTTCTCCTACACAACA
* *
32961004 ATCACAGATACAAGAGGAGCATGTGCCTTCTTATAATGATTCCACAAATTTTTGTGGTGTTGATG
66 ATCACAGATACAAGAGGAGCATGTGCCTTCTTATAATAATTCCACAAATTTTTGTGGTGTTAATG
32961069 GCAACTTTCA-CAA
131 GCAACTTTCATCAA
* *
32961082 GATTCAAAATCAATCTAGTACCAATGAACAAGATGATGAGTTTTATCATGTTTCTCCTACACGAC
1 G-TTCAAAATCAATCTAGCACCAATGAACAAGATGATGAGTTTTATCATGTTTCTCCTACACAAC
* *** * * * * *
32961147 AATCGCAGATATGTGAGGAGCATGTGTCTTCTTATAATAATTCTATAATTTTTTGTGGTTTTAAT
65 AATCACAGATACAAGAGGAGCATGTGCCTTCTTATAATAATTCCACAAATTTTTGTGGTGTTAAT
** *
32961212 GTTAACTTTCATGAA
130 GGCAACTTTCATCAA
* *
32961227 GTTCAAAATCAATCTAGCACCAAGGAAGAAGATGATGAGTTTT
1 GTTCAAAATCAATCTAGCACCAATGAACAAGATGATGAGTTTT
32961270 GGAAAAATAT
Statistics
Matches: 162, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
143 1 0.01
144 158 0.98
145 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (144 bp):
GTTCAAAATCAATCTAGCACCAATGAACAAGATGATGAGTTTTATCATGTTTCTCCTACACAACA
ATCACAGATACAAGAGGAGCATGTGCCTTCTTATAATAATTCCACAAATTTTTGTGGTGTTAATG
GCAACTTTCATCAA
Found at i:32967398 original size:77 final size:77
Alignment explanation
Indices: 32967275--32967434 Score: 275
Period size: 77 Copynumber: 2.1 Consensus size: 77
32967265 CAACATAATT
* * *
32967275 AGTTACACCATTGTTTAGTCGCCAAGAATTGGATGGGGCCTCAATTAAATTGGATTCATAAACAA
1 AGTTACACCAGTGTCTAGTCGCCAAGAATTGGATGGGGCCTAAATTAAATTGGATTCATAAACAA
*
32967340 CAAGAGTGAAGG
66 CAAGAGTCAAGG
*
32967352 AGTTACACCAGTGTCTAGTCGCCAAGAATTGGATGGGGCCTAAATTAAATTGGATTCATATACAA
1 AGTTACACCAGTGTCTAGTCGCCAAGAATTGGATGGGGCCTAAATTAAATTGGATTCATAAACAA
32967417 CAAGAGTCAAGG
66 CAAGAGTCAAGG
32967429 AGTTAC
1 AGTTAC
32967435 CTTCACGTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (77 bp):
AGTTACACCAGTGTCTAGTCGCCAAGAATTGGATGGGGCCTAAATTAAATTGGATTCATAAACAA
CAAGAGTCAAGG
Found at i:32983729 original size:2 final size:2
Alignment explanation
Indices: 32983722--32983768 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
32983712 AAAGTATTAA
32983722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32983761 AT AT AT AT
1 AT AT AT AT
32983769 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32983843 original size:2 final size:2
Alignment explanation
Indices: 32983787--32983825 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
32983777 NNNNNNNAGA
32983787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
32983826 TTAAAAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32989600 original size:2 final size:2
Alignment explanation
Indices: 32989593--32989617 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32989583 ATGGAGAAAC
32989593 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
32989618 GAGGGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32989762 original size:2 final size:2
Alignment explanation
Indices: 32989755--32989794 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32989745 AACCAGAGAA
32989755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32989795 CCCAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32992719 original size:2 final size:2
Alignment explanation
Indices: 32992665--32992699 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
32992655 TCTTAACCTT
*
32992665 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32992700 TTGAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32996835 original size:1 final size:1
Alignment explanation
Indices: 32996829--32996855 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
32996819 CTCACACACA
32996829 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
32996856 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:33000336 original size:60 final size:60
Alignment explanation
Indices: 33000243--33000366 Score: 212
Period size: 60 Copynumber: 2.1 Consensus size: 60
33000233 GTAAACCCAA
*
33000243 TTTATCAAATGTGCACAGTTGCTCCAACCAAATGCTCAATTTAACTTTAAATTCACATCC
1 TTTATCAAATATGCACAGTTGCTCCAACCAAATGCTCAATTTAACTTTAAATTCACATCC
* * *
33000303 TTTATCAAATATGCATAGTTGCTCCAACCAAATGCTCAATTTAACTTTACATTCATATCC
1 TTTATCAAATATGCACAGTTGCTCCAACCAAATGCTCAATTTAACTTTAAATTCACATCC
33000363 TTTA
1 TTTA
33000367 GATACCAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.36
Consensus pattern (60 bp):
TTTATCAAATATGCACAGTTGCTCCAACCAAATGCTCAATTTAACTTTAAATTCACATCC
Found at i:33003254 original size:19 final size:19
Alignment explanation
Indices: 33003227--33003264 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
33003217 AATTAAAAAA
*
33003227 ATATGTTTTTCCAAAATTT
1 ATATGTTTTTCAAAAATTT
*
33003246 ATATTTTTTTCAAAAATTT
1 ATATGTTTTTCAAAAATTT
33003265 GAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATGTTTTTCAAAAATTT
Found at i:33006927 original size:11 final size:11
Alignment explanation
Indices: 33006899--33006928 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33006889 GCTGCAATGT
*
33006899 ACATCGACTTC
1 ACATCGTCTTC
33006910 ACATCGTCTTC
1 ACATCGTCTTC
33006921 ACATCGTC
1 ACATCGTC
33006929 CACAGCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.10, T:0.30
Consensus pattern (11 bp):
ACATCGTCTTC
Found at i:33011387 original size:15 final size:15
Alignment explanation
Indices: 33011369--33011398 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33011359 AGGAGGGATG
*
33011369 GGAGAGATAGGGAAC
1 GGAGAGATAGAGAAC
33011384 GGAGAGATAGAGAAC
1 GGAGAGATAGAGAAC
33011399 CAAGGGGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.43, T:0.07
Consensus pattern (15 bp):
GGAGAGATAGAGAAC
Found at i:33025489 original size:16 final size:16
Alignment explanation
Indices: 33025468--33025499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33025458 ATTATGTGAT
*
33025468 AATAAAATAAGATAAA
1 AATAAAATAAAATAAA
33025484 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
33025500 TATTACGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:33025608 original size:12 final size:13
Alignment explanation
Indices: 33025587--33025624 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
33025577 AATAACTTTG
33025587 AAATAAAAA-AAA
1 AAATAAAAATAAA
33025599 AAATAGAAAATAAAA
1 AAATA-AAAAT-AAA
33025614 AAATAAAAATA
1 AAATAAAAATA
33025625 TCTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 5 0.22
15 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:33025689 original size:15 final size:15
Alignment explanation
Indices: 33025669--33025741 Score: 65
Period size: 12 Copynumber: 5.5 Consensus size: 15
33025659 TTATTTTTAA
33025669 AATATTAATAATTTT
1 AATATTAATAATTTT
33025684 AATATTAAT-ATTTT
1 AATATTAATAATTTT
* *
33025698 --TAGT-ATAATTTA
1 AATATTAATAATTTT
33025710 AATATTAAT-ATTTT
1 AATATTAATAATTTT
33025724 -AT-TT-ATAA-TTT
1 AATATTAATAATTTT
33025735 AATATTA
1 AATATTA
33025742 TTATGATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
11 7 0.15
12 12 0.26
13 4 0.09
14 12 0.26
15 11 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (15 bp):
AATATTAATAATTTT
Found at i:33025705 original size:26 final size:26
Alignment explanation
Indices: 33025676--33025741 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
33025666 TAAAATATTA
33025676 ATAATTTTAATATTAATATTTT-TAGT
1 ATAATTTTAATATTAATATTTTAT-GT
* *
33025702 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTTAATATTAATATTTTATGT
33025728 ATAA-TTTAATATTA
1 ATAATTTTAATATTA
33025742 TTATGATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.25
26 26 0.72
27 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATAATTTTAATATTAATATTTTATGT
Done.