Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 285 of 318
Found at i:90172517 original size:26 final size:26
Alignment explanation
Indices: 90172488--90172579 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 26
90172478 TTGTTTAAAT
90172488 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* * * *
90172514 TTTAATAAAAATAAATAATTTAATCATAT
1 TTTAAT-AAAAT-TATTATTAAAT-ATAA
* *
90172543 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
90172569 TTTAATAAAAT
1 TTTAATAAAAT
90172580 AATATATAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 18 0.35
27 13 0.25
28 12 0.24
29 8 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:90172561 original size:55 final size:57
Alignment explanation
Indices: 90172486--90172601 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 57
90172476 TATTGTTTAA
*
90172486 ATTTTAATAAAATTATTATTAAATATAATTTAAT-AAA-AATAAATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
* *
90172541 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
90172598 ATTT
1 ATTT
90172602 CAATATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 32 0.57
56 3 0.05
57 21 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (57 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
Found at i:90172619 original size:55 final size:53
Alignment explanation
Indices: 90172500--90172621 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 53
90172490 TAATAAAATT
*
90172500 ATTAT-TAAATATAATTTAATAAAAATAAATAATTTAATCATATTTTAACATA
1 ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
* *
90172552 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCATATTTCAATATA
1 ATTA-TA-TAAATATAATTTAAT-AAA-AATAAATAATTTAATCATATTTCAACATA
*
90172609 TTTATATAAATAT
1 ATTATATAAATAT
90172622 TTATTTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
52 4 0.07
53 1 0.02
55 22 0.36
56 5 0.08
57 29 0.48
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (53 bp):
ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
Found at i:90173167 original size:15 final size:16
Alignment explanation
Indices: 90173149--90173186 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
90173139 ATATCCTCTC
90173149 TTCTTTTA-AACTATT
1 TTCTTTTATAACTATT
* *
90173164 TTCTTTTATTATTATT
1 TTCTTTTATAACTATT
90173180 TTCTTTT
1 TTCTTTT
90173187 TAATTTGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTTATAACTATT
Found at i:90175988 original size:21 final size:21
Alignment explanation
Indices: 90175946--90176086 Score: 97
Period size: 21 Copynumber: 6.7 Consensus size: 21
90175936 GAAGCTTATG
*
90175946 AGAGCTAAACAGAAAC-CAATA
1 AGAGCTGAACAGAAACTC-ATA
* *
90175967 AGGGTTGAAC-GAAAACTCATA
1 AGAGCTGAACAG-AAACTCATA
* *
90175988 AGAGCTGAACAGAAACCCTTA
1 AGAGCTGAACAGAAACTCATA
* * * * *
90176009 AGGGTTAAACAGAAGCTCAAA
1 AGAGCTGAACAGAAACTCATA
*
90176030 AGAGCTGAACAAAAACTCATA
1 AGAGCTGAACAGAAACTCATA
* * * *
90176051 TGAGTTAAACAGAAGCTCATA
1 AGAGCTGAACAGAAACTCATA
* *
90176072 AGAGCTAAACGGAAA
1 AGAGCTGAACAGAAA
90176087 GTAAACACGA
Statistics
Matches: 88, Mismatches: 29, Indels: 6
0.72 0.24 0.05
Matches are distributed among these distances:
20 1 0.01
21 85 0.97
22 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (21 bp):
AGAGCTGAACAGAAACTCATA
Found at i:90175992 original size:42 final size:41
Alignment explanation
Indices: 90175935--90176086 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 41
90175925 AATGTTGAAT
* * *
90175935 AGAAGCTTATGAGAGCTAAACAGAAACCAATAAGGGTTGAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACC-ATAAGGGTTAAAC
* * *
90175977 -GAAAACTCATAAGAGCTGAACAGAAACCCTTAAGGGTTAAAC
1 AG-AAGCTCATAAGAGCTAAACAGAAA-CCATAAGGGTTAAAC
* * * * *
90176019 AGAAGCTCAAAAGAGCTGAACAAAAACTCATATGAGTTAAAC
1 AGAAGCTCATAAGAGCTAAACAGAAAC-CATAAGGGTTAAAC
*
90176061 AGAAGCTCATAAGAGCTAAACGGAAA
1 AGAAGCTCATAAGAGCTAAACAGAAA
90176087 GTAAACACGA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 85 0.94
43 3 0.03
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (41 bp):
AGAAGCTCATAAGAGCTAAACAGAAACCATAAGGGTTAAAC
Found at i:90176081 original size:63 final size:63
Alignment explanation
Indices: 90175935--90176086 Score: 153
Period size: 63 Copynumber: 2.4 Consensus size: 63
90175925 AATGTTGAAT
* * * * * *
90175935 AGAAGCTTATGAGAGCTAAACAGAAACCAATAAGGGTTGAACGAAAACTCATAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACCAATAAGAGCTGAACAAAAACTCATAAGAGCTAAAC
* * * * * * * *
90175998 AGAAACCCTTAAGGGTTAAACAGAAGCTCAA-AAGAGCTGAACAAAAACTCATATGAGTTAAAC
1 AGAAGCTCATAAGAGCTAAACAGAAAC-CAATAAGAGCTGAACAAAAACTCATAAGAGCTAAAC
*
90176061 AGAAGCTCATAAGAGCTAAACGGAAA
1 AGAAGCTCATAAGAGCTAAACAGAAA
90176087 GTAAACACGA
Statistics
Matches: 67, Mismatches: 21, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
63 64 0.96
64 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (63 bp):
AGAAGCTCATAAGAGCTAAACAGAAACCAATAAGAGCTGAACAAAAACTCATAAGAGCTAAAC
Found at i:90176429 original size:28 final size:28
Alignment explanation
Indices: 90176389--90176446 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
90176379 TGAGTATGTA
90176389 CAAGATCTTGATCTAATATAAAATTACT
1 CAAGATCTTGATCTAATATAAAATTACT
90176417 CAAGATCTTGATCTAATATAAAATTACT
1 CAAGATCTTGATCTAATATAAAATTACT
90176445 CA
1 CA
90176447 TTCATTAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (28 bp):
CAAGATCTTGATCTAATATAAAATTACT
Found at i:90179184 original size:2 final size:2
Alignment explanation
Indices: 90179177--90179227 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
90179167 ATAAACAATA
90179177 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
90179219 AG AG AG AG A
1 AG AG AG AG A
90179228 TTAGTAGTAA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:90189273 original size:14 final size:14
Alignment explanation
Indices: 90189254--90189281 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90189244 TGAAAATGTG
90189254 TTCTAACAAGTTTA
1 TTCTAACAAGTTTA
90189268 TTCTAACAAGTTTA
1 TTCTAACAAGTTTA
90189282 ATTTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCTAACAAGTTTA
Found at i:90190492 original size:51 final size:51
Alignment explanation
Indices: 90190416--90190521 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
90190406 CATAAAAAGG
90190416 AAATATTCATGGAAGACTGCTTAATCTTAACAGAATGAATTTTTAAGCACA
1 AAATATTCATGGAAGACTGCTTAATCTTAACAGAATGAATTTTTAAGCACA
90190467 AAATATTCATGGAAGACTGCTTAATCTTAACAGAATGAATTTTTAAGCACA
1 AAATATTCATGGAAGACTGCTTAATCTTAACAGAATGAATTTTTAAGCACA
90190518 AAAT
1 AAAT
90190522 CAAACTCTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (51 bp):
AAATATTCATGGAAGACTGCTTAATCTTAACAGAATGAATTTTTAAGCACA
Found at i:90191402 original size:68 final size:66
Alignment explanation
Indices: 90191288--90191559 Score: 206
Period size: 69 Copynumber: 4.0 Consensus size: 66
90191278 ACCATGGCAG
* * * * * *
90191288 GACTCCTGATTTACCATCTTGCGGACCCTATATGCTGTCATAGTCGAATTATGGTCTTACACATT
1 GACTCATG-TTTAACATCTTGCGGACTCTCTATGTTGTCATAGTCGAGTTATGGTCTTACACATT
90191353 AT
65 AT
* *
90191355 AGACTCATGTTTAACATACTTGCGGACTCTCTATGTTGCCATAGTCGAGCTATGGT-TTACACAT
1 -GACTCATGTTTAACAT-CTTGCGGACTCTCTATGTTGTCATAGTCGAGTTATGGTCTTACACAT
90191419 TAT
64 TAT
* ** ** * * *
90191422 GAACCCATACTTAATGTCCTAGCGGACTCTCTATTAGTTGTCATAGCCGAGTTATGGTCTTAAAC
1 G-ACTCATGTTTAACAT-CTTGCGGACTCTCTA-T-GTTGTCATAGTCGAGTTATGGTCTTACAC
*
90191487 ACTAT
62 ATTAT
** * * * * * *
90191492 TCCTCATATTTAATATCCTGGCAGACTCTCTATTGGTTATCATAG-CTGAGGTATGGTCTTACAC
1 GACTCATGTTTAACAT-CTTGCGGACTCTCTA-T-GTTGTCATAGTC-GAGTTATGGTCTTACAC
90191556 ATTA
62 ATTA
90191560 AACCTTCTTT
Statistics
Matches: 166, Mismatches: 32, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
66 1 0.01
67 42 0.25
68 41 0.25
69 73 0.44
70 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (66 bp):
GACTCATGTTTAACATCTTGCGGACTCTCTATGTTGTCATAGTCGAGTTATGGTCTTACACATTA
T
Found at i:90195949 original size:26 final size:25
Alignment explanation
Indices: 90195893--90195952 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
90195883 AATGGGTTAT
90195893 CTAATTATGGACCATTTTTTTGTCA
1 CTAATTATGGACCATTTTTTTGTCA
90195918 CTAATTATGGACCATTTTTTTGTCA
1 CTAATTATGGACCATTTTTTTGTCA
*
90195943 TTCAATTATG
1 CT-AATTATG
90195953 AATTCTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.79
26 7 0.21
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (25 bp):
CTAATTATGGACCATTTTTTTGTCA
Found at i:90199111 original size:18 final size:18
Alignment explanation
Indices: 90199074--90199112 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90199064 TTGGAAATCA
*
90199074 AAATAATTAAAAGACGAT
1 AAATAATTAAAAGACAAT
90199092 AAATAATTAAATAGA-AAT
1 AAATAATTAAA-AGACAAT
90199110 AAA
1 AAA
90199113 AATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (18 bp):
AAATAATTAAAAGACAAT
Found at i:90199874 original size:2 final size:2
Alignment explanation
Indices: 90199815--90199858 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
90199805 TTGTGAATTG
*
90199815 TA TA AA TA T- 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
90199856 TA T
1 TA T
90199859 GAAATTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90203773 original size:27 final size:27
Alignment explanation
Indices: 90203738--90204012 Score: 237
Period size: 27 Copynumber: 10.1 Consensus size: 27
90203728 GCCGAAATGG
*
90203738 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
**
90203765 TGACCGAAATACCCC-ATAATGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * *
90203791 TGACCAAAATACCCCTTGTAGGATAAAA
1 TGACCGAAATACCCC-TATAGGGTAAAA
* * *
90203819 TGACCAAAATGCCCCTATAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * *
90203846 TGAACGAAATACCCCCCATATGGTAAAA
1 TGACCGAAATA-CCCCTATAGGGTAAAA
* * * *
90203874 TGACCAAAATACCCCCATAGGATGAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* *
90203901 TGCCCGAAATACCCCTATAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * * * *
90203928 TAACTGTAATACCCCTGTAGAGTAAAG
1 TGACCGAAATACCCCTATAGGGTAAAA
* * *
90203955 TGACTGTAATACCCCTGTAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * * *
90203982 TGACTGTAATACCCTTGTAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
90204009 TGAC
1 TGAC
90204013 TTATTTGCCC
Statistics
Matches: 205, Mismatches: 40, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 23 0.11
27 138 0.67
28 44 0.21
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
TGACCGAAATACCCCTATAGGGTAAAA
Found at i:90203856 original size:55 final size:53
Alignment explanation
Indices: 90203738--90203928 Score: 208
Period size: 55 Copynumber: 3.5 Consensus size: 53
90203728 GCCGAAATGG
* *
90203738 TGACCGAAATACCCC-CATAGGGTAAAATGACCGAAATACCCCATAATGTAAAA
1 TGACCGAAATACCCCTCATA-GGTAAAATGACCAAAATACCCCATAAGGTAAAA
* ** *
90203791 TGACCAAAATACCCCTTGTAGGATAAAATGACCAAAATGCCCCTATAAGGTAAAA
1 TGACCGAAATACCCCTCATAGG-TAAAATGACCAAAATACCCC-ATAAGGTAAAA
* * *
90203846 TGAACGAAATACCCCCCATATGGTAAAATGACCAAAATACCCCCAT-AGGATGAAA
1 TGACCGAAATACCCCTCATA-GGTAAAATGACCAAAATA-CCCCATAAGG-TAAAA
*
90203901 TGCCCGAAATACCCCT-ATAAGGTAAAAT
1 TGACCGAAATACCCCTCAT-AGGTAAAAT
90203929 AACTGTAATA
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
53 16 0.14
54 33 0.29
55 60 0.52
56 6 0.05
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (53 bp):
TGACCGAAATACCCCTCATAGGTAAAATGACCAAAATACCCCATAAGGTAAAA
Found at i:90203995 original size:136 final size:136
Alignment explanation
Indices: 90203738--90203984 Score: 318
Period size: 136 Copynumber: 1.8 Consensus size: 136
90203728 GCCGAAATGG
* * * *
90203738 TGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAATGTAAAATGACCAAAATAC
1 TGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAAGGTAAAATAACCAAAATAC
*
90203803 CCCTTGTAGGATAAAATGACCAAAATGCCCCTATAAGGTAAAATGAACGAAATACCCCCCATATG
66 CCCTTGTAGGATAAAATGACCAAAATACCCCTATAAGGTAAAATGAACGAAATACCCCCCATATG
90203868 GTAAAA
131 GTAAAA
* * ***
90203874 TGACCAAAATACCCCCATAGGATGAAATGCCCGAAATACCCCTATAAGGTAAAATAACTGTAATA
1 TGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCC-ATAAGGTAAAATAACCAAAATA
* *** * *
90203939 CCCC-TGTA-GAGTAAAGTGACTGTAATACCCCTGTAGGGTAAAATGA
65 CCCCTTGTAGGA-TAAAATGACCAAAATACCCCTATAAGGTAAAATGA
90203985 CTGTAATACC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
135 2 0.02
136 70 0.75
137 21 0.23
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (136 bp):
TGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAAGGTAAAATAACCAAAATAC
CCCTTGTAGGATAAAATGACCAAAATACCCCTATAAGGTAAAATGAACGAAATACCCCCCATATG
GTAAAA
Found at i:90212681 original size:14 final size:15
Alignment explanation
Indices: 90212647--90212683 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
90212637 ATTATATATG
90212647 TATATATATAATCAA
1 TATATATATAATCAA
*
90212662 -AAATATATAAT-AA
1 TATATATATAATCAA
90212675 TATATATAT
1 TATATATAT
90212684 GAATTAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATATATAATCAA
Found at i:90222857 original size:46 final size:46
Alignment explanation
Indices: 90222806--90223256 Score: 591
Period size: 46 Copynumber: 9.8 Consensus size: 46
90222796 GTGTGCTCTC
* * *
90222806 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
90222852 TGATATGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
90222898 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCGTGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
90222944 TGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
90222991 TGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
90223037 TGATATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
90223083 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
90223129 TGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
90223176 TGACGGGAAAATGAATAAGACCATGGTTGAAA-ATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
90223222 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
90223257 GTATGACATC
Statistics
Matches: 369, Mismatches: 33, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
45 22 0.06
46 237 0.64
47 110 0.30
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:90223070 original size:139 final size:138
Alignment explanation
Indices: 90222814--90223256 Score: 638
Period size: 139 Copynumber: 3.2 Consensus size: 138
90222804 TCTGATATGG
* *
90222814 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
* * * *
90222879 GAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCGTGGCAACA
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
90222944 TGACAGGAA
131 TGACA-GAA
* *
90222953 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
* * * *
90223018 AAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGCAACT
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
90223083 TGACATG-A
131 TGACA-GAA
* * **
90223091 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAGACCATGGT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGT
***
90223156 TGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAA-ATACCATGGCAA
65 TGAAAGATACCATGGCAACATGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
90223220 CATGACAGAA
129 CATGACAGAA
* * *
90223230 AACGAGTAAAACCATAGTTGAAAGATA
1 AATGAGTAAGACCATGGTTGAAAGATA
90223257 GTATGACATC
Statistics
Matches: 274, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
138 43 0.16
139 208 0.76
140 23 0.08
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (138 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
TGACAGAA
Found at i:90223118 original size:185 final size:185
Alignment explanation
Indices: 90222806--90223220 Score: 670
Period size: 185 Copynumber: 2.2 Consensus size: 185
90222796 GTGTGCTCTC
* **
90222806 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
* *
90222871 CCATGGTTGAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCG
66 CCATGGTTGAAACATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
*
90222936 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
90222991 TGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACGTGATATGAAATGAATAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
* * *
90223056 CCGTGGTTGAAAGATACCATGGCAACTTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAACATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
90223121 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** **
90223176 TGACGGGAAAATGAATAAGACCATGGTTGAAA-ATACCATGGCAAC
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
90223221 ATGACAGAAA
Statistics
Matches: 212, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
185 191 0.90
186 21 0.10
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (185 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGA
CCATGGTTGAAACATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCA
TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:90224713 original size:11 final size:11
Alignment explanation
Indices: 90224697--90224727 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
90224687 TTCACAAAAC
90224697 GAAATTTCTGG
1 GAAATTTCTGG
90224708 GAAATTTCTGG
1 GAAATTTCTGG
*
90224719 AAAATTTCT
1 GAAATTTCT
90224728 TCTGAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (11 bp):
GAAATTTCTGG
Found at i:90227882 original size:46 final size:46
Alignment explanation
Indices: 90227830--90228281 Score: 584
Period size: 46 Copynumber: 9.8 Consensus size: 46
90227820 AGTGTGCTCT
* *
90227830 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90227876 CTGATATGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90227922 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCGTGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
90227968 ATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90228015 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90228061 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90228106 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
90228152 ATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
90228199 ATGACGGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAAT
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
90228246 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
90228282 GTATGACATC
Statistics
Matches: 371, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
45 42 0.11
46 202 0.54
47 127 0.34
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:90228095 original size:139 final size:138
Alignment explanation
Indices: 90227839--90228281 Score: 647
Period size: 139 Copynumber: 3.2 Consensus size: 138
90227829 TCTGATATGG
* *
90227839 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
* * * *
90227904 GAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCGTGGCAACA
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
90227969 TGACAGGAA
131 TGACA-GAA
* *
90227978 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
*
90228043 GAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC-
66 GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
90228107 TGACATG-A
131 TGACA-GAA
* * **
90228115 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAGACCATGGT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGT
*** *
90228180 TGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAA
65 TGAAAGATACCATGGCAACATGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
*
90228245 TATGACAGAA
129 CATGACAGAA
* * *
90228255 AACGAGTAAAACCATAGTTGAAAGATA
1 AATGAGTAAGACCATGGTTGAAAGATA
90228282 GTATGACATC
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
137 42 0.15
138 46 0.17
139 159 0.57
140 30 0.11
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (138 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
GAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
TGACAGAA
Found at i:90228277 original size:231 final size:231
Alignment explanation
Indices: 90227831--90228281 Score: 690
Period size: 231 Copynumber: 2.0 Consensus size: 231
90227821 GTGTGCTCTC
* ** * *
90227831 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
* * * * *
90227896 CCATGGTTGAAACATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCG
66 CCATGGTTGAAACATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCA
* * *
90227961 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAA
131 TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACATGACATGAAA
* * * *
90228026 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
196 CGAGTAAAACCATAGTTGAAAGATACCATGGCAACG
90228062 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CTGACATGAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
*
90228126 CCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACC
66 CCATGGTTGAAACATACCATGGCAACATGACAGG-AAATGAATAAGACCATGGTTGAAAGATACC
* *
90228191 ATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAATATGACA-GAA
130 ATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACATGACATG-A
90228255 AACGAGTAAAACCATAGTTGAAAGATA
194 AACGAGTAAAACCATAGTTGAAAGATA
90228282 GTATGACATC
Statistics
Matches: 198, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
230 49 0.25
231 149 0.75
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (231 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
CCATGGTTGAAACATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCA
TGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACATGACATGAAA
CGAGTAAAACCATAGTTGAAAGATACCATGGCAACG
Found at i:90232811 original size:22 final size:23
Alignment explanation
Indices: 90232786--90232828 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90232776 GATTTAGGCA
* *
90232786 CTATGTTTTTCTTT-CATTAATG
1 CTATGCTTCTCTTTGCATTAATG
90232808 CTATGCTTCTCTTTGCATTAA
1 CTATGCTTCTCTTTGCATTAA
90232829 CTATTGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (23 bp):
CTATGCTTCTCTTTGCATTAATG
Found at i:90253234 original size:28 final size:28
Alignment explanation
Indices: 90253173--90253244 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
90253163 AAATTAATAT
*
90253173 ATAATAAAATTATATTTTATCTTTTAAA
1 ATAATAAAATTATATTTAATCTTTTAAA
*
90253201 ATAATAAATTTATAATTTAAT-TTTCTAAA
1 ATAATAAAATTAT-ATTTAATCTTT-TAAA
*
90253230 AAATATAAAATTATA
1 ATA-ATAAAATTATA
90253245 AGGTTAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.41
29 13 0.35
30 9 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
ATAATAAAATTATATTTAATCTTTTAAA
Found at i:90254373 original size:5 final size:5
Alignment explanation
Indices: 90254365--90254392 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
90254355 AGGGACGGGA
90254365 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
1 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
90254393 TTTGGGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.57, T:0.21
Consensus pattern (5 bp):
TGAGG
Found at i:90260543 original size:2 final size:2
Alignment explanation
Indices: 90260536--90260562 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90260526 TTAGGTGAGG
90260536 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
90260563 CACGATTTGC
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
Found at i:90260835 original size:31 final size:30
Alignment explanation
Indices: 90260771--90260836 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
90260761 TAACATCTAT
*
90260771 ATTTTTATAATTTTTAAAAAATTAAATTAA
1 ATTTTTATAATTTTTAAAAAATAAAATTAA
* *
90260801 ATTTTTATAATCTTTTAAGAGATAAAA-TATA
1 ATTTTTATAAT-TTTTAAAAAATAAAATTA-A
90260832 ATTTT
1 ATTTT
90260837 GTCTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAAAATAAAATTAA
Found at i:90261345 original size:23 final size:23
Alignment explanation
Indices: 90261301--90261349 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
90261291 AACACGTCAG
*
90261301 TATATGATTTATTTTGCCAAATA
1 TATATGATTTATTTTGCAAAATA
*
90261324 TATATGCTTTATTTT-CTAAAATA
1 TATATGATTTATTTTGC-AAAATA
90261347 TAT
1 TAT
90261350 TTATATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (23 bp):
TATATGATTTATTTTGCAAAATA
Found at i:90274368 original size:28 final size:28
Alignment explanation
Indices: 90274336--90274392 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
90274326 GCAAATTGTT
90274336 TTAGTGAATCAAATGTGTAGGAGATGTC
1 TTAGTGAATCAAATGTGTAGGAGATGTC
*
90274364 TTAGTGAATCAAGTGTGTAGGAGATGTC
1 TTAGTGAATCAAATGTGTAGGAGATGTC
90274392 T
1 T
90274393 ATTAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (28 bp):
TTAGTGAATCAAATGTGTAGGAGATGTC
Found at i:90277790 original size:19 final size:18
Alignment explanation
Indices: 90277753--90277791 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
90277743 TAAGGACTAG
*
90277753 ATTGAATATAGAGTAAAA
1 ATTGAATATAGAATAAAA
90277771 ATTGAATTATAGAATCAAAA
1 ATTGAA-TATAGAAT-AAAA
90277791 A
1 A
90277792 AGTTGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.28
Consensus pattern (18 bp):
ATTGAATATAGAATAAAA
Found at i:90277922 original size:13 final size:13
Alignment explanation
Indices: 90277906--90277930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90277896 ATACTTAAGT
90277906 ATAATATAATAAA
1 ATAATATAATAAA
90277919 ATAATATAATAA
1 ATAATATAATAA
90277931 TACATAAAGT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATAATAAA
Found at i:90277968 original size:20 final size:20
Alignment explanation
Indices: 90277936--90277973 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
90277926 AATAATACAT
90277936 AAAGTAAATAAAAGAAAGTA
1 AAAGTAAATAAAAGAAAGTA
90277956 AAAG-AAATAAAAAGAAAG
1 AAAGTAAAT-AAAAGAAAG
90277974 AAAGAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAGTAAATAAAAGAAAGTA
Found at i:90278006 original size:27 final size:25
Alignment explanation
Indices: 90277946--90278029 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 25
90277936 AAAGTAAATA
* *
90277946 AAAGAAAGTAAAAG-AAATAAAAAG
1 AAAGAAAGAAAAAGTAAAGAAAAAG
90277970 AAAGAAAGAACAGAGAAGTGAAACGAAAAAG
1 AAAGAAAG-A-A-A-AAGT-AAA-GAAAAAG
*
90278001 AGAGAAAGAAAAAGTAAAGAAAAAG
1 AAAGAAAGAAAAAGTAAAGAAAAAG
90278026 AAAG
1 AAAG
90278030 GGGAAATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
24 8 0.16
25 10 0.20
26 4 0.08
27 5 0.10
28 4 0.08
29 1 0.02
30 4 0.08
31 13 0.27
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (25 bp):
AAAGAAAGAAAAAGTAAAGAAAAAG
Found at i:90278029 original size:10 final size:10
Alignment explanation
Indices: 90277945--90278029 Score: 55
Period size: 10 Copynumber: 7.9 Consensus size: 10
90277935 TAAAGTAAAT
*
90277945 AAAAGAAAGT
1 AAAAGAAAGA
*
90277955 AAAAGAAATA
1 AAAAGAAAGA
90277965 AAAAGAAAGAA
1 AAAAGAAAG-A
*
90277976 AGAACAGAGAAGTG
1 A-AA-AGA-AAG-A
*
90277990 AAACGAAA-A
1 AAAAGAAAGA
*
90277999 AGAGAGAAAGA
1 A-AAAGAAAGA
90278010 AAAAGTAAAGA
1 AAAAG-AAAGA
90278021 AAAAGAAAG
1 AAAAGAAAG
90278030 GGGAAATTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 1 0.02
10 28 0.48
11 16 0.28
12 4 0.07
13 5 0.09
14 4 0.07
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.05
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:90281461 original size:28 final size:28
Alignment explanation
Indices: 90281426--90281482 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
90281416 TTGTATAAGT
90281426 ATGTGTGCATCTGTTGTGAGTGTGACAA
1 ATGTGTGCATCTGTTGTGAGTGTGACAA
*
90281454 ATGTGTGCATTTGTTGTGAGTGTGACAA
1 ATGTGTGCATCTGTTGTGAGTGTGACAA
90281482 A
1 A
90281483 ATGGCTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.37
Consensus pattern (28 bp):
ATGTGTGCATCTGTTGTGAGTGTGACAA
Found at i:90284795 original size:77 final size:77
Alignment explanation
Indices: 90284670--90284857 Score: 256
Period size: 77 Copynumber: 2.5 Consensus size: 77
90284660 TCTCTTAAAC
* *
90284670 TTAATAAAAAAA--AATTAAAGCCCTACC-TTTTTTTTTGCACTCAATTGCCAAAATATATAAAA
1 TTAA-AAAAAAAGCAATT-AAGCCCCACCTTTTTTTTTTGCACTCAATTGCCAAAATACATAAAA
90284732 AAACCCTCAAACTT
64 AAACCCTCAAACTT
** * * *
90284746 TTTTAAAAAATGCAATTAAGCCCCACTTTTTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAA
1 TTAAAAAAAAAGCAATTAAGCCCCACCTTTTTTTTTTGCACTCAATTGCCAAAATACATAAAAAA
90284811 ACCCTCAAACTT
66 ACCCTCAAACTT
* *
90284823 TTAAAAAAAAAGTAATTAAGCTCCACCTTTTTTTT
1 TTAAAAAAAAAGCAATTAAGCCCCACCTTTTTTTT
90284858 CACTCAATTA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
75 6 0.06
76 10 0.10
77 80 0.83
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (77 bp):
TTAAAAAAAAAGCAATTAAGCCCCACCTTTTTTTTTTGCACTCAATTGCCAAAATACATAAAAAA
ACCCTCAAACTT
Found at i:90284873 original size:74 final size:76
Alignment explanation
Indices: 90284698--90284884 Score: 252
Period size: 77 Copynumber: 2.5 Consensus size: 76
90284688 AGCCCTACCT
** ** *
90284698 TTTTTTTTGCACTCAATTGCCAAAATATATAAAAAAACCCTCAAACTTTTTTAAAAAATGCAATT
1 TTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTTTAAAAAAAAAGCAATT
*
90284763 AAGCCCCACTTT
66 AAGCCCCAC-TC
*
90284775 TTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTTTAAAAAAAAAGTAATT
1 TTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTTTAAAAAAAAAGCAATT
*
90284840 AAGCTCCAC-C
66 AAGCCCCACTC
** *
90284850 TTTTTTTT-CACTCAATTATCAAAATGCATTAAAAA
1 TTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAA
90284885 GACCATTTGA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
74 24 0.24
75 8 0.08
77 67 0.68
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (76 bp):
TTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTTTAAAAAAAAAGCAATT
AAGCCCCACTC
Found at i:90285019 original size:10 final size:9
Alignment explanation
Indices: 90284972--90285096 Score: 69
Period size: 9 Copynumber: 13.4 Consensus size: 9
90284962 CATGTGACAA
*
90284972 AAAAATAAT
1 AAAAATTAT
90284981 AAAAA--AT
1 AAAAATTAT
*
90284988 AAAAATAAAT
1 AAAAAT-TAT
90284998 AAAAATTAT
1 AAAAATTAT
90285007 AAAAATTATT
1 AAAAATTA-T
**
90285017 AAATTTTAAT
1 AAAAATT-AT
*
90285027 AAAAAAT-T
1 AAAAATTAT
*
90285035 AAAAATGAT
1 AAAAATTAT
*
90285044 AAAAATTGTAA
1 AAAAA-T-TAT
90285055 AAAAATTAT
1 AAAAATTAT
90285064 -AAAATATAT
1 AAAAAT-TAT
* *
90285073 AGAAATATAGA
1 AAAAAT-TA-T
90285084 AAAAATTAT
1 AAAAATTAT
90285093 AAAA
1 AAAA
90285097 TTTTATAAAG
Statistics
Matches: 90, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.08
8 11 0.12
9 30 0.33
10 30 0.33
11 12 0.13
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:90285019 original size:29 final size:26
Alignment explanation
Indices: 90284970--90285096 Score: 89
Period size: 29 Copynumber: 4.6 Consensus size: 26
90284960 GACATGTGAC
*
90284970 AAAAAAATAATAAAAA-ATAAAAATA
1 AAAAAAATTATAAAAATATAAAAATA
**
90284995 AATAAAAATTATAAAAATTATTAAATTTTA
1 AA-AAAAATTATAAAAA-TA-TAAA-AATA
*
90285025 ATAAAAAA-T-TAAAAATGATAAAAATTGT
1 A-AAAAAATTATAAAAAT-ATAAAAA-T-A
90285053 AAAAAAATTATAAAATATATAGAAATATA
1 AAAAAAATTATAAAA-ATATA-AAA-ATA
*
90285082 GAAAAAATTATAAAA
1 AAAAAAATTATAAAA
90285097 TTTTATAAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 24
0.71 0.07 0.21
Matches are distributed among these distances:
25 2 0.03
26 13 0.16
27 12 0.15
28 10 0.12
29 27 0.34
30 14 0.17
31 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (26 bp):
AAAAAAATTATAAAAATATAAAAATA
Found at i:90285344 original size:18 final size:17
Alignment explanation
Indices: 90285321--90285381 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
90285311 TAAAGTGTCT
90285321 TTTTTATGTATTTTATAA
1 TTTTTAT-TATTTTATAA
* *
90285339 TTTTTATAAAATTTTACAA
1 TTTTTAT--TATTTTATAA
* *
90285358 TTTTATATTTTTTTCTAA
1 TTTT-TATTATTTTATAA
90285376 TTTTTA
1 TTTTTA
90285382 ATAAATTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 2 0.06
18 17 0.50
19 12 0.35
20 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTATTATTTTATAA
Found at i:90286920 original size:30 final size:30
Alignment explanation
Indices: 90286886--90286948 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
90286876 ATTTATTTTA
90286886 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
90286916 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
90286946 TTG
1 TTG
90286949 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:90292702 original size:21 final size:21
Alignment explanation
Indices: 90292670--90292725 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
90292660 TGTTTTTCCA
90292670 AATT-TTAAATTTTAT-ATTT
1 AATTATTAAATTTTATAATTT
*
90292689 AATTATTAATATTTTTTAATTT
1 AATTATTAA-ATTTTATAATTT
*
90292711 -ATTAATAACATTTTA
1 AATTATTAA-ATTTTA
90292726 AAGTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 18 0.60
22 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTATTAAATTTTATAATTT
Found at i:90292710 original size:22 final size:22
Alignment explanation
Indices: 90292679--90292724 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
90292669 AAATTTTAAA
* *
90292679 TTTTATATTTAATTATTAATATT
1 TTTTATATTT-ATTAATAACATT
90292702 TTTTA-ATTTATTAATAACATT
1 TTTTATATTTATTAATAACATT
90292723 TT
1 TT
90292725 AAAGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 4 0.19
23 5 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATATTTATTAATAACATT
Found at i:90293593 original size:2 final size:2
Alignment explanation
Indices: 90293588--90293621 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90293578 AATCTCTCCC
90293588 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
90293622 ATACAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90315074 original size:24 final size:24
Alignment explanation
Indices: 90315046--90315097 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
90315036 TTCGTAGGTC
*
90315046 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
90315070 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
90315094 AAAT
1 AAAT
90315098 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:90319311 original size:19 final size:17
Alignment explanation
Indices: 90319277--90319310 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90319267 ATTTTTTGAC
90319277 ATTTTTAAATATATATA
1 ATTTTTAAATATATATA
90319294 ATTTATTAAATA-ATATA
1 ATTT-TTAAATATATATA
90319311 TTAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTTAAATATATATA
Found at i:90319318 original size:19 final size:18
Alignment explanation
Indices: 90319281--90319319 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
90319271 TTTGACATTT
*
90319281 TTAAATATATATAATTTA
1 TTAAATATATATAAGTTA
*
90319299 TTAAATAATATATTAGTTA
1 TTAAAT-ATATATAAGTTA
90319318 TT
1 TT
90319320 TAAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAAATATATATAAGTTA
Found at i:90320909 original size:21 final size:21
Alignment explanation
Indices: 90320870--90320909 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
90320860 ATAATTTGCT
* *
90320870 ATGTCCAATAGATTTTGACAC
1 ATGTCCAATACATTATGACAC
*
90320891 ATGTCCTATACATTATGAC
1 ATGTCCAATACATTATGAC
90320910 TTGTTATCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGTCCAATACATTATGACAC
Found at i:90321151 original size:2 final size:2
Alignment explanation
Indices: 90321144--90321185 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
90321134 CCTCACAAAC
90321144 AT 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 AT
90321186 GGCATGTGGA
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):
AT
Found at i:90327882 original size:20 final size:18
Alignment explanation
Indices: 90327846--90327886 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
90327836 AAAAAATATT
*
90327846 TTTAAAAATTAAGAATTA
1 TTTAAAAATTAAAAATTA
90327864 TTTAAAAAGTATAAAAATTA
1 TTTAAAAA-T-TAAAAATTA
90327884 TTT
1 TTT
90327887 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAAAAATTAAAAATTA
Found at i:90328860 original size:19 final size:19
Alignment explanation
Indices: 90328836--90328874 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
90328826 AATTTTATAT
*
90328836 TTTTTAAAAATTTATAAAA
1 TTTTTAAAAAATTATAAAA
*
90328855 TTTTTAAAAAATTCTAAAA
1 TTTTTAAAAAATTATAAAA
90328874 T
1 T
90328875 AATATAAAGA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAATTATAAAA
Found at i:90333096 original size:26 final size:26
Alignment explanation
Indices: 90333060--90333193 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
90333050 CATGAAATTC
*
90333060 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90333086 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90333112 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
90333138 TTATCATGGAACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCTA
90333163 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
90333188 TTATCA
1 TTATCA
90333194 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
24 13 0.12
25 20 0.19
26 72 0.69
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90337140 original size:134 final size:137
Alignment explanation
Indices: 90336955--90337238 Score: 520
Period size: 134 Copynumber: 2.1 Consensus size: 137
90336945 CATTGGGCCT
**
90336955 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
90337020 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
90337084 CATATGC
131 CATATGC
90337091 AAGCCCATTTGGGTAACAGT-GTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
90337154 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
90337219 CATATGC
131 CATATGC
90337226 AAGCCCATTTGGG
1 AAGCCCATTTGGG
90337239 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 93 0.65
135 33 0.23
136 18 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:90339053 original size:26 final size:26
Alignment explanation
Indices: 90339017--90339150 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
90339007 CATGAAATTC
*
90339017 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90339043 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90339069 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
90339095 TTATCATGGAACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCTA
90339120 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
90339145 TTATCA
1 TTATCA
90339151 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
24 13 0.12
25 20 0.19
26 72 0.69
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90339836 original size:26 final size:26
Alignment explanation
Indices: 90339800--90339935 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
90339790 CATGAAATTC
*
90339800 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90339826 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90339852 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
90339878 TTATCATGGAACATTTACCTAAACTA
1 TTATCATGAAACATTTACCTAACCTA
90339904 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
90339930 TTATCA
1 TTATCA
90339936 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90342170 original size:95 final size:94
Alignment explanation
Indices: 90342044--90342236 Score: 318
Period size: 95 Copynumber: 2.1 Consensus size: 94
90342034 AAGACATAAC
90342044 TAATAAGTAAAATTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAATAGTAAAAATAAG
1 TAATAAGTAAAATTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAA-AGTAAAAATAAG
90342109 ATATCTCGATAAGTTACGCCAATTCGAGAA
65 ATATCTCGATAAGTTACGCCAATTCGAGAA
* *
90342139 TAATAAGTAAAACTT-CAGAAGAGATTTAGGTACTTGAAACTAAAGATTAAAAAGTGAAAATAAG
1 TAATAAGTAAAA-TTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAAAGTAAAAATAAG
* *
90342203 ATATCTCGATAAGTTATGTCAATTCGAGAA
65 ATATCTCGATAAGTTACGCCAATTCGAGAA
90342233 -AATA
1 TAATA
90342237 TGGAACCGAA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
93 4 0.04
94 39 0.42
95 48 0.52
96 2 0.02
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (94 bp):
TAATAAGTAAAATTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAAAGTAAAAATAAGA
TATCTCGATAAGTTACGCCAATTCGAGAA
Found at i:90346420 original size:3 final size:3
Alignment explanation
Indices: 90346414--90346475 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
90346404 ATCTAAGATT
* **
90346414 TTA TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
90346458 TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA
90346476 ATTTTAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:90347380 original size:3 final size:3
Alignment explanation
Indices: 90347374--90347407 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
90347364 TAATAATTTA
90347374 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90347408 TTTGTAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:90349848 original size:23 final size:24
Alignment explanation
Indices: 90349772--90349854 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 24
90349762 TAATATAATA
* *
90349772 ATATAATATAATTAATATAATTTACA
1 ATATAAT-TAAATAATAT-ATTTACT
* **
90349798 ATATAATAAAATAATA-AAATACT
1 ATATAATTAAATAATATATTTACT
*
90349821 TTATAATTAAATAATATATTTA-T
1 ATATAATTAAATAATATATTTACT
*
90349844 ATATATTTAAA
1 ATATAATTAAA
90349855 ACATAAAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
23 28 0.62
24 3 0.07
25 7 0.16
26 7 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAATTAAATAATATATTTACT
Found at i:90351253 original size:2 final size:2
Alignment explanation
Indices: 90351246--90351274 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90351236 GGCCATTTGC
90351246 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 A
90351275 CACAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90353312 original size:21 final size:22
Alignment explanation
Indices: 90353265--90353312 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
90353255 CACATTATTT
** *
90353265 TTTTTTGTTCTTTTTGTTCTTG
1 TTTTTTGTTCTTCATGTTCTTC
*
90353287 GTTTTTGTTC-TCATGTTCTTC
1 TTTTTTGTTCTTCATGTTCTTC
90353308 TTTTT
1 TTTTT
90353313 GCTTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.73
Consensus pattern (22 bp):
TTTTTTGTTCTTCATGTTCTTC
Found at i:90371673 original size:66 final size:66
Alignment explanation
Indices: 90371562--90371694 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
90371552 CTACCAATCT
* *
90371562 AATGCCTTTTTTCGGCTTGATACTAGCTTGACATCAAACGTAGTAGCTATTTTGGTATATTTCCA
1 AATGCCTTTTTTCGGCTTGATACTAACTTGACATCAAACGAAGTAGCTATTTTGGTATATTTCCA
90371627 C
66 C
*
90371628 AATGCCTTTTTTCGG-TTCGATACTAACTTGACATCAAATGAAGTAGCTATTTTGGTATATTTCC
1 AATGCCTTTTTTCGGCTT-GATACTAACTTGACATCAAACGAAGTAGCTATTTTGGTATATTTCC
90371692 AC
65 AC
90371694 A
1 A
90371695 CTAAAGGAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 2 0.03
66 61 0.97
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (66 bp):
AATGCCTTTTTTCGGCTTGATACTAACTTGACATCAAACGAAGTAGCTATTTTGGTATATTTCCA
C
Found at i:90373203 original size:26 final size:26
Alignment explanation
Indices: 90373167--90373274 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
90373157 ATACAAATTC
90373167 ATAATAGGTTAGGTAAATG-TTCAATG
1 ATAATAGGTTAGGTAAATGTTTC-ATG
*
90373193 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
90373219 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
90373245 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
90373271 ATAA
1 ATAA
90373275 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTTCATG
Found at i:90374933 original size:27 final size:27
Alignment explanation
Indices: 90374894--90374980 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
90374884 GGAAGCGTTT
*
90374894 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
90374921 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* *
90374948 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
90374976 TGGTG
1 TGGTG
90374981 ACTTCGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 45 0.87
28 7 0.13
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:90374996 original size:27 final size:27
Alignment explanation
Indices: 90374894--90374998 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
90374884 GGAAGCGTTT
*
90374894 TGGTGGCTATGCCACAAATATCTG-ATC
1 TGGTGGCTCTGCCAC-AATATCTGTATC
90374921 TGGTGGCTCTGCCACATATATCTGT-TC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
*
90374948 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-AATATCTGTATC
* *
90374976 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
90374999 GTAGCCTCGC
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.01
27 53 0.78
28 14 0.21
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATC
Found at i:90376799 original size:19 final size:19
Alignment explanation
Indices: 90376775--90376811 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90376765 TGAGATTTTG
*
90376775 AGTAAAAACGTGGTTTCAA
1 AGTAAAAACATGGTTTCAA
*
90376794 AGTAAAAATATGGTTTCA
1 AGTAAAAACATGGTTTCA
90376812 GAGTGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (19 bp):
AGTAAAAACATGGTTTCAA
Found at i:90380906 original size:39 final size:39
Alignment explanation
Indices: 90380832--90381068 Score: 348
Period size: 39 Copynumber: 6.1 Consensus size: 39
90380822 CCGTATACCA
* * * * * *
90380832 TTCCAGCATGTGGCTTGCGGACTTCAAGTCTGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
* *
90380871 TTCCAGCATATAGCCTGTGGACCTCATCTCCGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
* * * *
90380910 TCCCAGCATATAGCCTGCGAACTTCATGTCCGAATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
90380949 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
90380988 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
* *
90381027 TTCCAGCATATAGCCAGCGGACCCCATGTCCGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
90381066 TTC
1 TTC
90381069 AAATACCATG
Statistics
Matches: 178, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 178 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
Found at i:90390603 original size:27 final size:28
Alignment explanation
Indices: 90390557--90390624 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
90390547 ATTTAAACCC
90390557 TAGGGGT-ATATT-GGTAATTTTG-TATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTATT
*
90390583 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
90390611 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
90390625 TGATCTACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 17 0.45
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTATT
Found at i:90392275 original size:20 final size:20
Alignment explanation
Indices: 90392252--90392289 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90392242 CACATCCAAA
*
90392252 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
90392272 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
90392290 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:90398607 original size:27 final size:28
Alignment explanation
Indices: 90398573--90398628 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
90398563 TAGGGGTATT
90398573 GGTAATTTTG-TCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
90398600 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
90398628 G
1 G
90398629 TGATCTACGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.46
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTC
Found at i:90400278 original size:20 final size:20
Alignment explanation
Indices: 90400255--90400292 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90400245 CACATCCAAA
*
90400255 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
90400275 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
90400293 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:90402892 original size:35 final size:34
Alignment explanation
Indices: 90402853--90402934 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 34
90402843 ACTTGCCTCT
*
90402853 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
90402887 CTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 -TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
* *
90402922 TCACACACTCCCA
1 TCCCACTCTCCCA
90402935 CCGCACCTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.24
35 32 0.76
ACGTcount: A:0.21, C:0.50, G:0.09, T:0.21
Consensus pattern (34 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:90403318 original size:11 final size:11
Alignment explanation
Indices: 90403302--90403329 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
90403292 TTAAAACATA
90403302 AAAAAATATAC
1 AAAAAATATAC
90403313 AAAAAATATAC
1 AAAAAATATAC
90403324 AAAAAA
1 AAAAAA
90403330 AAATTACCTT
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:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATATAC
Found at i:90403926 original size:3 final size:3
Alignment explanation
Indices: 90403920--90403956 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
90403910 TGCATTTCAA
*
90403920 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90403957 GAAATACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:90404066 original size:3 final size:3
Alignment explanation
Indices: 90404058--90404136 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
90404048 TGTGTTTCAA
90404058 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
90404106 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90404137 GAAGTACATT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90404225 original size:186 final size:180
Alignment explanation
Indices: 90403920--90404282 Score: 663
Period size: 186 Copynumber: 2.0 Consensus size: 180
90403910 TGCATTTCAA
90403920 TATTATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTA
1 TATTATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTA
90403985 TGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTTTG
66 TGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTTTG
90404050 TGTTTCAATATTATTATTATTATTATTATTATTATTATTATTATTATTAT
131 TGTTTCAATATTATTATTATTATTATTATTATTATTATTATTATTATTAT
*
90404100 TATTATTATTATTATTATTATTATTATTATTGTTATTGAAGTACATTAGTGTATATCTTCATGTA
1 TATTATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTA
90404165 TGTATATATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGG
66 TG------TATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGG
90404230 CTTTTGTGTTTCAATATTATTATTATTATTATTATTATTATTATTATTATTAT
125 CTTTTGTGTTTCAATATTATTATTATTATTATTATTATTATTATTATTATTAT
90404283 ATATCCTTGT
Statistics
Matches: 176, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
180 66 0.38
186 110 0.62
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (180 bp):
TATTATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTA
TGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTTTG
TGTTTCAATATTATTATTATTATTATTATTATTATTATTATTATTATTAT
Found at i:90404252 original size:3 final size:3
Alignment explanation
Indices: 90404244--90404282 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
90404234 TGTGTTTCAA
90404244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90404283 ATATCCTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90404555 original size:33 final size:30
Alignment explanation
Indices: 90404497--90404566 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
90404487 TAATATTATG
*
90404497 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
90404527 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
90404560 TATATAT
1 TATATAT
90404567 ATATATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:90417526 original size:74 final size:74
Alignment explanation
Indices: 90416934--90417860 Score: 1254
Period size: 74 Copynumber: 12.6 Consensus size: 74
90416924 TTCCGTTTTC
* ** * *
90416934 AAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
90416999 TATTTTTTAAA
66 TA--TTTTCAA
* **
90417010 AAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
90417074 TATTTT-AA
66 TATTTTCAA
* *
90417082 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
90417147 TATTTTTAAA
66 TA-TTTTCAA
** *
90417157 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTTGAGGTAATTTTAGTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC-TGAGGTAATTTTAATTT
90417222 CTATTTTCAA
65 CTATTTTCAA
* * *
90417232 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCGGGACACACTGAGGTAATTTTAGTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
90417296 TATTTTCAA
66 TATTTTCAA
* *
90417305 AAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-GGGCACACTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
90417368 TATTTTC-A
66 TATTTTCAA
*
90417376 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
90417440 TATTTTTAAA
66 TA-TTTTCAA
**
90417450 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
90417515 TATTTTCAA
66 TATTTTCAA
* *
90417524 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
90417589 TATTTTCAA
66 TATTTTCAA
* * *
90417598 AAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
90417663 TGTTTTC--
66 TATTTTCAA
* ** * *
90417670 -AAAATCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
90417733 CTATTTTCAAA
65 CTATTTTC-AA
** * * * * *
90417744 AAAAATCAACTCATATTATGAGAGGCGGGTTGAGCCTCAAGACATGCTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TTAA---
*
90417808 TTTGTATGTTTC--
62 TTTCTAT-TTTCAA
90417820 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
90417861 TCACATATCG
Statistics
Matches: 771, Mismatches: 61, Indels: 39
0.89 0.07 0.04
Matches are distributed among these distances:
70 5 0.01
71 80 0.10
72 131 0.17
73 73 0.09
74 195 0.25
75 178 0.23
76 99 0.13
78 6 0.01
79 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
TATTTTCAA
Found at i:90417565 original size:293 final size:294
Alignment explanation
Indices: 90416934--90417854 Score: 1354
Period size: 293 Copynumber: 3.1 Consensus size: 294
90416924 TTCCGTTTTC
* ** * * * *
90416934 AAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
* * * *
90416999 TATTTTTTAAAAAAAACCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-
66 TA--TTTTCAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTC-GGGCACGCTGAGGTA
* *
90417063 ATTTTAATTTCTATTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
127 ATTTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
90417128 CTGAGGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
192 CTGAGGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
*
90417193 TCAGGACACGCTTGAGGTAATTTTAGTTTCTATTTTCAA
257 TCAGGACACGC-TGAGGTAATTTTAATTTCTATTTTCAA
*
90417232 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCGGGACACACTGAGGTAATTTTAGTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
*
90417296 TATTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGCACACTGAGGTAATTT
66 TATTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGCACGCTGAGGTAATTT
90417361 TAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGA
131 TAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
90417425 GGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
196 GGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
90417490 GACACGCTGAGGTAATTTTAATTTCTATTTTCAA
261 GACACGCTGAGGTAATTTTAATTTCTATTTTCAA
90417524 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
* *
90417589 TATTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCGGGACACGCTGAGGTAAT
66 TATTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGG-CACGCTGAGGTAAT
* * ** * *
90417654 TTTAATTTCTGTTTTC--AAAATCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTT
129 TTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * ** *** *
90417717 GAGGTATTTTCAATTTCTATTTTCAAAAAAAATCAACTCATATTATGAGAGGCGGGTTGAGCCTC
194 GAGGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* * * *
90417782 AAGACATGCTGAGGT-ATTGTCAATTTTTTGTATGTTTC--
259 AGGACACGCTGAGGTAATT-TTAA---TTTCTAT-TTTCAA
90417820 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
90417855 TCAGGATCAC
Statistics
Matches: 576, Mismatches: 37, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
292 60 0.10
293 192 0.33
294 166 0.29
295 55 0.10
296 35 0.06
297 34 0.06
298 34 0.06
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (294 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTTAATTTC
TATTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGCACGCTGAGGTAATTT
TAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTATTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
GACACGCTGAGGTAATTTTAATTTCTATTTTCAA
Found at i:90418911 original size:12 final size:10
Alignment explanation
Indices: 90418876--90418910 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
90418866 CTATATATAT
*
90418876 AAAACATAAA
1 AAAATATAAA
90418886 AAAATATAAA
1 AAAATATAAA
90418896 AAAATATACAA
1 AAAATATA-AA
90418907 AAAA
1 AAAA
90418911 AAATTTGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAATATAAA
Found at i:90419003 original size:11 final size:11
Alignment explanation
Indices: 90418987--90419021 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
90418977 CCGGATTCCC
90418987 CTCCCTTCTCT
1 CTCCCTTCTCT
90418998 CTCCCTTCTCT
1 CTCCCTTCTCT
90419009 CTTCCC-TCTCT
1 C-TCCCTTCTCT
90419020 CT
1 CT
90419022 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:90419512 original size:3 final size:3
Alignment explanation
Indices: 90419506--90419572 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
90419496 TGCATTTCAA
90419506 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
90419554 TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT T
90419573 GATAAACATT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90419691 original size:3 final size:3
Alignment explanation
Indices: 90419677--90419719 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
90419667 TGTTTCAATA
90419677 TAT TAT TAAT TAT TAT TAT TAT TAT T-T T-T TAAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
90419720 GTATTTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.76
4 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90419837 original size:155 final size:155
Alignment explanation
Indices: 90419521--90419853 Score: 545
Period size: 155 Copynumber: 2.2 Consensus size: 155
90419511 TTATTATTAT
90419521 TATTATTATT-ATTATTATTATTATTATTATTATTATTATTATTATTGTTATTGATAAACATTAG
1 TATTATTATTAATTATTATTATTATTATTATTATTATTATTATTATTGTTATTGATAAACATTAG
*
90419585 TTTATATCTTCATGTATGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTT
66 TGTATATCTTCATGTATGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTT
90419650 TATTATAATGGCTTTTGTGTTTCAA
131 TATTATAATGGCTTTTGTGTTTCAA
90419675 TA-TATTATTAATTATTATTATTATTATT-TT-TTAATTATTATTATTG-TATTTGA-AATACAT
1 TATTATTATTAATTATTATTATTATTATTATTATT-ATTATTATTATTGTTA-TTGATAA-ACAT
90419735 TAGTGTATATCTTCATGTATGTATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATA
63 TAGTGTATATCTTCATGTATG--TATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATA
*
90419800 -TTTTTATTATAATGGCTTTTGTGTTTGAA
126 TTTTTTATTATAATGGCTTTTGTGTTTCAA
*
90419829 TATTATTATTATTTATTATTATTAT
1 TATTATTATTAATTATTATTATTAT
90419854 ATATCCTTGT
Statistics
Matches: 169, Mismatches: 3, Indels: 13
0.91 0.02 0.07
Matches are distributed among these distances:
152 6 0.04
153 50 0.30
154 50 0.30
155 63 0.37
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (155 bp):
TATTATTATTAATTATTATTATTATTATTATTATTATTATTATTATTGTTATTGATAAACATTAG
TGTATATCTTCATGTATGTATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTT
TATTATAATGGCTTTTGTGTTTCAA
Found at i:90419847 original size:13 final size:13
Alignment explanation
Indices: 90419829--90419853 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90419819 TGTGTTTGAA
90419829 TATTATTATTATT
1 TATTATTATTATT
90419842 TATTATTATTAT
1 TATTATTATTAT
90419854 ATATCCTTGT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:90420131 original size:2 final size:2
Alignment explanation
Indices: 90420124--90420153 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
90420114 TATTATTTAT
90420124 TA TA TA TA T- 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 T
90420154 TTCTTCGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:90421013 original size:25 final size:25
Alignment explanation
Indices: 90420979--90421030 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
90420969 GTCACGAGGG
*
90420979 TGCTCATACCTTCCTCGCGCGTAAC
1 TGCTCATACCTTCCTCGCACGTAAC
90421004 TGCTCATACCTTCCTCGCACGTAAC
1 TGCTCATACCTTCCTCGCACGTAAC
90421029 TG
1 TG
90421031 ACTCCCGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.15, T:0.29
Consensus pattern (25 bp):
TGCTCATACCTTCCTCGCACGTAAC
Found at i:90424447 original size:14 final size:15
Alignment explanation
Indices: 90424420--90424448 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90424410 AATTTTATGA
90424420 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
90424435 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
90424449 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:90424643 original size:50 final size:51
Alignment explanation
Indices: 90424568--90424692 Score: 182
Period size: 50 Copynumber: 2.5 Consensus size: 51
90424558 ATGGCAACAT
90424568 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTGA-AA
1 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TGACAA
**
90424618 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATTACAAATGACAA
1 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAA
* * *
90424669 GTGAAAAGTGGTAGCTTCAGCTAC
1 GTGATAAGTGATAGCTTCGGCTAC
90424693 CTGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 42 0.62
51 26 0.38
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAA
Found at i:90424706 original size:31 final size:31
Alignment explanation
Indices: 90424668--90424839 Score: 227
Period size: 31 Copynumber: 5.8 Consensus size: 31
90424658 ACAAATGACA
*
90424668 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
90424699 AGTGAAAAGTGGTAGCTT--G------GATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
90424722 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
90424753 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
90424784 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
90424815 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
90424840 AAGTGACAAG
Statistics
Matches: 126, Mismatches: 5, Indels: 20
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.02
23 19 0.15
25 1 0.01
29 1 0.01
31 102 0.81
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:90424985 original size:46 final size:45
Alignment explanation
Indices: 90424868--90424987 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 45
90424858 GATTTCCGTA
* * *
90424868 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
90424913 TATACGACCATATTTGGGATATGGCATCAGTGAGATATGTGATTCTTG
1 TA-A-GACCATATCTGGGATATGGCATCAGTGAGATATATGATAC-TG
* *
90424961 TAAGACCATAGCTGGGCTATGGCATCA
1 TAAGACCATATCTGGGATATGGCATCA
90424988 TTATGTGAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 22 0.35
47 35 0.56
48 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
TAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
Found at i:90426869 original size:21 final size:20
Alignment explanation
Indices: 90426827--90426869 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
90426817 TCATGTTAAA
* *
90426827 TAAATTGATGAATTAGAGGT
1 TAAATTGATGAATTACAAGT
*
90426847 TAAATTGATAGAATTTCAAGT
1 TAAATTGAT-GAATTACAAGT
90426868 TA
1 TA
90426870 GAAGTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (20 bp):
TAAATTGATGAATTACAAGT
Found at i:90442085 original size:15 final size:15
Alignment explanation
Indices: 90442065--90442102 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
90442055 GCACACGGGC
90442065 GTGCCCCACGGCCAT
1 GTGCCCCACGGCCAT
* *
90442080 GTGCCCTACGGCCGT
1 GTGCCCCACGGCCAT
90442095 GTGCCCCA
1 GTGCCCCA
90442103 ATTTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.45, G:0.29, T:0.16
Consensus pattern (15 bp):
GTGCCCCACGGCCAT
Found at i:90442294 original size:19 final size:19
Alignment explanation
Indices: 90442270--90442335 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
90442260 ATTTTTGAAG
90442270 ACTTTTATTTATTATTTTT
1 ACTTTTATTTATTATTTTT
* *
90442289 ACTTTT-TTTTTTACTTTT
1 ACTTTTATTTATTATTTTT
*
90442307 A-TCTTTATTTA-TCTTTTT
1 ACT-TTTATTTATTATTTTT
90442325 ACTTTTTATTT
1 AC-TTTTATTT
90442336 TTTTAGTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 1 0.03
18 20 0.53
19 16 0.42
20 1 0.03
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
ACTTTTATTTATTATTTTT
Found at i:90442299 original size:24 final size:25
Alignment explanation
Indices: 90442272--90442337 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
90442262 TTTTGAAGAC
90442272 TTTTATTTATTATTTTTACTTTT-T-T
1 TTTTATTT-TTATTTTTA-TTTTATCT
* *
90442297 TTTTACTTTTATCTTTA-TTTATCT
1 TTTTATTTTTATTTTTATTTTATCT
90442321 TTTTACTTTTTATTTTT
1 TTTTA-TTTTTATTTTT
90442338 TTAGTACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.09
23 1 0.03
24 14 0.41
25 16 0.47
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTATTTTTATTTTATCT
Found at i:90442323 original size:25 final size:27
Alignment explanation
Indices: 90442295--90442363 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 27
90442285 TTTTACTTTT
90442295 TTTTTTACTTTTATCTTTATTTA-T-C
1 TTTTTTACTTTTATCTTTATTTAGTAC
90442320 -TTTTTACTTTTTAT-TTT-TTTAGTAC
1 TTTTTTAC-TTTTATCTTTATTTAGTAC
*
90442345 TATTTTTAC-TTCATCTTTA
1 T-TTTTTACTTTTATCTTTA
90442364 GATTTTATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
23 4 0.11
24 11 0.31
25 11 0.31
26 3 0.08
27 7 0.19
ACGTcount: A:0.17, C:0.12, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTTTACTTTTATCTTTATTTAGTAC
Found at i:90452004 original size:22 final size:22
Alignment explanation
Indices: 90451978--90452023 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
90451968 AAGATATCTT
90451978 TAATGAAAAGAAAGAAAGTATA
1 TAATGAAAAGAAAGAAAGTATA
90452000 TAATGAAAAGAAAGAAAGTATA
1 TAATGAAAAGAAAGAAAGTATA
90452022 TA
1 TA
90452024 GGTGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (22 bp):
TAATGAAAAGAAAGAAAGTATA
Found at i:90452785 original size:21 final size:22
Alignment explanation
Indices: 90452749--90452792 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
90452739 ATTTAATTTT
90452749 TTTAAGAATAAAAATGTTAAAA
1 TTTAAGAATAAAAATGTTAAAA
*
90452771 TTTAAG-ATGAAAATGTTAAAA
1 TTTAAGAATAAAAATGTTAAAA
90452792 T
1 T
90452793 GACATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
TTTAAGAATAAAAATGTTAAAA
Found at i:90459480 original size:21 final size:21
Alignment explanation
Indices: 90459454--90459507 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
90459444 TAGCAGCAGT
*
90459454 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
90459475 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
90459496 AGTGAGATTAGA
1 GGTGAGATTAGA
90459508 AACAATGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:90462822 original size:17 final size:18
Alignment explanation
Indices: 90462781--90462823 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
90462771 TGTATTTACT
90462781 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* **
90462799 TAATATA-AAGTAAATTG
1 TATTATATAAGTAAATAA
90462816 TATTATAT
1 TATTATAT
90462824 TATATAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:90463804 original size:6 final size:6
Alignment explanation
Indices: 90463793--90463818 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90463783 CCTAAATATG
90463793 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
90463819 CCTACGGTGT
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:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:90471528 original size:5 final size:5
Alignment explanation
Indices: 90471520--90471582 Score: 119
Period size: 5 Copynumber: 12.8 Consensus size: 5
90471510 TATAAAGTAA
90471520 ATTAT ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
90471569 ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTA
90471583 ATAAAATAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.07
5 53 0.93
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:90471530 original size:17 final size:18
Alignment explanation
Indices: 90471489--90471531 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
90471479 TGTATTTACT
90471489 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
90471507 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
90471524 TATTATAT
1 TATTATAT
90471532 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:90471685 original size:16 final size:16
Alignment explanation
Indices: 90471664--90471699 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90471654 AGCAGGGAAA
* *
90471664 GAAAGAAAGGAAAAGG
1 GAAAGAAAAGAAAAAG
90471680 GAAAGAAAAGAAAAAG
1 GAAAGAAAAGAAAAAG
90471696 GAAA
1 GAAA
90471700 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAG
Found at i:90472553 original size:6 final size:6
Alignment explanation
Indices: 90472544--90472577 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
90472534 ACCATGACTT
* *
90472544 TTACTA TTACTG TTACTG TTACTA TTACTG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
90472578 CCTACTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.50
Consensus pattern (6 bp):
TTACTG
Found at i:90479699 original size:26 final size:26
Alignment explanation
Indices: 90479668--90479775 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90479658 TGAAATGCCC
*
90479668 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90479694 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90479720 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90479746 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90479772 ATCA
1 ATCA
90479776 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90487861 original size:26 final size:26
Alignment explanation
Indices: 90487830--90487937 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90487820 TGAAATGCCC
*
90487830 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90487856 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90487882 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90487908 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90487934 ATCA
1 ATCA
90487938 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90490693 original size:13 final size:13
Alignment explanation
Indices: 90490677--90490725 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
90490667 ACATTTGAGA
90490677 TTTATTTTTTTAT
1 TTTATTTTTTTAT
*
90490690 TTTAATTTTTTATT
1 TTTATTTTTTTA-T
*
90490704 TTTATTTTAATTA-
1 TTTATTTT-TTTAT
90490717 TTTATTTTT
1 TTTATTTTT
90490726 AATATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 19 0.63
14 8 0.27
15 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:90490704 original size:25 final size:26
Alignment explanation
Indices: 90490676--90490736 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
90490666 CACATTTGAG
* *
90490676 ATTTATTTTTTTATT-TTAATTTTTT
1 ATTTATTTTTTAATTATTAATTTTTA
*
90490701 ATTT-TTATTTTAATTATTTATTTTTA
1 ATTTATT-TTTTAATTATTAATTTTTA
90490727 ATATTATTTT
1 AT-TTATTTT
90490737 AAGGTGAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.07
25 11 0.38
26 10 0.34
27 4 0.14
28 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
ATTTATTTTTTAATTATTAATTTTTA
Found at i:90490705 original size:19 final size:19
Alignment explanation
Indices: 90490683--90490726 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
90490673 GAGATTTATT
*
90490683 TTTTTATTTTAATTTTTTA
1 TTTTTATTTTAATTATTTA
90490702 TTTTTATTTTAATTATTTA
1 TTTTTATTTTAATTATTTA
90490721 TTTTTA
1 TTTTTA
90490727 ATATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTAATTATTTA
Found at i:90490735 original size:12 final size:14
Alignment explanation
Indices: 90490676--90490736 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 14
90490666 CACATTTGAG
90490676 ATTTATTTTT--TT
1 ATTTATTTTTAATT
*
90490688 ATTTTAATTTTTTATT
1 A-TTT-ATTTTTAATT
90490704 -TTTA-TTTTAATT
1 ATTTATTTTTAATT
90490716 ATTTATTTTTAA-T
1 ATTTATTTTTAATT
90490729 A-TTATTTT
1 ATTTATTTT
90490737 AAGGTGAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
12 15 0.36
13 10 0.24
14 15 0.36
16 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTATTTTTAATT
Found at i:90491387 original size:15 final size:17
Alignment explanation
Indices: 90491350--90491389 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
90491340 CAATAAAAAC
90491350 TAAAATATTATAAACAA
1 TAAAATATTATAAACAA
90491367 -ATAAATATT-T-AACAA
1 TA-AAATATTATAAACAA
90491382 TAAAATAT
1 TAAAATAT
90491390 GTCATACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
17 7 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATATTATAAACAA
Found at i:90496652 original size:13 final size:13
Alignment explanation
Indices: 90496634--90496659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90496624 AGACAAAATG
90496634 GTATAGTATAGTA
1 GTATAGTATAGTA
90496647 GTATAGTATAGTA
1 GTATAGTATAGTA
90496660 TAGGGTAATT
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:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
GTATAGTATAGTA
Found at i:90498412 original size:8 final size:8
Alignment explanation
Indices: 90498399--90498429 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
90498389 GATTATTTCA
90498399 AAAAAAAT
1 AAAAAAAT
90498407 AAAAAAAT
1 AAAAAAAT
90498415 AAAAAAAT
1 AAAAAAAT
90498423 AAAAAAA
1 AAAAAAA
90498430 AGATGGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:90498996 original size:25 final size:25
Alignment explanation
Indices: 90498967--90499015 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
90498957 TTAGGCTTTC
90498967 AATTTTTCACCATAAATATTTCATT
1 AATTTTTCACCATAAATATTTCATT
*
90498992 AATTTTTCACCATAAATGTTTCAT
1 AATTTTTCACCATAAATATTTCAT
90499016 CTCTTAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTTTTCACCATAAATATTTCATT
Done.