Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 36 of 438
Found at i:8757924 original size:26 final size:26
Alignment explanation
Indices: 8757895--8757979 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 26
8757885 TTGATACAAA
8757895 ATGATAATGGGTTAGGTAAATGTTTC
1 ATGATAATGGGTTAGGTAAATGTTTC
* *
8757921 ATGATAATAGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTTC
8757947 ATGATAATGGGTTAGGTAAATGTTTC
1 ATGATAATGGGTTAGGTAAATGTTTC
8757973 ATGATAA
1 ATGATAA
8757980 GAATATCATG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTTC
Found at i:8760013 original size:137 final size:136
Alignment explanation
Indices: 8759767--8760052 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
8759757 AGTAGTCTCC
*
8759767 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
8759832 GTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
8759897 CTGTTAA
131 CTGTT-A
8759904 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
* *
8759969 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
8760034 CTGTTA
131 CTGTTA
*
8760040 CCTGAATGGGCTT
1 CC-AAATGGGCTT
8760053 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
136 3 0.02
137 141 0.98
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:8766227 original size:25 final size:26
Alignment explanation
Indices: 8766199--8766256 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
8766189 AATATAGTAC
* *
8766199 TATAGT-ACTAAGATTTTGCAACCAA
1 TATAGTAACTAAAATTTTACAACCAA
*
8766224 TATAGTTAACTAAAATTTTACAATCAA
1 TATAG-TAACTAAAATTTTACAACCAA
8766251 TATAGT
1 TATAGT
8766257 TACCATAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.18
26 2 0.07
27 21 0.75
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (26 bp):
TATAGTAACTAAAATTTTACAACCAA
Found at i:8766241 original size:27 final size:27
Alignment explanation
Indices: 8766205--8766258 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
8766195 GTACTATAGT
* *
8766205 ACTAAGATTTTGCAACCAATATAGTTA
1 ACTAAAATTTTACAACCAATATAGTTA
*
8766232 ACTAAAATTTTACAATCAATATAGTTA
1 ACTAAAATTTTACAACCAATATAGTTA
8766259 CCATAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.35
Consensus pattern (27 bp):
ACTAAAATTTTACAACCAATATAGTTA
Found at i:8766555 original size:29 final size:29
Alignment explanation
Indices: 8766508--8766582 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
8766498 ATTATTGACT
** * *
8766508 TTTCTGAAACGACACTTAGTGTTATAATA
1 TTTCTGAAATAACACTTAGTATTACAATA
*
8766537 TTTCTGAAATAACAGTTAGTATTACAATA
1 TTTCTGAAATAACACTTAGTATTACAATA
* *
8766566 TTTTTGAAATGACACTT
1 TTTCTGAAATAACACTT
8766583 TGTGACTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (29 bp):
TTTCTGAAATAACACTTAGTATTACAATA
Found at i:8767128 original size:29 final size:31
Alignment explanation
Indices: 8767091--8767158 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
8767081 AATTATATTT
*
8767091 TATA-TTTT-ATGTAAATA-TTATATATAAA
1 TATATTTTTAATGTAAATACATATATATAAA
* *
8767119 TATATTTTTAATTTAAATACATATTTATAAA
1 TATATTTTTAATGTAAATACATATATATAAA
8767150 TATTATTTT
1 TA-TATTTT
8767159 GTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.12
29 4 0.12
30 8 0.24
31 11 0.33
32 6 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TATATTTTTAATGTAAATACATATATATAAA
Found at i:8767415 original size:25 final size:26
Alignment explanation
Indices: 8767386--8767437 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8767376 TTCTTTTACT
*
8767386 ATTTTGTTA-TTG-TCTTTTGTTTTAA
1 ATTTT-TTAGTTGATCTTTTGCTTTAA
*
8767411 ATTTTTTAGTTGATGTTTTGCTTTAA
1 ATTTTTTAGTTGATCTTTTGCTTTAA
8767437 A
1 A
8767438 GAGAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 8 0.35
26 12 0.52
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.63
Consensus pattern (26 bp):
ATTTTTTAGTTGATCTTTTGCTTTAA
Found at i:8767839 original size:32 final size:31
Alignment explanation
Indices: 8767781--8767859 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
8767771 CAATATTTTT
* *
8767781 ATTAAAAATTAATTT-ATTTTTTTTAAAAAA
1 ATTAATAATTAATTTAATTTTTGTTAAAAAA
* *
8767811 ATTGATAATTAAATTTAATTTTTGTTAAAAGA
1 ATTAATAATT-AATTTAATTTTTGTTAAAAAA
*
8767843 ATTAATGATTGAATTTA
1 ATTAATAATT-AATTTA
8767860 GCTGTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 8 0.20
31 5 0.12
32 27 0.68
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (31 bp):
ATTAATAATTAATTTAATTTTTGTTAAAAAA
Found at i:8769831 original size:24 final size:24
Alignment explanation
Indices: 8769799--8769852 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
8769789 AATGTGAGGT
*
8769799 ATTTGGGGAGAATGATTTTTAACA
1 ATTTGGGGAGAATGATTTGTAACA
* *
8769823 ATTTGGGGAGAGTGGTTTGTAACA
1 ATTTGGGGAGAATGATTTGTAACA
*
8769847 AATTGG
1 ATTTGG
8769853 CTTCAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (24 bp):
ATTTGGGGAGAATGATTTGTAACA
Found at i:8771818 original size:14 final size:14
Alignment explanation
Indices: 8771799--8771827 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8771789 AAAACATATG
8771799 TACATAACCCTAGC
1 TACATAACCCTAGC
8771813 TACATAACCCTAGC
1 TACATAACCCTAGC
8771827 T
1 T
8771828 CTAGGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (14 bp):
TACATAACCCTAGC
Found at i:8772186 original size:2 final size:2
Alignment explanation
Indices: 8772179--8772232 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8772169 ATCGGTATAT
8772179 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8772221 TC TC TC TC TC TC
1 TC TC TC TC TC TC
8772233 AGCTCCTTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8781648 original size:30 final size:30
Alignment explanation
Indices: 8781612--8781674 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8781602 TCTTAACAAT
8781612 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
8781642 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
8781672 CAA
1 CAA
8781675 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:8781681 original size:17 final size:17
Alignment explanation
Indices: 8781651--8781683 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8781641 ACAAATGTCT
8781651 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
8781668 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
8781684 TTTTATACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:8787926 original size:3 final size:3
Alignment explanation
Indices: 8787918--8787952 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8787908 TAGACAAGAA
8787918 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8787953 ACACCCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8788680 original size:103 final size:103
Alignment explanation
Indices: 8788515--8788717 Score: 241
Period size: 103 Copynumber: 2.0 Consensus size: 103
8788505 TGAACGGGTG
* * * * *
8788515 TATAATAATAATTTTATATCTTTAAAATTTAATGATGTGATAAAATGTTATTGATGCTTAAAAAC
1 TATAATAATAATTTTATATCTTTAAAATTGAATAATGTGATAAAATGTTATAGATACCTAAAAAC
*
8788580 CATAG-TTTTTAGGATCATCCTAATATAAATTATTCTTA
66 CAT-GCTTTTTAGAATCATCCTAATATAAATTATTCTTA
* * *
8788618 TATAATAAT-ATTTTGCTATCTTTAAAATTGAATAATGTGATAATATTTTAATAG-TACCTAAAA
1 TATAATAATAATTTT-ATATCTTTAAAATTGAATAATGTGATAAAATGTT-ATAGATACCTAAAA
* * * *
8788681 ACGATGCTTTTTAGAATTATCCTGATATAAGTTATTC
64 ACCATGCTTTTTAGAATCATCCTAATATAAATTATTC
8788718 CCATATTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
102 6 0.07
103 75 0.89
104 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (103 bp):
TATAATAATAATTTTATATCTTTAAAATTGAATAATGTGATAAAATGTTATAGATACCTAAAAAC
CATGCTTTTTAGAATCATCCTAATATAAATTATTCTTA
Found at i:8789557 original size:2 final size:2
Alignment explanation
Indices: 8789552--8789587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8789542 TTAAACGAGA
8789552 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
8789588 TAAAATTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8797910 original size:10 final size:11
Alignment explanation
Indices: 8797862--8797914 Score: 74
Period size: 11 Copynumber: 4.9 Consensus size: 11
8797852 TAGAATATAC
8797862 CCCATA-CTTT
1 CCCATACCTTT
8797872 GCCCATACCTTT
1 -CCCATACCTTT
8797884 CCCATACCTTT
1 CCCATACCTTT
*
8797895 CCCATACC-TA
1 CCCATACCTTT
8797905 CCCATACCTT
1 CCCATACCTT
8797915 GGAAAGGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 9 0.23
11 26 0.67
12 4 0.10
ACGTcount: A:0.21, C:0.45, G:0.02, T:0.32
Consensus pattern (11 bp):
CCCATACCTTT
Found at i:8800387 original size:3 final size:3
Alignment explanation
Indices: 8800379--8800415 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8800369 TCAAACCTTT
8800379 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
8800416 GCTGCTGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8807455 original size:18 final size:18
Alignment explanation
Indices: 8807432--8807520 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
8807422 CGTTTGCGGT
*
8807432 ACTATTCACGTATATAGC
1 ACTATTCACGTATACAGC
*
8807450 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
*
8807468 ACTATTTACGTATACAGC
1 ACTATTCACGTATACAGC
* * * *
8807486 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
8807504 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
8807521 TAGTTGGGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:8807479 original size:36 final size:36
Alignment explanation
Indices: 8807430--8807520 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
8807420 ACCGTTTGCG
* *
8807430 GTACTATTCACGTATATAGCACTATTCACGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
* * *
8807466 GTACTATTTACGTATACAGCACTATTTACGAATACG
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
*
8807502 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
8807521 TAGTTGGGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGAATACA
Found at i:8807852 original size:14 final size:14
Alignment explanation
Indices: 8807833--8807867 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
8807823 TACACTGGAA
8807833 GAAAAGTTTCTAAC
1 GAAAAGTTTCTAAC
8807847 GAAAAGTTTCTAAC
1 GAAAAGTTTCTAAC
8807861 GAAAAGT
1 GAAAAGT
8807868 CTTGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (14 bp):
GAAAAGTTTCTAAC
Found at i:8815924 original size:26 final size:28
Alignment explanation
Indices: 8815851--8815930 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 28
8815841 TCATTTTTTA
* * *
8815851 ATAACTTATATTTTATAATTTTTAAAAGG
1 ATAAATTATATTTTATTATTTTT-AAAGC
* *
8815880 ATAAATTAAATTTTATTATTTTTAAATC
1 ATAAATTATATTTTATTATTTTTAAAGC
*
8815908 A-AAA-TATATTTTATTATTATTAA
1 ATAAATTATATTTTATTATTTTTAA
8815931 TTTAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 17 0.39
27 3 0.07
28 4 0.09
29 20 0.45
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
ATAAATTATATTTTATTATTTTTAAAGC
Found at i:8826261 original size:16 final size:15
Alignment explanation
Indices: 8826236--8826283 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
8826226 CTATTTTAAG
8826236 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
8826251 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
8826268 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
8826283 T
1 T
8826284 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:8830992 original size:46 final size:46
Alignment explanation
Indices: 8830929--8831295 Score: 517
Period size: 46 Copynumber: 8.0 Consensus size: 46
8830919 TTCAACATGA
* * * * * *
8830929 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * *
8830975 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTC-TCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT--ATCAGGT
* *
8831022 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8831068 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8831114 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8831160 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8831206 TGCCATGGTATCTTTCAACCATGGTCTTACA-AGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
8831252 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
8831296 ATAGCACACT
Statistics
Matches: 298, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 6 0.02
46 246 0.83
47 45 0.15
48 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:8833453 original size:11 final size:11
Alignment explanation
Indices: 8833437--8833488 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
8833427 TATACTAAAT
8833437 AAATAATAATA
1 AAATAATAATA
*
8833448 AAATAAT-ATT
1 AAATAATAATA
* *
8833458 AAATATCTCATA
1 AAATA-ATAATA
*
8833470 AAATATTAATA
1 AAATAATAATA
8833481 AAATAATA
1 AAATAATA
8833489 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:8835130 original size:16 final size:15
Alignment explanation
Indices: 8835105--8835152 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
8835095 CTATTTTAAG
8835105 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
8835120 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
8835137 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
8835152 T
1 T
8835153 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:8838282 original size:26 final size:26
Alignment explanation
Indices: 8838245--8838380 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
8838235 TGATACAAAT
* *
8838245 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8838271 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
8838297 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8838323 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8838349 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
8838375 TAATAA
1 TGATAA
8838381 GAATATCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8840412 original size:137 final size:137
Alignment explanation
Indices: 8840166--8840452 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
8840156 GAGTAGTCTC
8840166 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
8840231 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
8840296 ACTGTTA
131 ACTGTTA
8840303 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
8840368 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
8840433 ACTGTTA
131 ACTGTTA
**
8840440 CCTGAATGGGCTT
1 CCCAAATGGGCTT
8840453 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:8841863 original size:11 final size:11
Alignment explanation
Indices: 8841847--8841889 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
8841837 CCATTTTCTA
8841847 AATAAAATATT
1 AATAAAATATT
8841858 AAT-AAATATCT
1 AATAAAATAT-T
8841869 AAGTAAAATATT
1 AA-TAAAATATT
8841881 AATAAAATA
1 AATAAAATA
8841890 ATATTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.21
11 13 0.45
12 4 0.14
13 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:8841875 original size:23 final size:23
Alignment explanation
Indices: 8841843--8841886 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8841833 ACCACCATTT
8841843 TCTAAATAAAATATTAATAAATA
1 TCTAAATAAAATATTAATAAATA
*
8841866 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATATTAATAAA
8841887 ATAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
TCTAAATAAAATATTAATAAATA
Found at i:8842783 original size:20 final size:20
Alignment explanation
Indices: 8842758--8842798 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8842748 CACCTTGTTT
8842758 CACTAAAG-TTTCTATACGCC
1 CACTAAAGCTTT-TATACGCC
*
8842778 CACTAAAGCTTTTATATGCC
1 CACTAAAGCTTTTATACGCC
8842798 C
1 C
8842799 CGTTTCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (20 bp):
CACTAAAGCTTTTATACGCC
Found at i:8843033 original size:15 final size:16
Alignment explanation
Indices: 8843015--8843047 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8843005 AATATATTTT
8843015 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
8843030 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
8843047 T
1 T
8843048 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:8843133 original size:22 final size:22
Alignment explanation
Indices: 8843094--8843152 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
8843084 GTTTTAAGAA
*
8843094 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
8843115 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
8843137 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
8843153 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:8843169 original size:26 final size:24
Alignment explanation
Indices: 8843123--8843182 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
8843113 ATTTGTTTTA
*
8843123 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
8843147 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
8843173 TTTTTTATTT
1 ATATTTATTT
8843183 AATGAAATAA
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:8843593 original size:6 final size:6
Alignment explanation
Indices: 8843582--8843674 Score: 132
Period size: 6 Copynumber: 15.5 Consensus size: 6
8843572 TAAGAGACAT
*
8843582 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAAAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * * * *
8843630 AAGAAG AAGAAA AAGAAG AAAAAG AAAAAG AAAAAG AAAAAG AAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAG
8843675 CCAATTGACC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAGAAG
Found at i:8843600 original size:15 final size:15
Alignment explanation
Indices: 8843582--8843674 Score: 138
Period size: 15 Copynumber: 6.4 Consensus size: 15
8843572 TAAGAGACAT
*
8843582 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAA
*
8843597 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAA
8843612 AAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAA
8843627 AAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAAA
*
8843642 AAGAAGAAAAAGAAA
1 AAGAAGAAGAAGAAA
8843657 AAG-A-AA-AAGAAA
1 AAGAAGAAGAAGAAA
8843669 AAGAAG
1 AAGAAG
8843675 CCAATTGACC
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
12 9 0.12
13 3 0.04
14 1 0.01
15 61 0.82
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAGAAA
Found at i:8846454 original size:14 final size:15
Alignment explanation
Indices: 8846434--8846479 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
8846424 CTTTATTGAC
8846434 TTTTTTTATGTTT-T
1 TTTTTTTATGTTTAT
8846448 GTTTTTTTATGTTTA-
1 -TTTTTTTATGTTTAT
*
8846463 TTTATTTATGTTTAT
1 TTTTTTTATGTTTAT
8846478 TT
1 TT
8846480 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTTTTATGTTTAT
Found at i:8846480 original size:14 final size:14
Alignment explanation
Indices: 8846438--8846485 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
8846428 ATTGACTTTT
* *
8846438 TTTATGTTTTGTTTT
1 TTTATG-TTTATTTA
8846453 TTTATGTTTATTTA
1 TTTATGTTTATTTA
8846467 TTTATGTTTATTTA
1 TTTATGTTTATTTA
8846481 TTTAT
1 TTTAT
8846486 TTATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 25 0.81
15 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTATGTTTATTTA
Found at i:8846579 original size:35 final size:34
Alignment explanation
Indices: 8846533--8846598 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
8846523 TTAATATATA
8846533 TTTTTCTAAATTTTAAATATATATTTTGAAATTAC
1 TTTTTCTAAATTTTAAATAT-TATTTTGAAATTAC
* *
8846568 TTTTTTTAAATTTTAAATATTATTTTTAAAT
1 TTTTTCTAAATTTTAAATATTATTTTGAAAT
8846599 ATTAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (34 bp):
TTTTTCTAAATTTTAAATATTATTTTGAAATTAC
Found at i:8846595 original size:20 final size:19
Alignment explanation
Indices: 8846521--8846618 Score: 78
Period size: 20 Copynumber: 5.1 Consensus size: 19
8846511 TAGAATATTT
8846521 TATTAATATATATTTTTCTAAA
1 TATTAA-ATATA-TTTT-TAAA
* *
8846543 TTTTAAATATATATTTTGAA
1 TATTAAATATAT-TTTTAAA
*
8846563 -ATT-ACT-T-TTTTTAAA
1 TATTAAATATATTTTTAAA
*
8846578 TTTTAAATATTATTTTTAAA
1 TATTAAATA-TATTTTTAAA
*
8846598 TATTAAATATATTTTTTAA
1 TATTAAATATATTTTTAAA
8846617 TA
1 TA
8846619 ATATAAAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
15 6 0.10
16 3 0.05
17 3 0.05
18 2 0.03
19 14 0.23
20 20 0.33
21 8 0.13
22 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
TATTAAATATATTTTTAAA
Found at i:8846596 original size:13 final size:13
Alignment explanation
Indices: 8846578--8846602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8846568 TTTTTTTAAA
8846578 TTTTAAATATTAT
1 TTTTAAATATTAT
8846591 TTTTAAATATTA
1 TTTTAAATATTA
8846603 AATATATTTT
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:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:8846629 original size:20 final size:21
Alignment explanation
Indices: 8846582--8846631 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8846572 TTTAAATTTT
*
8846582 AAATATTATTTTTAAATATTA
1 AAATATTATTTTAAAATATTA
8846603 AATATATT-TTTTAATAATA-TA
1 AA-ATATTATTTTAA-AATATTA
8846624 AAATATTA
1 AAATATTA
8846632 AAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATTATTTTAAAATATTA
Found at i:8847308 original size:21 final size:21
Alignment explanation
Indices: 8847280--8847319 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8847270 AAAAAGTAAT
8847280 TTTAAAATATATAT-TTAAAA
1 TTTAAAATATATATATTAAAA
8847300 TTTAGAAATATATATATTAA
1 TTTA-AAATATATATATTAA
8847320 TAATATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTAAAATATATATATTAAAA
Found at i:8848564 original size:3 final size:3
Alignment explanation
Indices: 8848556--8848581 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8848546 TTTCTTTCCT
8848556 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
8848582 TTTCAGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:8856284 original size:2 final size:2
Alignment explanation
Indices: 8856223--8856265 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8856213 TTGAGTGTGA
8856223 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
8856265 A
1 A
8856266 AAATAAGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8860294 original size:222 final size:222
Alignment explanation
Indices: 8859996--8860688 Score: 1147
Period size: 222 Copynumber: 3.1 Consensus size: 222
8859986 AGATCTTCAG
* * * * *
8859996 CCTGTTTCCTTACTGCTTAGGGGGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
8860061 GAGGGCAAGATTCACCGTCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAAT
66 GAGGGCAAGATTCACCGTCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAAT
*
8860126 TCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCTTGTTGCCTTCGATCTGTTTCCCTACTACT
131 TCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCTTGTTGCCTTCGATCTGTTTCCCTACTGCT
*
8860191 TATGGGGTTAAGATCTTGTAAATTTAA
196 TAAGGGGTTAAGATCTTGTAAATTTAA
*
8860218 CCTGCTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
* * *
8860283 AAGGGCAAGATTCACCATCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATATTTAAAAT
66 GAGGGCAAGATTCACCGTCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAAT
* * * *
8860348 TCAGCTTGTTACCTTACTGCTTAGGGGGTTAAAGCTTATTGCCTTTGATCTGTTTCCCTACTGCT
131 TCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCTTGTTGCCTTCGATCTGTTTCCCTACTGCT
*
8860413 TAAGGGGTTAAGATCTTATAAATTTAA
196 TAAGGGGTTAAGATCTTGTAAATTTAA
8860440 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
* *
8860505 GAGGACAAGATTCACCGTCTTTTGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTTAAAAT
66 GAGGGCAAGATTCACCGTCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAAT
* *
8860570 TTAGCTTGTTACCCTACTGCTT-AGGGGTTAAAGCTTGTTGCTTTCGATCTGTTTCCCTACTGCT
131 TCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCTTGTTGCCTTCGATCTGTTTCCCTACTGCT
* * *
8860634 TAGGGGGTTAAGAT-TTGTACATCTTCAG
196 TAAGGGGTTAAGATCTTGTAAAT-TT-AA
8860662 CCTGTTACCCTACTGCTTAGGGGTTTA
1 CCTGTTACCCTACTGCTTAGGGGTTTA
8860689 GGCTCACCAT
Statistics
Matches: 437, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
220 6 0.01
221 53 0.12
222 378 0.86
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (222 bp):
CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGGTGGTTTGAATCTGCTTCACTGCAATTTCAG
GAGGGCAAGATTCACCGTCTTTTGATCTGCTTCCCTATTGCTTAGGGTGATAAGATCTTTAAAAT
TCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCTTGTTGCCTTCGATCTGTTTCCCTACTGCT
TAAGGGGTTAAGATCTTGTAAATTTAA
Found at i:8860405 original size:88 final size:88
Alignment explanation
Indices: 8860303--8860467 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 88
8860293 TTCACCATCT
* * * * *
8860303 TTTGATCTGCTTCCCTATTGCTT-AGGGTGATAAGATATT-TAAAATTCAGCTTGTTACCTTACT
1 TTTGATCTGCTTCCCTACTGCTTAAGGG-GATAAGATCTTAT-AAATTCAACCTGTTACCCTACT
8860366 GCTTAGGGGGTTAAAGCTTATTGCC
64 GCTTAGGGGGTTAAAGCTTATTGCC
* * *
8860391 TTTGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTTATAAATTTAACCTGTTACCCTACTGC
1 TTTGATCTGCTTCCCTACTGCTTAAGGGGATAAGATCTTATAAATTCAACCTGTTACCCTACTGC
*
8860456 TTAGGGGTTTAA
66 TTAGGGGGTTAA
8860468 GGTTTGGTGG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 61 0.92
89 5 0.08
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (88 bp):
TTTGATCTGCTTCCCTACTGCTTAAGGGGATAAGATCTTATAAATTCAACCTGTTACCCTACTGC
TTAGGGGGTTAAAGCTTATTGCC
Found at i:8860410 original size:44 final size:44
Alignment explanation
Indices: 8860354--8860468 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
8860344 AAATTCAGCT
* *** * *
8860354 TGTTACCTTACTGCTTAGGGGGTTAA-AGCTTATTGCCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGAGCTTA-TAAATTTAACC
* * *
8860398 TGTTTCCCTACTGCTTAAGGGGTTAAGATCTTATAAATTTAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGAGCTTATAAATTTAACC
*
8860442 TGTTACCCTACTGCTTAGGGGTTTAAG
1 TGTTACCCTACTGCTTAGGGGGTTAAG
8860469 GTTTGGTGGT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
44 53 0.91
45 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGAGCTTATAAATTTAACC
Found at i:8860706 original size:88 final size:86
Alignment explanation
Indices: 8860528--8860778 Score: 276
Period size: 88 Copynumber: 2.9 Consensus size: 86
8860518 ACCGTCTTTT
* * *
8860528 GATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTT-TAAAATTT-AGCTTGTTACCCTACTGCT
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGAT-TTGT--AATTTCAGCTTGTTACCCTACTGCT
*** *
8860591 TAGGGGTTAAAGCTTGTTGCTTTC
63 TAGGGGTTAAAGCTCCATGCTCTC
*
8860615 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTACATCTTCAGCCTGTTACCCTACTGCTT
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTA-AT-TTCAGCTTGTTACCCTACTGCTT
* *
8860680 AGGGGTTTAGGCTCACCAT-C-CTC
64 AGGGGTTAAAGCT--CCATGCTCTC
* * * *
8860703 GATCTGTTTCCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCTTCTTACCCTACTGCTTAG
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAATTTCAGCTTGTTACCCTACTGCTTA-
8860768 GGGGTTAAAGC
65 GGGGTTAAAGC
8860779 CTGTGAACTC
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
85 1 0.01
86 26 0.19
87 43 0.31
88 68 0.49
89 1 0.01
90 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (86 bp):
GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAATTTCAGCTTGTTACCCTACTGCTTAG
GGGTTAAAGCTCCATGCTCTC
Found at i:8860759 original size:43 final size:42
Alignment explanation
Indices: 8860537--8860775 Score: 135
Period size: 43 Copynumber: 5.5 Consensus size: 42
8860527 TGATCTGCTT
* * *
8860537 CCCTACTGCTTA-GGGTGATAAGATCTTTAAAATTTAGCTTGTTA
1 CCCTACTGCTTAGGGGT-TTAAGATCTGT-AAATTCAGCTT-TTA
* * *** *
8860581 CCCTACTGCTTAGGGGTTAAAGCT-TGTTGCTTTCGATCTGTTT-
1 CCCTACTGCTTAGGGGTTTAAGATCTG-TAAATTC-AGCT-TTTA
* * * *
8860624 CCCTACTGCTTAGGGGGTTAAGATTTGTACATCTTCAGCCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGATCTGTA-A-ATTCAG-CTTTTA
* * *** *** *
8860669 CCCTACTGCTTAGGGGTTTAGGCTCACCATCCTCGATCTGTTT-
1 CCCTACTGCTTAGGGGTTTAAGATCTGTAAATTC-AGCT-TTTA
8860712 CCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCTTCTTA
1 CCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCTT-TTA
*
8860755 CCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAA
8860776 AGCCTGTGAA
Statistics
Matches: 144, Mismatches: 38, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 76 0.53
44 30 0.21
45 32 0.22
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCTTTTA
Found at i:8876755 original size:9 final size:9
Alignment explanation
Indices: 8876737--8876795 Score: 93
Period size: 9 Copynumber: 6.7 Consensus size: 9
8876727 TGCAATGCTG
8876737 ATGC-ATGA
1 ATGCAATGA
8876745 ATGCAATGA
1 ATGCAATGA
*
8876754 ATGCGATGA
1 ATGCAATGA
8876763 ATGCAATGA
1 ATGCAATGA
*
8876772 ATGCGATGA
1 ATGCAATGA
8876781 ATGCAATGA
1 ATGCAATGA
8876790 ATGCAA
1 ATGCAA
8876796 AAGCGTTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
8 4 0.09
9 42 0.91
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:8876762 original size:18 final size:18
Alignment explanation
Indices: 8876737--8876793 Score: 107
Period size: 18 Copynumber: 3.2 Consensus size: 18
8876727 TGCAATGCTG
8876737 ATGC-ATGAATGCAATGA
1 ATGCGATGAATGCAATGA
8876754 ATGCGATGAATGCAATGA
1 ATGCGATGAATGCAATGA
8876772 ATGCGATGAATGCAATGA
1 ATGCGATGAATGCAATGA
8876790 ATGC
1 ATGC
8876794 AAAAGCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
17 4 0.10
18 35 0.90
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (18 bp):
ATGCGATGAATGCAATGA
Found at i:8890140 original size:19 final size:21
Alignment explanation
Indices: 8890116--8890160 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8890106 ATAGCTTGTT
*
8890116 TTTTACA-AGTCTTCTTT-TC
1 TTTTACACACTCTTCTTTCTC
*
8890135 TTTTACACACTGTTCTTTCTC
1 TTTTACACACTCTTCTTTCTC
8890156 TTTTA
1 TTTTA
8890161 GTGCTGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.16, C:0.22, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTACACACTCTTCTTTCTC
Found at i:8896104 original size:6 final size:6
Alignment explanation
Indices: 8896093--8896121 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8896083 TTGCAACCAA
8896093 TTCTTT TTCTTT TTCTTT TT-TTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
8896122 CTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTCTTT
Found at i:8896116 original size:11 final size:11
Alignment explanation
Indices: 8896093--8896126 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
8896083 TTGCAACCAA
8896093 TTCTTTTTCTTT
1 TTCTTTTT-TTT
8896105 TTCTTTTTTTT
1 TTCTTTTTTTT
8896116 TTCTTTCTTTT
1 TTCTTT-TTTT
8896127 AAGTTAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:8896126 original size:12 final size:11
Alignment explanation
Indices: 8896093--8896126 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8896083 TTGCAACCAA
8896093 TTCTTTTTCTTT
1 TTCTTTTT-TTT
8896105 TTCTTTTTTTT
1 TTCTTTTTTTT
*
8896116 TTCTTTCTTTT
1 TTCTTTTTTTT
8896127 AAGTTAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:8902837 original size:9 final size:9
Alignment explanation
Indices: 8902823--8902882 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
8902813 ACGTGTTTCA
8902823 TTTAATATT
1 TTTAATATT
*
8902832 TTTAATATA
1 TTTAATATT
8902841 TTTAATAGTT
1 TTTAATA-TT
* *
8902851 TATATTTATT
1 TTTA-ATATT
8902861 TTTAATATTT
1 TTTAATA-TT
8902871 TTTAAT-TT
1 TTTAATATT
8902879 TTTA
1 TTTA
8902883 GAATTACTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 6 0.14
9 17 0.40
10 17 0.40
11 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTAATATT
Found at i:8903424 original size:31 final size:31
Alignment explanation
Indices: 8903388--8903451 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
8903378 AAATGATAAT
*
8903388 TGAATT-GTTCGAAAGTTTTCATTTAAATCAC
1 TGAATTAGTTC-AAAATTTTCATTTAAATCAC
* * *
8903419 TGAATTATTTCAAAATTTTTATTTAAGTCAC
1 TGAATTAGTTCAAAATTTTCATTTAAATCAC
8903450 TG
1 TG
8903452 GACTATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
TGAATTAGTTCAAAATTTTCATTTAAATCAC
Found at i:8908363 original size:46 final size:44
Alignment explanation
Indices: 8908304--8908418 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
8908294 ACAGGACAGA
* *
8908304 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
8908350 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8908394 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8908419 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8908399 original size:44 final size:45
Alignment explanation
Indices: 8908304--8908437 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
8908294 ACAGGACAGA
* *
8908304 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
8908350 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
8908394 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8908438 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:8909854 original size:79 final size:78
Alignment explanation
Indices: 8909748--8909901 Score: 238
Period size: 79 Copynumber: 2.0 Consensus size: 78
8909738 TTGATTCCAC
*
8909748 TCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-TTTTATTA
1 TCCCCCATACTACTTTGTTTTATTATTAATTAAAACTA-TCCCCCATACTATTTTGTTTTTATTA
8909812 TTAATTAAAACTAT
65 TTAATTAAAACTAT
* * * *
8909826 TCCCCCATACTATTTTATTTTTATTATTAATTAAAATTATTCCCCATACTATTTTGTTTTTATTA
1 TCCCCCATACTACTTT-GTTTTATTATTAATTAAAACTATCCCCCATACTATTTTGTTTTTATTA
8909891 TTAATTAAAAC
65 TTAATTAAAAC
8909902 CATACTTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 30 0.43
79 39 0.57
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (78 bp):
TCCCCCATACTACTTTGTTTTATTATTAATTAAAACTATCCCCCATACTATTTTGTTTTTATTAT
TAATTAAAACTAT
Found at i:8909859 original size:40 final size:39
Alignment explanation
Indices: 8909748--8909901 Score: 238
Period size: 39 Copynumber: 3.9 Consensus size: 39
8909738 TTGATTCCAC
* * *
8909748 TCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTAC
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
8909787 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
* *
8909826 TCCCCCATACTATTTTATTTTTATTATTAATTAAAATTAT
1 TCCCCCATACTATTTT-GTTTTATTATTAATTAAAACTAT
8909866 T-CCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 TCCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
8909902 CATACTTTAT
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 84 0.79
40 22 0.21
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (39 bp):
TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
Found at i:8910558 original size:22 final size:23
Alignment explanation
Indices: 8910510--8910566 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
8910500 AACCCTCTCT
**
8910510 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
8910533 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
8910555 AATACCATCGAT
1 AATACAATCGAT
8910567 CCCCCCGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:8912215 original size:20 final size:19
Alignment explanation
Indices: 8912187--8912244 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
8912177 AAAATGATAA
*
8912187 AATCTAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
*
8912207 AATTAAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
*
8912226 AATCATGTTAAAATTGTTT
1 AATCAAGTTAAAA-TGTTT
8912245 TTTAAACAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:8912789 original size:30 final size:30
Alignment explanation
Indices: 8912751--8912821 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
8912741 TTGATTTGTC
8912751 AATA-ATAATTAATAACAAGTA-AAATATAA
1 AATATATAATTAATAACAAGTAGAAATA-AA
* *
8912780 AATATATAATTAATACCAATTAGAAATAAA
1 AATATATAATTAATAACAAGTAGAAATAAA
* *
8912810 TATATATTATTA
1 AATATATAATTA
8912822 CATTTATCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 27 0.75
31 5 0.14
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (30 bp):
AATATATAATTAATAACAAGTAGAAATAAA
Found at i:8914803 original size:10 final size:10
Alignment explanation
Indices: 8914784--8914847 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
8914774 AATATTATTA
*
8914784 TTTTAGAATT
1 TTTTATAATT
*
8914794 TTTTTTAATT
1 TTTTATAATT
8914804 TTTTAT-ATAT
1 TTTTATAAT-T
*
8914814 TTTTAGAATT
1 TTTTATAATT
*
8914824 TTTTAGAA-T
1 TTTTATAATT
*
8914833 TTTCATAATT
1 TTTTATAATT
8914843 TTTTA
1 TTTTA
8914848 AAATATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 9 0.20
10 33 0.75
11 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8914816 original size:19 final size:18
Alignment explanation
Indices: 8914784--8914847 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
8914774 AATATTATTA
8914784 TTTTAGAATTTTTTTTAATT
1 TTTTAGAA--TTTTTTAATT
* *
8914804 TTTTATATATTTTTAGAATT
1 TTTTAGA-ATTTTT-TAATT
*
8914824 TTTTAGAATTTTCATAATT
1 TTTTAGAATTTT-TTAATT
8914843 TTTTA
1 TTTTA
8914848 AAATATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 19 0.53
20 16 0.44
21 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTAGAATTTTTTAATT
Found at i:8914864 original size:40 final size:40
Alignment explanation
Indices: 8914784--8914864 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
8914774 AATATTATTA
** * *
8914784 TTTTAGAATTTTTTTTAATTTTTTATATATTTTTAGAATT
1 TTTTAGAATTTTTCATAATTTTTTAAATATTTTCAGAATT
8914824 TTTTAGAA-TTTTCATAATTTTTTAAAATATATTTCA-AATT
1 TTTTAGAATTTTTCATAATTTTTT-AAATAT-TTTCAGAATT
8914864 T
1 T
8914865 CAAATTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 13 0.37
40 18 0.51
41 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (40 bp):
TTTTAGAATTTTTCATAATTTTTTAAATATTTTCAGAATT
Found at i:8920852 original size:24 final size:27
Alignment explanation
Indices: 8920803--8920858 Score: 82
Period size: 24 Copynumber: 2.2 Consensus size: 27
8920793 GTTTATGAAT
8920803 TAAAATTAAGTAAAATATATTGAAATG
1 TAAAATTAAGTAAAATATATTGAAATG
*
8920830 TAAAATTAA-TAATAT-TATT-AAATG
1 TAAAATTAAGTAAAATATATTGAAATG
8920854 TAAAA
1 TAAAA
8920859 ACATAAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 10 0.36
25 4 0.14
26 5 0.18
27 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (27 bp):
TAAAATTAAGTAAAATATATTGAAATG
Found at i:8923126 original size:19 final size:19
Alignment explanation
Indices: 8923102--8923144 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8923092 AAAATATCAT
8923102 ATTAATTTTAA-TTAACTTG
1 ATTAA-TTTAATTTAACTTG
*
8923121 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTAACTTG
8923140 ATTAA
1 ATTAA
8923145 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAATTTAACTTG
Found at i:8931949 original size:32 final size:31
Alignment explanation
Indices: 8931913--8931985 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
8931903 TTATTTGATT
* *
8931913 AATTTTAGTTATTATATTTTTTTGAA-TTGGTA
1 AATTTTAGTTATTATACTTTTTT-AATTTCG-A
* * *
8931945 AATTTTAATTTTTGTACTTTTTTAATTTCGA
1 AATTTTAGTTATTATACTTTTTTAATTTCGA
8931976 AATTTTAGTT
1 AATTTTAGTT
8931986 TTAGCCTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 12 0.35
32 22 0.65
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (31 bp):
AATTTTAGTTATTATACTTTTTTAATTTCGA
Found at i:8933947 original size:14 final size:13
Alignment explanation
Indices: 8933917--8933965 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
8933907 ATTAAAATTT
8933917 TAAAAAT-T-AAA
1 TAAAAATATAAAA
8933928 -AAAAATATAAAA
1 TAAAAATATAAAA
8933940 CTAAAAATAATAAAA
1 -TAAAAAT-ATAAAA
8933955 TAAAAAGTATA
1 TAAAAA-TATA
8933966 GAGATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 6 0.19
11 1 0.03
12 3 0.09
14 15 0.47
15 7 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (13 bp):
TAAAAATATAAAA
Found at i:8935469 original size:15 final size:15
Alignment explanation
Indices: 8935449--8935486 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8935439 TAGAAATAAA
8935449 AATAATAAAAGTAAC
1 AATAATAAAAGTAAC
* *
8935464 AATAATAATAGTAAT
1 AATAATAAAAGTAAC
8935479 AAT-ATAAA
1 AATAATAAA
8935487 TAAATATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (15 bp):
AATAATAAAAGTAAC
Found at i:8935531 original size:12 final size:12
Alignment explanation
Indices: 8935507--8935550 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
8935497 GAGGGCATAT
8935507 ATAATAT-AATA
1 ATAATATAAATA
8935518 ATAATATAAATA
1 ATAATATAAATA
* *
8935530 ATAGTAAAAATA
1 ATAATATAAATA
*
8935542 ATAAAATAA
1 ATAATATAA
8935551 TAAAACAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:8935885 original size:25 final size:26
Alignment explanation
Indices: 8935853--8935902 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
8935843 AAAAACTAGC
* *
8935853 CTTTCC-AAGAAACAAAAATAACCTT
1 CTTTCCAAAAAAACAAAAAAAACCTT
8935878 CTTTCCAAAAAAACAAAAAAAACCT
1 CTTTCCAAAAAAACAAAAAAAACCT
8935903 CCTCCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (26 bp):
CTTTCCAAAAAAACAAAAAAAACCTT
Found at i:8935913 original size:21 final size:23
Alignment explanation
Indices: 8935887--8935934 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8935877 TCTTTCCAAA
8935887 AAAACAAA-AA-AAACCTCCTCC
1 AAAACAAAGAACAAACCTCCTCC
* *
8935908 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAAACCTCCTCC
8935931 AAAA
1 AAAA
8935935 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 2 0.09
23 13 0.57
ACGTcount: A:0.56, C:0.29, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAACAAAGAACAAACCTCCTCC
Found at i:8939134 original size:21 final size:21
Alignment explanation
Indices: 8939097--8939136 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8939087 TATTAAATTT
*
8939097 AAATAAAATAAATTATTTAAA
1 AAATAAAATAAAATATTTAAA
8939118 AAATAAAA-ACAAATATTTA
1 AAATAAAATA-AAATATTTA
8939137 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAAATAAAATATTTAAA
Found at i:8943536 original size:3 final size:3
Alignment explanation
Indices: 8943528--8943568 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8943518 TGTTGGTTGT
8943528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8943569 GCTTTATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8945170 original size:19 final size:18
Alignment explanation
Indices: 8945146--8945185 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8945136 ATTTTTTAGG
8945146 AAAAAGAAACACAA-AAAAA
1 AAAAAGAAA-A-AAGAAAAA
8945165 AAAAAGAAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAAA
8945183 AAA
1 AAA
8945186 GCATGCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAAA
Found at i:8947053 original size:14 final size:14
Alignment explanation
Indices: 8947036--8947067 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
8947026 TCTTTTTGGG
8947036 TAAAATAATCTAAT
1 TAAAATAATCTAAT
8947050 TAAAATAATCTAAT
1 TAAAATAATCTAAT
8947064 TAAA
1 TAAA
8947068 GGATGCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAATAATCTAAT
Found at i:8951318 original size:2 final size:2
Alignment explanation
Indices: 8951311--8951339 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8951301 ATAAATACTT
8951311 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 T
8951340 TTAAATTGGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8951964 original size:29 final size:29
Alignment explanation
Indices: 8951922--8951986 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
8951912 TTACATAAAC
8951922 ATACTACCCTCATACGATTTCGAGTAATT
1 ATACTACCCTCATACGATTTCGAGTAATT
8951951 ATACTACCCTCATACGATTTCGAGTAATT
1 ATACTACCCTCATACGATTTCGAGTAATT
8951980 ACTACTA
1 A-TACTA
8951987 AATCCAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (29 bp):
ATACTACCCTCATACGATTTCGAGTAATT
Found at i:8953044 original size:5 final size:5
Alignment explanation
Indices: 8953034--8953063 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8953024 AAATTTAAAA
8953034 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
8953064 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:8961259 original size:2 final size:2
Alignment explanation
Indices: 8961252--8961300 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
8961242 AATACATCAC
8961252 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
*
8961294 GT AT AT A
1 AT AT AT A
8961301 ATTGAAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8968034 original size:2 final size:2
Alignment explanation
Indices: 8968027--8968054 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8968017 GCCTCAATTC
8968027 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
8968055 GATCTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8969649 original size:31 final size:31
Alignment explanation
Indices: 8969614--8969675 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8969604 TGAACTCCAA
8969614 GAAAAAGAAAACGATTCGAAAACAGTAATAT
1 GAAAAAGAAAACGATTCGAAAACAGTAATAT
8969645 GAAAAAGAAAACGATTCGAAAACAGTAATAT
1 GAAAAAGAAAACGATTCGAAAACAGTAATAT
8969676 CTTTGGGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.10, G:0.16, T:0.16
Consensus pattern (31 bp):
GAAAAAGAAAACGATTCGAAAACAGTAATAT
Found at i:8978165 original size:13 final size:13
Alignment explanation
Indices: 8978149--8978173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8978139 ATTCAAATAA
8978149 TCAATATATATAT
1 TCAATATATATAT
8978162 TCAATATATATA
1 TCAATATATATA
8978174 CCAAGTCAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TCAATATATATAT
Found at i:8978633 original size:8 final size:9
Alignment explanation
Indices: 8978607--8978641 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
8978597 CATAAAATCC
8978607 TAAATTTTT
1 TAAATTTTT
8978616 TAAATTTTT
1 TAAATTTTT
*
8978625 TAATTTTTT
1 TAAATTTTT
8978634 TACAATTT
1 TA-AATTT
8978642 AGTCCCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:8978917 original size:17 final size:17
Alignment explanation
Indices: 8978897--8978929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8978887 ATTCTAGCTT
8978897 TTTCTCATTTCTTTCTC
1 TTTCTCATTTCTTTCTC
*
8978914 TTTCTCTTTTCTTTCT
1 TTTCTCATTTCTTTCT
8978930 TTCCTTCTCT
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:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCTCATTTCTTTCTC
Found at i:8978928 original size:21 final size:21
Alignment explanation
Indices: 8978904--8978950 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
8978894 CTTTTTCTCA
8978904 TTTCTTTCTCTTTCTCT-TTTC-
1 TTTCTTTC-C-TTCTCTGTTTCG
8978925 TTTCTTTCCTTCTCTGTTTCG
1 TTTCTTTCCTTCTCTGTTTCG
8978946 TTTCT
1 TTTCT
8978951 GCTTTGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 5 0.21
21 13 0.54
ACGTcount: A:0.00, C:0.28, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTCTTTCCTTCTCTGTTTCG
Found at i:8979007 original size:5 final size:5
Alignment explanation
Indices: 8978997--8979037 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
8978987 TTTATTTATA
*
8978997 AATAT AATAT AATAT AATAC AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A
8979038 TATTTATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:8979088 original size:15 final size:15
Alignment explanation
Indices: 8978997--8979088 Score: 66
Period size: 15 Copynumber: 6.1 Consensus size: 15
8978987 TTTATTTATA
8978997 AATATAATATA-ATAT
1 AATATAATATATAT-T
*
8979012 AATACAATATA-ATAT
1 AATATAATATATAT-T
8979027 AATATAATATATATT
1 AATATAATATATATT
* *
8979042 --TATACTTATATGTT
1 AATATA-ATATATATT
* * *
8979056 AAGTAAAAGATATTTT
1 AA-TATAATATATATT
8979072 AATATAATATATATT
1 AATATAATATATATT
8979087 AA
1 AA
8979089 ATTCAAAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
13 4 0.07
14 7 0.11
15 37 0.61
16 10 0.16
17 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (15 bp):
AATATAATATATATT
Found at i:8980826 original size:33 final size:32
Alignment explanation
Indices: 8980779--8980841 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
8980769 ACAATTGTAA
*
8980779 TATTTTATTTAAATT-AGTAGATATTTATTATT
1 TATTTTATTAAAATTAAG-AGATATTTATTATT
8980811 TATTATTATTAAAATTAAGAGATATTTATTA
1 TATT-TTATTAAAATTAAGAGATATTTATTA
8980842 ATTAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 22 0.79
34 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (32 bp):
TATTTTATTAAAATTAAGAGATATTTATTATT
Found at i:8981035 original size:22 final size:22
Alignment explanation
Indices: 8981009--8981074 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
8980999 TATAAATTAA
*
8981009 ATAAAGTAAAAAGAAATAAAGC
1 ATAAAGTAAAAAGAAACAAAGC
* * *
8981031 ATAAAATAAATAGAAACAAAAC
1 ATAAAGTAAAAAGAAACAAAGC
*
8981053 A-AAAG-AAAAAGGAAAGAAAGC
1 ATAAAGTAAAAA-GAAACAAAGC
8981074 A
1 A
8981075 GAGAAGCATT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 19 0.54
ACGTcount: A:0.71, C:0.06, G:0.14, T:0.09
Consensus pattern (22 bp):
ATAAAGTAAAAAGAAACAAAGC
Found at i:8981876 original size:40 final size:40
Alignment explanation
Indices: 8981825--8981911 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
8981815 AATTATGGAA
* * *
8981825 TACTGAATATTGTTTTGA-GAACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTAT-ATGAACTGAATTGAACTGTGAAAT
* *
8981865 TACTGAATATTGTTATATGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATATGAACTGAATTGAACTGTGAAAT
8981905 TACTGAA
1 TACTGAA
8981912 GTAATGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (40 bp):
TACTGAATATTGTTATATGAACTGAATTGAACTGTGAAAT
Found at i:8982188 original size:51 final size:51
Alignment explanation
Indices: 8982111--8982223 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
8982101 ATGTGCCGAC
** *
8982111 TACTGTTACTGTTACCTATTCGACACTTTGTGTGTCGAATAATGTTACTGT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAATGTTACTGT
* *
8982162 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATATTGTTACTGT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAATGTTACTGT
8982213 TACTGTTACTG
1 TACTGTTACTG
8982224 CTACCGTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (51 bp):
TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAATGTTACTGT
Found at i:8983117 original size:22 final size:22
Alignment explanation
Indices: 8983077--8983118 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8983067 TGGCCACCCA
*
8983077 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
8983099 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
8983119 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:8983235 original size:21 final size:21
Alignment explanation
Indices: 8983190--8983258 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
8983180 GGTTTTTGGT
*
8983190 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTGGAGGA-GATT-TTTTTTG
8983213 TTTTGGAGGAGATTTTTTTTG
1 TTTTGGAGGAGATTTTTTTTG
*
8983234 TTTTTTGGAGGTG--TTTTTTTG
1 --TTTTGGAGGAGATTTTTTTTG
8983255 TTTT
1 TTTT
8983259 TTGGAAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.10
21 14 0.33
22 4 0.10
23 20 0.48
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.59
Consensus pattern (21 bp):
TTTTGGAGGAGATTTTTTTTG
Found at i:8983260 original size:23 final size:23
Alignment explanation
Indices: 8983182--8983263 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 23
8983172 TAGGAGGGGG
*
8983182 TTTTTGGTTTTTGGAGGAGGATTGT
1 TTTTTGTTTTTTGGAGGA-GATT-T
*
8983207 TCTTTG--TTTTGGAGGAGATTT
1 TTTTTGTTTTTTGGAGGAGATTT
*
8983228 TTTTTGTTTTTTGGAGGTG--TT
1 TTTTTGTTTTTTGGAGGAGATTT
8983249 TTTTTGTTTTTTGGA
1 TTTTTGTTTTTTGGA
8983264 AAGAAGGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
21 23 0.44
22 4 0.08
23 20 0.38
25 5 0.10
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTGTTTTTTGGAGGAGATTT
Found at i:8983604 original size:3 final size:3
Alignment explanation
Indices: 8983590--8983675 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
8983580 GAGCTTTGTT
* *
8983590 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
8983634 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
8983676 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8983628 original size:27 final size:27
Alignment explanation
Indices: 8983589--8983675 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
8983579 AGAGCTTTGT
8983589 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
8983616 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
8983641 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
8983667 -TTATATTAT
1 TTTATATTAT
8983676 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:8983650 original size:21 final size:18
Alignment explanation
Indices: 8983590--8983679 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
8983580 GAGCTTTGTT
*
8983590 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
8983610 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
8983628 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
8983649 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
8983667 TTA-TATTATATAT
1 TTATTATT-TATAT
8983680 GCCCTCTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:8983968 original size:122 final size:124
Alignment explanation
Indices: 8983841--8984062 Score: 276
Period size: 125 Copynumber: 1.8 Consensus size: 124
8983831 TAATATATTG
*
8983841 TTAATATTGCTCA-TAT-TTT-CATTATT-T-TTGCTAT-TACTATTATTATTATTATATATTAG
1 TTAATATT-CTCATTATATTTGC-TTATTGTATTGCTATAT-CTATTATTATTATTATATAGTAG
* * *
8983900 TGTATATTTTTATGTTTATACATATATATATTTATATATAGTATTGTTTTTTATTACTTTAAT
63 TGTATATTTCTAT-TATATACATATATATATATATATATAGTATTGTTTTTTATTACTTTAAT
* * * * *
8983963 TTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATTTATTATTATTATTATATAGTAGTGT
1 TTAATATTCTCATTATATTTGCTTATTGTATTGCTATATCTATTATTATTATTATATAGTAGTGT
*
8984028 GTATTTCTATTATATACATATATATATATATATAT
66 ATATTTCTATTATATACATATATATATATATATAT
8984063 TATATATAGT
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
121 2 0.02
122 11 0.13
123 7 0.08
124 25 0.30
125 38 0.45
126 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (124 bp):
TTAATATTCTCATTATATTTGCTTATTGTATTGCTATATCTATTATTATTATTATATAGTAGTGT
ATATTTCTATTATATACATATATATATATATATATAGTATTGTTTTTTATTACTTTAAT
Found at i:8984043 original size:2 final size:2
Alignment explanation
Indices: 8984038--8984070 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8984028 GTATTTCTAT
*
8984038 TA TA TA CA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8984071 GTATTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8988410 original size:14 final size:16
Alignment explanation
Indices: 8988393--8988424 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8988383 TTTTAAACTC
8988393 TTAA-TTTAA-ATTTA
1 TTAATTTTAATATTTA
8988407 TTAATTTTAATATTTA
1 TTAATTTTAATATTTA
8988423 TT
1 TT
8988425 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 5 0.31
16 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTTAATATTTA
Found at i:8988628 original size:23 final size:22
Alignment explanation
Indices: 8988598--8988652 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
8988588 AAAATTATTT
8988598 TAATATTTATCATAAAAATAAA
1 TAATATTTATCATAAAAATAAA
* * *
8988620 TAATAATTTTTCATATAGATAAA
1 TAAT-ATTTATCATAAAAATAAA
*
8988643 TATTATTTAT
1 TAATATTTAT
8988653 TTTAATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATATTTATCATAAAAATAAA
Found at i:8991419 original size:220 final size:214
Alignment explanation
Indices: 8990910--8991674 Score: 720
Period size: 220 Copynumber: 3.5 Consensus size: 214
8990900 ACCCAAATTG
* *
8990910 TATTACCAGGGAAAACAA-AAGAATAAATAAAAGTAGCTTGCCAACTGAA-TTTAACAATTTATT
1 TATTACCAGGGAAAA-AACAAGAATAAATAACA-TAGCTTGCCAACTGAATTTTAACATTTTATT
* * * * * **
8990973 GATCAAGTTCATGGTTCAGAGTATGACATCGGTGCTTTATGCATTGAT-CTT--GGTCCTT-ACT
64 GATCAGGTTCATGGTTCAGAGTCT-ACATCGATGCTTTATGCGTTG-TCCTTACTGAACTTAAC-
* * * ** * *
8991034 GAGCAGTTATGTGTTGATACGAGAGAGTGCATTGTTGAGATTACCTGGGAGGCAATAAG-----G
126 -AGCTGTTATGTGTTGATACGAGAGAATGAATCCTTAAGATTACCTGGGAGGGAATAAGATTAAG
* * * ** *
8991094 TTTAGGCAAAATGGTACTCAAATTG
190 TTTAAGCAAAATGATACCCGGATTA
** * * *
8991119 TATTAATAGGGAAAAGAGAAGAATAAATAAACATAGCTTGCCAACTGAATTTT-ACAATTTATTG
1 TATTACCAGGGAAAAAACAAGAATAAAT-AACATAGCTTGCCAACTGAATTTTAACATTTTATTG
* *
8991183 ATCAGGTTCGTGGTTCAGAGTACTACATCGATGCTTTAT-CGGTTAGTCCTTACTGAATTTAACA
65 ATCAGGTTCATGGTTCAGAGT-CTACATCGATGCTTTATGC-GTT-GTCCTTACTGAACTTAACA
* * *
8991247 GCTGTTATGTGTTGATGCGAGAGAATGCATCCTTAAGATTACCTGGCGGGGGAGA-AA-ATTAAG
127 GCTGTTATGTGTTGATACGAGAGAATGAATCCTTAAGATTACCTGG-GAGGGA-ATAAGATTAAG
*
8991310 TTTAAGCAAAATGATACCTGGATTA
190 TTTAAGCAAAATGATACCCGGATTA
8991335 TATTACCAGGAAAAGAAAAAA-ATAGAATAAATGAACATAGCTTGCCAACTGAATTTTAACATTT
1 TATTACCAGG----GAAAAAACA-AGAATAAAT-AACATAGCTTGCCAACTGAATTTTAACATTT
* * *
8991399 TATTG-GCAGGTTCATGGTTCAGAGTCTGACATCTATGCTTTATGCATTGTTCCTTACTGAACTT
60 TATTGATCAGGTTCATGGTTCAGAGTCT-ACATCGATGCTTTATGCGTTG-TCCTTACTGAACTT
** * * * *
8991463 GGCAGCTGTTATGTGTTGCTACGAGAGAGTGAATCCTTAAGGTTACCTGGGAGGGAATTAAGTTT
123 AACAGCTGTTATGTGTTGATACGAGAGAATGAATCCTTAAGATTACCTGGGAGGGAA-TAAG-AT
* *
8991528 TAAGTTTAGGCAAAATGATACCCGGATTG
186 TAAGTTTAAGCAAAATGATACCCGGATTA
* * ** *
8991557 TATTTCCAGGGAAAAAACAAGAATAAATAAGCATA-CTTACTGACTGAATTGTAACATTTTATTG
1 TATTACCAGGGAAAAAACAAGAATAAATAA-CATAGCTTGCCAACTGAATTTTAACATTTTATTG
* *
8991621 ATCAGGTTCATGGTTCAGAGTCAGACATCGATGCTTTATGTGTTGGTCCTTACT
65 ATCAGGTTCATGGTTCAGAGTC-TACATCGATGCTTTATGCGTT-GTCCTTACT
8991675 TTGCCACCAT
Statistics
Matches: 461, Mismatches: 60, Indels: 61
0.79 0.10 0.10
Matches are distributed among these distances:
208 2 0.00
209 86 0.19
210 11 0.02
211 41 0.09
212 9 0.02
213 3 0.01
216 27 0.06
217 27 0.06
218 66 0.14
219 11 0.02
220 131 0.28
221 11 0.02
222 36 0.08
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (214 bp):
TATTACCAGGGAAAAAACAAGAATAAATAACATAGCTTGCCAACTGAATTTTAACATTTTATTGA
TCAGGTTCATGGTTCAGAGTCTACATCGATGCTTTATGCGTTGTCCTTACTGAACTTAACAGCTG
TTATGTGTTGATACGAGAGAATGAATCCTTAAGATTACCTGGGAGGGAATAAGATTAAGTTTAAG
CAAAATGATACCCGGATTA
Found at i:8995358 original size:16 final size:16
Alignment explanation
Indices: 8995337--8995367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8995327 TTTTGTGTTA
*
8995337 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
8995353 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
8995368 AAACTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:8995590 original size:40 final size:39
Alignment explanation
Indices: 8995491--8995605 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 39
8995481 CAAGTGACCT
*
8995491 GTGCATCGTATAAAAATACAAACTAGTAATTATATAATC
1 GTGCATCGTATAAAAATACAAACTAGTAATTATATAACC
* * ** * *
8995530 ATGTATCACATAAAAATACAAATTAGCAATTATATAACCC
1 GTGCATCGTATAAAAATACAAACTAGTAATTATATAA-CC
* *
8995570 GTGCATCGTACAAAAATACAAACTAGTAACTATATA
1 GTGCATCGTATAAAAATACAAACTAGTAATTATATA
8995606 TCTTTTCACT
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 31 0.52
40 29 0.48
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (39 bp):
GTGCATCGTATAAAAATACAAACTAGTAATTATATAACC
Found at i:9006196 original size:19 final size:19
Alignment explanation
Indices: 9006141--9006196 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
9006131 TACGTTCCAA
* *
9006141 GATGCACTTCGTGTGCAAG
1 GATGCACTTCATGTGCCAG
* *
9006160 GATGCGCTTCATGCGCCAG
1 GATGCACTTCATGTGCCAG
* *
9006179 TATGCACTTCACGTGCCA
1 GATGCACTTCATGTGCCA
9006197 ATCTCCTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.25
Consensus pattern (19 bp):
GATGCACTTCATGTGCCAG
Found at i:9010354 original size:31 final size:31
Alignment explanation
Indices: 9010316--9010377 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
9010306 AAAATGCACG
* *
9010316 CAATTGAATCAAAGTTAAAA-TTTCATGTGTA
1 CAATTGAATCAAA-ATAAAAGTTTCATATGTA
9010347 CAATTGAATCAAAATAAAAGTTTCATATGTA
1 CAATTGAATCAAAATAAAAGTTTCATATGTA
9010378 TAGTTACACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (31 bp):
CAATTGAATCAAAATAAAAGTTTCATATGTA
Found at i:9012586 original size:6 final size:6
Alignment explanation
Indices: 9012575--9012605 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9012565 CTAATGTAAT
9012575 GATGAA GATGAA GATGAA GATGAA GATGAA G
1 GATGAA GATGAA GATGAA GATGAA GATGAA G
9012606 TATATTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GATGAA
Found at i:9015818 original size:15 final size:16
Alignment explanation
Indices: 9015800--9015857 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
9015790 CATATATTCA
9015800 ATAA-ATTTAAAATAT
1 ATAATATTTAAAATAT
*
9015815 ATAATATTATTAAATAT
1 ATAATATT-TAAAATAT
9015832 -TAA-ATTTAAAATAT
1 ATAATATTTAAAATAT
9015846 A-AATATTTAAAA
1 ATAATATTTAAAA
9015858 AATTAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 9 0.24
15 15 0.41
16 6 0.16
17 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATATTTAAAATAT
Found at i:9016714 original size:18 final size:18
Alignment explanation
Indices: 9016691--9016727 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9016681 CGAGGAAAAC
9016691 AACAAAAAAACAAAACAA
1 AACAAAAAAACAAAACAA
* *
9016709 AACAAAACAAGAAAACAA
1 AACAAAAAAACAAAACAA
9016727 A
1 A
9016728 GTTAATGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (18 bp):
AACAAAAAAACAAAACAA
Found at i:9021504 original size:16 final size:17
Alignment explanation
Indices: 9021485--9021517 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9021475 AATTAATTTA
9021485 ATTATGTTT-CAAAATT
1 ATTATGTTTACAAAATT
*
9021501 ATTATTTTTACAAAATT
1 ATTATGTTTACAAAATT
9021518 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
ATTATGTTTACAAAATT
Found at i:9021608 original size:18 final size:19
Alignment explanation
Indices: 9021571--9021607 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9021561 TTTTTAAAAA
9021571 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
9021589 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
9021608 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:9021617 original size:19 final size:19
Alignment explanation
Indices: 9021574--9021618 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9021564 TTAAAAATAT
*
9021574 AAAT-TTTGGAATTTTTAT
1 AAATATTTGGAATTTTTAA
9021592 AAATATTTGGAA-TTTTAA
1 AAATATTTGGAATTTTTAA
9021610 AAATTATTT
1 AAA-TATTT
9021619 TGTTTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (19 bp):
AAATATTTGGAATTTTTAA
Found at i:9021920 original size:7 final size:7
Alignment explanation
Indices: 9021908--9021939 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
9021898 CGGGAAAAAT
9021908 AAATAAA
1 AAATAAA
9021915 AAATAAA
1 AAATAAA
9021922 AAATAAA
1 AAATAAA
9021929 AAATAAA
1 AAATAAA
9021936 AAAT
1 AAAT
9021940 CGTATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:9022420 original size:2 final size:2
Alignment explanation
Indices: 9022413--9022437 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9022403 GTAACTTCTT
9022413 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
9022438 GCAGGTGTTT
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:9024106 original size:25 final size:25
Alignment explanation
Indices: 9024078--9024125 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9024068 ATTTTAAAAA
*
9024078 AATATATTTTATA-TTATTTAAATTT
1 AATAT-TTTTATATTTATTGAAATTT
*
9024103 AATATTTTTTTATTTATTGAAAT
1 AATATTTTTATATTTATTGAAAT
9024126 CTTTTGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
AATATTTTTATATTTATTGAAATTT
Done.