Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 57 of 97
Found at i:22763942 original size:50 final size:49
Alignment explanation
Indices: 22763883--22763992 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 49
22763873 TCAAGGGTTT
*
22763883 TTGCTTTTTAAT-GGAAAGAAATAATCCTCACACAA-TCAACAAAGAGATTC
1 TTGCTTTTTAATAGG-AAGAAATAACCCTCACACAATTC-ACAAAG-GATTC
** * *
22763933 TTGCTTTTTAATAGGAAGTGATAACCCTTACACAATTCATAAAGGATTC
1 TTGCTTTTTAATAGGAAGAAATAACCCTCACACAATTCACAAAGGATTC
*
22763982 TTACTTTTTAA
1 TTGCTTTTTAA
22763993 CCGGATCAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
49 15 0.29
50 33 0.63
51 4 0.08
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (49 bp):
TTGCTTTTTAATAGGAAGAAATAACCCTCACACAATTCACAAAGGATTC
Found at i:22764705 original size:72 final size:71
Alignment explanation
Indices: 22764588--22764770 Score: 215
Period size: 72 Copynumber: 2.5 Consensus size: 71
22764578 CCTTTTATAA
* * * *
22764588 TCAACTATGCTTCCTTTATAGTATACTATGGCTATGTAATCTTGACTTTT-TCTAGCCTTTGACT
1 TCAACTATGCTT-CTTTATAGTAGACTATGGCTGTGTAAACTTGACTTTTCT-TAGCCTTTAACT
22764652 TGTCAAGG
64 TGTCAAGG
* * * * *
22764660 TCAACTATGCCTCTTGTATAGCAGATTATGGCTGTGTAAACTTGACTTTTCTTATCTTTTAACTT
1 TCAACTATGCTTCTT-TATAGTAGACTATGGCTGTGTAAACTTGACTTTTCTTAGCCTTTAACTT
22764725 GTCAAGG
65 GTCAAGG
* * *
22764732 TCGACTATGCTTCCTCTATAGTTGACTATGGCTGTGTAA
1 TCAACTATGCTT-CTTTATAGTAGACTATGGCTGTGTAA
22764771 TCTTCAAGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
71 3 0.03
72 87 0.94
73 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (71 bp):
TCAACTATGCTTCTTTATAGTAGACTATGGCTGTGTAAACTTGACTTTTCTTAGCCTTTAACTTG
TCAAGG
Found at i:22766974 original size:73 final size:73
Alignment explanation
Indices: 22766831--22766975 Score: 209
Period size: 73 Copynumber: 2.0 Consensus size: 73
22766821 GCTAGTTCAG
* * * *
22766831 AAATAGAGACAACTTAATCGACTAAGGAGCATTGTTAGTCGACTAAGATCTTATTACCAAAAATT
1 AAATAGAGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACT
*
22766896 GGGTTTAA
66 AGGTTTAA
* * * *
22766904 AAATAGAGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTATGAGCTTACTGCTAGAAACT
1 AAATAGAGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACT
22766969 AGGTTTA
66 AGGTTTA
22766976 GAGACAAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (73 bp):
AAATAGAGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACT
AGGTTTAA
Found at i:22766992 original size:73 final size:73
Alignment explanation
Indices: 22766837--22767026 Score: 193
Period size: 73 Copynumber: 2.6 Consensus size: 73
22766827 TCAGAAATAG
* * * * *
22766837 AGACAACTTAATCGACTAAGGAGCATTGTTAGTCGACTAAGATCTTATTACCAAAAATTGGGTTT
1 AGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACTAGGTTT
* *
22766902 AAAAATAG
66 AAAAACAA
* * * *
22766910 AGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTATGAGCTTACTGCTAGAAACTAGGTTT
1 AGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACTAGGTTT
* *
22766975 AGAGACAA
66 AAAAACAA
** * * * *
22766983 AGATGACTTAATTGACT-AAGAAGCATAGTTTGTCAACTAAGAGC
1 AGACAACTTAATCGACTAAAG-AGCATTGTTAGTCGACTAAGAGC
22767027 ACACTGTTAG
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 3 0.03
73 93 0.97
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (73 bp):
AGACAACTTAATCGACTAAAGAGCATTGTTAGTCGACTAAGAGCTTACTACCAAAAACTAGGTTT
AAAAACAA
Found at i:22767460 original size:35 final size:35
Alignment explanation
Indices: 22767416--22767553 Score: 138
Period size: 35 Copynumber: 4.0 Consensus size: 35
22767406 GTTAGTTTTG
* ** *
22767416 GGTTTTGGTTGATTCTGTGAAAAATCATTGTTAAA
1 GGTTGTGGTTGAGCCTGTGAAAAACCATTGTTAAA
* * *
22767451 GGTTGTGGTTGAGCCTTTGAAAAGCCATT-TT--G
1 GGTTGTGGTTGAGCCTGTGAAAAACCATTGTTAAA
* * * *
22767483 GGTTTTGGGTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTGTGGTTGAGCCTGTGAAAAACCATTGTTAAA
* *
22767518 GGTTGTGGTTGAGCCTGTGAAAAGCCATTGTAAAA
1 GGTTGTGGTTGAGCCTGTGAAAAACCATTGTTAAA
22767553 G
1 G
22767554 CTTAGTGGAA
Statistics
Matches: 80, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 23 0.29
33 2 0.03
34 2 0.03
35 53 0.66
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (35 bp):
GGTTGTGGTTGAGCCTGTGAAAAACCATTGTTAAA
Found at i:22767489 original size:67 final size:67
Alignment explanation
Indices: 22767411--22767546 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
22767401 GAAAAGTTAG
* * * * *
22767411 TTTTGGGTTTTGGTTGATTCTGTGAAAAATCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAGC
1 TTTTGGGTTTTGGGTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTGTGAAAAGC
22767476 CA
66 CA
22767478 TTTTGGGTTTTGGGTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTGTGAAAAGC
1 TTTTGGGTTTTGGGTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTGTGAAAAGC
22767543 CA
66 CA
22767545 TT
1 TT
22767547 GTAAAAGCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.38
Consensus pattern (67 bp):
TTTTGGGTTTTGGGTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTGTGAAAAGC
CA
Found at i:22769919 original size:16 final size:16
Alignment explanation
Indices: 22769879--22769910 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22769869 ATAGTATTAG
22769879 CCATTTCTTTTAAAGT
1 CCATTTCTTTTAAAGT
22769895 CCATTTCTTTTAAAGT
1 CCATTTCTTTTAAAGT
22769911 TCTATTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
CCATTTCTTTTAAAGT
Found at i:22773152 original size:43 final size:42
Alignment explanation
Indices: 22773089--22773199 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
22773079 TATTGACTCG
* *
22773089 GCTATGTGCTAGTAGAGAGTGCGCATAAGCCGAG-GATGACCCA
1 GCTATGTGCGAGTAGAGAGTGCGCATAACCCG-GTGATGA-CCA
* * *
22773132 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACTA
1 GCTATGTGCGAGTAGAGAGTGCGCATAACCCGGTGATGACCA
* *
22773174 GCCATGTGCGAGTAGCGAGTGCGCAT
1 GCTATGTGCGAGTAGAGAGTGCGCAT
22773200 GAGCTGGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (42 bp):
GCTATGTGCGAGTAGAGAGTGCGCATAACCCGGTGATGACCA
Found at i:22773348 original size:24 final size:25
Alignment explanation
Indices: 22773316--22773368 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
22773306 TATTTCTTAT
*
22773316 TGGTTTTGAACATATCAAGTAGGG-
1 TGGTTTTGAACATATCAAGCAGGGA
22773340 TGGTTTTGAACATATCAAGCAGGGA
1 TGGTTTTGAACATATCAAGCAGGGA
22773365 TGGT
1 TGGT
22773369 GTGCATGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.32
Consensus pattern (25 bp):
TGGTTTTGAACATATCAAGCAGGGA
Found at i:22775690 original size:2 final size:2
Alignment explanation
Indices: 22775680--22775738 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
22775670 ACACATTTAC
*
22775680 AT AT GT 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
* *
22775722 AT AC AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT A
22775739 CCCATCATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:22776000 original size:43 final size:43
Alignment explanation
Indices: 22775766--22775999 Score: 319
Period size: 43 Copynumber: 5.4 Consensus size: 43
22775756 TAGCTCATGT
*
22775766 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGT
1 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
*
22775809 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGT
1 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
22775852 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
1 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
* ** * * *
22775895 GCATTCCCTACTCGCACATAACCGGGTCATCATCTGGTTATGC
1 GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
* ** *
22775938 ACACTCCCTACTCGCACAT-AATCGGGTCATC-CTCGGCTTATGC
1 GCACTCCCTACTCGCACATGGCT-GGGTCATCAC-CGGGTTATGC
*
22775981 ACACTCCCTACTCGCACAT
1 GCACTCCCTACTCGCACAT
22776000 AGTCGAGTCA
Statistics
Matches: 175, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 1 0.01
43 174 0.99
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGC
Found at i:22810876 original size:19 final size:20
Alignment explanation
Indices: 22810849--22810894 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
22810839 AAGAGAGAAG
*
22810849 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
22810868 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
22810887 ATAATATT
1 ATAATATT
22810895 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:22819344 original size:20 final size:20
Alignment explanation
Indices: 22819319--22819364 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
22819309 TTTTGACCCC
22819319 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
22819339 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
22819359 ATTTGA
1 ATTTGA
22819365 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:22819440 original size:28 final size:27
Alignment explanation
Indices: 22819409--22819461 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
22819399 TTTGGAGTAT
*
22819409 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
22819437 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
22819462 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:22819467 original size:28 final size:28
Alignment explanation
Indices: 22819409--22819467 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
22819399 TTTGGAGTAT
* *
22819409 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
22819437 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
22819465 AGG
1 AGG
22819468 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:22827024 original size:13 final size:13
Alignment explanation
Indices: 22827006--22827039 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22826996 AAGAATATAT
*
22827006 ATAATTTTTTAAA
1 ATAATTTATTAAA
22827019 ATAATTTATTAAA
1 ATAATTTATTAAA
*
22827032 AAAATTTA
1 ATAATTTA
22827040 GAAGTGGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTATTAAA
Found at i:22828594 original size:28 final size:28
Alignment explanation
Indices: 22828558--22828700 Score: 164
Period size: 28 Copynumber: 5.0 Consensus size: 28
22828548 AAAGATTTTG
22828558 TCTTGTCTAAATTAAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAATATGTTT
* *
22828586 TCTTGTCTAGATTAAGATAAAAAATAT-TTT
1 TCTTGTCTAAATTAAG---ACAAATATGTTT
*
22828616 TCTTGTTTTAAATTAAGACAAATA-GATTT
1 TCTTG-TCTAAATTAAGACAAATATG-TTT
*
22828645 TCTTGTCTAAATTAAGATCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAATATGTTT
* *
22828674 TCTTGTCTAAATTAAAACAAACATGTT
1 TCTTGTCTAAATTAAGACAAATATGTT
22828701 AAAGTTGCCA
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
28 42 0.42
29 32 0.32
30 9 0.09
31 16 0.16
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAATATGTTT
Found at i:22828628 original size:59 final size:58
Alignment explanation
Indices: 22828546--22828700 Score: 197
Period size: 59 Copynumber: 2.7 Consensus size: 58
22828536 TAACTAAGAC
* *
22828546 AAAAAGATTTTGTCTTGTCTAAATTAAGACAAATATGTTTTCTTGTCTAGATTAAGATA
1 AAAAATATTTT-TCTTGTCTAAATTAAGACAAATATGTTTTCTTGTCTAAATTAAGATA
* *
22828605 AAAAATATTTTTCTTGTTTTAAATTAAGACAAATA-GATTTTCTTGTCTAAATTAAGATC
1 AAAAATATTTTTCTTG-TCTAAATTAAGACAAATATG-TTTTCTTGTCTAAATTAAGATA
* * * *
22828664 AAACAT-GTTTTCTTGTCTAAATTAAAACAAACATGTT
1 AAAAATATTTTTCTTGTCTAAATTAAGACAAATATGTT
22828701 AAAGTTGCCA
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
57 17 0.20
58 15 0.18
59 52 0.62
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (58 bp):
AAAAATATTTTTCTTGTCTAAATTAAGACAAATATGTTTTCTTGTCTAAATTAAGATA
Found at i:22828648 original size:29 final size:28
Alignment explanation
Indices: 22828540--22828694 Score: 152
Period size: 29 Copynumber: 5.3 Consensus size: 28
22828530 TGTTTTTAAC
22828540 TAAGACAAAAAGATTTTGTCTTGTCTAAAT
1 TAAGACAAAAAGA-TTT-TCTTGTCTAAAT
* *
22828570 TAAGACAAATATG-TTTTCTTGTCTAGAT
1 TAAGACAAA-AAGATTTTCTTGTCTAAAT
* * *
22828598 TAAGATAAAAAATATTTTTCTTGTTTTAAAT
1 TAAGA-CAAAAAGA-TTTTCTTG-TCTAAAT
*
22828629 TAAGACAAATAGATTTTCTTGTCTAAAT
1 TAAGACAAAAAGATTTTCTTGTCTAAAT
*
22828657 TAAGATCAAACATG-TTTTCTTGTCTAAAT
1 TAAGA-CAAA-AAGATTTTCTTGTCTAAAT
*
22828686 TAAAACAAA
1 TAAGACAAA
22828695 CATGTTAAAG
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
28 32 0.31
29 37 0.36
30 23 0.22
31 12 0.12
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (28 bp):
TAAGACAAAAAGATTTTCTTGTCTAAAT
Found at i:22831134 original size:19 final size:19
Alignment explanation
Indices: 22831110--22831157 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
22831100 TCAACTGGCC
22831110 GAGGGTTTTTTAGCGGGCT
1 GAGGGTTTTTTAGCGGGCT
* *
22831129 GAGGGTTTCTTAGCTGGCT
1 GAGGGTTTTTTAGCGGGCT
22831148 GAGGGTTTTT
1 GAGGGTTTTT
22831158 CACCAAGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (19 bp):
GAGGGTTTTTTAGCGGGCT
Found at i:22831721 original size:42 final size:42
Alignment explanation
Indices: 22831665--22831789 Score: 169
Period size: 42 Copynumber: 3.0 Consensus size: 42
22831655 ACATGACTGG
*
22831665 GTCAGCATCGGCTTATGCGCACTCCTACTCGCACATAGCCGA
1 GTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCGA
* * *
22831707 GTCATCATCAGCTTATGCACACTCCTACTCGCACATAGCCGG
1 GTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCGA
* ** * *
22831749 GTCCTCATCGGAGTATGCGTACTCCTACTCGCATATAGCCG
1 GTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCG
22831790 GGTCCACATC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (42 bp):
GTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCGA
Found at i:22834509 original size:73 final size:73
Alignment explanation
Indices: 22834401--22834670 Score: 319
Period size: 73 Copynumber: 3.7 Consensus size: 73
22834391 CTGACAAAAT
* * * * * *
22834401 GCTCTTAGTCGACTAACTATGCTTCTTAGTTGATTAAGTCGTCTCTATCTTTGAACCCAATTTCT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTTGAACCCAATTTCT
22834466 AGTAGTAA
66 AGTAGTAA
* *
22834474 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTTTGTCTTTGAACCCAGTTTCT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTTGAACCCAATTTCT
*
22834539 AGCAGTAA
66 AGTAGTAA
* * * * * * *
22834547 GCTCTTAGCTGGCTAACAATACTTCTTAGTCGACTAAGTCTTCTCTGTCTGAT-AATCTAATTT-
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCT-TTGAACCCAATTTC
* * *
22834610 TTGATCGTGA
65 TAG-TAGTAA
* *
22834620 GCTTTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTATTCTCTGTCTT
1 GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTT
22834671 GTAATCTGCT
Statistics
Matches: 166, Mismatches: 29, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
72 2 0.01
73 163 0.98
74 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (73 bp):
GCTCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTTGAACCCAATTTCT
AGTAGTAA
Found at i:22837838 original size:28 final size:28
Alignment explanation
Indices: 22837732--22838005 Score: 265
Period size: 29 Copynumber: 9.8 Consensus size: 28
22837722 TTAAGACAAC
* * *
22837732 TCTTGTCTTTAATTAAGACAAAGTATGTTA
1 TCTTGTC-TAAATTAAGACAAA-CATGTTT
* * * *
22837762 TATTATCTAAATTGAGACAAACATATTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
22837790 TCTTGTCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
* *
22837819 TTTTGTCTAAATTAACACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
* *
22837848 TCTTATCTAAATTAAGACAAACATGTCT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* *
22837876 GCTTATCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
*
22837905 TCTTGTCTAAATTAAG------ATGGTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
22837927 TCTTATCTAAATTAAGACATAACATGTTCT
1 TCTTGTCTAAATTAAGACA-AACATGTT-T
*
22837957 T-TTGTCTAAATAAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
*
22837985 TCTTGTCTAAATTAAAACAAA
1 TCTTGTCTAAATTAAGACAAA
22838006 ACGTGTTAAA
Statistics
Matches: 203, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
22 20 0.10
28 50 0.25
29 125 0.62
30 8 0.04
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:22837859 original size:57 final size:57
Alignment explanation
Indices: 22837732--22838012 Score: 290
Period size: 57 Copynumber: 5.0 Consensus size: 57
22837722 TTAAGACAAC
* * * * * *
22837732 TCTTGTCTTTAATTAAGACAAAGTATGTTATATTATCTAAATTGAGAC-AAACATATTT
1 TCTTGTC-TAAATTAAGACAAA-CATGTTTTCTTATCTAAATTAAGACAAAACATGTTT
* * * *
22837790 TCTTGTCTTAAATTAAGACAAACATATTTTTTTGTCTAAATTAACACAAAACATGTTT
1 TCTTGTC-TAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGACAAAACATGTTT
* * *
22837848 TCTTATCTAAATTAAGACAAACATGTCTGCTTATCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGACAAAACATGTTT
* *
22837905 TCTTGTCTAAATTAAG------ATGGTTTCTTATCTAAATTAAGACATAACATGTTCT
1 TCTTGTCTAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGACAAAACATGTT-T
* * * *
22837957 T-TTGTCTAAATAAAGACAAAACATGTTTTCTTGTCTAAATTAAAACAAAACGTGTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTTTCTTATCTAAATTAAGACAAAACATGTT
22838013 AAAGTTGTTA
Statistics
Matches: 187, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
51 43 0.23
52 2 0.01
57 77 0.41
58 65 0.35
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAACATGTTTTCTTATCTAAATTAAGACAAAACATGTTT
Found at i:22837953 original size:51 final size:51
Alignment explanation
Indices: 22837824--22837972 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 51
22837814 TATTTTTTTG
* *
22837824 TCTAAATTAACACAAAACATGTTTTCTTATCTAAATTAAGACAAACATGTCTGCTTA
1 TCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAG------ATGTCTGCTTA
*
22837881 TCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGATGGT-TTCTTA
1 TCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGAT-GTCTGCTTA
* *
22837932 TCTAAATTAAGACATAACATGTTCTT-TTGTCTAAATAAAGA
1 TCTAAATTAAGACAAAACATGTT-TTCTTGTCTAAATTAAGA
22837973 CAAAACATGT
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
51 43 0.51
52 4 0.05
57 38 0.45
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (51 bp):
TCTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGATGTCTGCTTA
Found at i:22837975 original size:80 final size:79
Alignment explanation
Indices: 22837846--22837999 Score: 256
Period size: 80 Copynumber: 1.9 Consensus size: 79
22837836 CAAAACATGT
*
22837846 TTTCTTATCTAAATTAAGACAAACATGTCTGCTTATCTAAATTAAGACAAAACATGTTTTCTTGT
1 TTTCTTATCTAAATTAAGACAAACATGTCTGCTTATCTAAATAAAGACAAAACATGTTTTCTTGT
22837911 CTAAATTAAGATGG
66 CTAAATTAAGATGG
* *
22837925 TTTCTTATCTAAATTAAGACATAACATGTTCT-TTTGTCTAAATAAAGACAAAACATGTTTTCTT
1 TTTCTTATCTAAATTAAGACA-AACATG-TCTGCTTATCTAAATAAAGACAAAACATGTTTTCTT
22837989 GTCTAAATTAA
64 GTCTAAATTAA
22838000 AACAAAACGT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
79 21 0.30
80 46 0.66
81 3 0.04
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (79 bp):
TTTCTTATCTAAATTAAGACAAACATGTCTGCTTATCTAAATAAAGACAAAACATGTTTTCTTGT
CTAAATTAAGATGG
Found at i:22841895 original size:86 final size:86
Alignment explanation
Indices: 22841750--22841910 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 86
22841740 GTAATTATGT
* * **
22841750 TGACTCGACTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGGTTATGTGCGAGTAG
1 TGACTCGACTATGTGCGAGTAGGAAGTGCGCATAAGCCGAGGATGACCCAGCCATGTGCGAGTAG
22841815 GGAGTGCGCATAACCCGGTGA
66 GGAGTGCGCATAACCCGGTGA
*
22841836 TGACTCGATTATGTGCGAGTAGGAAGTGCGCATAA-CCTG-GTGATGACCCAGCCATGTGCGAGT
1 TGACTCGACTATGTGCGAGTAGGAAGTGCGCATAAGCC-GAG-GATGACCCAGCCATGTGCGAGT
22841899 AGGGAGTGCGCA
64 AGGGAGTGCGCA
22841911 CGAGCTGGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
85 3 0.04
86 65 0.96
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (86 bp):
TGACTCGACTATGTGCGAGTAGGAAGTGCGCATAAGCCGAGGATGACCCAGCCATGTGCGAGTAG
GGAGTGCGCATAACCCGGTGA
Found at i:22841924 original size:43 final size:42
Alignment explanation
Indices: 22841759--22841910 Score: 207
Period size: 43 Copynumber: 3.5 Consensus size: 42
22841749 TTGACTCGAC
*
22841759 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACCC-GT
*
22841802 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACTCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCG-T
* * *
22841845 TATGTGCGAGTAGGAAGTGCGCATAACCTGGTGATGACCCAGC
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCC-GT
*
22841888 CATGTGCGAGTAGGGAGTGCGCA
1 TATGTGCGAGTAGGGAGTGCGCA
22841911 CGAGCTGGTG
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.02
43 95 0.97
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (42 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGT
Found at i:22841937 original size:20 final size:20
Alignment explanation
Indices: 22841912--22841972 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
22841902 GAGTGCGCAC
22841912 GAGCTGGTGATGATGATGAT
1 GAGCTGGTGATGATGATGAT
22841932 GAGCTGGTGATGATGATGAT
1 GAGCTGGTGATGATGATGAT
* *
22841952 GGGTTGGTGA-GATGATGAT
1 GAGCTGGTGATGATGATGAT
22841971 GA
1 GA
22841973 TGGGTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
19 10 0.26
20 28 0.74
ACGTcount: A:0.25, C:0.03, G:0.43, T:0.30
Consensus pattern (20 bp):
GAGCTGGTGATGATGATGAT
Found at i:22843102 original size:26 final size:26
Alignment explanation
Indices: 22843053--22843102 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
22843043 GTTGAAAACA
*
22843053 GTTAAGTTTGTTTGAAAGACAATTCG
1 GTTAAGTTTGTTTGAAAAACAATTCG
* *
22843079 GTTATGTTTGTTTGAAAAATAATT
1 GTTAAGTTTGTTTGAAAAACAATT
22843103 ATGTTTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (26 bp):
GTTAAGTTTGTTTGAAAAACAATTCG
Found at i:22845339 original size:16 final size:17
Alignment explanation
Indices: 22845318--22845366 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
22845308 TCCACCAAGC
*
22845318 TTTTCTCTTTTC-TCTT
1 TTTTCTCTTTTCTTCCT
*
22845334 TTTTCTCCTTTCTTCCT
1 TTTTCTCTTTTCTTCCT
* *
22845351 TTCTCTCTTTACTTCC
1 TTTTCTCTTTTCTTCC
22845367 AAGTCGATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTCTCTTTTCTTCCT
Found at i:22846690 original size:11 final size:11
Alignment explanation
Indices: 22846674--22846712 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
22846664 TATTGTAAAT
22846674 TTTAAAACAAC
1 TTTAAAACAAC
22846685 TTTAAAACAAC
1 TTTAAAACAAC
* *
22846696 TTTAAACCAGC
1 TTTAAAACAAC
22846707 TTTAAA
1 TTTAAA
22846713 TCCAAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:22846731 original size:22 final size:22
Alignment explanation
Indices: 22846706--22846763 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
22846696 TTTAAACCAG
*
22846706 CTTTAAATCCAAAAACTCTAAT
1 CTTTAAAACCAAAAACTCTAAT
** *
22846728 CTTTAAAAACCAAAAGTTCTGAT
1 CTTT-AAAACCAAAAACTCTAAT
22846751 CTTTAAAACCAAA
1 CTTTAAAACCAAA
22846764 TGCTCTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTAAT
Found at i:22846770 original size:22 final size:22
Alignment explanation
Indices: 22846706--22846772 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
22846696 TTTAAACCAG
* * *
22846706 CTTTAAATCCAAAAACTCTAAT
1 CTTTAAAACCAAAAGCTCTGAT
*
22846728 CTTTAAAAACCAAAAGTTCTGAT
1 CTTT-AAAACCAAAAGCTCTGAT
*
22846751 CTTTAAAACCAAATGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
22846773 ACCAATCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:22857217 original size:13 final size:13
Alignment explanation
Indices: 22857199--22857223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22857189 TTCCAGAAAA
22857199 TTTATAAAATCAT
1 TTTATAAAATCAT
22857212 TTTATAAAATCA
1 TTTATAAAATCA
22857224 CAATTTCTCT
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):
TTTATAAAATCAT
Found at i:22857266 original size:10 final size:10
Alignment explanation
Indices: 22857251--22857276 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22857241 TAGCAATTTA
22857251 CCATTTAAAC
1 CCATTTAAAC
22857261 CCATTTAAAC
1 CCATTTAAAC
22857271 CCATTT
1 CCATTT
22857277 TCCATACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (10 bp):
CCATTTAAAC
Found at i:22858678 original size:19 final size:19
Alignment explanation
Indices: 22858654--22858691 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22858644 CTGCCAAACC
*
22858654 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
22858673 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
22858692 AGTTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:22861241 original size:19 final size:20
Alignment explanation
Indices: 22861214--22861259 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
22861204 AAGAGACAAG
*
22861214 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
22861233 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
22861252 ATAATATT
1 ATAATATT
22861260 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:22861706 original size:20 final size:20
Alignment explanation
Indices: 22861661--22861698 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22861651 TTTTGGCCCC
22861661 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
22861681 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
22861699 ATATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:22864864 original size:2 final size:2
Alignment explanation
Indices: 22864783--22864854 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
22864773 NNNNCGTTTG
22864783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22864825 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
22864855 AGCTATATAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22865282 original size:25 final size:25
Alignment explanation
Indices: 22865250--22865304 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
22865240 GGTTTGTGAT
*
22865250 ATATACGTGGCAAGGCCAAGGGTTG
1 ATATACGTGGCAAGGCCAAGAGTTG
* *
22865275 ATATACGTGGCTAGGCCACGAGTTG
1 ATATACGTGGCAAGGCCAAGAGTTG
22865300 ATATA
1 ATATA
22865305 TGTGTTTGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCAAGAGTTG
Found at i:22872976 original size:18 final size:18
Alignment explanation
Indices: 22872949--22872985 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22872939 TGGACATTTT
22872949 AGAGAAAGAAAGAAAGAG
1 AGAGAAAGAAAGAAAGAG
*
22872967 AGAGAGAGAAAGAAAGAG
1 AGAGAAAGAAAGAAAGAG
22872985 A
1 A
22872986 CTTTCCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAGAAAGAG
Found at i:22876473 original size:2 final size:2
Alignment explanation
Indices: 22876466--22876490 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22876456 ATGATGTATG
22876466 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
22876491 GTTATTGAAC
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:22880655 original size:15 final size:14
Alignment explanation
Indices: 22880611--22880656 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
22880601 AGATCAGAGA
22880611 TTTTGATTTTAAAG
1 TTTTGATTTTAAAG
*
22880625 CTTTAGATTTTAAAG
1 -TTTTGATTTTAAAG
22880640 TTTTCGATTTTAAAG
1 TTTT-GATTTTAAAG
22880655 TT
1 TT
22880657 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (14 bp):
TTTTGATTTTAAAG
Found at i:22893014 original size:13 final size:15
Alignment explanation
Indices: 22892995--22893028 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
22892985 TTTTAGTTAC
22892995 ATATTAATTA-TAAT
1 ATATTAATTATTAAT
22893009 -TATTAATTATTAAT
1 ATATTAATTATTAAT
22893023 ATATTA
1 ATATTA
22893029 TAGATAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 4 0.22
15 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTAATTATTAAT
Found at i:22893017 original size:7 final size:7
Alignment explanation
Indices: 22892996--22893028 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
22892986 TTTAGTTACA
22892996 TATTAAT
1 TATTAAT
22893003 TA-TAAT
1 TATTAAT
22893009 TATTAAT
1 TATTAAT
22893016 TATTAAT
1 TATTAAT
22893023 ATATTA
1 -TATTA
22893029 TAGATAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 13 0.54
8 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TATTAAT
Found at i:22894319 original size:14 final size:15
Alignment explanation
Indices: 22894292--22894335 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
22894282 ATCAAAATTT
*
22894292 TTTCATTTTGTTTTCC
1 TTTC-TTTTCTTTTCC
22894308 TTT-TTTTCTTTTCC
1 TTTCTTTTCTTTTCC
*
22894322 TTTCCTTTCTTTTC
1 TTTCTTTTCTTTTC
22894336 TTACTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
15 9 0.36
16 3 0.12
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCTTTTCTTTTCC
Found at i:22894319 original size:19 final size:19
Alignment explanation
Indices: 22894289--22894337 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
22894279 AAAATCAAAA
**
22894289 TTTTTTCATTTTGTTTTCCT
1 TTTTTTC-TTTTCCTTTCCT
22894309 TTTTTTCTTTTCCTTTCCT
1 TTTTTTCTTTTCCTTTCCT
22894328 TTCTTTTCTT
1 TT-TTTTCTT
22894338 ACTTCTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTCTTTTCCTTTCCT
Found at i:22895653 original size:39 final size:35
Alignment explanation
Indices: 22895601--22895693 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 35
22895591 GTGATGGTGG
*
22895601 TGTGCGGAGTGGGAGTGCACACACTGATGACATATGCCA
1 TGTGCGGTGTGGGAGTGCACACA-TGAT---ATATGCCA
*
22895640 TGTGCGGTGTGGGAGTG--CACATGATATTTGCCA
1 TGTGCGGTGTGGGAGTGCACACATGATATATGCCA
22895673 TGTGCGGTGTGGGAGTGCACA
1 TGTGCGGTGTGGGAGTGCACA
22895694 TAAGGATAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
33 24 0.48
35 2 0.04
36 4 0.08
37 4 0.08
39 16 0.32
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.25
Consensus pattern (35 bp):
TGTGCGGTGTGGGAGTGCACACATGATATATGCCA
Found at i:22897394 original size:29 final size:29
Alignment explanation
Indices: 22897355--22897413 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
22897345 ATTAAATCCC
* *
22897355 TTATCATTATCTCTTT-ATTTTATCTTATT
1 TTATCATTATCT-TTTAATCTAATCTTATT
*
22897384 TTATCCTTATCTTTTAATCTAATCTTATT
1 TTATCATTATCTTTTAATCTAATCTTATT
22897413 T
1 T
22897414 AATAAAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (29 bp):
TTATCATTATCTTTTAATCTAATCTTATT
Found at i:22898044 original size:56 final size:55
Alignment explanation
Indices: 22897942--22898075 Score: 128
Period size: 56 Copynumber: 2.4 Consensus size: 55
22897932 ATTTTCGTTC
* ** *
22897942 CAACGGAA-AATTCCGTTGGAAATTTCCAACAAAAAGTTCTGCTGGAAATGCTTTTT
1 CAAC-GAATAATTTCGTTGGAAATTTCCAACAAAAAGTTCCACTGGAAA-GCGTTTT
* * ** *
22897998 TAACGAATAATTTCGTTGGAAATTTTCAACGGAAAGTTCCATTGGAAAGCGTTTT
1 CAACGAATAATTTCGTTGGAAATTTCCAACAAAAAGTTCCACTGGAAAGCGTTTT
* *
22898053 CGACGGATAA-TTCTGTTGGAAAT
1 CAACGAATAATTTC-GTTGGAAAT
22898076 GTGTTTTCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 3 0.05
55 25 0.39
56 36 0.56
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (55 bp):
CAACGAATAATTTCGTTGGAAATTTCCAACAAAAAGTTCCACTGGAAAGCGTTTT
Found at i:22898170 original size:24 final size:25
Alignment explanation
Indices: 22898093--22898185 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 25
22898083 CAAAGGCAAA
* *
22898093 TTTCGTTGGAAATTTCCAACAGACT
1 TTTCGTTGGAAATTTCCAACGGAAT
* *
22898118 TTTCGGTCCGAAAGGCATTTCCAACGGAAT
1 TTTC-GT-TGGAA---ATTTCCAACGGAAT
* *
22898148 TTT-GTTGGAAATTTGCAATGGAAT
1 TTTCGTTGGAAATTTCCAACGGAAT
22898172 TTTCCGTTGGAAAT
1 TTT-CGTTGGAAAT
22898186 GCTTTTCCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
24 15 0.28
25 4 0.08
26 11 0.21
27 6 0.11
28 2 0.04
30 15 0.28
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (25 bp):
TTTCGTTGGAAATTTCCAACGGAAT
Found at i:22898175 original size:54 final size:54
Alignment explanation
Indices: 22898090--22898204 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
22898080 TTTCAAAGGC
* * *
22898090 AAATTTCGTTGGAAATTTCCAACAGACTTTTCGGTCCGAAAGGCATTTCCAACG
1 AAATTTTGTTGGAAATTTCCAACAGAATTTTCCGTCCGAAAGGCATTTCCAACG
* * ** ** * *
22898144 GAATTTTGTTGGAAATTTGCAATGGAATTTTCCGTTGGAAATGCTTTTCCAACG
1 AAATTTTGTTGGAAATTTCCAACAGAATTTTCCGTCCGAAAGGCATTTCCAACG
22898198 AAATTTT
1 AAATTTT
22898205 CCGTTACTAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
AAATTTTGTTGGAAATTTCCAACAGAATTTTCCGTCCGAAAGGCATTTCCAACG
Found at i:22910773 original size:3 final size:3
Alignment explanation
Indices: 22910731--22910787 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
22910721 CACAACAAGT
* * ** * * *
22910731 TTC TTC ATC TTC GTC TTC AAC TTC TTT TTT TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
22910779 TTC TTC TTC
1 TTC TTC TTC
22910788 ATCTCCTTCC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.05, C:0.28, G:0.02, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:22910808 original size:30 final size:30
Alignment explanation
Indices: 22910774--22910849 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
22910764 TTTTTCTTCT
* *
22910774 TCTTCTTCTTCTTCATCTCCTTCCATGTCA
1 TCTTCTTCATCTTCATCTCCTTCCATATCA
**
22910804 TCTTCTTCATCTTCATCTCCTTGTATATCA
1 TCTTCTTCATCTTCATCTCCTTCCATATCA
*
22910834 TCTTCTTCATCCTCAT
1 TCTTCTTCATCTTCAT
22910850 TCAAAAGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.13, C:0.34, G:0.03, T:0.50
Consensus pattern (30 bp):
TCTTCTTCATCTTCATCTCCTTCCATATCA
Found at i:22910849 original size:15 final size:15
Alignment explanation
Indices: 22910768--22910849 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
22910758 TTTTTCTTTT
* *
22910768 TCTTCTTCTTCTTCT
1 TCTTCATCTTCTTCA
*
22910783 TCTTCATCTCCTTCCA
1 TCTTCATCTTCTT-CA
*
22910799 T-GTCATCTTCTTCA
1 TCTTCATCTTCTTCA
* *
22910813 TCTTCATCTCCTTGTA
1 TCTTCATCTTCTT-CA
*
22910829 T-ATCATCTTCTTCA
1 TCTTCATCTTCTTCA
*
22910843 TCCTCAT
1 TCTTCAT
22910850 TCAAAAGATT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 5 0.10
15 42 0.82
16 4 0.08
ACGTcount: A:0.12, C:0.34, G:0.02, T:0.51
Consensus pattern (15 bp):
TCTTCATCTTCTTCA
Found at i:22912597 original size:17 final size:17
Alignment explanation
Indices: 22912575--22912607 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22912565 AAATGAGACT
22912575 TGCTCCCCCTAAGTGTA
1 TGCTCCCCCTAAGTGTA
*
22912592 TGCTCCCCCTTAGTGT
1 TGCTCCCCCTAAGTGT
22912608 GTGCGTATTT
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:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGTA
Found at i:22916964 original size:61 final size:60
Alignment explanation
Indices: 22916870--22916983 Score: 201
Period size: 61 Copynumber: 1.9 Consensus size: 60
22916860 AAAGGTGTTG
* *
22916870 TAACCTTTTAGTTTAGTTCATCAAAGTACTCAGATAAACTAGTTTGGATTTCTGGTGCTA
1 TAACCTTTTAGTTTAATTCATCAAAGTACTCAGATAAACTAGTCTGGATTTCTGGTGCTA
22916930 TAACCTTTTAGTTTCAATTCATCAAAGTACTCAGATAAACTAGTCTGGATTTCT
1 TAACCTTTTAGTTT-AATTCATCAAAGTACTCAGATAAACTAGTCTGGATTTCT
22916984 ACATTTTCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
60 14 0.27
61 37 0.73
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (60 bp):
TAACCTTTTAGTTTAATTCATCAAAGTACTCAGATAAACTAGTCTGGATTTCTGGTGCTA
Found at i:22936403 original size:43 final size:43
Alignment explanation
Indices: 22936355--22936473 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
22936345 TCACCAGCTC
** * **
22936355 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAACGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAACGACTT
**
22936398 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCCCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAACGACTT
* * *
22936441 ATGCGCACTCCTTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
22936474 ATATAATTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAACGACTT
Found at i:22947700 original size:20 final size:20
Alignment explanation
Indices: 22947675--22947720 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
22947665 TTTTGACCCC
22947675 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
22947695 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
22947715 ATTTGA
1 ATTTGA
22947721 GGTTTATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:22948971 original size:17 final size:19
Alignment explanation
Indices: 22948949--22948983 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22948939 TAAATTTTCA
22948949 TGTTTT-ATGAA-TAAATG
1 TGTTTTAATGAATTAAATG
22948966 TGTTTTAATGAATTAAAT
1 TGTTTTAATGAATTAAAT
22948984 TATAAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (19 bp):
TGTTTTAATGAATTAAATG
Found at i:22959318 original size:13 final size:14
Alignment explanation
Indices: 22959300--22959328 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22959290 CAAATATAAG
22959300 TTTT-AAAAATATT
1 TTTTAAAAAATATT
22959313 TTTTAAAAAATATT
1 TTTTAAAAAATATT
22959327 TT
1 TT
22959329 ACATCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:22964620 original size:35 final size:35
Alignment explanation
Indices: 22964535--22964624 Score: 128
Period size: 34 Copynumber: 2.6 Consensus size: 35
22964525 AATACTTTTT
* *
22964535 CAAGGCTCAAGCATAACCTTTACAATACCTTTTCA
1 CAAGGATCAAGCACAACCTTTACAATACCTTTTCA
* * *
22964570 -TAGAATCAAGCACAACCTTTACAATGCCTTTTCA
1 CAAGGATCAAGCACAACCTTTACAATACCTTTTCA
22964604 CAAGGATCAAGCACAACCTTT
1 CAAGGATCAAGCACAACCTTT
22964625 CTACCTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 29 0.62
35 18 0.38
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.27
Consensus pattern (35 bp):
CAAGGATCAAGCACAACCTTTACAATACCTTTTCA
Found at i:22970650 original size:34 final size:34
Alignment explanation
Indices: 22970587--22970716 Score: 136
Period size: 34 Copynumber: 3.7 Consensus size: 34
22970577 CTATTGTTGA
*
22970587 AAGGTTTCACTTGATCTCATGAAAAAGCTATTGT
1 AAGGTTTCACTTGATCTCATAAAAAAGCTATTGT
* * *
22970621 AAGGCTTTCTCTTGATCTCGT-AAAAAGCTATTAT
1 AAGG-TTTCACTTGATCTCATAAAAAAGCTATTGT
** * * *
22970655 AAGGATTTTGCTTGATCTCGTAAAAAAAACTCTTGT
1 AAGG-TTTCACTTGATCTCAT-AAAAAAGCTATTGT
22970691 GAAGGTTTCACTTGATCTCATAAAAA
1 -AAGGTTTCACTTGATCTCATAAAAA
22970717 GTTTGTTTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
34 34 0.43
35 19 0.24
36 23 0.29
37 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (34 bp):
AAGGTTTCACTTGATCTCATAAAAAAGCTATTGT
Found at i:22976451 original size:34 final size:34
Alignment explanation
Indices: 22976358--22976452 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 34
22976348 AATGGTTTTG
* * *
22976358 CTTGATCTCGTGAAAAAG-TATTGTAAAGATTTCA
1 CTTGATCTAGT-AAAAAGCTATTATAAGGATTTCA
* * *
22976392 CTTGATCCCAAG-AAAAAGC-AATATAAGGGTTTCA
1 CTTGAT--CTAGTAAAAAGCTATTATAAGGATTTCA
22976426 CTTGATCTAGTAAAAAGCTATTATAAG
1 CTTGATCTAGTAAAAAGCTATTATAAG
22976453 ATCTTGTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
32 3 0.06
33 7 0.15
34 36 0.75
36 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (34 bp):
CTTGATCTAGTAAAAAGCTATTATAAGGATTTCA
Found at i:22976468 original size:22 final size:23
Alignment explanation
Indices: 22976429--22976471 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22976419 GGTTTCACTT
22976429 GATCTAGTAAAAAGCTATTATAA
1 GATCTAGTAAAAAGCTATTATAA
*
22976452 GATCTTGTAAAAA-CTATTAT
1 GATCTAGTAAAAAGCTATTAT
22976472 GACAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (23 bp):
GATCTAGTAAAAAGCTATTATAA
Found at i:22981682 original size:19 final size:20
Alignment explanation
Indices: 22981643--22981682 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22981633 GAGAAGAAAC
* *
22981643 AATTCTAAAGCTTGATGCTA
1 AATTCTAAAGCTAGATACTA
22981663 AATT-TAAAGCTAGATACTA
1 AATTCTAAAGCTAGATACTA
22981682 A
1 A
22981683 TTGAGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATTCTAAAGCTAGATACTA
Found at i:22983070 original size:16 final size:17
Alignment explanation
Indices: 22983051--22983083 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22983041 GTCTTCAATC
22983051 ATTAAA-GTCAAGTAAG
1 ATTAAATGTCAAGTAAG
*
22983067 ATTAAATGTCATGTAAG
1 ATTAAATGTCAAGTAAG
22983084 TATGTGACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
ATTAAATGTCAAGTAAG
Found at i:22984811 original size:13 final size:13
Alignment explanation
Indices: 22984793--22984817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22984783 AGAGAAATTG
22984793 TGATTTTATAAAA
1 TGATTTTATAAAA
22984806 TGATTTTATAAA
1 TGATTTTATAAA
22984818 TTTTTTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:22990598 original size:228 final size:228
Alignment explanation
Indices: 22990201--22990651 Score: 663
Period size: 228 Copynumber: 2.0 Consensus size: 228
22990191 ATAGGATTAA
* * *
22990201 AATACAAGTGTAAAAGAGAAGGTTTTTGCTCTTCTAAGCTCTTTCAAACTTTTTAAAACTTCTTT
1 AATACAAGTGTAAAAGAGAAGGTTTTTACTCTTCTAAGCTCTTCCAAACTCTTTAAAACTTCTTT
* ** *
22990266 TTTTCATTTTTGACTATTGGAGAGGCTTTAAATACTTGAAAAATCACTTCTGACCATTAGAGACA
66 TTTTCATTTTTGAATATTAAAGAGGCTTTAAATACTTGAAAAATCAATTCTGACCATTAGAGACA
* *
22990331 AAAACTAGTCGTTATAAACAGTTTCGACTCGTTATTTTGTCCTTTTGTGCTTAAATTCAAATACG
131 AAAACTAGTCATTACAAACAGTTTCGACTCGTTATTTTGTCCTTTTGTGCTTAAATTCAAATACG
*
22990396 CAGATAATGTTCTATTAACTAGTTAAAGCGTGG
196 CAAATAATGTTCTATTAACTAGTTAAAGCGTGG
* **
22990429 AATACAAGTGTAAAAGAGAAGGTTTTTACTCTTTTAAGCTCTTCCAAACTCTTTGGAACTTCTTT
1 AATACAAGTGTAAAAGAGAAGGTTTTTACTCTTCTAAGCTCTTCCAAACTCTTTAAAACTTCTTT
* * *
22990494 TTTTCATTTTTGAATGTTAAAGAGGCTTTAAATACTTGAAAAATCAATTCTGGCCATTGGAGACA
66 TTTTCATTTTTGAATATTAAAGAGGCTTTAAATACTTGAAAAATCAATTCTGACCATTAGAGACA
* ** *
22990559 AAAACTAG-CTATTACAAATAGTTTTTAC-CAGTTATTTTGTCCTTTTGTGCTTAAATTCAAATG
131 AAAACTAGTC-ATTACAAACAGTTTCGACTC-GTTATTTTGTCCTTTTGTGCTTAAATTCAAATA
* * *
22990622 TGCAAATAGTGTTCTGTTAACTAGTTAAAG
194 CGCAAATAATGTTCTATTAACTAGTTAAAG
22990652 GTAAGCTTTA
Statistics
Matches: 198, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
227 2 0.01
228 196 0.99
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (228 bp):
AATACAAGTGTAAAAGAGAAGGTTTTTACTCTTCTAAGCTCTTCCAAACTCTTTAAAACTTCTTT
TTTTCATTTTTGAATATTAAAGAGGCTTTAAATACTTGAAAAATCAATTCTGACCATTAGAGACA
AAAACTAGTCATTACAAACAGTTTCGACTCGTTATTTTGTCCTTTTGTGCTTAAATTCAAATACG
CAAATAATGTTCTATTAACTAGTTAAAGCGTGG
Found at i:22993414 original size:43 final size:40
Alignment explanation
Indices: 22993367--22993446 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
22993357 TAAAAATAAA
22993367 AATTATTTCTATTTTTATTATTTTATATTTTTTAATAATTAGG
1 AATTATTTCTA-TTTT-TTATTTTATATTTTTT-ATAATTAGG
* *
22993410 AATTATTTTTATTTTTTATTTTTTATTTTTTATAATT
1 AATTATTTCTATTTTTTATTTTATATTTTTTATAATT
22993447 TCTAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 6 0.17
41 15 0.43
42 4 0.11
43 10 0.29
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.69
Consensus pattern (40 bp):
AATTATTTCTATTTTTTATTTTATATTTTTTATAATTAGG
Found at i:22993425 original size:7 final size:7
Alignment explanation
Indices: 22993415--22993442 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22993405 TTAGGAATTA
22993415 TTTTTAT
1 TTTTTAT
22993422 TTTTTAT
1 TTTTTAT
22993429 TTTTTAT
1 TTTTTAT
22993436 TTTTTAT
1 TTTTTAT
22993443 AATTTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:22993442 original size:50 final size:52
Alignment explanation
Indices: 22993378--22993476 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 52
22993368 ATTATTTCTA
* * * **
22993378 TTTTTATTATTTTATATTTTTTAATAATT-AGGAATTATTTTTATTTTTTAT
1 TTTTTATTATTTTATAATTTCTAAAAATTAAAAAATTATTTTTATTTTTTAT
22993429 TTTTTATT-TTTTATAATTTCTAAAAATTAAAAAATTATTTTTATTTTT
1 TTTTTATTATTTTATAATTTCTAAAAATTAAAAAATTATTTTTATTTTT
22993477 CAAAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 17 0.40
51 25 0.60
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (52 bp):
TTTTTATTATTTTATAATTTCTAAAAATTAAAAAATTATTTTTATTTTTTAT
Found at i:22993457 original size:43 final size:43
Alignment explanation
Indices: 22993344--22993446 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
22993334 TTTTTAATCT
* *
22993344 TTTTATAATTTCTTAA-AAATAAAAATTATTTCTATTTTTATTA
1 TTTTAT-ATTTTTTAATAATTAAAAATTATTTCTATTTTTATTA
** *
22993387 TTTTATATTTTTTAATAATTAGGAATTATTTTTA-TTTT-TTA
1 TTTTATATTTTTTAATAATTAAAAATTATTTCTATTTTTATTA
*
22993428 TTTTTTATTTTTT-ATAATT
1 TTTTATATTTTTTAATAATT
22993447 TCTAAAAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 6 0.11
41 15 0.28
42 12 0.23
43 20 0.38
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (43 bp):
TTTTATATTTTTTAATAATTAAAAATTATTTCTATTTTTATTA
Found at i:22993476 original size:43 final size:43
Alignment explanation
Indices: 22993334--22993476 Score: 119
Period size: 50 Copynumber: 3.1 Consensus size: 43
22993324 TTTTATGGAT
*
22993334 TTTTTAATCTTTTTATAATTTCTTAAAAA-T-AAAAATTATTTCTA
1 TTTTT-AT-TTTTTATAATTTC-TAAAAATTAAAAAATTATTTTTA
* * * **
22993378 TTTTTATTATTTTATATTTTTTAATAATTAGGAATTATTTTTATTTTTTA
1 TTTTTATT-TTTTATAATTTCTAAAAATTA--AA--A-AATTA-TTTTTA
22993428 TTTTTTATTTTTTATAATTTCTAAAAATTAAAAAATTATTTTTA
1 -TTTTTATTTTTTATAATTTCTAAAAATTAAAAAATTATTTTTA
22993472 TTTTT
1 TTTTT
22993477 CAAAAATTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.08
43 18 0.23
44 11 0.14
45 3 0.04
46 3 0.04
48 3 0.04
49 3 0.04
50 23 0.29
51 8 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (43 bp):
TTTTTATTTTTTATAATTTCTAAAAATTAAAAAATTATTTTTA
Found at i:22993497 original size:28 final size:28
Alignment explanation
Indices: 22993433--22993512 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
22993423 TTTTATTTTT
* *
22993433 TATTTTTTATAATTTCTAAAAATTAAAAAA
1 TATTTTTTAT-TTTTC-AAAAATTTAAAAA
*
22993463 T-TATTTTTATTTTTCAAAAATTTAAAAG
1 TAT-TTTTTATTTTTCAAAAATTTAAAAA
* *
22993491 TATTTTTAATTCTT-AAAAATTT
1 TATTTTTTATTTTTCAAAAATTT
22993513 TTCAAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 8 0.19
28 21 0.49
29 6 0.14
30 8 0.19
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (28 bp):
TATTTTTTATTTTTCAAAAATTTAAAAA
Found at i:22993508 original size:27 final size:26
Alignment explanation
Indices: 22993449--22993512 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
22993439 TTATAATTTC
* * *
22993449 TAAAAATTAAAAAATTATTTTTATTTT
1 TAAAAATT-TAAAAGTATTTTTATTCT
22993476 TCAAAAATTTAAAAGTATTTTTAATTCT
1 T-AAAAATTTAAAAGTATTTTT-ATTCT
22993504 TAAAAATTT
1 TAAAAATTT
22993513 TTCAAAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAAATTTAAAAGTATTTTTATTCT
Found at i:22994887 original size:26 final size:24
Alignment explanation
Indices: 22994830--22994887 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
22994820 AATTTTCAAC
*
22994830 ATATGTAATTAAATCTTTAACATG
1 ATATATAATTAAATCTTTAACATG
* * *
22994854 ACATATAATTACATCTTTTATCTATG
1 ATATATAATTAAATC-TTTAAC-ATG
22994880 ATATATAA
1 ATATATAA
22994888 AAATTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 12 0.44
25 5 0.19
26 10 0.37
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (24 bp):
ATATATAATTAAATCTTTAACATG
Found at i:22994990 original size:27 final size:28
Alignment explanation
Indices: 22994889--22994993 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 28
22994879 GATATATAAA
* *
22994889 AATTAAATTTTCAATATAACGTGTAACT
1 AATTAAATTTTCAACATAACATGTAACT
* *
22994917 ACATT---TTTT-AATATAACATATAAC-
1 A-ATTAAATTTTCAACATAACATGTAACT
* **
22994941 AATCAAATTTTTTACATAACATGT-ACT
1 AATTAAATTTTCAACATAACATGTAACT
22994968 AATTAAATTTTCAACATAACATGTAA
1 AATTAAATTTTCAACATAACATGTAA
22994994 TTACATTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
23 2 0.03
24 1 0.02
25 13 0.21
26 10 0.16
27 30 0.49
28 2 0.03
29 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTAAATTTTCAACATAACATGTAACT
Found at i:22995037 original size:79 final size:79
Alignment explanation
Indices: 22994889--22995037 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 79
22994879 GATATATAAA
* * * * **
22994889 AATTAAATTTTCAATATAACGTGTAACTACATTTTTTAATATAACATATAACAATCAAATTTTTT
1 AATTAAATTTTCAACATAACATGTAACTACATTTTTCAACATAACATATAACAATCAAATTTTCA
22994954 ACATAACATGTACT
66 ACATAACATGTACT
* * * * * *
22994968 AATTAAATTTTCAACATAACATGTAATTACATTTTTCGACATTACATATAACTATTATATTTTCA
1 AATTAAATTTTCAACATAACATGTAACTACATTTTTCAACATAACATATAACAATCAAATTTTCA
22995033 ACATA
66 ACATA
22995038 TAACTGCATT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.41
Consensus pattern (79 bp):
AATTAAATTTTCAACATAACATGTAACTACATTTTTCAACATAACATATAACAATCAAATTTTCA
ACATAACATGTACT
Found at i:22996432 original size:17 final size:17
Alignment explanation
Indices: 22996410--22996442 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22996400 CAAAGTTTTT
22996410 TAAATA-TATTATATATA
1 TAAATATTATTA-ATATA
22996427 TAAATATTATTAATAT
1 TAAATATTATTAATAT
22996443 TATTAATAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATATTATTAATATA
Found at i:23010157 original size:16 final size:16
Alignment explanation
Indices: 23010138--23010168 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23010128 ACACACACAC
23010138 ACACACACACATATAT
1 ACACACACACATATAT
*
23010154 ACACATACACATATA
1 ACACACACACATATA
23010169 ACGTACTCAA
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:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (16 bp):
ACACACACACATATAT
Found at i:23010404 original size:13 final size:13
Alignment explanation
Indices: 23010368--23010408 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
23010358 ATTTTATCTA
*
23010368 AATAATTAAAATT
1 AATAATTAAAACT
23010381 AA-AATTAAAACT
1 AATAATTAAAACT
*
23010393 AATAACTAAAACT
1 AATAATTAAAACT
23010406 AAT
1 AAT
23010409 CTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATTAAAACT
Found at i:23014348 original size:22 final size:22
Alignment explanation
Indices: 23014320--23014362 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23014310 TTAATAATAA
*
23014320 GTGACAAGATATCATCAACATT
1 GTGACAAAATATCATCAACATT
23014342 GTGACAAAATATCATCAACAT
1 GTGACAAAATATCATCAACAT
23014363 ATCATCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (22 bp):
GTGACAAAATATCATCAACATT
Found at i:23024123 original size:2 final size:2
Alignment explanation
Indices: 23024116--23024189 Score: 67
Period size: 2 Copynumber: 36.5 Consensus size: 2
23024106 ATATAACATA
* * * * * * * *
23024116 TG TG TG TG TG TG TG TG TG TG CG TG TG TG CG TT TA TA TA TA TAN
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T-G
23024159 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23024190 TATATATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 62 0.98
3 1 0.02
ACGTcount: A:0.07, C:0.03, G:0.41, T:0.49
Consensus pattern (2 bp):
TG
Found at i:23024195 original size:2 final size:2
Alignment explanation
Indices: 23024190--23024225 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23024180 GTGTGTGTGT
23024190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23024226 ATTTACTAGC
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):
TA
Found at i:23025760 original size:37 final size:37
Alignment explanation
Indices: 23025706--23025815 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
23025696 CATATACATA
* *
23025706 CATCGTCATCATGTGTGCACTCCTTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
* * *
23025743 TATTATCATCATGTGTGCACTCCCTACTCACACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
23025780 CATCATCATCATGTGTGCACTCCCTACTCGCACACT
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACT
23025816 TTAACATCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.30
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:23032277 original size:20 final size:20
Alignment explanation
Indices: 23032252--23032297 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23032242 ATTTGGCCCC
* *
23032252 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
23032272 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
23032292 ATTTGA
1 ATTTGA
23032298 AGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:23033549 original size:13 final size:13
Alignment explanation
Indices: 23033531--23033555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23033521 AGATAAATTG
23033531 TGATTTTATAAAA
1 TGATTTTATAAAA
23033544 TGATTTTATAAA
1 TGATTTTATAAA
23033556 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23038168 original size:20 final size:20
Alignment explanation
Indices: 23038143--23038188 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23038133 TTTTGGCCCC
* *
23038143 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
23038163 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
23038183 ATTTGA
1 ATTTGA
23038189 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:23038189 original size:20 final size:20
Alignment explanation
Indices: 23038152--23038189 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23038142 CATTTGACTT
*
23038152 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
23038172 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
23038190 GTTTAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Found at i:23039439 original size:13 final size:13
Alignment explanation
Indices: 23039421--23039445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23039411 GGATAAATTG
23039421 TGATTTTATAAAA
1 TGATTTTATAAAA
23039434 TGATTTTATAAA
1 TGATTTTATAAA
23039446 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23052023 original size:35 final size:34
Alignment explanation
Indices: 23051977--23052113 Score: 175
Period size: 35 Copynumber: 3.9 Consensus size: 34
23051967 ACTTAGCCAA
* * * *
23051977 TGTGCACTCCCTACACGCACAAGGCAATATCATTG
1 TGTGCACTCCCTACTCGCACAA-TCAACATCATCG
* *
23052012 TGTGCACTCCCTACTCGCATACTTCAACATCATCG
1 TGTGCACTCCCTACTCGCACA-ATCAACATCATCG
*
23052047 TGTGCACTGCCTACTCGCACACATCAACATCATCG
1 TGTGCACTCCCTACTCGCACA-ATCAACATCATCG
23052082 TGTGCACTCCCTACTCGCACACATCAACATCA
1 TGTGCACTCCCTACTCGCACA-ATCAACATCA
23052114 CTATCCACAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.24
Consensus pattern (34 bp):
TGTGCACTCCCTACTCGCACAATCAACATCATCG
Found at i:23052090 original size:70 final size:70
Alignment explanation
Indices: 23051977--23052113 Score: 195
Period size: 70 Copynumber: 2.0 Consensus size: 70
23051967 ACTTAGCCAA
* * * *
23051977 TGTGCACTCCCTACACGCACAAGGCAATATCATTGTGTGCACTCCCTACTCGCATACTTCAACAT
1 TGTGCACTCCCTACACGCACAAGGCAACATCATCGTGTGCACTCCCTACTCGCACACATCAACAT
23052042 CATCG
66 CATCG
* * *
23052047 TGTGCACTGCCTACTCGCACACA-TCAACATCATCGTGTGCACTCCCTACTCGCACACATCAACA
1 TGTGCACTCCCTACACGCACA-AGGCAACATCATCGTGTGCACTCCCTACTCGCACACATCAACA
23052111 TCA
65 TCA
23052114 CTATCCACAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 58 0.98
71 1 0.02
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.24
Consensus pattern (70 bp):
TGTGCACTCCCTACACGCACAAGGCAACATCATCGTGTGCACTCCCTACTCGCACACATCAACAT
CATCG
Found at i:23054088 original size:33 final size:33
Alignment explanation
Indices: 23054050--23054126 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
23054040 GGCTTAATTG
23054050 CAACCCACAACTGT-CTTTTCACAAGAGC-AGTCA
1 CAACCCACAA-TGTCCTTTTCACAAGAGCAAG-CA
* * *
23054083 CAACCCATAATTTCCTTTTCACGAGAGCAAGCA
1 CAACCCACAATGTCCTTTTCACAAGAGCAAGCA
*
23054116 TAACCCACAAT
1 CAACCCACAAT
23054127 TGCTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.35, C:0.32, G:0.10, T:0.22
Consensus pattern (33 bp):
CAACCCACAATGTCCTTTTCACAAGAGCAAGCA
Found at i:23055340 original size:2 final size:2
Alignment explanation
Indices: 23055333--23055381 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
23055323 AACTTTATTT
*
23055333 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23055375 TA TA TA T
1 TA TA TA T
23055382 TCTTGTTTAG
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:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23055566 original size:18 final size:18
Alignment explanation
Indices: 23055543--23055604 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
23055533 GAAGAAGTTA
23055543 ATCAAAGAATTTTTTAAT
1 ATCAAAGAATTTTTTAAT
*
23055561 ATCAAAGATTATTATTTT-GT
1 ATCAAAGA--ATT-TTTTAAT
* * *
23055581 TTCAAAAAAATTTTTAAT
1 ATCAAAGAATTTTTTAAT
23055599 ATCAAA
1 ATCAAA
23055605 TACTACTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.12
18 16 0.47
20 10 0.29
21 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (18 bp):
ATCAAAGAATTTTTTAAT
Found at i:23055595 original size:38 final size:38
Alignment explanation
Indices: 23055544--23055660 Score: 146
Period size: 38 Copynumber: 3.1 Consensus size: 38
23055534 AAGAAGTTAA
* * *
23055544 TCAAAGAATTTTTTAATATCAAAGATTATTATTTTGTT
1 TCAAAAAAATTTTTAATATCAAAGATTACTATTTTGTT
* *
23055582 TCAAAAAAATTTTTAATATCAAATACTACTATTTTGTT
1 TCAAAAAAATTTTTAATATCAAAGATTACTATTTTGTT
* * *
23055620 T-TAAAGAATTTTTATACATCAAAGATTACTATTTTGTT
1 TCAAAAAAATTTTTA-ATATCAAAGATTACTATTTTGTT
23055658 TCA
1 TCA
23055661 TTATAGTTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 11 0.17
38 55 0.83
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (38 bp):
TCAAAAAAATTTTTAATATCAAAGATTACTATTTTGTT
Found at i:23061568 original size:18 final size:18
Alignment explanation
Indices: 23061532--23061574 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23061522 TAGTATTAAA
*
23061532 AATATAAATATAAATAAT
1 AATATAAATATAAAAAAT
23061550 AATATAAAT-TAAACAAAT
1 AATATAAATATAAA-AAAT
23061568 AA-ATAAA
1 AATATAAA
23061575 CTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATAAATATAAAAAAT
Found at i:23061701 original size:2 final size:2
Alignment explanation
Indices: 23061694--23061718 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23061684 GGCTCCATAA
23061694 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 A
23061719 AAATAAAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23062999 original size:33 final size:33
Alignment explanation
Indices: 23062924--23063001 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
23062914 AAATTAAAGC
*
23062924 AATTGTGGGTTATGCTTGCTCTCGTGAAAAGGA
1 AATTGTGGGTTGTGCTTGCTCTCGTGAAAAGGA
* *
23062957 AATTATGGGTTGTGAC-TGCTCTTGTGAAAA-GA
1 AATTGTGGGTTGTG-CTTGCTCTCGTGAAAAGGA
*
23062989 CAGTTGTGGGTTG
1 -AATTGTGGGTTG
23063002 CAATTAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
33 35 0.92
34 1 0.03
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (33 bp):
AATTGTGGGTTGTGCTTGCTCTCGTGAAAAGGA
Found at i:23076634 original size:15 final size:15
Alignment explanation
Indices: 23076616--23076651 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
23076606 GATATTTTAG
23076616 TTTTAAAGCTTTTGA
1 TTTTAAAGCTTTTGA
*
23076631 TTTTAAAGTTTTTGA
1 TTTTAAAGCTTTTGA
23076646 TTTTAA
1 TTTTAA
23076652 GGTTGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (15 bp):
TTTTAAAGCTTTTGA
Found at i:23076737 original size:5 final size:5
Alignment explanation
Indices: 23076697--23076736 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
23076687 CCCTAAGTCC
* *
23076697 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
23076737 GATTTAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Found at i:23081070 original size:20 final size:20
Alignment explanation
Indices: 23081045--23081090 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
23081035 TTTTGGCCCC
23081045 ATTTGACTCATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
* *
23081065 ATTTGACTTATTGGAGTATG
1 ATTTGACTCATTGGAGTATA
23081085 ATTTGA
1 ATTTGA
23081091 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:23081189 original size:27 final size:28
Alignment explanation
Indices: 23081137--23081189 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23081127 CAGAGTATAG
*
23081137 GGGCAAAATCGTAATTTTTTCATCCCGA
1 GGGCAAAATCGTAAATTTTTCATCCCGA
23081165 GGGC-AAATCGGTAAATTTTTC-TCCC
1 GGGCAAAATC-GTAAATTTTTCATCCC
23081190 CAACACTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (28 bp):
GGGCAAAATCGTAAATTTTTCATCCCGA
Found at i:23084430 original size:18 final size:19
Alignment explanation
Indices: 23084407--23084443 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23084397 ACCTTCTATG
*
23084407 ATAATTT-TAATAAAAATT
1 ATAATTTATAAAAAAAATT
23084425 ATAATTTATAAAAAAAATT
1 ATAATTTATAAAAAAAATT
23084444 TATGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTTATAAAAAAAATT
Found at i:23084445 original size:13 final size:14
Alignment explanation
Indices: 23084427--23084459 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23084417 TAAAAATTAT
23084427 AATTTAT-AAAAAA
1 AATTTATGAAAAAA
*
23084440 AATTTATGAAAAGA
1 AATTTATGAAAAAA
23084454 AATTTA
1 AATTTA
23084460 CCAAACAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATTTATGAAAAAA
Found at i:23096225 original size:2 final size:2
Alignment explanation
Indices: 23096168--23096206 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23096158 AAATTGATTT
23096168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23096207 TTCAATCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23096497 original size:59 final size:59
Alignment explanation
Indices: 23096425--23096558 Score: 243
Period size: 59 Copynumber: 2.3 Consensus size: 59
23096415 GTTTAACAAA
23096425 AATTAAATAAACTCTTATTCTTTTATTGTGTTCAATCAAGCTCTTATGA-TTTTCTTTTG
1 AATTAAATAAACTCTTATTCTTTTATTGTGTTCAATCAAGCTCTTAT-ACTTTTCTTTTG
*
23096484 AATTAAATAAACTCTTATTCTTTTGTTGTGTTCAATCAAGCTCTTATACTTTTCTTTTG
1 AATTAAATAAACTCTTATTCTTTTATTGTGTTCAATCAAGCTCTTATACTTTTCTTTTG
23096543 AATTAAATAAACTCTT
1 AATTAAATAAACTCTT
23096559 CTAATTAATA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
58 1 0.01
59 72 0.99
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.49
Consensus pattern (59 bp):
AATTAAATAAACTCTTATTCTTTTATTGTGTTCAATCAAGCTCTTATACTTTTCTTTTG
Found at i:23096500 original size:30 final size:30
Alignment explanation
Indices: 23096425--23096558 Score: 107
Period size: 29 Copynumber: 4.5 Consensus size: 30
23096415 GTTTAACAAA
* *
23096425 AATTAAATAAACTCTTATTCTTTTATTGTG
1 AATTAAATAAACTCTTATTATTTTCTTGTG
* * * *
23096455 --TTCAATCAAGCTCTTATGATTTTCTTTTG
1 AATTAAAT-AAACTCTTATTATTTTCTTGTG
* *
23096484 AATTAAATAAACTCTTATTCTTTTGTTGTG
1 AATTAAATAAACTCTTATTATTTTCTTGTG
* * *
23096514 --TTCAATCAAGCTCTTA-TACTTTTCTTTTG
1 AATTAAAT-AAACTCTTATTA-TTTTCTTGTG
23096543 AATTAAATAAACTCTT
1 AATTAAATAAACTCTT
23096559 CTAATTAATA
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
28 11 0.14
29 33 0.42
30 24 0.31
31 10 0.13
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.49
Consensus pattern (30 bp):
AATTAAATAAACTCTTATTATTTTCTTGTG
Found at i:23100101 original size:19 final size:19
Alignment explanation
Indices: 23100085--23100124 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
23100075 CCCTTTTCTT
23100085 TCTTT-TCTTTTCTTTTCA
1 TCTTTCTCTTTTCTTTTCA
*
23100103 TCTTTCTGTTTTCTTTTCA
1 TCTTTCTCTTTTCTTTTCA
23100122 TCT
1 TCT
23100125 CTCCTCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.70
Consensus pattern (19 bp):
TCTTTCTCTTTTCTTTTCA
Found at i:23106365 original size:69 final size:72
Alignment explanation
Indices: 23106225--23106374 Score: 186
Period size: 69 Copynumber: 2.1 Consensus size: 72
23106215 ATAATGTTAT
** *
23106225 TTTTTAA-ATATATTTTTAATATCATATATTTTATTTTTCATTTCTTATTACAAGTATATATTTT
1 TTTTTAATATATATTTTTAATATCATATATTTTATTTTAAATTTCTTATTAAAAGTATATATTTT
23106289 ATTTTTA
66 ATTTTTA
* *
23106296 TTTTTAATATA-ATTTCTT-ATATTATATATTTTA-TTTAAATTT-TTTTTAAAAG-ATAATATT
1 TTTTTAATATATATTT-TTAATATCATATATTTTATTTTAAATTTCTTATTAAAAGTAT-ATATT
23106356 TTATTTTTA
64 TTATTTTTA
23106365 TTTCTTAATA
1 TTT-TTAATA
23106375 GGTTGTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
68 2 0.03
69 25 0.36
70 13 0.19
71 25 0.36
72 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (72 bp):
TTTTTAATATATATTTTTAATATCATATATTTTATTTTAAATTTCTTATTAAAAGTATATATTTT
ATTTTTA
Found at i:23113600 original size:20 final size:20
Alignment explanation
Indices: 23113583--23113620 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23113573 CTATTTGACT
23113583 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
23113603 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
23113621 GGTTAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:23117144 original size:46 final size:46
Alignment explanation
Indices: 23117092--23117194 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
23117082 AGCCTGGAGG
23117092 TTGTTGCACATACACTTCTTTTTTTTAATTCTCCATTTAAAAATGC
1 TTGTTGCACATACACTTCTTTTTTTTAATTCTCCATTTAAAAATGC
*
23117138 TTGTTGCACATACACTTCTTTTTTTTAATTCTCCGTTTAAAAATGC
1 TTGTTGCACATACACTTCTTTTTTTTAATTCTCCATTTAAAAATGC
* *
23117184 TTATTTCACAT
1 TTGTTGCACAT
23117195 CAAGTTGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (46 bp):
TTGTTGCACATACACTTCTTTTTTTTAATTCTCCATTTAAAAATGC
Found at i:23120256 original size:73 final size:73
Alignment explanation
Indices: 23120165--23120371 Score: 285
Period size: 73 Copynumber: 2.8 Consensus size: 73
23120155 AAGTAAAGCA
*
23120165 GATTGCGAGACAGAGAAGACTTAATCGACTAAGAA-ATATGGTTAGCCAAG-TAAAAGCTCA-TG
1 GATTGCGAGACAGAGAAGACTTAATCGACTAAGAAGA-ATGGTTAGCC-AGCTAAAAGCTCACAG
23120227 ATCAAAAATTT
64 -TCAAAAATTT
* * *
23120238 GATTACGAGACAGAGAAGACTTAATCGACTAAGAAGAATGTTTAGCCAGCTAAAAGCTCACAGTT
1 GATTGCGAGACAGAGAAGACTTAATCGACTAAGAAGAATGGTTAGCCAGCTAAAAGCTCACAGTC
*
23120303 AAAACTTT
66 AAAAATTT
* * * *
23120311 GATTGCGAAACAAAGAAGACTTAATCGACTAAGAAGAATGGTTATCTAGCTAAAAGCTCAC
1 GATTGCGAGACAGAGAAGACTTAATCGACTAAGAAGAATGGTTAGCCAGCTAAAAGCTCAC
23120372 TATTTGAGAA
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
72 2 0.02
73 116 0.97
74 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (73 bp):
GATTGCGAGACAGAGAAGACTTAATCGACTAAGAAGAATGGTTAGCCAGCTAAAAGCTCACAGTC
AAAAATTT
Found at i:23126490 original size:24 final size:24
Alignment explanation
Indices: 23126463--23126515 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
23126453 TCAAAAGATT
23126463 GCCTAAACATATCATACATGTTTC
1 GCCTAAACATATCATACATGTTTC
*
23126487 GCCTAAACATATCATATATGTTTC
1 GCCTAAACATATCATACATGTTTC
23126511 GCCTA
1 GCCTA
23126516 GCCACTGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (24 bp):
GCCTAAACATATCATACATGTTTC
Found at i:23128189 original size:179 final size:179
Alignment explanation
Indices: 23127822--23128204 Score: 402
Period size: 179 Copynumber: 2.1 Consensus size: 179
23127812 GGTTTATTTT
* * * * * *
23127822 AGAAACTTAATTCCAATAAAATTTATCCTGATAGATAAATCATTGAACTATTCCAGAATAAATTT
1 AGAAATTTAATTCCAATAAAATTTATCCTAATAGATAAATCATAGAAATATTCCAAAAAAAATTT
** * *
23127887 TTGGGATTTTAGAAGCTGATTTGTCCATTCAAAAAATTCAAAAATCCTGACCTTTATTTGCAGAT
66 CAGGGATTGTAGAAGCTGATTTGTCCATTCAAAAAATTCAAAAACCCTGACCTTTATTTGCAGAT
* * * *
23127952 GGCAGAATCGGTTTTTGACTCTTTTTGAAACTCTTTGTGACTTAAACTT
131 GGCAGAATCGGTTTTTGACTCTTTTTGAAACTATTTGTGACATAAAATC
* *
23128001 AGGAATTTAATTCCTAATAAAATTTATCCTAATAGATAACTCATAGAAATATTCCAAAAAAAATT
1 AGAAATTTAATTCC-AATAAAATTTATCCTAATAGATAAATCATAGAAATATTCCAAAAAAAATT
* * *
23128066 TCAGGG-TTGTAGGAGGTGATTTAG-CCATTCAAAAAATT-AAAAACCCATGACCTTTATCTT-T
65 TCAGGGATTGTAGAAGCTGATTT-GTCCATTCAAAAAATTCAAAAACCC-TGACCTTTAT-TTGC
** * * * *
23128127 AGA-GGCAGTTTTGGTTTTT-TCTTTCTTTTGAAGCTATTTGGTTG-CATAAAATC
127 AGATGGCAGAATCGGTTTTTGACTCT-TTTTGAAACTATTT-G-TGACATAAAATC
* *
23128180 ATAAATTTAATTCCCAATTAAATTT
1 AGAAATTTAATT-CCAATAAAATTT
23128205 TTCTTGATAG
Statistics
Matches: 168, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
177 3 0.02
178 32 0.19
179 78 0.46
180 55 0.33
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (179 bp):
AGAAATTTAATTCCAATAAAATTTATCCTAATAGATAAATCATAGAAATATTCCAAAAAAAATTT
CAGGGATTGTAGAAGCTGATTTGTCCATTCAAAAAATTCAAAAACCCTGACCTTTATTTGCAGAT
GGCAGAATCGGTTTTTGACTCTTTTTGAAACTATTTGTGACATAAAATC
Found at i:23131957 original size:30 final size:30
Alignment explanation
Indices: 23131921--23131979 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23131911 ACCCATGTAT
23131921 TTTTATTTTTAACT-AAATAAGCTCTTATGC
1 TTTTA-TTTTAACTCAAATAAGCTCTTATGC
* *
23131951 TTTTATTTTGAGTCAAATAAGCTCTTATG
1 TTTTATTTTAACTCAAATAAGCTCTTATG
23131980 ACTAATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTTATTTTAACTCAAATAAGCTCTTATGC
Found at i:23137202 original size:6 final size:6
Alignment explanation
Indices: 23137191--23137240 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
23137181 TAATATCATA
* *
23137191 TTTTAT TTTTAT TTTTAAT TATAAT TTTATAT ATTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTT-AT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTA
23137241 ATATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 25 0.68
7 9 0.24
8 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:23137206 original size:26 final size:27
Alignment explanation
Indices: 23137177--23137234 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
23137167 TTTAAATATG
*
23137177 TTTTTAA-TATCATATTT-TAT-TTTTA
1 TTTTTAATTATAAT-TTTATATATTTTA
23137202 TTTTTAATTATAATTTTATATATTTTA
1 TTTTTAATTATAATTTTATATATTTTA
23137229 TTTTTA
1 TTTTTA
23137235 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 8 0.28
27 11 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTAATTATAATTTTATATATTTTA
Done.