Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 395 of 433
Found at i:122711567 original size:351 final size:350
Alignment explanation
Indices: 122710944--122711892 Score: 1224
Period size: 351 Copynumber: 2.7 Consensus size: 350
122710934 AATCTCCACT
122710944 AGCCTTAATCCCCTAAGCAGTAGGGCAACAGGCT-GAGAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTAA-CCCCTAAGCAGTAGGGCAACAGGCTGGA-AATTACAGATCTTATCTCCCTAAGCAG
* * *
122711008 TAGTGGAGTAGATCGAAGACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCT-GAAGAT
64 TAGTGGAGTAGATCGAAGACGGTGAGCTTTAACCCCCTAAGTAGTAGGGAAACAGGCTGGAA-AT
* *
122711072 TACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGATGAGCCTTAACCCCCTAAG
128 TAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-TGAGCCTTAACCCCCTAAG
122711137 CAGTAGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAG
192 CAGTAGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAG
* ** *
122711202 ACAGTGAGCCTTAACCCCCTAAGTAGTAGGGAAACAGGTTGAAGATTACAGATCTTATCTCCCTA
257 ACAGTGAGCCTTAACCCCCCAACCAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTA
* * *
122711267 AGT-AGTAGTGAAGCAGATCGAAGACGGTG
322 A-TCAATAATGAAGCAGATCGAAGACAGTG
* * * *
122711296 AGCCTTAACCCCTAAGTAGTAGGGCAACAGGCTGGAAATTATAGATCTTATCTCCCTAAGTAATA
1 AGCCTTAACCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTA
* * * * * *
122711361 GTGGAATAGATCGAAGACGGTGAGCCTTAACCCCCTAAATAGTGGGGCAACAGGCTGGAAATTAT
66 GTGGAGTAGATCGAAGACGGTGAGCTTTAACCCCCTAAGTAGTAGGGAAACAGGCTGGAAATTAA
* * *
122711426 AGATCTTATCCCCCTAAGTAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGTAG
131 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GTGAGCCTTAACCCCCTAAGCAG
* * * * * *
122711491 TAGGGCAACAGACTGAATATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACA
195 TAGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACA
* *
122711556 GTGAGCCTTAACCCCCCAACCAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCTCTAATC
260 GTGAGCCTTAACCCCCCAACCAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAATC
*
122711621 AATAATGGAGCAGATCGAAGACAGTG
325 AATAATGAAGCAGATCGAAGACAGTG
* ** * *
122711647 AGCTTTGGCCCCCTAAGCAATAGAGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTT-AACCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* ** * * * *
122711712 AGTGGAGCAGATCGAAGACAATAAGCTTTATCCCCCTAAGTAGTAGGGAAACAAGCTGAAAATGA
65 AGTGGAGTAGATCGAAGACGGTGAGCTTTAACCCCCTAAGTAGTAGGGAAACAGGCTGGAAAT--
* * * * * *
122711777 CAAACCACCTTATCTCCTTAAGCAGTAGTGGAGCAGATC-ACAGACGGTGAGCCTTATCCTCCTA
128 TAAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGAC-GTGAGCCTTAACCCCCTA
* * * * * *
122711841 AGCAATAGGGAAACAGGCTGAAGAATACAAATCA-TGTCTCCCTAAGTAGTAG
190 AGCAGTAGGGCAACAGGCTGAAGATTACAGAT-ATTATCTCCCTAAGCAGTAG
122711893 CGGAGCAAAT
Statistics
Matches: 513, Mismatches: 74, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
350 1 0.00
351 305 0.59
352 115 0.22
354 3 0.01
355 89 0.17
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (350 bp):
AGCCTTAACCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGTAGATCGAAGACGGTGAGCTTTAACCCCCTAAGTAGTAGGGAAACAGGCTGGAAATTAA
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGTGAGCCTTAACCCCCTAAGCAGT
AGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAG
TGAGCCTTAACCCCCCAACCAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAATCA
ATAATGAAGCAGATCGAAGACAGTG
Found at i:122713356 original size:3 final size:3
Alignment explanation
Indices: 122713332--122713495 Score: 89
Period size: 3 Copynumber: 53.7 Consensus size: 3
122713322 TGGATTGCTA
* * * * *
122713332 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * *
122713378 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATT ATC GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
122713424 TTT ATT ACT ATT ATT -TAT ATAC ATT ATT ATT ACT ATT ATT TTT CACT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT
* *
122713471 ATT ATT ATT -TT ACT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
122713496 ATACTATAGT
Statistics
Matches: 115, Mismatches: 40, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
2 3 0.03
3 102 0.89
4 10 0.09
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:122713390 original size:28 final size:28
Alignment explanation
Indices: 122713348--122713490 Score: 126
Period size: 28 Copynumber: 5.4 Consensus size: 28
122713338 ATTATCATTG
122713348 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
122713376 TTGTTATTATTCTTACTATTATATGTTA
1 TTATTATTATTCTTACTATTATATATTA
*
122713404 TTATTATTA-TCGTTACTATT-TTTATTA
1 TTATTATTATTC-TTACTATTATATATTA
* *
122713431 CTATTATT-TAT-ATAC-ATTAT-TATTA
1 TTATTATTAT-TCTTACTATTATATATTA
* *
122713456 CTATTATT-TT-TCACTATTAT-TATT-
1 TTATTATTATTCTTACTATTATATATTA
*
122713480 TTACTATTATT
1 TTATTATTATT
122713491 TTTATATACT
Statistics
Matches: 98, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.09
25 28 0.29
26 4 0.04
27 14 0.14
28 43 0.44
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:122713457 original size:25 final size:25
Alignment explanation
Indices: 122713417--122713492 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
122713407 TTATTATCGT
*
122713417 TACTATTTTTATTACTATTATTTATA
1 TACTATTATTATTACTATTATTT-TA
122713443 TAC-ATTATTATTACTATTATTTT-
1 TACTATTATTATTACTATTATTTTA
122713466 TCACTATTATTATTTTACTATTATTTT
1 T-ACTATTATTA--TTACTATTATTTT
122713493 TATATACTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 1 0.02
24 3 0.07
25 25 0.56
26 3 0.07
27 13 0.29
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (25 bp):
TACTATTATTATTACTATTATTTTA
Found at i:122713478 original size:16 final size:14
Alignment explanation
Indices: 122713349--122713490 Score: 104
Period size: 13 Copynumber: 10.5 Consensus size: 14
122713339 TTATCATTGT
122713349 TATTATTATTCTTAC
1 TATTATTATT-TTAC
* *
122713364 TATTA-TATATTAT
1 TATTATTATTTTAC
*
122713377 TGTTATTATTCTTAC
1 TATTATTATT-TTAC
* *
122713392 TATTA-TATGTTAT
1 TATTATTATTTTAC
*
122713405 TATTATTATCGTTAC
1 TATTATTAT-TTTAC
*
122713420 TATT-TT-TATTAC
1 TATTATTATTTTAC
*
122713432 TATTATT-TATATAC
1 TATTATTAT-TTTAC
122713446 -ATTATTA--TTAC
1 TATTATTATTTTAC
*
122713457 TATTATT-TTTCAC
1 TATTATTATTTTAC
122713470 TATTATTATTTTAC
1 TATTATTATTTTAC
122713484 TATTATT
1 TATTATT
122713491 TTTATATACT
Statistics
Matches: 101, Mismatches: 15, Indels: 23
0.73 0.11 0.17
Matches are distributed among these distances:
11 3 0.03
12 14 0.14
13 35 0.35
14 29 0.29
15 20 0.20
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATTATTTTAC
Found at i:122713771 original size:13 final size:13
Alignment explanation
Indices: 122713753--122713777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122713743 TCTCATCAAT
122713753 TATTATTTTTATA
1 TATTATTTTTATA
122713766 TATTATTTTTAT
1 TATTATTTTTAT
122713778 TTTCATTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTTTATA
Found at i:122716902 original size:22 final size:21
Alignment explanation
Indices: 122716877--122716924 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
122716867 AATCTTTCAT
122716877 ATAAAAAT-TAATTTAAAAAGAA
1 ATAAAAATAT-ATTTAAAAA-AA
122716899 AT-AAAATATATTTAAAAAAA
1 ATAAAAATATATTTAAAAAAA
*
122716919 TTAAAA
1 ATAAAA
122716925 TATCACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAAAATATATTTAAAAAAA
Found at i:122716925 original size:20 final size:21
Alignment explanation
Indices: 122716887--122716927 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
122716877 ATAAAAATTA
122716887 ATTTAAAAAGAAATAAAATAT
1 ATTTAAAAAGAAATAAAATAT
*
122716908 ATTTAAAAA-AATTAAAATAT
1 ATTTAAAAAGAAATAAAATAT
122716928 CACATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATTTAAAAAGAAATAAAATAT
Found at i:122718163 original size:13 final size:13
Alignment explanation
Indices: 122718145--122718169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122718135 ATTTTTTTAT
122718145 TTTTAATTAATAC
1 TTTTAATTAATAC
122718158 TTTTAATTAATA
1 TTTTAATTAATA
122718170 AATATTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAATTAATAC
Found at i:122718240 original size:14 final size:13
Alignment explanation
Indices: 122718212--122718237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122718202 TTAATATATT
122718212 TATTAATTAAAAA
1 TATTAATTAAAAA
122718225 TATTAATTAAAAA
1 TATTAATTAAAAA
122718238 ATAACATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:122720995 original size:6 final size:6
Alignment explanation
Indices: 122720984--122721009 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
122720974 TCCGACTGCT
122720984 TCTCCG TCTCCG TCTCCG TCTCCG TC
1 TCTCCG TCTCCG TCTCCG TCTCCG TC
122721010 AATCCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.15, T:0.35
Consensus pattern (6 bp):
TCTCCG
Found at i:122723195 original size:13 final size:11
Alignment explanation
Indices: 122723163--122723190 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
122723153 CGTATTGATT
122723163 TTTTTATATTA
1 TTTTTATATTA
122723174 TTTTTATATTA
1 TTTTTATATTA
122723185 TTTTTA
1 TTTTTA
122723191 AATATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:122725537 original size:87 final size:89
Alignment explanation
Indices: 122725376--122725602 Score: 287
Period size: 87 Copynumber: 2.6 Consensus size: 89
122725366 CTCTTATATT
* * * * *
122725376 TATATGGCATGAAAGCCAACACCGGTACATAGTACCTATTGTATGTATATGACATGAAAGTTGAC
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCGAC
122725441 ACCGATACATAATAC-T-TGTATG
66 ACCGATACATAATACTTCTGTATG
* * * * *
122725463 TATATGGCATGATAGCCAACACCAGTTCATAGTACATGTTGTATTTATATGGCATGAAAATCGAT
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCGAC
* * *
122725528 GCCGGTACATAGTACTTGCTGTATG
66 ACCGATACATAATACTT-CTGTATG
* * *
122725553 TATATGGCATGATAGCCAACACCAGTACATAGTACCTATTATATATATAT
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATAT
122725603 ATATAGCCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
87 67 0.56
88 1 0.01
90 51 0.43
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCGAC
ACCGATACATAATACTTCTGTATG
Found at i:122725602 original size:45 final size:45
Alignment explanation
Indices: 122725346--122725602 Score: 216
Period size: 45 Copynumber: 5.8 Consensus size: 45
122725336 GATAAGATAA
* * * * * *
122725346 CCAACTCCAATACATGGTACCTCTTATATTTATATGGCATGAAAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* *
122725391 CCAACACCGGTACATAGTACCTATTGTATGTATATGACATGAAAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
*** * *
122725436 TTGACACC-GATACATAATA-C--TTGTATGTATATGGCATGATAG
1 CCAACACCAG-TACATAGTACCTATTGTATGTATATGGCATGAAAG
* * * * *
122725478 CCAACACCAGTTCATAGTACATGTTGTATTTATATGGCATGAAAA
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* * ** * * ** *
122725523 TCGATGCCGGTACATAGTACTTGCTGTATGTATATGGCATGATAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* *
122725568 CCAACACCAGTACATAGTACCTATTATATATATAT
1 CCAACACCAGTACATAGTACCTATTGTATGTATAT
122725603 ATATAGCCTA
Statistics
Matches: 163, Mismatches: 44, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
42 32 0.20
43 1 0.01
44 2 0.01
45 128 0.79
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (45 bp):
CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
Found at i:122725964 original size:27 final size:27
Alignment explanation
Indices: 122725909--122725975 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
122725899 CAGGTTGCGT
122725909 CTATCTCAGAGGCGCGACTAATTGAGC
1 CTATCTCAGAGGCGCGACTAATTGAGC
* * * * *
122725936 CTTTCTCAGAGGCGCTATTAGTTGTGC
1 CTATCTCAGAGGCGCGACTAATTGAGC
*
122725963 CTATCTCAAAGGC
1 CTATCTCAGAGGC
122725976 ACAAATGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (27 bp):
CTATCTCAGAGGCGCGACTAATTGAGC
Found at i:122726230 original size:21 final size:21
Alignment explanation
Indices: 122726204--122726243 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
122726194 TTTGTGGGTA
122726204 TTAAAT-ATTTTAATTAAAATT
1 TTAAATAATTTTAA-TAAAATT
122726225 TTAAATAATTTTAATAAAA
1 TTAAATAATTTTAATAAAA
122726244 GCATTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATAATTTTAATAAAATT
Found at i:122726863 original size:22 final size:21
Alignment explanation
Indices: 122726836--122726886 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
122726826 TTTAATAAAA
*
122726836 ATAAAAAATATATATTTT-AT
1 ATAAAAAAAATATATTTTAAT
*
122726856 TTAAAAAAAATATATTTTAAT
1 ATAAAAAAAATATATTTTAAT
122726877 ATAAAAAAAA
1 ATAAAAAAAA
122726887 GAGTTGCGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAAAAAAATATATTTTAAT
Found at i:122731530 original size:18 final size:19
Alignment explanation
Indices: 122731489--122731530 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
122731479 ATTTGAAATG
122731489 ATAAATTAATATATTTTAA
1 ATAAATTAATATATTTTAA
*
122731508 TTAAATTCAATA-A-TTTAA
1 ATAAATT-AATATATTTTAA
122731526 ATAAA
1 ATAAA
122731531 AGTATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATTAATATATTTTAA
Found at i:122736333 original size:26 final size:26
Alignment explanation
Indices: 122736282--122736333 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
122736272 TATGTTGTTA
*
122736282 TTTTCATTCTTCCTTAATCTTTTTTC
1 TTTTCATTCTTCCTTAATCTCTTTTC
122736308 TTTTCATTCTCTCTCTT-A-CTCTTTTC
1 TTTTCATTCT-TC-CTTAATCTCTTTTC
122736334 CTCATCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 17 0.74
27 3 0.13
28 3 0.13
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTCATTCTTCCTTAATCTCTTTTC
Found at i:122740164 original size:46 final size:46
Alignment explanation
Indices: 122740104--122740331 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
122740094 TTTGACATGA
* * * ** * *
122740104 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
122740150 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
122740196 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
122740242 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
122740288 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
122740332 AGAGCACACT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:122742823 original size:30 final size:30
Alignment explanation
Indices: 122742756--122742823 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
122742746 CACCCTTAAA
* *
122742756 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
122742786 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
122742815 AGTATTTAC
1 A-TATTTAC
122742824 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:122746839 original size:16 final size:18
Alignment explanation
Indices: 122746818--122746851 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
122746808 TATTAATCAT
122746818 AAAATTAA-A-ATTATAA
1 AAAATTAATATATTATAA
122746834 AAAATTAATATATTATAA
1 AAAATTAATATATTATAA
122746852 TGGATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTAATATATTATAA
Found at i:122748434 original size:16 final size:16
Alignment explanation
Indices: 122748415--122748461 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
122748405 AGTTGATTTG
122748415 ATTTTAAATTTTAATA
1 ATTTTAAATTTTAATA
* *
122748431 ATTTTAAACTTAAATA
1 ATTTTAAATTTTAATA
*
122748447 A-TCTAAATTTTAATA
1 ATTTTAAATTTTAATA
122748462 TGAAACTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAAATTTTAATA
Found at i:122749184 original size:180 final size:183
Alignment explanation
Indices: 122748878--122749241 Score: 590
Period size: 180 Copynumber: 2.0 Consensus size: 183
122748868 TTATTCCAGG
** *
122748878 GGTCATTGTATCTTTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTGCTAGCTAGTGATAAG
1 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTT-CTAGCTAGTCATAAG
* * *
122748943 ATGTAATAGCATAAGAGTTTTGGTAAAAGTTTCGTGGTAATTATGGAGAGTATTTTATACCCCTT
65 ATGTAATAGCATAAGAGTTTTAGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTT
* * **
122749008 TTGTGAGTCTCTCATGAAGTTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
130 TTGCGAGTATCTCATGAAACTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
122749062 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTC-TT-T-GCTAGTCATAAGA
1 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTCTAGCTAGTCATAAGA
* *
122749124 TGTAGTAGCATAAGAGTTTTAGTAAGAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
66 TGTAATAGCATAAGAGTTTTAGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
122749189 TGCGAGTATCTCATGAAACTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
131 TGCGAGTATCTCATGAAACTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
122749242 TTTTCAGCTT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
180 121 0.72
181 1 0.01
183 2 0.01
184 44 0.26
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (183 bp):
GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTCTAGCTAGTCATAAGA
TGTAATAGCATAAGAGTTTTAGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
TGCGAGTATCTCATGAAACTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
Found at i:122750649 original size:34 final size:34
Alignment explanation
Indices: 122750611--122750680 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
122750601 AAAATTTTTC
122750611 TATTAAATTCATTAGTGTAATATTTAAAAAAAAA
1 TATTAAATTCATTAGTGTAATATTTAAAAAAAAA
*
122750645 TATTAAATTCGTTAGTGTAATATTTAAAAAAAAA
1 TATTAAATTCATTAGTGTAATATTTAAAAAAAAA
122750679 TA
1 TA
122750681 CTCTCTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (34 bp):
TATTAAATTCATTAGTGTAATATTTAAAAAAAAA
Found at i:122751879 original size:22 final size:23
Alignment explanation
Indices: 122751854--122751896 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
122751844 GTTAGGGTAA
*
122751854 GTTAGGG-TTTTTATGGTTTAGG
1 GTTAGGGTTTTTTAGGGTTTAGG
122751876 GTTAGGGTTTTTTAGGGTTTA
1 GTTAGGGTTTTTTAGGGTTTA
122751897 TGATTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (23 bp):
GTTAGGGTTTTTTAGGGTTTAGG
Found at i:122751944 original size:26 final size:26
Alignment explanation
Indices: 122751904--122751981 Score: 120
Period size: 26 Copynumber: 2.9 Consensus size: 26
122751894 TTATGATTTT
*
122751904 TGTAAGGATTTAATTAATTAAATTAGGG
1 TGTAA-GA-TTAATTAATTAAATTAAGG
122751932 TGTAAGATTAATTAATTAAATTAAGG
1 TGTAAGATTAATTAATTAAATTAAGG
*
122751958 TGTAAAATTAATTAATTAAATTAA
1 TGTAAGATTAATTAATTAAATTAA
122751982 ATATTAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 41 0.85
27 2 0.04
28 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (26 bp):
TGTAAGATTAATTAATTAAATTAAGG
Found at i:122752320 original size:56 final size:56
Alignment explanation
Indices: 122752258--122752410 Score: 288
Period size: 56 Copynumber: 2.7 Consensus size: 56
122752248 GGTATTGAGA
122752258 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
*
122752314 AAATTATAATTGAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
*
122752370 AAATTATAATTAAAATATTAAAAACAACTTTTATTTTATTA
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTA
122752411 AATGAAAGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 94 1.00
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (56 bp):
AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
Found at i:122752347 original size:27 final size:27
Alignment explanation
Indices: 122752261--122752403 Score: 82
Period size: 27 Copynumber: 5.1 Consensus size: 27
122752251 ATTGAGAAAA
122752261 TTATAATTAAAATACTAAAAACAACTT
1 TTATAATTAAAATACTAAAAACAACTT
* * *
122752288 TTATTTTATTACAAATA-TAAAAGAGTAA--A
1 TTA--TAATTA-AAATACTAAAA-A-CAACTT
*
122752317 TTATAATTGAAATACTAAAAACAACTT
1 TTATAATTAAAATACTAAAAACAACTT
* * *
122752344 TTATTTTATTACAAATA-TAAAAGAGTAA--A
1 TTA--TAATTA-AAATACTAAAA-A-CAACTT
*
122752373 TTATAATTAAAATATTAAAAACAACTT
1 TTATAATTAAAATACTAAAAACAACTT
122752400 TTAT
1 TTAT
122752404 TTTATTAAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 32
0.65 0.11 0.24
Matches are distributed among these distances:
25 4 0.05
26 12 0.14
27 29 0.34
29 25 0.29
30 12 0.14
31 4 0.05
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.37
Consensus pattern (27 bp):
TTATAATTAAAATACTAAAAACAACTT
Found at i:122752687 original size:24 final size:23
Alignment explanation
Indices: 122752637--122752681 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
122752627 AATAATGACT
*
122752637 GCGGAGGTGTTTGCATCACCCATG
1 GCGGAGGTGTTTGAAT-ACCCATG
122752661 GCGGAGGTGTTTGAAT-CCCAT
1 GCGGAGGTGTTTGAATACCCAT
122752682 AAGGCGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (23 bp):
GCGGAGGTGTTTGAATACCCATG
Found at i:122752954 original size:30 final size:30
Alignment explanation
Indices: 122752920--122752988 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
122752910 GTTGAAGTGT
*
122752920 TGGGCCCGGTGACTGTGTGGGCACTATTGA
1 TGGGCCCGGTGACTGTATGGGCACTATTGA
* * * * *
122752950 TGGGCCAGCTGATTGTATGGGCATTGTTGA
1 TGGGCCCGGTGACTGTATGGGCACTATTGA
*
122752980 TGAGCCCGG
1 TGGGCCCGG
122752989 GTCGTTATCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.14, C:0.19, G:0.39, T:0.28
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTATGGGCACTATTGA
Found at i:122753490 original size:7 final size:7
Alignment explanation
Indices: 122753478--122753502 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
122753468 TATTAGTTGT
122753478 ATACATA
1 ATACATA
122753485 ATACATA
1 ATACATA
122753492 ATACATA
1 ATACATA
122753499 ATAC
1 ATAC
122753503 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:122753508 original size:7 final size:7
Alignment explanation
Indices: 122753498--122753537 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
122753488 CATAATACAT
122753498 AATACTA
1 AATACTA
122753505 AATACTA
1 AATACTA
122753512 AATACTA
1 AATACTA
*
122753519 AATATTA
1 AATACTA
*
122753526 AATATTA
1 AATACTA
122753533 AATAC
1 AATAC
122753538 GAAACGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (7 bp):
AATACTA
Found at i:122753508 original size:14 final size:14
Alignment explanation
Indices: 122753478--122753522 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
122753468 TATTAGTTGT
122753478 ATACATAATAC-ATA
1 ATACATAATACTA-A
122753492 ATACATAATACTAA
1 ATACATAATACTAA
122753506 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
122753520 ATA
1 ATA
122753523 TTAAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:122754540 original size:47 final size:48
Alignment explanation
Indices: 122754481--122754577 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
122754471 ATAAAATTAA
* * **
122754481 AATTAAAATTGCATAAA-TGAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATTAAAAAAATAGTAAATACTATTGAAAAATT
*
122754528 AATTAAAATTGCATAAATTAAAAAAATAGTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATTAAAAAAATAGTAAATACTATTGAAAAATT
122754576 AA
1 AA
122754578 AATTATCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 17 0.39
48 27 0.61
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (48 bp):
AATTAAAATTGCATAAATTAAAAAAATAGTAAATACTATTGAAAAATT
Found at i:122757467 original size:16 final size:16
Alignment explanation
Indices: 122757446--122757489 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
122757436 CTTTAATGAA
*
122757446 AAAAAATTGGAAA-GAT
1 AAAAAATT-AAAAGGAT
122757462 AAAAAATTAAAAGGAT
1 AAAAAATTAAAAGGAT
*
122757478 AAAAAACTAAAA
1 AAAAAATTAAAA
122757490 AGATGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.16
Consensus pattern (16 bp):
AAAAAATTAAAAGGAT
Found at i:122767438 original size:6 final size:6
Alignment explanation
Indices: 122767427--122767461 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
122767417 GACAAGATGG
*
122767427 GGAAAA GGAAAA GGAAAA GGAAAA GGCAAA -GAAAA
1 GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA
122767462 CTAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (6 bp):
GGAAAA
Found at i:122770108 original size:15 final size:16
Alignment explanation
Indices: 122770082--122770111 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
122770072 CGATTTAAAT
122770082 AAATTGATTGTGTATC
1 AAATTGATTGTGTATC
122770098 AAATT-ATTGTGTAT
1 AAATTGATTGTGTAT
122770112 AATGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (16 bp):
AAATTGATTGTGTATC
Found at i:122770733 original size:20 final size:21
Alignment explanation
Indices: 122770710--122770756 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
122770700 AAAAAAGGGT
* *
122770710 TTAATTAA-ATTTTTATGAGA
1 TTAATTAAGAATTTTAAGAGA
*
122770730 TTAA-TAAGAATTTTAAGAGT
1 TTAATTAAGAATTTTAAGAGA
122770750 TTAATTA
1 TTAATTA
122770757 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 17 0.77
21 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
TTAATTAAGAATTTTAAGAGA
Found at i:122771035 original size:18 final size:18
Alignment explanation
Indices: 122770989--122771037 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
122770979 TACAAAACTG
*
122770989 GAATCCAACTCTATACTT
1 GAATCTAACTCTATACTT
* *
122771007 GAATCTGACTCTATGC-T
1 GAATCTAACTCTATACTT
122771024 GAAGTCTAACTCTA
1 GAA-TCTAACTCTA
122771038 GGGTGAGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (18 bp):
GAATCTAACTCTATACTT
Found at i:122772034 original size:16 final size:15
Alignment explanation
Indices: 122772005--122772038 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
122771995 TTTCATATTA
122772005 AAACACATAAATTTG
1 AAACACATAAATTTG
*
122772020 AAACTACATATATTTG
1 AAAC-ACATAAATTTG
122772036 AAA
1 AAA
122772039 ACTTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (15 bp):
AAACACATAAATTTG
Found at i:122772686 original size:56 final size:56
Alignment explanation
Indices: 122772589--122772727 Score: 228
Period size: 56 Copynumber: 2.5 Consensus size: 56
122772579 GTCATATATA
* *
122772589 AAATTTA-TTTTTTTAAAAAAATTTGTAAGAGTTATTAATTATTTTTATTTACTTG
1 AAATTTATTTTTTTTAAAAATATTTATAAGAGTTATTAATTATTTTTATTTACTTG
*
122772644 AAATTTATTTTTTTTAAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
1 AAATTTATTTTTTTTAAAAATATTTATAAGAGTTATTAATTATTTTTATTTACTTG
*
122772700 AAATTT-TATTTTTTAAAAATATTTATAA
1 AAATTTATTTTTTTTAAAAATATTTATAA
122772728 CAGATATTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 28 0.35
56 51 0.65
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (56 bp):
AAATTTATTTTTTTTAAAAATATTTATAAGAGTTATTAATTATTTTTATTTACTTG
Found at i:122772745 original size:56 final size:56
Alignment explanation
Indices: 122772589--122772745 Score: 176
Period size: 56 Copynumber: 2.8 Consensus size: 56
122772579 GTCATATATA
* * * * *
122772589 AAATTTAT-TTTTTTAAAAAAATTTGTAAGAGTTATT-AATTATTTTTATTTACTTG
1 AAATTTATATTTTTTAAAAATATTTATAACAGATATTGAA-AATTTTTATTTACTTG
* * * **
122772644 AAATTTATTTTTTTTAAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
1 AAATTTATATTTTTTAAAAATATTTATAACAGATATTGAAAATTTTTATTTACTTG
*
122772700 AAATTT-TATTTTTTAAAAATATTTATAACAGATATTTTAAAATTTT
1 AAATTTATATTTTTTAAAAATATTTATAACAGATA-TTGAAAATTTT
122772746 ATCAAATAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
55 33 0.37
56 56 0.62
57 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (56 bp):
AAATTTATATTTTTTAAAAATATTTATAACAGATATTGAAAATTTTTATTTACTTG
Found at i:122774298 original size:19 final size:19
Alignment explanation
Indices: 122774274--122774312 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
122774264 TTAAGGTGCT
* *
122774274 TAATTATATGAATTGAAAA
1 TAATTATATAAATTAAAAA
122774293 TAATTATATAAATTAAAAA
1 TAATTATATAAATTAAAAA
122774312 T
1 T
122774313 TACATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATTATATAAATTAAAAA
Found at i:122774939 original size:143 final size:142
Alignment explanation
Indices: 122774673--122774931 Score: 299
Period size: 143 Copynumber: 1.8 Consensus size: 142
122774663 TTACTTTTTT
*
122774673 AAAATTATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAAATATATCTTCCAAT
1 AAAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAAATATATCTTCCAAT
* * * ** * * * * **
122774738 ATTTATTATAAATATTTAAGGAATTATATAATCAATTTAAATTATTTATTAGATAAAATGATAAT
66 ATTTACTATAAATAGTAAAAAAATTATATAATCAAATCAAAATAATTAAAAGATAAAATGATAAT
122774803 TATTTTTAAATC
131 TATTTTTAAATC
* * *
122774815 AAAATAATTAAAAATATGTGAATTTATAAATTCATTTAAT-AAATATT-AAAATGTATCTTTCGA
1 AAAATAATT-AAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAAATATATCTTCCAA
** *
122774878 TATTTTACTATATAA-AGTAAAAAAATTAATATTTTTAAATCAAAATAATTAAAA
65 TA-TTTACTATA-AATAGTAAAAAAATT-ATATAATCAAATCAAAATAATTAAAA
122774932 TTTAAAATAA
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
141 15 0.16
142 31 0.33
143 49 0.52
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (142 bp):
AAAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAAATATATCTTCCAAT
ATTTACTATAAATAGTAAAAAAATTATATAATCAAATCAAAATAATTAAAAGATAAAATGATAAT
TATTTTTAAATC
Found at i:122779305 original size:226 final size:216
Alignment explanation
Indices: 122778921--122779340 Score: 624
Period size: 226 Copynumber: 1.9 Consensus size: 216
122778911 TCAAGTAATC
*
122778921 CACAAAGATTAAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
1 CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
122778986 GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
66 GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
*
122779051 CTAAAGTTAAAAGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGTCATGGAATGAGAAC
131 CTAAAGTTAAAAGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAAC
122779116 CCCCCCCCCCAACAACACACA
196 CCCCCCCCCCAACAACACACA
* * *
122779137 CACAAAGATAAAGAACTGTTGCATGGAATGAAAGAACCCCATCAAAACATAACAATAGCTTAAGT
1 CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATC---A-A-AACAATAGCTTAAGT
*** * *
122779202 TAATGGAAAACCTTTCAGGATAACACGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATC
61 TAATGG--AA--TGGAAGG-TAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATC
* ** *
122779267 AAAACAATACCTAAAGTTAATGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATG
121 AAAACAACACCTAAAGTTAAAAGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCATG
122779332 GAATGAGAA
186 GAATGAGAA
122779341 AACCCCCCAT
Statistics
Matches: 180, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
216 39 0.22
219 1 0.01
220 1 0.01
221 21 0.12
223 2 0.01
225 4 0.02
226 112 0.62
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (216 bp):
CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
CTAAAGTTAAAAGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAAC
CCCCCCCCCCAACAACACACA
Found at i:122783889 original size:22 final size:22
Alignment explanation
Indices: 122783835--122783891 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
122783825 GTTTTGTCAG
*
122783835 TATTTT-TTATTATTTTACTAT
1 TATTTTGTTATTATATTACTAT
* * * *
122783856 CATCTCGCTATTATATTACTAT
1 TATTTTGTTATTATATTACTAT
122783878 TATTTTGTTATTAT
1 TATTTTGTTATTAT
122783892 TATTTATATA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTGTTATTATATTACTAT
Found at i:122785406 original size:17 final size:17
Alignment explanation
Indices: 122785384--122785417 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
122785374 TATATTCTAC
122785384 CTTTTTTAAATATTTAA
1 CTTTTTTAAATATTTAA
* *
122785401 CTTTTTTCATTATTTAA
1 CTTTTTTAAATATTTAA
122785418 ATATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTTTTTAAATATTTAA
Found at i:122787582 original size:2 final size:2
Alignment explanation
Indices: 122787565--122787605 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
122787555 TTATTATTGT
122787565 TA TA T- TA TA T- 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
122787605 T
1 T
122787606 CAACGAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:122788304 original size:2 final size:2
Alignment explanation
Indices: 122788297--122788335 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
122788287 TTATTATTTA
122788297 AT AT AT 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 AT AT AT A
122788336 GTAGGTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:122788760 original size:41 final size:40
Alignment explanation
Indices: 122788713--122788817 Score: 99
Period size: 37 Copynumber: 2.7 Consensus size: 40
122788703 GACCTCGAGT
* **
122788713 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCACTATATTACTTCGGATAG-GC
* ** ** *
122788754 TGATGAGGTACTGGGTACCAC--T-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCACTATATTACTTCGGATAGGC
122788791 CGATGAGACACTGGGTGTCACTATATT
1 CGATGAGACACTGGGTGTCACTATATT
122788818 GCTTTGAACT
Statistics
Matches: 47, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
37 16 0.34
38 11 0.23
39 2 0.04
40 2 0.04
41 16 0.34
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCACTATATTACTTCGGATAGGC
Found at i:122791164 original size:64 final size:64
Alignment explanation
Indices: 122791083--122791264 Score: 178
Period size: 66 Copynumber: 2.8 Consensus size: 64
122791073 AGACATTATG
* *
122791083 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
122791147 ATGTAGCTAGGTCGCAT-GGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
122791210 TAA
62 TAA
* * * *
122791213 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGT-TACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
122791265 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
61 1 0.01
62 17 0.18
63 6 0.06
64 20 0.21
65 16 0.16
66 36 0.37
67 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:122794150 original size:18 final size:18
Alignment explanation
Indices: 122794112--122794150 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
122794102 GGAAAAAGAG
**
122794112 AAAAAAATAGAAAAGTTA
1 AAAAAAATAGAAAAGAAA
*
122794130 AAAAAAATAGAAATGAAA
1 AAAAAAATAGAAAAGAAA
122794148 AAA
1 AAA
122794151 TTAAATTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (18 bp):
AAAAAAATAGAAAAGAAA
Found at i:122806702 original size:24 final size:24
Alignment explanation
Indices: 122806669--122806774 Score: 79
Period size: 24 Copynumber: 4.4 Consensus size: 24
122806659 GCCATGTAAA
*
122806669 GGGAAACTCATAAGAGCCAATATC
1 GGGAAGCTCATAAGAGCCAATATC
** *
122806693 GGGAAGCTCATGCGAGTCAATATC
1 GGGAAGCTCATAAGAGCCAATATC
*** *
122806717 AAAAAGCTCCA-AAGAGCCATATATT
1 GGGAAGCT-CATAAGAGCCA-ATATC
* * *
122806742 GGGATGCTCATAAGAGCTAATAAC
1 GGGAAGCTCATAAGAGCCAATATC
*
122806766 GGGACGCTC
1 GGGAAGCTC
122806775 TTGCAAGCTG
Statistics
Matches: 60, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
24 43 0.72
25 17 0.28
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCAATATC
Found at i:122807130 original size:21 final size:21
Alignment explanation
Indices: 122807106--122807148 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
122807096 AATGAATTTA
* *
122807106 ACTCAATTTAATACAATTCAT
1 ACTCAATTCAATACAATACAT
122807127 ACTCAATTCAATACAATACAT
1 ACTCAATTCAATACAATACAT
122807148 A
1 A
122807149 TCTTTGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTCAATTCAATACAATACAT
Found at i:122810770 original size:29 final size:29
Alignment explanation
Indices: 122810735--122810797 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
122810725 TCTTAATTTT
122810735 GAAATTTAATCCTAATATTTTTATTTCTA
1 GAAATTTAATCCTAATATTTTTATTTCTA
* * * *
122810764 GAAATTTAGTTCTTATATTTTTATTTTTA
1 GAAATTTAATCCTAATATTTTTATTTCTA
122810793 GAAAT
1 GAAAT
122810798 GTAGTCTCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (29 bp):
GAAATTTAATCCTAATATTTTTATTTCTA
Found at i:122810812 original size:29 final size:29
Alignment explanation
Indices: 122810751--122810813 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
122810741 TAATCCTAAT
* * *
122810751 ATTTTTATTTCTAGAAATTTAGTTCTTAT
1 ATTTTTATTTCTAGAAATGTAGTTCTCAG
*
122810780 ATTTTTATTTTTAGAAATGTAG-TCTCCAG
1 ATTTTTATTTCTAGAAATGTAGTTCT-CAG
122810809 ATTTT
1 ATTTT
122810814 AAAATTCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.56
Consensus pattern (29 bp):
ATTTTTATTTCTAGAAATGTAGTTCTCAG
Found at i:122811734 original size:17 final size:17
Alignment explanation
Indices: 122811712--122811767 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
122811702 AAGCCCCCCC
122811712 AAAAAAAACCTAACCCA
1 AAAAAAAACCTAACCCA
122811729 AAAAAAAA--TGAA---A
1 AAAAAAAACCT-AACCCA
122811742 AAAGAAAAACCTAACCCA
1 AAA-AAAAACCTAACCCA
122811760 AAAAAAAA
1 AAAAAAAA
122811768 AACCAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 4 0.12
14 5 0.16
15 3 0.09
16 3 0.09
17 13 0.41
18 4 0.12
ACGTcount: A:0.73, C:0.18, G:0.04, T:0.05
Consensus pattern (17 bp):
AAAAAAAACCTAACCCA
Found at i:122811735 original size:18 final size:18
Alignment explanation
Indices: 122811712--122811768 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
122811702 AAGCCCCCCC
122811712 AAAAAAAACCTAACCC-A
1 AAAAAAAACCTAACCCAA
122811729 AAAAAAAA--TGAA---AA
1 AAAAAAAACCT-AACCCAA
*
122811743 AAGAAAAACCTAACCCAA
1 AAAAAAAACCTAACCCAA
122811761 AAAAAAAA
1 AAAAAAAA
122811769 ACCAAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 13
0.67 0.04 0.28
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 3 0.10
17 8 0.26
18 9 0.29
ACGTcount: A:0.74, C:0.18, G:0.04, T:0.05
Consensus pattern (18 bp):
AAAAAAAACCTAACCCAA
Found at i:122812336 original size:2 final size:2
Alignment explanation
Indices: 122812331--122812369 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
122812321 TAAATACTAT
* *
122812331 TA TA TA CA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122812370 TTTTAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:122814309 original size:12 final size:12
Alignment explanation
Indices: 122814292--122814327 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
122814282 ATTCATTTGA
122814292 CATTCATGCATT
1 CATTCATGCATT
122814304 CATTCATGCATT
1 CATTCATGCATT
*
122814316 CATTCATACATT
1 CATTCATGCATT
122814328 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:122822992 original size:73 final size:71
Alignment explanation
Indices: 122822803--122822992 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 71
122822793 AAGCCTTTTT
* * * *
122822803 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
122822868 ATTTTCA
65 AATTTCA
* ** *
122822875 ATTTTTGTGTTTTAATTTCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
122822940 AATTTCA
65 AATTTCA
* *
122822947 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
122822993 ACCTTTTAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 71 0.71
73 26 0.26
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:122823176 original size:116 final size:117
Alignment explanation
Indices: 122822968--122823187 Score: 318
Period size: 116 Copynumber: 1.9 Consensus size: 117
122822958 TCAAGAATCA
* *
122822968 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATGTTGC
1 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
* *
122823033 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
* ** *
122823085 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTTATTT-TTGTTTTTCAAAATCAACTTATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
122823148 CTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTT
65 CGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTT
122823188 CAATTTTTGT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 59 0.65
117 32 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (117 bp):
ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:122823237 original size:72 final size:72
Alignment explanation
Indices: 122823118--122823341 Score: 252
Period size: 72 Copynumber: 3.1 Consensus size: 72
122823108 AAGCCTTTTT
* * * *
122823118 ATTTTTGT-TTTTCAAAATCAACTTATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGG
1 ATTTTTGTGTTTT-AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCTGAGG
122823182 TATTTTCA
65 TATTTTCA
** *
122823190 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCTGAGGT
*
122823255 AATTTCA
66 ATTTTCA
* *** * * * *
122823262 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCG
1 ATTTTTG-TGT-TTTAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCTG
122823327 AGGTATTTTCA
62 AGGTATTTTCA
122823338 ATTT
1 ATTT
122823342 CCGTTTTTCA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
72 65 0.51
73 7 0.06
74 35 0.28
76 20 0.16
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (72 bp):
ATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCTGAGGT
ATTTTCA
Found at i:122823267 original size:315 final size:315
Alignment explanation
Indices: 122822695--122823297 Score: 1109
Period size: 315 Copynumber: 1.9 Consensus size: 315
122822685 TTAATTGTTG
*
122822695 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
122822760 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
122822825 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
*
122822890 TTTCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATAGTGCGAGAGGAGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTG-
*
122822955 TTGTC-AAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
260 TTGTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
*
122823010 TTTTCAAAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
122823075 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
*
122823140 TTATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
* *
122823205 TTTCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATAGTGCGAGAGGAGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
122823270 TGTCAAAAAAATCAACTCGTATTGCGAG
261 TGTC-AAAAAATCAACTCATATTGCGAG
122823298 CGGCGAGTTG
Statistics
Matches: 278, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
314 5 0.02
315 253 0.91
316 20 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (315 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
TTTCAACTCATAGTGCGAGAGGAGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
TGTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:122823413 original size:91 final size:88
Alignment explanation
Indices: 122823257--122823431 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 88
122823247 GCTGAGGTAA
* *
122823257 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACA
* *
122823322 CGCCGAGGTATTTTCAATTTCCGTT
64 CACCGAGGTAATTTCAATTTCCGTT
** *
122823347 TTTCAATTTCTGCCTT-TCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
*
122823411 CACTGAGGTAATTTCAATTTC
64 CACCGAGGTAATTTCAATTTC
122823432 TGTTGTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 40 0.53
92 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACA
CCGAGGTAATTTCAATTTCCGTT
Found at i:122823471 original size:74 final size:75
Alignment explanation
Indices: 122823347--122823506 Score: 207
Period size: 74 Copynumber: 2.1 Consensus size: 75
122823337 AATTTCCGTT
** *
122823347 TTTCAATTTCTGCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
1 TTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
*
122823411 CACTGAGGTAA
65 CACCGAGGTAA
* *
122823422 TTTCAATTTCTG-TTGTCAAAAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CAC
* *
122823486 ACGCCGAGGTAT
64 ACACCGAGGTAA
122823498 TTTCAATTT
1 TTTCAATTT
122823507 TCGTTTTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 2 0.03
74 40 0.54
75 12 0.16
76 20 0.27
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (75 bp):
TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
ACCGAGGTAA
Found at i:122823635 original size:74 final size:75
Alignment explanation
Indices: 122823530--122823671 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 75
122823520 TCTTCCTTTC
* * *
122823530 AAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCCCAGG-ACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGGCACACGCCGAGGTAATTTCAATT
122823594 TCTGTTGTCA
66 TCTGTTGTCA
* * * *
122823604 AAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGG-CACACGCCGAGGTAATTTCAAT
122823669 TTC
65 TTC
122823672 CGTTTTTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGGCACACGCCGAGGTAATTTCAATT
TCTGTTGTCA
Found at i:122823790 original size:168 final size:167
Alignment explanation
Indices: 122823207--122824238 Score: 1822
Period size: 168 Copynumber: 6.2 Consensus size: 167
122823197 TGTTTTAATT
*
122823207 TCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
122823272 TCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
122823337 AATTTCCGTTTTTCAATTTCTGCCTTTC--AAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAA
** *
122823372 TTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
122823437 TCAAAAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
* *
122823502 AATTTTCGTTTTTCAATTTCTTCCTTTC---AAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAA
* *
122823536 TCAACTCATATTTCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
122823601 TCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
*
122823666 AATTTCCGTTTTTCAATTTCTACCTTTCAAAAAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTC-AAAAAAAAA
*
122823704 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
122823769 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
*
122823834 AATTTCCGTTTTTTAATTTCTGCCTTTCAAAAAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTC-AAAAAAAAA
*
122823872 TCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
122823937 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
122824002 AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTC-AAAAAAAAA
*
122824040 TCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* *
122824105 TCAAAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
66 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
* *
122824170 AATTTTCGTTTTTCAATTTCTGTCTTTCAAAAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAA
122824207 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
122824239 TGGCTCACGC
Statistics
Matches: 832, Mismatches: 31, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
164 155 0.19
165 150 0.18
167 40 0.05
168 487 0.59
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (167 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAA
Found at i:122823803 original size:74 final size:75
Alignment explanation
Indices: 122823697--122823839 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
122823687 ACCTTTCAAA
* * *
122823697 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
122823761 TTCTGTTGTC
66 TTCTGTTGTC
* *
122823771 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
122823836 TTTC
65 TTTC
122823840 CGTTTTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.65
76 22 0.35
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:122823971 original size:74 final size:75
Alignment explanation
Indices: 122823865--122824007 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
122823855 GCCTTTCAAA
* * *
122823865 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
122823929 TTCTGTTGTC
66 TTCTGTTGTC
* *
122823939 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
122824004 TTTC
65 TTTC
122824008 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.65
76 22 0.35
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:122824139 original size:74 final size:75
Alignment explanation
Indices: 122824033--122824174 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 75
122824023 GCCTTTCAAA
* *
122824033 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGGCACACGCCGAGGTAATTTCAAT
122824097 TTCTGTTGTC
66 TTCTGTTGTC
* * * * *
122824107 AAAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGG-CACACGCCGAGGTAATTTCAA
122824172 TTT
65 TTT
122824175 TCGTTTTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 38 0.64
76 21 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCCCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:122824260 original size:93 final size:90
Alignment explanation
Indices: 122824090--122824275 Score: 232
Period size: 93 Copynumber: 2.0 Consensus size: 90
122824080 GCTGAGGTAA
* * *
122824090 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
*
122824155 CGCCGAGGTATTTTCAATTT-TCGTT
66 CGCCGAGCTATTTTCAATTTCT-GTT
* * *
122824180 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
1 TTTCAATTTCTGT-TGTC--AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-T
* *
122824244 CACGCGCTGAGCTATTTTCAATTTCTGTT
62 CACACGCCGAGCTATTTTCAATTTCTGTT
122824273 TTT
1 TTT
122824276 AATGTCTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
90 13 0.16
91 3 0.04
92 2 0.02
93 63 0.77
94 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCGAGCTATTTTCAATTTCTGTT
Found at i:122837851 original size:22 final size:22
Alignment explanation
Indices: 122837823--122837866 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
122837813 GTAAAAAAGA
122837823 ATAAATGCATAATTATACATTT
1 ATAAATGCATAATTATACATTT
122837845 ATAAATGCATAATTATACATTT
1 ATAAATGCATAATTATACATTT
122837867 CTTTATGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (22 bp):
ATAAATGCATAATTATACATTT
Found at i:122838935 original size:18 final size:18
Alignment explanation
Indices: 122838884--122838936 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
122838874 CCGGCACTCT
* *
122838884 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* * *
122838902 GTAACAGTTATTTATTCA
1 ATAACAGTCAATTATTCA
122838920 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
122838937 CGTAGCAGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:122839388 original size:25 final size:24
Alignment explanation
Indices: 122839360--122839414 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
122839350 TCACATGCAA
*
122839360 TTCAATTTCAATACAATATACATAT
1 TTCAATTTCAATACAACATACAT-T
* *
122839385 TTCAATTTTAATATAACATACATT
1 TTCAATTTCAATACAACATACATT
122839409 TT-AATT
1 TTCAATT
122839415 CATTTTCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 4 0.15
24 3 0.11
25 20 0.74
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (24 bp):
TTCAATTTCAATACAACATACATT
Found at i:122840187 original size:15 final size:14
Alignment explanation
Indices: 122840163--122840197 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
122840153 CAATTTTCCC
*
122840163 CTTTTTCCTTCTTT
1 CTTTTTCCTTCCTT
122840177 CTTTCTTCCTTCCTT
1 CTTT-TTCCTTCCTT
122840192 CTTTTT
1 CTTTTT
122840198 TTCCCCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTTTCCTTCCTT
Found at i:122840511 original size:41 final size:41
Alignment explanation
Indices: 122840460--122840586 Score: 184
Period size: 41 Copynumber: 3.1 Consensus size: 41
122840450 GCATTTTTCC
*
122840460 AAAAGCGCCGCTAATGCTCAGATATGTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAATGCTCAGATATGTAGCGGCGCTTTTTG
*
122840501 AAAAACGCCGCTAATGCTCAGATCTGTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAATGCTCAGATATGTAGCGGCGCTTTTTG
* * * * *
122840542 AAAAACGCCGCTAATGCTC-GATTTATAGCGACGTTTTTTC
1 AAAAACGCCGCTAATGCTCAGATATGTAGCGGCGCTTTTTG
122840582 AAAAA
1 AAAAA
122840587 GCTCCACAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 21 0.27
41 58 0.73
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTCAGATATGTAGCGGCGCTTTTTG
Found at i:122840894 original size:14 final size:14
Alignment explanation
Indices: 122840872--122840994 Score: 57
Period size: 14 Copynumber: 8.4 Consensus size: 14
122840862 TTACTTATCA
*
122840872 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
122840886 TTATGGTTTAGGGT
1 TTATGGTTTAAGGT
* * **
122840900 ATATAGTTTGGGGT
1 TTATGGTTTAAGGT
122840914 TTATGGTTTATGATGAGT
1 TTATGGTTTA--A-G-GT
* **
122840932 TAATATTTTAAGGT
1 TTATGGTTTAAGGT
** *
122840946 TTATGAATTATGGGT
1 TTATGGTTTA-AGGT
*
122840961 TTAGGGTTTAAGGT
1 TTATGGTTTAAGGT
* *
122840975 TTAGGGGTTTATGGT
1 TTA-TGGTTTAAGGT
122840990 TTATG
1 TTATG
122840995 AGTTAATATC
Statistics
Matches: 80, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
14 45 0.56
15 24 0.30
16 1 0.01
17 1 0.01
18 9 0.11
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:122840963 original size:22 final size:22
Alignment explanation
Indices: 122840938--122840995 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
122840928 GAGTTAATAT
*
122840938 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGTTTATGAATTAGGGG
* * **
122840960 TTTAGGGTTTAAGGTTTAGGGG
1 TTTAAGGTTTATGAATTAGGGG
*
122840982 TTTATGGTTTATGA
1 TTTAAGGTTTATGA
122840996 GTTAATATCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (22 bp):
TTTAAGGTTTATGAATTAGGGG
Found at i:122840982 original size:15 final size:14
Alignment explanation
Indices: 122840958--122840992 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
122840948 ATGAATTATG
122840958 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
122840972 GGTTTAGGGGTTTAT
1 GGTTTA-GGGTTTAA
122840987 GGTTTA
1 GGTTTA
122840993 TGAGTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:122841024 original size:7 final size:7
Alignment explanation
Indices: 122841012--122841045 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
122841002 ATCACAAGGT
122841012 TTATGGA
1 TTATGGA
122841019 TTATGGA
1 TTATGGA
122841026 TTATGGA
1 TTATGGA
*
122841033 CTTAGGGA
1 -TTATGGA
122841041 TTATG
1 TTATG
122841046 ATTTATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (7 bp):
TTATGGA
Found at i:122841043 original size:15 final size:14
Alignment explanation
Indices: 122841012--122841045 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
122841002 ATCACAAGGT
*
122841012 TTATGGATTATGGA
1 TTATGGATTAGGGA
122841026 TTATGGACTTAGGGA
1 TTATGGA-TTAGGGA
122841041 TTATG
1 TTATG
122841046 ATTTATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:122841117 original size:22 final size:23
Alignment explanation
Indices: 122841092--122841135 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
122841082 GTTTATGATT
*
122841092 TAGGGGTTAAAGGT-TAAGGGTC
1 TAGGAGTTAAAGGTCTAAGGGTC
*
122841114 TAGGAGTTAAGGGTCTAAGGGT
1 TAGGAGTTAAAGGTCTAAGGGT
122841136 TAAGGGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.05, G:0.41, T:0.27
Consensus pattern (23 bp):
TAGGAGTTAAAGGTCTAAGGGTC
Found at i:122841122 original size:15 final size:15
Alignment explanation
Indices: 122841103--122841142 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
122841093 AGGGGTTAAA
122841103 GGTTAAGGGTCT-AG
1 GGTTAAGGGTCTAAG
122841117 GAGTTAAGGGTCTAAG
1 G-GTTAAGGGTCTAAG
122841133 GGTTAAGGGT
1 GGTTAAGGGT
122841143 ACATGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 20 0.83
16 3 0.12
ACGTcount: A:0.25, C:0.05, G:0.42, T:0.28
Consensus pattern (15 bp):
GGTTAAGGGTCTAAG
Found at i:122841141 original size:7 final size:7
Alignment explanation
Indices: 122841095--122841228 Score: 65
Period size: 7 Copynumber: 18.3 Consensus size: 7
122841085 TATGATTTAG
122841095 GGGTTAA
1 GGGTTAA
*
122841102 AGGTTAA
1 GGGTTAA
122841109 GGGTCT-A
1 GGGT-TAA
122841116 GGAGTTAA
1 GG-GTTAA
122841124 GGGTCTAA
1 GGGT-TAA
122841132 GGGTTAA
1 GGGTTAA
122841139 GGG-TACA
1 GGGTTA-A
* * *
122841146 TGATTTA
1 GGGTTAA
122841153 GGGTTTAA
1 GGG-TTAA
* *
122841161 AGTTTAA
1 GGGTTAA
122841168 GGGTTAA
1 GGGTTAA
122841175 GGGTCTAA
1 GGGT-TAA
* *
122841183 GGTTTAT
1 GGGTTAA
* *
122841190 GAGTTAT
1 GGGTTAA
*
122841197 GGGTTAT
1 GGGTTAA
*
122841204 GGGTTTA
1 GGGTTAA
*
122841211 GGGATTTAG
1 GGG--TTAA
122841220 GGGTTAA
1 GGGTTAA
122841227 GG
1 GG
122841229 CATTAAGGGG
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
6 2 0.02
7 64 0.67
8 24 0.25
9 5 0.05
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (7 bp):
GGGTTAA
Found at i:122841564 original size:17 final size:18
Alignment explanation
Indices: 122841539--122841572 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
122841529 ATAAGTGATT
*
122841539 TTTTTAAATT-TATATTG
1 TTTTAAAATTATATATTG
122841556 TTTTAAAATTATATATT
1 TTTTAAAATTATATATT
122841573 AAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTATATATTG
Found at i:122846387 original size:14 final size:13
Alignment explanation
Indices: 122846362--122846403 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
122846352 TTAAATTGTA
122846362 TTTAAAATTTTAT
1 TTTAAAATTTTAT
122846375 TTTAAATATTTTAT
1 TTTAAA-ATTTTAT
122846389 TTT---ATTTTAT
1 TTTAAAATTTTAT
122846399 TTTAA
1 TTTAA
122846404 TCAGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAAAATTTTAT
Found at i:122846403 original size:104 final size:105
Alignment explanation
Indices: 122846222--122846480 Score: 421
Period size: 104 Copynumber: 2.5 Consensus size: 105
122846212 TTAAATATTT
* * *
122846222 TTTTATTTTTAAATTACCTAATTAAATTAAACTGTATTTAAAGTTTTATTTTGAATATATTATTT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATATTATTT
*
122846287 TATTTTAATTTAATCACGATAAATATTTTGTCTACTTTTA
66 TATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
* * *
122846327 TTTTAATTTTAAATTACCTAACT-AATTAAATTGTATTTAAAATTTTATTTTAAATATTTTATTT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATATTATTT
* * *
122846391 TATTTTATTTTAATCAGGAAAAATATTTTGTCTATTTTTA
66 TATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
122846431 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATT
122846481 GAGCACACAT
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
104 94 0.67
105 47 0.33
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (105 bp):
TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATATTATTT
TATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
Found at i:122846637 original size:9 final size:9
Alignment explanation
Indices: 122846625--122846785 Score: 82
Period size: 9 Copynumber: 17.4 Consensus size: 9
122846615 CATATCTTAT
122846625 ATAATTTAC
1 ATAATTTAC
*
122846634 ATAACTTAC
1 ATAATTTAC
122846643 ATAA--TAC
1 ATAATTTAC
122846650 ATAAATATATATC
1 AT-AAT-T-TA-C
122846663 AT-ATCTTAC
1 ATAAT-TTAC
122846672 ATAATTTAC
1 ATAATTTAC
** *
122846681 ATAAGATAA
1 ATAATTTAC
**
122846690 ATACCTTAC
1 ATAATTTAC
122846699 ATAATTTAC
1 ATAATTTAC
** *
122846708 ATAAGATAA
1 ATAATTTAC
**
122846717 ATACCTTAC
1 ATAATTTAC
122846726 ATAATTTAC
1 ATAATTTAC
*
122846735 ATAACTTAC
1 ATAATTTAC
122846744 ATAA--TAC
1 ATAATTTAC
122846751 ATAAATATATATC
1 AT-AAT-T-TA-C
122846764 AT-ATCTTAC
1 ATAAT-TTAC
122846773 ATAATTTAC
1 ATAATTTAC
122846782 ATAA
1 ATAA
122846786 GATAATCTAT
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
7 10 0.09
8 4 0.03
9 78 0.67
10 8 0.07
11 6 0.05
12 4 0.03
13 6 0.05
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAATTTAC
Found at i:122846703 original size:27 final size:27
Alignment explanation
Indices: 122846667--122846738 Score: 144
Period size: 27 Copynumber: 2.7 Consensus size: 27
122846657 TATATCATAT
122846667 CTTACATAATTTACATAAGATAAATAC
1 CTTACATAATTTACATAAGATAAATAC
122846694 CTTACATAATTTACATAAGATAAATAC
1 CTTACATAATTTACATAAGATAAATAC
122846721 CTTACATAATTTACATAA
1 CTTACATAATTTACATAA
122846739 CTTACATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (27 bp):
CTTACATAATTTACATAAGATAAATAC
Found at i:122851825 original size:13 final size:14
Alignment explanation
Indices: 122851809--122851837 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
122851799 TTATAAATAT
122851809 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
122851822 TTATAATGGTTTAA
1 TTATAATGGTTTAA
122851836 TT
1 TT
122851838 CGTAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:122852287 original size:21 final size:21
Alignment explanation
Indices: 122852262--122852320 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
122852252 AACAGAGAGG
122852262 GAGGCAGCGGCAGCAGCAAG-
1 GAGGCAGCGGCAGCAGCAAGA
*
122852282 GCAGGCAGCGGCAGCAGCGAGA
1 G-AGGCAGCGGCAGCAGCAAGA
*
122852304 GAGGCAGAGGCAGCAGC
1 GAGGCAGCGGCAGCAGC
122852321 GATGGCAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.46, T:0.00
Consensus pattern (21 bp):
GAGGCAGCGGCAGCAGCAAGA
Found at i:122852774 original size:43 final size:42
Alignment explanation
Indices: 122852709--122852852 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 42
122852699 GTTTGTGAAA
* * * *
122852709 AAATGCCGCTAAAAGCCTTGACTTTTAGTGGTGCTTTTCTCAC
1 AAATGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTT-TCAC
122852752 AAATGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTTCCAC
1 AAATGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTT-CAC
* * *
122852795 AAA-CCCGGTTAATAGCTATGACTTTTAGCGGCGCTTTTTTCATAC
1 AAATGCC-GCTAATAGCCATGACTTTTAGCGGCGC-TTTTTC--AC
*
122852840 AAATGCCGTTAAT
1 AAATGCCGCTAAT
122852853 TTTTGTGGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
42 3 0.03
43 66 0.76
44 5 0.06
45 11 0.13
46 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (42 bp):
AAATGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTTCAC
Found at i:122853718 original size:33 final size:34
Alignment explanation
Indices: 122853681--122853747 Score: 127
Period size: 33 Copynumber: 2.0 Consensus size: 34
122853671 CACATCATAG
122853681 AACGTTAATGTGGACTTC-AAAAAAATTGCAATT
1 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
122853714 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
1 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
122853748 TAGACACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (34 bp):
AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
Found at i:122858274 original size:7 final size:7
Alignment explanation
Indices: 122858262--122858294 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
122858252 TTTGTAATAA
122858262 TTAAATT
1 TTAAATT
122858269 TTAAATT
1 TTAAATT
122858276 TTAAATT
1 TTAAATT
122858283 TTAAATT
1 TTAAATT
122858290 TTAAA
1 TTAAA
122858295 GTAAGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTAAATT
Found at i:122862793 original size:25 final size:27
Alignment explanation
Indices: 122862756--122862808 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
122862746 TCAAACATGC
122862756 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
122862782 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
122862808 A
1 A
122862809 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:122864330 original size:26 final size:26
Alignment explanation
Indices: 122864294--122864377 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
122864284 CATGAAATTC
122864294 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122864320 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
122864346 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
122864372 TTATCA
1 TTATCA
122864378 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122864868 original size:6 final size:6
Alignment explanation
Indices: 122864857--122864889 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
122864847 ATGATTGCAA
*
122864857 ATTTCC ATTTCC ATTT-C ATTTTC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
122864890 TTGAAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (6 bp):
ATTTCC
Found at i:122864879 original size:12 final size:12
Alignment explanation
Indices: 122864857--122864890 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
122864847 ATGATTGCAA
*
122864857 ATTTCCATTTCC
1 ATTTCCATTTTC
122864869 ATTT-CATTTTC
1 ATTTCCATTTTC
122864880 ATTTCCATTTT
1 ATTTCCATTTT
122864891 TGAAAACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:122864882 original size:17 final size:17
Alignment explanation
Indices: 122864857--122864889 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
122864847 ATGATTGCAA
122864857 ATTTCCATTTCCATTTC
1 ATTTCCATTTCCATTTC
*
122864874 ATTTTCATTTCCATTT
1 ATTTCCATTTCCATTT
122864890 TTGAAAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTCCATTTCCATTTC
Found at i:122867604 original size:26 final size:25
Alignment explanation
Indices: 122867570--122867621 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
122867560 ATAAATACGA
122867570 AAAAAATCGCAATAAAAAAATTAATT
1 AAAAAATCGCAAT-AAAAAATTAATT
* *
122867596 AAAAAATCGTAATACAAAATTAATT
1 AAAAAATCGCAATAAAAAATTAATT
122867621 A
1 A
122867622 GGCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAAATCGCAATAAAAAATTAATT
Found at i:122867608 original size:14 final size:14
Alignment explanation
Indices: 122867569--122867614 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
122867559 AATAAATACG
*
122867569 AAAAAAATCGCAAT
1 AAAAAAATCGTAAT
122867583 AAAAAAAT--TAAT
1 AAAAAAATCGTAAT
*
122867595 TAAAAAATCGTAAT
1 AAAAAAATCGTAAT
122867609 ACAAAA
1 A-AAAA
122867615 TTAATTAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAAAAATCGTAAT
Found at i:122872857 original size:18 final size:18
Alignment explanation
Indices: 122872834--122872881 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
122872824 ATTTTTATTT
122872834 TTTATATATTTATATAAA
1 TTTATATATTTATATAAA
* *
122872852 TTTATA-AATTATA-CAA
1 TTTATATATTTATATAAA
122872868 TTTATAT-TTTATAT
1 TTTATATATTTATAT
122872882 TTTTCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.52
17 6 0.24
18 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATATTTATATAAA
Found at i:122873510 original size:18 final size:17
Alignment explanation
Indices: 122873441--122873512 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
122873431 GGTGAAAAGG
122873441 AAAAATATGTATAATTTA
1 AAAAATAT-TATAATTTA
* *
122873459 AATGAATA--ATATTTTA
1 AA-AAATATTATAATTTA
* *
122873475 AAAAAGATTAGTAGTTTA
1 AAAAATATTA-TAATTTA
122873493 AAAAATATGTATAATTTA
1 AAAAATAT-TATAATTTA
122873511 AA
1 AA
122873513 TGAATAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 3 0.07
16 9 0.21
17 1 0.02
18 23 0.55
19 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATATTATAATTTA
Found at i:122875210 original size:13 final size:13
Alignment explanation
Indices: 122875194--122875219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122875184 AATGGGGAAG
122875194 GAAAAAGGAAATA
1 GAAAAAGGAAATA
122875207 GAAAAAGGAAATA
1 GAAAAAGGAAATA
122875220 ACGAATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (13 bp):
GAAAAAGGAAATA
Found at i:122875609 original size:25 final size:25
Alignment explanation
Indices: 122875562--122875610 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
122875552 TAGGTTAATC
* **
122875562 AGAGTTTAAATGGGAAACTAAAAGA
1 AGAGTTTAAATAGGAAAAGAAAAGA
*
122875587 AGAGTTTAACTAGGAAAAGAAAAG
1 AGAGTTTAAATAGGAAAAGAAAAG
122875611 CCAAATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.24, T:0.18
Consensus pattern (25 bp):
AGAGTTTAAATAGGAAAAGAAAAGA
Found at i:122878921 original size:17 final size:16
Alignment explanation
Indices: 122878887--122878944 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
122878877 ATTTTAATAT
*
122878887 ATTTAATATTAAATTTA
1 ATTTAATATT-TATTTA
122878904 ATTTAATATTTATCTTA
1 ATTTAATATTTAT-TTA
*
122878921 A--TAGTATTT-TATTA
1 ATTTAATATTTAT-TTA
122878935 ATTTAATATT
1 ATTTAATATT
122878945 AAAGTGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 8 0.24
17 14 0.41
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:122885569 original size:16 final size:15
Alignment explanation
Indices: 122885548--122885577 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
122885538 ATTTCAAGGG
122885548 CTTTTAAGTATTTTTC
1 CTTTTAAGT-TTTTTC
122885564 CTTTTAAGTTTTTT
1 CTTTTAAGTTTTTT
122885578 ATCCAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (15 bp):
CTTTTAAGTTTTTTC
Found at i:122886675 original size:14 final size:14
Alignment explanation
Indices: 122886656--122886720 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
122886646 TGACCTACCA
122886656 ATTTATTATAAATT
1 ATTTATTATAAATT
*
122886670 ATTTA-TATTAATTTT
1 ATTTATTA-TAA-ATT
* *
122886685 AATTAAATTATATATT
1 -ATT-TATTATAAATT
*
122886701 ATTTATTATAAGTT
1 ATTTATTATAAATT
122886715 ATTTAT
1 ATTTAT
122886721 ACATTGCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
13 2 0.05
14 22 0.56
15 5 0.13
16 5 0.13
17 3 0.08
18 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTTATTATAAATT
Found at i:122889279 original size:27 final size:27
Alignment explanation
Indices: 122889249--122889304 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
122889239 AGTTCGAGAG
* *
122889249 CAATGAAGCGTCAACGAAGTGGACCAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
**
122889276 CAATGATTCGTCAACGAAGCGGAACAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
122889303 CA
1 CA
122889305 TCGAAACACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CAATGAAGCGTCAACGAAGCGGAACAT
Found at i:122891534 original size:5 final size:5
Alignment explanation
Indices: 122891524--122891571 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
122891514 AGGGAAAGTA
*
122891524 AAATT AAATT AAATT AAA-- AAATT ACAAATA AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT --AAATT AAATT AAATT AAATT AAA
122891572 AATTATGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
5 30 0.81
7 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (5 bp):
AAATT
Found at i:122899197 original size:17 final size:19
Alignment explanation
Indices: 122899175--122899226 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
122899165 ATTAATTTTT
122899175 TATATAAT-T-TTAAAAAA
1 TATATAATATATTAAAAAA
122899192 TATATAATATATT-AAAAA
1 TATATAATATATTAAAAAA
*
122899210 TAT-TAAAAATATTAAAA
1 TATAT-AATATATTAAAA
122899227 TAAATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.30
18 16 0.53
19 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAATATATTAAAAAA
Found at i:122899212 original size:9 final size:9
Alignment explanation
Indices: 122899187--122899226 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
122899177 TATAATTTTA
122899187 AAAAATA-T
1 AAAAATATT
*
122899195 ATAATATATT
1 A-AAAATATT
122899205 AAAAATATT
1 AAAAATATT
122899214 AAAAATATT
1 AAAAATATT
122899223 AAAA
1 AAAA
122899227 TAAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 1 0.04
9 25 0.89
10 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:122905460 original size:2 final size:2
Alignment explanation
Indices: 122905453--122905477 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122905443 AGCATGAATT
122905453 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
122905478 GTAGTAGGTA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122905622 original size:29 final size:30
Alignment explanation
Indices: 122905575--122905637 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
122905565 CTATTTTGCT
* * *
122905575 TTTTTTTTTTTCAACAGTGTGAAAGACGTG
1 TTTTTTTTTTTCAAAAGTGTAAAAGACGCG
122905605 TTTTTTTTTTT-AAAAGTGTAAAAGACGCG
1 TTTTTTTTTTTCAAAAGTGTAAAAGACGCG
122905634 TTTT
1 TTTT
122905638 ATTCGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.49
Consensus pattern (30 bp):
TTTTTTTTTTTCAAAAGTGTAAAAGACGCG
Found at i:122905968 original size:18 final size:17
Alignment explanation
Indices: 122905926--122905968 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
122905916 TTTTTAAGTT
*
122905926 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
122905943 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
122905961 TATAATTT
1 TATAATTT
122905969 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:122906504 original size:22 final size:22
Alignment explanation
Indices: 122906465--122906523 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
122906455 GTTTTAAGAA
*
122906465 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
122906486 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
122906508 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
122906524 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:122906540 original size:26 final size:24
Alignment explanation
Indices: 122906494--122906553 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
122906484 ATTTGTTTTA
*
122906494 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
122906518 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
122906544 TTTTTTATTT
1 ATATTTATTT
122906554 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:122906991 original size:2 final size:2
Alignment explanation
Indices: 122906984--122907010 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122906974 TATCTGCTAC
122906984 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 A
122907011 ATTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.