Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 304 of 332
Found at i:100431084 original size:19 final size:19
Alignment explanation
Indices: 100431055--100431160 Score: 63
Period size: 19 Copynumber: 5.5 Consensus size: 19
100431045 TGTGATGTTA
100431055 TAATAAATTTTAAATACTTT
1 TAAT-AATTTTAAATACTTT
* * *
100431075 TACTAATTTTTAGTACTTT
1 TAATAATTTTAAATACTTT
* *
100431094 TAATAATTTCT-TATAACTGT
1 TAATAATTT-TAAAT-ACTTT
**
100431114 TAATAATTTTTCATACTTTT
1 TAATAATTTTAAATAC-TTT
** * *
100431134 TCTTAAGTTT-AGTACTTT
1 TAATAATTTTAAATACTTT
100431152 TAATAATTT
1 TAATAATTT
100431161 CTTATAACTA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
18 9 0.14
19 28 0.43
20 28 0.43
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (19 bp):
TAATAATTTTAAATACTTT
Found at i:100431146 original size:58 final size:58
Alignment explanation
Indices: 100431083--100431201 Score: 213
Period size: 58 Copynumber: 2.1 Consensus size: 58
100431073 TTTACTAATT
*
100431083 TTTAGTACTTTTAATAATTTCTTATAACTGTTAATAATTTTT-CATACTTTTTCTTAAG
1 TTTAGTACTTTTAATAATTTCTTATAACTATTAAT-ATTTTTCCATACTTTTTCTTAAG
100431141 TTTAGTACTTTTAATAATTTCTTATAACTATTAATATTTTTCCATACTTTTTCTTAAG
1 TTTAGTACTTTTAATAATTTCTTATAACTATTAATATTTTTCCATACTTTTTCTTAAG
100431199 TTT
1 TTT
100431202 TTAGTAGTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 6 0.10
58 53 0.90
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (58 bp):
TTTAGTACTTTTAATAATTTCTTATAACTATTAATATTTTTCCATACTTTTTCTTAAG
Found at i:100436649 original size:24 final size:24
Alignment explanation
Indices: 100436596--100436651 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
100436586 TTCTTCTTTT
*
100436596 TCTTCTTT-TTCTCTTTTGTCTCG
1 TCTTCTTTCTTCTCTTTTGTCTCA
*
100436619 TCATCTTTCTTCTCTTTGTGT-TCA
1 TCTTCTTTCTTCTCTTT-TGTCTCA
100436643 TCTTCTTTC
1 TCTTCTTTC
100436652 AGCTCTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.04, C:0.27, G:0.07, T:0.62
Consensus pattern (24 bp):
TCTTCTTTCTTCTCTTTTGTCTCA
Found at i:100436690 original size:6 final size:6
Alignment explanation
Indices: 100436679--100436713 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
100436669 CTTCTCTTGC
100436679 TTCTTT TTCTTT TTCTCTT TTC-TT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTT
100436714 ATCTGAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:100436761 original size:21 final size:21
Alignment explanation
Indices: 100436736--100436776 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100436726 GTCAGAAGAC
*
100436736 GACGAAGAAGATGAAGATGAT
1 GACGAAGAAGAAGAAGATGAT
*
100436757 GACGAGGAAGAAGAAGATGA
1 GACGAAGAAGAAGAAGATGA
100436777 CGATGACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.37, T:0.10
Consensus pattern (21 bp):
GACGAAGAAGAAGAAGATGAT
Found at i:100436766 original size:24 final size:24
Alignment explanation
Indices: 100436733--100436800 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
100436723 CGAGTCAGAA
* *
100436733 GACGACGAAGAAGATGAAGATGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
100436757 GACGAGGAAGAAGAAGATGACGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
100436781 GACGACGATGAGGAAGAAGA
1 GACGACGAAGAAGAAGAAGA
100436801 ACCTTTATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.37, T:0.09
Consensus pattern (24 bp):
GACGACGAAGAAGAAGAAGACGAT
Found at i:100436781 original size:27 final size:27
Alignment explanation
Indices: 100436739--100436800 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
100436729 AGAAGACGAC
*
100436739 GAAGAAGATGAAGATGATGACGAGGAA
1 GAAGAAGATGAAGATGACGACGAGGAA
* * *
100436766 GAAGAAGATGACGATGACGACGATGAG
1 GAAGAAGATGAAGATGACGACGAGGAA
100436793 GAAGAAGA
1 GAAGAAGA
100436801 ACCTTTATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.06, G:0.37, T:0.10
Consensus pattern (27 bp):
GAAGAAGATGAAGATGACGACGAGGAA
Found at i:100436910 original size:14 final size:15
Alignment explanation
Indices: 100436885--100436962 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
100436875 CCTCTTTATC
*
100436885 CTTTTTCTTCTTTTT
1 CTTTTTCTTCTTTCT
100436900 CTTTTTC-TCTTTCT
1 CTTTTTCTTCTTTCT
** ** *
100436914 CTTTCCCAGCTTTGT
1 CTTTTTCTTCTTTCT
100436929 CTTTCTTCTTC-TTCT
1 CTTT-TTCTTCTTTCT
*
100436944 -TTTTCTTTTCTTTCT
1 CTTTT-TCTTCTTTCT
100436959 CTTT
1 CTTT
100436963 CCCTTTCTCT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
13 1 0.02
14 18 0.38
15 23 0.49
16 5 0.11
ACGTcount: A:0.01, C:0.27, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTTTCTTCTTTCT
Found at i:100436963 original size:6 final size:6
Alignment explanation
Indices: 100436892--100436973 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 6
100436882 ATCCTTTTTC
* * * *
100436892 TTCTTT TTCTTT TTCTCT TTCTCT TTCCCAGCT TTGTCT TTCT-T CTTCTTCT
1 TTCTCT TTCTCT TTCTCT TTCTCT TT--C-TCT TTCTCT TTCTCT -TTC-TCT
* *
100436944 TTTTCT TT-TCT TTCTCT TTCCCT TTCTCT T
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT T
100436974 CGTCTCCCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
5 6 0.10
6 46 0.75
7 3 0.05
8 2 0.03
9 4 0.07
ACGTcount: A:0.01, C:0.29, G:0.02, T:0.67
Consensus pattern (6 bp):
TTCTCT
Found at i:100437069 original size:24 final size:24
Alignment explanation
Indices: 100437036--100437086 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
100437026 TTCCTTAACC
*
100437036 TCTTTATCCTTC-TCCTTCTCCTCT
1 TCTTTATCC-TCGACCTTCTCCTCT
* *
100437060 TCTTTGTCCTCGACCTTCTTCTCT
1 TCTTTATCCTCGACCTTCTCCTCT
100437084 TCT
1 TCT
100437087 GTCTCTACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.04, C:0.39, G:0.04, T:0.53
Consensus pattern (24 bp):
TCTTTATCCTCGACCTTCTCCTCT
Found at i:100445175 original size:33 final size:33
Alignment explanation
Indices: 100445137--100445235 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
100445127 GACTGAGTGG
*
100445137 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
100445170 GAGTGTTTTGCTGCTGGACAGGAGCTGAAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
100445203 GGGTGTTTTGTTGCTGGATAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
100445236 CAAGAAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.18, C:0.09, G:0.40, T:0.32
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:100450876 original size:18 final size:18
Alignment explanation
Indices: 100450853--100450897 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
100450843 ATCGATATTA
* *
100450853 TAAAAATATCGAATTAAT
1 TAAAAAAATCAAATTAAT
100450871 TAAAAAAATCAAATTAAT
1 TAAAAAAATCAAATTAAT
*
100450889 TAAGAAAAT
1 TAAAAAAAT
100450898 TACATACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
TAAAAAAATCAAATTAAT
Found at i:100452213 original size:50 final size:50
Alignment explanation
Indices: 100452138--100452236 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
100452128 TAAGGCCGAC
** *
100452138 CACAAGTAGAATCCGTATAGAACTACTCTTTTTCTATTTGACATTGATTG
1 CACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGATTG
100452188 CACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGATT
1 CACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGATT
100452237 CGAATAGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (50 bp):
CACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGATTG
Found at i:100455935 original size:16 final size:17
Alignment explanation
Indices: 100455914--100455946 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
100455904 AAGAACCCAG
100455914 ATTTTTCCT-AATGAAT
1 ATTTTTCCTGAATGAAT
*
100455930 ATTTTTTCTGAATGAAT
1 ATTTTTCCTGAATGAAT
100455947 GAGTTTAATT
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:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (17 bp):
ATTTTTCCTGAATGAAT
Found at i:100456775 original size:33 final size:36
Alignment explanation
Indices: 100456703--100456776 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 36
100456693 ATAATACATT
*
100456703 AAAAA-TAAAAAAAATATTAAAATAAATATTTTCTA
1 AAAAATTAAAAAAAATATTAAAATAAATATTTTATA
*
100456738 AAAAATTAAAAATAA-ATT-AAA-AAATA-TTTATA
1 AAAAATTAAAAAAAATATTAAAATAAATATTTTATA
100456770 CAAAAAT
1 -AAAAAT
100456777 AACACTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 5 0.14
33 11 0.31
34 3 0.09
35 8 0.23
36 8 0.23
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (36 bp):
AAAAATTAAAAAAAATATTAAAATAAATATTTTATA
Found at i:100458597 original size:24 final size:24
Alignment explanation
Indices: 100458565--100458610 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
100458555 CTAATTAAAT
* *
100458565 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
100458589 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
100458611 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:100459271 original size:41 final size:41
Alignment explanation
Indices: 100459176--100459374 Score: 168
Period size: 41 Copynumber: 4.8 Consensus size: 41
100459166 CGCTAATTGG
* * *
100459176 AAAATGCCGCAAAAGCTTAGAGCTA-TAGCGGCGTTTATGAAG-
1 AAAATGCCGCAAAAGGTCA-AGC-AGTAGCGGCGTTTGT-AAGA
* * *
100459218 AAAACGCTGCAAAAGGTCAAGCAGTAGTGGCGTTTGTAAGA
1 AAAATGCCGCAAAAGGTCAAGCAGTAGCGGCGTTTGTAAGA
* * * *
100459259 AAAATGCCGCAAAAGGTCAAGCAGTAGCGACATTTGTGATA
1 AAAATGCCGCAAAAGGTCAAGCAGTAGCGGCGTTTGTAAGA
* * * * *
100459300 AAAATGCCACAAAATGTCAAGTAGTAGTGGCGTTTGTGAGAAAA
1 AAAATGCCGCAAAAGGTCAAGCAGTAGCGGCGTTTGT---AAGA
* * *
100459344 AAAATACCACAAAAGGTCAAGCATTAGCGGC
1 AAAATGCCGCAAAAGGTCAAGCAGTAGCGGC
100459375 ATTTTTCTCA
Statistics
Matches: 126, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 4 0.03
41 79 0.63
42 15 0.12
44 28 0.22
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (41 bp):
AAAATGCCGCAAAAGGTCAAGCAGTAGCGGCGTTTGTAAGA
Found at i:100459287 original size:82 final size:82
Alignment explanation
Indices: 100459176--100459378 Score: 212
Period size: 82 Copynumber: 2.4 Consensus size: 82
100459166 CGCTAATTGG
* * * **
100459176 AAAATGCCGCAAAAGCTTAGAGCTATAGCGGCGTTTATGA-AGAAAACGCTGCAAAAGGTCAAGC
1 AAAATGCCGCAAAAGGTCA-AGC-ATAGCGGCATTTATGATA-AAAACGCCACAAAAGGTCAAGC
*
100459240 AGTAGTGGCGTTTGT-AAGA
63 AGTAGTGGCGTTTGTGAAAA
* * * * *
100459259 AAAATGCCGCAAAAGGTCAAGCAGTAGCGACATTTGTGATAAAAATGCCACAAAATGTCAAGTAG
1 AAAATGCCGCAAAAGGTCAAGCA-TAGCGGCATTTATGATAAAAACGCCACAAAAGGTCAAGCAG
100459324 TAGTGGCGTTTGTGAGAAAA
65 TAGTGGCGTTTGT--GAAAA
* *
100459344 AAAATACCACAAAAGGTCAAGCATTAGCGGCATTT
1 AAAATGCCGCAAAAGGTCAAGCA-TAGCGGCATTT
100459379 TTCTCACAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
81 1 0.01
82 47 0.47
83 18 0.18
85 34 0.34
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (82 bp):
AAAATGCCGCAAAAGGTCAAGCATAGCGGCATTTATGATAAAAACGCCACAAAAGGTCAAGCAGT
AGTGGCGTTTGTGAAAA
Found at i:100459525 original size:22 final size:21
Alignment explanation
Indices: 100459473--100459535 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
100459463 GGCTTATTGT
100459473 TTAGTATTTTATGGTTTAGTGA
1 TTAGTATTTTATGGTTTAG-GA
* * *
100459495 TTA-TGTTTTAAGGGTTAGGA
1 TTAGTATTTTATGGTTTAGGA
100459515 CTTAGTATTTTATGGTTTAGG
1 -TTAGTATTTTATGGTTTAGG
100459536 GTTATGGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.06
21 15 0.45
22 16 0.48
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.51
Consensus pattern (21 bp):
TTAGTATTTTATGGTTTAGGA
Found at i:100459531 original size:21 final size:21
Alignment explanation
Indices: 100459473--100459531 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
100459463 GGCTTATTGT
100459473 TTAGTATTTTATGGTTTAGTGA
1 TTAGTATTTTATGG-TTAGTGA
* *
100459495 TTATGT-TTTAAGGGTTAG-GA
1 TTA-GTATTTTATGGTTAGTGA
100459515 CTTAGTATTTTATGGTT
1 -TTAGTATTTTATGGTT
100459532 TAGGGTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.13
21 15 0.50
22 9 0.30
23 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (21 bp):
TTAGTATTTTATGGTTAGTGA
Found at i:100459542 original size:13 final size:13
Alignment explanation
Indices: 100459524--100459551 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100459514 ACTTAGTATT
100459524 TTATGGTTTAGGG
1 TTATGGTTTAGGG
100459537 TTATGGTTTAGGG
1 TTATGGTTTAGGG
100459550 TT
1 TT
100459552 GAAAGTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (13 bp):
TTATGGTTTAGGG
Found at i:100459547 original size:28 final size:28
Alignment explanation
Indices: 100459481--100459547 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
100459471 GTTTAGTATT
*
100459481 TTATGGTTTAGTGATTATGTTTTAAGGG
1 TTATGGTTTAGTGATTATGGTTTAAGGG
*
100459509 TTA-GGACTTAGT-ATTTTATGGTTT-AGGG
1 TTATGG-TTTAGTGA--TTATGGTTTAAGGG
100459537 TTATGGTTTAG
1 TTATGGTTTAG
100459548 GGTTGAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 3 0.09
28 19 0.59
29 10 0.31
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (28 bp):
TTATGGTTTAGTGATTATGGTTTAAGGG
Found at i:100459646 original size:14 final size:15
Alignment explanation
Indices: 100459623--100459655 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
100459613 GGGTCTTAGG
100459623 GTTTAAGGTTTT-AA
1 GTTTAAGGTTTTAAA
*
100459637 GTTTAGGGTTTTAAA
1 GTTTAAGGTTTTAAA
100459652 GTTT
1 GTTT
100459656 GAGTGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (15 bp):
GTTTAAGGTTTTAAA
Found at i:100465070 original size:11 final size:11
Alignment explanation
Indices: 100465054--100465078 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100465044 TTGTGTGTTC
100465054 TTTATTTTATT
1 TTTATTTTATT
100465065 TTTATTTTATT
1 TTTATTTTATT
100465076 TTT
1 TTT
100465079 CACAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:100469467 original size:11 final size:11
Alignment explanation
Indices: 100469446--100469475 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
100469436 GTGTTCTTTA
100469446 TATTGTTTATTT
1 TATT-TTTATTT
100469458 TATTTTTATTT
1 TATTTTTATTT
100469469 TATTTTT
1 TATTTTT
100469476 CACAGAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:100469967 original size:22 final size:22
Alignment explanation
Indices: 100469914--100469955 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
100469904 TAAGATTAAA
100469914 CATAATT-TCTTTCCTTTTTTAT
1 CATAATTAT-TTTCCTTTTTTAT
100469936 CATAATTATTTTCCTTTTTT
1 CATAATTATTTTCCTTTTTT
100469956 TATCTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (22 bp):
CATAATTATTTTCCTTTTTTAT
Found at i:100474425 original size:20 final size:20
Alignment explanation
Indices: 100474400--100474439 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100474390 CATATGATAG
100474400 AATTATTAATTTAAATTACA
1 AATTATTAATTTAAATTACA
100474420 AATTATTAATTTAAATTACA
1 AATTATTAATTTAAATTACA
100474440 CATTTGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTATTAATTTAAATTACA
Found at i:100476558 original size:53 final size:55
Alignment explanation
Indices: 100476478--100476582 Score: 133
Period size: 53 Copynumber: 1.9 Consensus size: 55
100476468 AATATTGCTA
**
100476478 TTTGCTTAAATGAAAAATATGTTA-TTT-TTGCTTATATAAGTTTACTATTTTTT
1 TTTGCTTAAATGAAAAATATGACATTTTGTTGCTTATATAAGTTTACTATTTTTT
* * * * *
100476531 TTTGTTTAAATGGAAAATATGACATTTTGTTGGTTATGTAAGTTTAGTATTT
1 TTTGCTTAAATGAAAAATATGACATTTTGTTGCTTATATAAGTTTACTATTT
100476583 ACTATATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 20 0.47
54 3 0.07
55 20 0.47
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (55 bp):
TTTGCTTAAATGAAAAATATGACATTTTGTTGCTTATATAAGTTTACTATTTTTT
Found at i:100482716 original size:13 final size:14
Alignment explanation
Indices: 100482698--100482730 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
100482688 TATATTTTCC
100482698 TTTATATAT-AATA
1 TTTATATATAAATA
100482711 TTTATATATCAAATA
1 TTTATATAT-AAATA
100482726 TTTAT
1 TTTAT
100482731 TTTTTCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:100482913 original size:32 final size:32
Alignment explanation
Indices: 100482854--100482925 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
100482844 TTATAAATAA
*
100482854 AAAAATTATTAATTAAAAAGATAAATTAAAAAT
1 AAAAA-TATTAATTAAAAACATAAATTAAAAAT
* *
100482887 AAAAATATTAATTATAAACATTAATTAAAAAT
1 AAAAATATTAATTAAAAACATAAATTAAAAAT
*
100482919 AATAATA
1 AAAAATA
100482926 AAAAATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 30 0.86
33 5 0.14
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (32 bp):
AAAAATATTAATTAAAAACATAAATTAAAAAT
Found at i:100482924 original size:13 final size:13
Alignment explanation
Indices: 100482886--100482931 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
100482876 AAATTAAAAA
100482886 TAAAAATATTAAT
1 TAAAAATATTAAT
* *
100482899 TATAAACATTAAT
1 TAAAAATATTAAT
*
100482912 TAAAAATAATAAT
1 TAAAAATATTAAT
*
100482925 AAAAAAT
1 TAAAAAT
100482932 TTGAAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATATTAAT
Found at i:100483872 original size:19 final size:20
Alignment explanation
Indices: 100483845--100483893 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
100483835 TAAAGGTTTT
100483845 TTTTAAATTCTTATAA-A-TA
1 TTTTAAATTCTTA-AACATTA
*
100483864 TTTTGAATT-TTAAACATTA
1 TTTTAAATTCTTAAACATTA
100483883 TTTTAAATTCT
1 TTTTAAATTCT
100483894 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.08
18 4 0.16
19 18 0.72
20 1 0.04
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTAAATTCTTAAACATTA
Found at i:100485961 original size:24 final size:25
Alignment explanation
Indices: 100485909--100485961 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
100485899 CACTATTTTT
*
100485909 TATTTAAATTATTATATACCTATAA
1 TATTTAAATTATTATATACATATAA
**
100485934 -ATTTAAATT-TTATATGTATATAA
1 TATTTAAATTATTATATACATATAA
100485957 TATTT
1 TATTT
100485962 TTTTTCCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTAAATTATTATATACATATAA
Found at i:100487794 original size:2 final size:2
Alignment explanation
Indices: 100487787--100487811 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100487777 AAACAGATTA
100487787 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
100487812 GAATTTAAAA
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:100488876 original size:13 final size:13
Alignment explanation
Indices: 100488858--100488885 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100488848 TATATATATA
100488858 AAAGAAACAAAAG
1 AAAGAAACAAAAG
100488871 AAAGAAACAAAAG
1 AAAGAAACAAAAG
100488884 AA
1 AA
100488886 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:100491124 original size:38 final size:35
Alignment explanation
Indices: 100491065--100491168 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 35
100491055 CATTTTTAAG
100491065 AATAT-AAAGAATATATATAAGTATGTATATGATGGAA
1 AATATGAAA-AATATATATAAGTATGTATATGAT-G-A
* * * * *
100491102 AATATGCATAAATATATGTAAGTATATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGT-A-TATGATGA
*
100491140 AATATGAAAAATATATTTAAGTATGTATA
1 AATATGAAAAATATATATAAGTATGTATA
100491169 AGTACGTATA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
35 1 0.02
36 1 0.02
37 22 0.41
38 22 0.41
39 4 0.07
40 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (35 bp):
AATATGAAAAATATATATAAGTATGTATATGATGA
Found at i:100491559 original size:19 final size:17
Alignment explanation
Indices: 100491535--100491650 Score: 57
Period size: 16 Copynumber: 6.9 Consensus size: 17
100491525 TAATATTAGA
100491535 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
*
100491554 AAAATAAACTAATAATATT
1 AAAATATA-T-ATAATATT
*
100491573 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
100491590 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
100491606 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
100491622 -ATATA-ATATAATATT
1 AAAATATATATAATATT
100491637 AAAATATA-ATAATA
1 AAAATATATATAATA
100491651 CGACATAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
14 1 0.01
15 16 0.21
16 19 0.24
17 17 0.22
18 2 0.03
19 15 0.19
20 2 0.03
21 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:100491856 original size:3 final size:3
Alignment explanation
Indices: 100491848--100491880 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
100491838 AAGCGTAAAC
*
100491848 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
100491881 CATTGGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:100491940 original size:24 final size:25
Alignment explanation
Indices: 100491913--100491959 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
100491903 ACATAAGATT
*
100491913 AATAAAATATTAGA-ATGAAAATGA
1 AATAAAATATTAAATATGAAAATGA
100491937 AATAAAATATTAAATATGAAAAT
1 AATAAAATATTAAATATGAAAAT
100491960 ATATATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (25 bp):
AATAAAATATTAAATATGAAAATGA
Found at i:100492001 original size:21 final size:25
Alignment explanation
Indices: 100491977--100492036 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
100491967 CGTATACACG
100491977 TACATAA-AA-AATA-TA-TACTAA
1 TACATAATAATAATAGTACTACTAA
100491998 TACATAATAATAATAGTACTACTAA
1 TACATAATAATAATAGTACTACTAA
*
100492023 TA-ATACTAATAATA
1 TACATAATAATAATA
100492037 TAAAGACAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 7 0.21
22 2 0.06
23 4 0.12
24 13 0.38
25 8 0.24
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAATAATAATAGTACTACTAA
Found at i:100492651 original size:17 final size:17
Alignment explanation
Indices: 100492629--100492666 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
100492619 CCGTAAAAAA
* *
100492629 TTTATTTTTTTTTATTT
1 TTTATTTTCTTGTATTT
100492646 TTTA-TTTCTTGTATTT
1 TTTATTTTCTTGTATTT
100492662 TTTAT
1 TTTAT
100492667 ATGTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTATTTTCTTGTATTT
Found at i:100493492 original size:25 final size:24
Alignment explanation
Indices: 100493454--100493515 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
100493444 ATGTGCTACA
* *
100493454 ATTGAAATAGATTGATTTTAGTATGTG
1 ATTGAAAT-TATTGAATTTA-TAT-TG
*
100493481 A-TGAATTTATTGAATTTATATTG
1 ATTGAAATTATTGAATTTATATTG
100493504 ATTGAAATTATT
1 ATTGAAATTATT
100493516 TTGATTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.10
24 12 0.40
25 9 0.30
26 5 0.17
27 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (24 bp):
ATTGAAATTATTGAATTTATATTG
Found at i:100493509 original size:15 final size:15
Alignment explanation
Indices: 100493489--100493545 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
100493479 TGATGAATTT
*
100493489 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
100493504 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
100493519 ATTGAAATTATATTG
1 ATTGAAATTATATTG
100493534 ATTG-AATTATAT
1 ATTGAAATTATAT
100493546 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:100493948 original size:23 final size:23
Alignment explanation
Indices: 100493918--100494004 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
100493908 GCTTTATCGA
*
100493918 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
100493941 TCAGGCACCTTGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
* **
100493962 TCAAGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
100493984 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
100494005 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 32 0.60
22 2 0.04
23 19 0.36
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:100497436 original size:22 final size:24
Alignment explanation
Indices: 100497406--100497455 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
100497396 ACAGATACGC
*
100497406 GAATTTCC-ACCCAAACACA-CCA
1 GAATGTCCAACCCAAACACACCCA
100497428 GAATGTCCAACCCAAACACACCCA
1 GAATGTCCAACCCAAACACACCCA
100497452 GAAT
1 GAAT
100497456 ATTTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (24 bp):
GAATGTCCAACCCAAACACACCCA
Found at i:100498910 original size:21 final size:21
Alignment explanation
Indices: 100498846--100498914 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
100498836 AATAATGCTA
*
100498846 ATAATAATCTAATATAAAACC
1 ATAATAATTTAATATAAAACC
* **
100498867 ATAAT--GTTAAT-TAATAATT
1 ATAATAATTTAATATAA-AACC
100498886 ATAATAATTTAATATAAAACC
1 ATAATAATTTAATATAAAACC
100498907 ATAATAAT
1 ATAATAAT
100498915 AATCACTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.30
21 20 0.54
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (21 bp):
ATAATAATTTAATATAAAACC
Found at i:100501544 original size:24 final size:24
Alignment explanation
Indices: 100501498--100501544 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
100501488 TCACTCTTCC
*
100501498 CAAATATCTCACAATACAATTAAG
1 CAAATATCTCACAATAAAATTAAG
*
100501522 CAAATCTCTC-CAATAAAACTTAA
1 CAAATATCTCACAATAAAA-TTAA
100501545 ACAAGAGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (24 bp):
CAAATATCTCACAATAAAATTAAG
Found at i:100510452 original size:29 final size:31
Alignment explanation
Indices: 100510409--100510472 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
100510399 TCAAACTCTA
*
100510409 AATT-AGTCTTCAAACT-TTAAAAT-ATTGT
1 AATTAAGTCTTCAAACTATTAAAATCATTCT
* *
100510437 AATTAAGTCTTTAAACTATTAACATCATTCT
1 AATTAAGTCTTCAAACTATTAAAATCATTCT
100510468 AATTA
1 AATTA
100510473 GGTTTTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 11 0.37
30 6 0.20
31 9 0.30
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (31 bp):
AATTAAGTCTTCAAACTATTAAAATCATTCT
Found at i:100511899 original size:42 final size:41
Alignment explanation
Indices: 100511828--100512009 Score: 168
Period size: 42 Copynumber: 4.3 Consensus size: 41
100511818 CCAAAAGGCT
* * * * * *
100511828 AACTGAATCACATAAGTGCTAAACGGAAACTCGTAAGGGTTA
1 AACTGAAGCTCATAAGAGCTAAA-TGAAACCCATAAGGGTTA
* * *
100511870 AA-TGAAAGCTCATAAGAGCTGAATAGAAACTCATAAGGGTTG
1 AACTG-AAGCTCATAAGAGCTAAAT-GAAACCCATAAGGGTTA
* * *
100511912 AACTGAAGCTTAGAAGAGCTAAACTGAAACCCATAAAGGTTA
1 AACTGAAGCTCATAAGAGCTAAA-TGAAACCCATAAGGGTTA
* * *
100511954 AACTGAATCTCAAAAGAGCTAAATTGAAACCCAAAAGGGTTA
1 AACTGAAGCTCATAAGAGCTAAA-TGAAACCCATAAGGGTTA
*
100511996 AACTGAAACTCATA
1 AACTGAAGCTCATA
100512010 TGAGTTAACC
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 110 0.96
43 3 0.03
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (41 bp):
AACTGAAGCTCATAAGAGCTAAATGAAACCCATAAGGGTTA
Found at i:100511953 original size:84 final size:84
Alignment explanation
Indices: 100511845--100512002 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
100511835 TCACATAAGT
* * * * * * *
100511845 GCTAAACGGAAACTCGTAAGGGTTAAA-TGAAAGCTCATAAGAGCTGAATAGAAACTCATAAGGG
1 GCTAAACGGAAACCCATAAAGGTTAAACTG-AAGCTCAAAAGAGCTAAATAGAAACCCAAAAGGG
*
100511909 TTGAACTGAAGCTTAGAAGA
65 TTAAACTGAAGCTTAGAAGA
* * *
100511929 GCTAAACTGAAACCCATAAAGGTTAAACTGAATCTCAAAAGAGCTAAATTGAAACCCAAAAGGGT
1 GCTAAACGGAAACCCATAAAGGTTAAACTGAAGCTCAAAAGAGCTAAATAGAAACCCAAAAGGGT
100511994 TAAACTGAA
66 TAAACTGAA
100512003 ACTCATATGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
84 60 0.97
85 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (84 bp):
GCTAAACGGAAACCCATAAAGGTTAAACTGAAGCTCAAAAGAGCTAAATAGAAACCCAAAAGGGT
TAAACTGAAGCTTAGAAGA
Found at i:100512016 original size:21 final size:21
Alignment explanation
Indices: 100511828--100512017 Score: 116
Period size: 21 Copynumber: 9.0 Consensus size: 21
100511818 CCAAAAGGCT
* * * *
100511828 AACTGAATCACATAAGTGCTA
1 AACTGAAACTCATAAGAGTTA
* * *
100511849 AACGGAAACTCGTAAGGGTTA
1 AACTGAAACTCATAAGAGTTA
* *
100511870 AA-TGAAAGCTCATAAGAGCTG
1 AACTGAAA-CTCATAAGAGTTA
* *
100511891 AA-TAGAAACTCATAAGGGTTG
1 AACT-GAAACTCATAAGAGTTA
* * * *
100511912 AACTGAAGCTTAGAAGAGCTA
1 AACTGAAACTCATAAGAGTTA
*
100511933 AACTGAAACCCATAA-AGGTTA
1 AACTGAAACTCATAAGA-GTTA
* * *
100511954 AACTGAATCTCAAAAGAGCTA
1 AACTGAAACTCATAAGAGTTA
* * * *
100511975 AATTGAAACCCAAAAGGGTTA
1 AACTGAAACTCATAAGAGTTA
*
100511996 AACTGAAACTCATATGAGTTA
1 AACTGAAACTCATAAGAGTTA
100512017 A
1 A
100512018 CCGAAGCTTG
Statistics
Matches: 126, Mismatches: 38, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
20 5 0.04
21 115 0.91
22 6 0.05
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (21 bp):
AACTGAAACTCATAAGAGTTA
Found at i:100524747 original size:20 final size:20
Alignment explanation
Indices: 100524722--100524760 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100524712 TTAAATTGAT
100524722 TTTTA-TATGATATTTTATTA
1 TTTTATTATGAT-TTTTATTA
*
100524742 TTTTATTATTATTTTTATT
1 TTTTATTATGATTTTTATT
100524761 TAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTATTATGATTTTTATTA
Found at i:100526683 original size:28 final size:27
Alignment explanation
Indices: 100526633--100526685 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
100526623 CTATTCAGAA
* *
100526633 ATCAATGTTAACTGGGCCTTAGCCCAT
1 ATCAATATTAACTGGGCCATAGCCCAT
100526660 ATCAATATTAATCTGGGCCATAGCCC
1 ATCAATATTAA-CTGGGCCATAGCCC
100526686 CTTACAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (27 bp):
ATCAATATTAACTGGGCCATAGCCCAT
Found at i:100526764 original size:59 final size:60
Alignment explanation
Indices: 100526647--100526780 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 60
100526637 ATGTTAACTG
* * *
100526647 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATT
1 GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTATAAGAGTATATT
* *
100526707 GGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-TAAGA-TATATT
1 GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTATAAGAGTATATT
*
100526766 GGGCCTT-GGCCATAT
1 -GGCCTTAGCCCATAT
100526781 TAACACAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 37 0.58
60 23 0.36
61 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTATAAGAGTATATT
Found at i:100528645 original size:33 final size:33
Alignment explanation
Indices: 100528603--100528669 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
100528593 GAACTCATAA
100528603 CCTCACGGCAAGCCTAGCACGTTGCTACCACTG
1 CCTCACGGCAAGCCTAGCACGTTGCTACCACTG
100528636 CCTCACGGCAAGCCTAGCACGTTGCTACCACTG
1 CCTCACGGCAAGCCTAGCACGTTGCTACCACTG
100528669 C
1 C
100528670 ACTGAAGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.18
Consensus pattern (33 bp):
CCTCACGGCAAGCCTAGCACGTTGCTACCACTG
Found at i:100529266 original size:17 final size:19
Alignment explanation
Indices: 100529244--100529289 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
100529234 ACATACATGC
100529244 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
100529261 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
100529280 AATACTAATT
1 AATAATAATT
100529290 AAAATTTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:100530051 original size:21 final size:21
Alignment explanation
Indices: 100530025--100530096 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
100530015 CTTTCTGAAA
100530025 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* ** * *
100530046 TGAAATATACCATGACAACATGAT
1 TGAAATGT-GTAAGAC--CATGGT
*
100530070 ACGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
100530092 TGAAA
1 TGAAA
100530097 GATACCATGG
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 11 0.31
22 9 0.26
24 9 0.26
25 6 0.17
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:100530078 original size:46 final size:46
Alignment explanation
Indices: 100530026--100530282 Score: 381
Period size: 46 Copynumber: 5.6 Consensus size: 46
100530016 TTTCTGAAAT
* *
100530026 GAAATGTGTAAGACCATGGTTGAAATATACCATGACAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
100530072 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
*
100530118 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * *
100530164 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACGTGACAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** * *
100530210 GAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACA-
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
100530255 GAAAATGAGTAAGACCATAGTTGAAAGA
1 G-AAATGTGTAAGACCATGGTTGAAAGA
100530283 CACTACGGCA
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 195 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
Found at i:100531335 original size:25 final size:26
Alignment explanation
Indices: 100531303--100531358 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
100531293 AGAAAACAAC
*
100531303 AAAA-AGAAAATCTACTATAAAAAT-
1 AAAAGAGAAAATCTAATATAAAAATG
*
100531327 AAAAGAGAAAATCTAATCTAAAAATG
1 AAAAGAGAAAATCTAATATAAAAATG
100531353 AAAAGA
1 AAAAGA
100531359 AAAGAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.14
25 18 0.64
26 6 0.21
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (26 bp):
AAAAGAGAAAATCTAATATAAAAATG
Found at i:100531368 original size:16 final size:16
Alignment explanation
Indices: 100531347--100531377 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100531337 ATCTAATCTA
100531347 AAAATGAAAAGAAAAG
1 AAAATGAAAAGAAAAG
100531363 AAAATGAAAAGAAAA
1 AAAATGAAAAGAAAA
100531378 CCTAACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAGAAAAG
Found at i:100532552 original size:17 final size:18
Alignment explanation
Indices: 100532516--100532553 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
100532506 ATTAAGCTCA
100532516 CCACCTTATTTATCCTCT
1 CCACCTTATTTATCCTCT
100532534 CCACCTTCATTT-T-CTCT
1 CCACCTT-ATTTATCCTCT
100532551 CCA
1 CCA
100532554 ATAATGTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.16, C:0.42, G:0.00, T:0.42
Consensus pattern (18 bp):
CCACCTTATTTATCCTCT
Found at i:100533691 original size:18 final size:18
Alignment explanation
Indices: 100533668--100533703 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100533658 AAACTAAGAA
*
100533668 CTAACAAAAAGGAAACTT
1 CTAACAAAAAGAAAACTT
100533686 CTAACAAAAAGAAAACTT
1 CTAACAAAAAGAAAACTT
100533704 ATCAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (18 bp):
CTAACAAAAAGAAAACTT
Found at i:100538740 original size:15 final size:15
Alignment explanation
Indices: 100538720--100538750 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100538710 ATAGCCAAAT
100538720 AAGAAAAATACAATC
1 AAGAAAAATACAATC
100538735 AAGAAAAATACAATC
1 AAGAAAAATACAATC
100538750 A
1 A
100538751 TTTTGTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.13, G:0.06, T:0.13
Consensus pattern (15 bp):
AAGAAAAATACAATC
Found at i:100539153 original size:13 final size:14
Alignment explanation
Indices: 100539135--100539165 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
100539125 GATATGTGAC
100539135 AAATAAAA-ATTTA
1 AAATAAAATATTTA
100539148 AAATAAAATATTTA
1 AAATAAAATATTTA
100539162 AAAT
1 AAAT
100539166 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAAAATATTTA
Found at i:100551596 original size:31 final size:31
Alignment explanation
Indices: 100551558--100551621 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
100551548 CCTTTTCATA
100551558 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
100551589 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
100551620 TT
1 TT
100551622 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:100551932 original size:25 final size:25
Alignment explanation
Indices: 100551830--100551927 Score: 137
Period size: 25 Copynumber: 3.9 Consensus size: 25
100551820 CTGGAGGCCT
*
100551830 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
100551854 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
100551879 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
100551904 AGCCCTTTTCGGTAAACTGGGGCA
1 AGCCCTTTT-GATAAACTGGGGCA
100551928 TAGCCATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
23 7 0.10
24 13 0.19
25 35 0.52
26 12 0.18
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:100558762 original size:29 final size:29
Alignment explanation
Indices: 100558729--100558786 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
100558719 AAAATTTGAA
*
100558729 AAAAATATCTTTGTTTTGAAATTCTCGAT
1 AAAAATATCTTTGTTTTAAAATTCTCGAT
100558758 AAAAATATCTTTGTTTTAAAATTCTCGAT
1 AAAAATATCTTTGTTTTAAAATTCTCGAT
100558787 TTTAGACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (29 bp):
AAAAATATCTTTGTTTTAAAATTCTCGAT
Found at i:100560039 original size:25 final size:25
Alignment explanation
Indices: 100559937--100560034 Score: 137
Period size: 25 Copynumber: 3.9 Consensus size: 25
100559927 TTGGAGGCCT
*
100559937 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
100559961 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
100559986 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
100560011 AGCCCTTTTCGGTAAACTGGGGCA
1 AGCCCTTTT-GATAAACTGGGGCA
100560035 TAGCCTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
23 7 0.10
24 13 0.19
25 35 0.52
26 12 0.18
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:100560114 original size:20 final size:20
Alignment explanation
Indices: 100560091--100560157 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
100560081 TTATAAATAC
100560091 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
100560111 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
100560131 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
100560151 ATCATGT
1 ATCATGT
100560158 ATATCAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:100560121 original size:40 final size:39
Alignment explanation
Indices: 100560077--100560157 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
100560067 CCCAACCCAA
100560077 TGCATTATAAATAC-ATCATGTGCATATCATA-CATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCATG
*
100560117 TGCATATCATACATATCATGTGCATATCATATCAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATATCAATCATG
100560157 T
1 T
100560158 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 28 0.76
41 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATATCAATCATG
Found at i:100560122 original size:11 final size:11
Alignment explanation
Indices: 100560091--100560146 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
100560081 TTATAAATAC
100560091 ATCATGTGCAT
1 ATCATGTGCAT
*
100560102 ATCA--TACAT
1 ATCATGTGCAT
100560111 ATCATGTGCAT
1 ATCATGTGCAT
*
100560122 ATCA--TACAT
1 ATCATGTGCAT
100560131 ATCATGTGCAT
1 ATCATGTGCAT
100560142 ATCAT
1 ATCAT
100560147 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:100560163 original size:9 final size:10
Alignment explanation
Indices: 100560091--100560163 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
100560081 TTATAAATAC
100560091 ATCATGTGCAT
1 ATCATGT-CAT
*
100560102 ATCAT-ACAT
1 ATCATGTCAT
100560111 ATCATGTGCAT
1 ATCATGT-CAT
*
100560122 ATCAT-ACAT
1 ATCATGTCAT
100560131 ATCATGTGCAT
1 ATCATGT-CAT
*
100560142 ATCATATCA-
1 ATCATGTCAT
100560151 ATCATGT-AT
1 ATCATGTCAT
100560160 ATCA
1 ATCA
100560164 AAACCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:100567197 original size:13 final size:13
Alignment explanation
Indices: 100567181--100567205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100567171 AAATTATAAT
100567181 TAATATTTTTATG
1 TAATATTTTTATG
100567194 TAATATTTTTAT
1 TAATATTTTTAT
100567206 TTTTTTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TAATATTTTTATG
Found at i:100567360 original size:26 final size:25
Alignment explanation
Indices: 100567326--100567377 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
100567316 ATATTCATTG
* *
100567326 TTAAATAAACTTTTTAAAAATATTT
1 TTAAATAAAATATTTAAAAATATTT
*
100567351 TTAATATAAAATATTTAAAATTATTT
1 TTAA-ATAAAATATTTAAAAATATTT
100567377 T
1 T
100567378 CTTTCACCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAATAAAATATTTAAAAATATTT
Found at i:100579892 original size:25 final size:26
Alignment explanation
Indices: 100579843--100579902 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
100579833 CAATAAATTT
*
100579843 TAAAATATTATTTTGTTTTACTTTAA
1 TAAAATATTATTTTATTTTACTTTAA
*
100579869 -AAAATATTGTTTTATTTGTA-TTTAA
1 TAAAATATTATTTTATTT-TACTTTAA
*
100579894 TAAACTATT
1 TAAAATATT
100579903 CTCATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (26 bp):
TAAAATATTATTTTATTTTACTTTAA
Found at i:100581469 original size:15 final size:14
Alignment explanation
Indices: 100581401--100581511 Score: 68
Period size: 14 Copynumber: 7.6 Consensus size: 14
100581391 TTATTGCTAT
100581401 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
100581415 TATTTATATTTAT-
1 TATTTTTATTTATC
*
100581428 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
100581444 TATTATTATTTATC
1 TATTTTTATTTATC
100581458 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
100581473 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
100581488 TATTATTATATT-TC
1 TATTTTTAT-TTATC
100581502 TATTTATTAT
1 TATTT-TTAT
100581512 ATTTTTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.08
13 4 0.05
14 28 0.36
15 28 0.36
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:100581482 original size:29 final size:28
Alignment explanation
Indices: 100581401--100581508 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
100581391 TTATTGCTAT
*
100581401 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
100581428 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
100581458 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
100581488 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
100581509 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:100581512 original size:15 final size:15
Alignment explanation
Indices: 100581476--100581521 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
100581466 ATTTATCTAT
100581476 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
100581493 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
100581508 TTATATTTTTATTT
1 TTATATTTCTATTT
100581522 CTATTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:100581618 original size:24 final size:23
Alignment explanation
Indices: 100581591--100581638 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
100581581 CTTGTTATTA
*
100581591 ACATTCTATTTATTTATTTATTTT
1 ACATTCTATTTA-TTATCTATTTT
* *
100581615 ACATTTTTTTTATTATCTATTTT
1 ACATTCTATTTATTATCTATTTT
100581638 A
1 A
100581639 ACTTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (23 bp):
ACATTCTATTTATTATCTATTTT
Found at i:100585502 original size:16 final size:18
Alignment explanation
Indices: 100585473--100585505 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
100585463 TGCTAAATTT
100585473 ATTACTGTACCAATTAAA
1 ATTACTGTACCAATTAAA
100585491 ATTA-TGTA-CAATTAA
1 ATTACTGTACCAATTAA
100585506 TGAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (18 bp):
ATTACTGTACCAATTAAA
Found at i:100586495 original size:21 final size:20
Alignment explanation
Indices: 100586460--100586499 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
100586450 AGCCCAATTT
100586460 TTTTATTAATATATAATTTTA
1 TTTTATTAATATAT-ATTTTA
100586481 TTTTATT-ATATTATATTTT
1 TTTTATTAATA-TATATTTT
100586500 GTAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTAATATATATTTTA
Found at i:100586925 original size:20 final size:20
Alignment explanation
Indices: 100586900--100586943 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
100586890 TAGAAATATT
*
100586900 GTTTGGCAATGTTTTTAGGG
1 GTTTGGCAATGCTTTTAGGG
100586920 GTTTGGCAATGCTTTTAGGG
1 GTTTGGCAATGCTTTTAGGG
100586940 GTTT
1 GTTT
100586944 TCCAAACTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.07, G:0.34, T:0.45
Consensus pattern (20 bp):
GTTTGGCAATGCTTTTAGGG
Found at i:100590235 original size:21 final size:23
Alignment explanation
Indices: 100590210--100590257 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
100590200 ATTAGCAAAC
100590210 AAAAATA-TATAAATAT-AAATA
1 AAAAATATTATAAATATAAAATA
*
100590231 AAAAATATTTATATATATAAAATA
1 AAAAATA-TTATAAATATAAAATA
100590255 AAA
1 AAA
100590258 TAAATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATATTATAAATATAAAATA
Found at i:100590855 original size:126 final size:126
Alignment explanation
Indices: 100590630--100590884 Score: 465
Period size: 126 Copynumber: 2.0 Consensus size: 126
100590620 TTAGCCTTTT
* *
100590630 ATAGGCATTCAAAATGGAGGAATTTTGAAAATATTAATGTATAAGAATACAAAATCTGCATTAAA
1 ATAGGCATTCAAAATGGAGGAATTTTGAAAATATTAATGTATAAGAAGACAAAATCTACATTAAA
100590695 GGGGCAATTAAATCAATTTGATTAGAATCAAATAAAATCAGGATATATGTCCTTTTAAATC
66 GGGGCAATTAAATCAATTTGATTAGAATCAAATAAAATCAGGATATATGTCCTTTTAAATC
*
100590756 ATAGGCATTCAAAGTGGAGGAATTTTGAAAATATTAATGTATAAGAAGACAAAATCTACATTAAA
1 ATAGGCATTCAAAATGGAGGAATTTTGAAAATATTAATGTATAAGAAGACAAAATCTACATTAAA
* *
100590821 GGTGCAATTAAATCAATTTGATTAGAATCAAATAAAATTAGGATATATGTCCTTTTAAATC
66 GGGGCAATTAAATCAATTTGATTAGAATCAAATAAAATCAGGATATATGTCCTTTTAAATC
100590882 ATA
1 ATA
100590885 TTTTGTATAT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (126 bp):
ATAGGCATTCAAAATGGAGGAATTTTGAAAATATTAATGTATAAGAAGACAAAATCTACATTAAA
GGGGCAATTAAATCAATTTGATTAGAATCAAATAAAATCAGGATATATGTCCTTTTAAATC
Found at i:100593111 original size:18 final size:18
Alignment explanation
Indices: 100593088--100593148 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
100593078 GTAAAGGATA
100593088 TTAAATTTTCACATATGT
1 TTAAATTTTCACATATGT
* * *
100593106 TTAAATATT-A-GTGTGGAT
1 TTAAATTTTCACATAT-G-T
100593124 ATTAAATTTTCACATATGT
1 -TTAAATTTTCACATATGT
100593143 TTAAAT
1 TTAAAT
100593149 ATTAGTGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 15 0.47
19 9 0.28
20 2 0.06
21 2 0.06
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (18 bp):
TTAAATTTTCACATATGT
Found at i:100593133 original size:37 final size:37
Alignment explanation
Indices: 100593083--100593156 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
100593073 CATTGGTAAA
100593083 GGATATTAAATTTTCACATATGTTTAAATATTAGTGT
1 GGATATTAAATTTTCACATATGTTTAAATATTAGTGT
100593120 GGATATTAAATTTTCACATATGTTTAAATATTAGTGT
1 GGATATTAAATTTTCACATATGTTTAAATATTAGTGT
100593157 ATCTTTATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (37 bp):
GGATATTAAATTTTCACATATGTTTAAATATTAGTGT
Found at i:100594670 original size:16 final size:16
Alignment explanation
Indices: 100594649--100594681 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100594639 TAAAAGATTA
100594649 AAAGTAA-ATGATATAC
1 AAAGTAATAT-ATATAC
100594665 AAAGTAATATATATAC
1 AAAGTAATATATATAC
100594681 A
1 A
100594682 TGAAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAGTAATATATATAC
Found at i:100596250 original size:84 final size:84
Alignment explanation
Indices: 100596109--100596861 Score: 953
Period size: 84 Copynumber: 9.0 Consensus size: 84
100596099 ATAGAAACTC
* * * * * * **
100596109 GTCTTCAATTTGCTCCACTACTATTTAGGGGAGATTTGTATCTTCTA-ACTGGTTACCCTACTAT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCT-GTTACCCTACTGC
100596173 TTAGGGAGTTAAGGCTTACT
65 TTAGGGAGTTAAGGCTTACT
**
100596193 GTCTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
*
100596258 TAGGGAGTTAAGGCTTATT
66 TAGGGAGTTAAGGCTTACT
* * *
100596277 GTCTTC-A-CTGCTCCACTATTGTTTAGGGGAGATCTGTATTTTCTAGCATGTTACCCTATTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
*
100596340 TAGGGAGTTAAGGCTTATT
66 TAGGGAGTTAAGGCTTACT
* *
100596359 GTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTATTTTCTAGCCTGTTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
100596424 TAGGGAGTTAAGGCTTACT
66 TAGGGAGTTAAGGCTTACT
* * * * *
100596443 TTCTTTGATCTGCTCCGCTACTATTTAGGGGAGATCTGTATTTTCTAGCCTCTTACCCTACTGCT
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
* *
100596508 TAGGGAGTTAACGCTTGCT
66 TAGGGAGTTAAGGCTTACT
* * * * * *
100596527 GACTTTGATCTGTTCCACTACTGTTTAGGGGAGATCTGTATTTTTTTTAGTCTGTCACCCTACTG
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTA--TTTTCTAGCCTGTTACCCTACTG
* * *
100596592 TTTAGGGGGTTAAGGCTTGCT
64 CTTAGGGAGTTAAGGCTTACT
* * * * *
100596613 ATCTTCGATCTGTTCCAC-ACTGTTTAGGGGAGATCTGTATTTTTTTAGCCTGTTACCCTAATAC
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTA-TTTTCTAGCCTGTTACCCTACTGC
*
100596677 TTAGGGAGTTAAGGCTTGCT
65 TTAGGGAGTTAAGGCTTACT
* * * *
100596697 GACTTCGATCTACTCCACTACTATTTAGGGGAGATCTGTATTTTCTA-ACTGGTTACCCTACTGC
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCT-GTTACCCTACTGC
* * *
100596761 TTAGGGAGTTAAGACCTGCT
65 TTAGGGAGTTAAGGCTTACT
* * *
100596781 GTTTTCGATCTGTTCCACTACTGTTTAGGGGAGATCTATATTTTC-ATGCCTGTTACCCTACTGC
1 GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTA-GCCTGTTACCCTACTGC
100596845 TTA-GGAGGTTAAGGCTT
65 TTAGGGA-GTTAAGGCTT
100596862 GTTGTCTTGA
Statistics
Matches: 589, Mismatches: 70, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
82 76 0.13
83 8 0.01
84 408 0.69
85 45 0.08
86 52 0.09
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (84 bp):
GTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCT
TAGGGAGTTAAGGCTTACT
Found at i:100596693 original size:254 final size:250
Alignment explanation
Indices: 100596110--100596862 Score: 953
Period size: 254 Copynumber: 3.0 Consensus size: 250
100596100 TAGAAACTCG
* * ** * * *
100596110 TCTTCAATTTGCTCCACTACTATTTAGGGGAGATTTGTATCTTCTA-ACTGGTTACCCTACTATT
1 TCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTATTTTCTAGCCT-GTTACCCTACTACT
* **
100596174 TAGGGAGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTATTTTCT
65 TAGGGAGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCT
** * * *
100596239 AGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTATTG-TCTTCA-CTGCTCCACTATTGTTTA
130 AGCCTGTTACCCTACTGCTTAGGGAGTTAA-GCTTGCTGCT-TTGATCTGTTCCACTACTGTTTA
* * * ** *
100596302 GGGGAGATCTGTA-TTTTCTAGCATGTTACCCTATTGCTTAGGGAGTTAAGGCTTATTG
193 GGGGAGATCTGTATTTTTATAGC-TGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTA
*
100596360 TCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTATTTTCTAGCCTGTTACCCTACTGCTT
1 TCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTATTTTCTAGCCTGTTACCCTACTACTT
* * *
100596425 AGGGAGTTAAGGCTTACTTTCTTTGATCTGCTCCGCTACTATTTAGGGGAGATCTGTATTTTCTA
66 AGGGAGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTA
*
100596490 GCCTCTTACCCTACTGCTTAGGGAGTTAACGCTTGCTGACTTTGATCTGTTCCACTACTGTTTAG
131 GCCTGTTACCCTACTGCTTAGGGAGTTAA-GCTTGCTG-CTTTGATCTGTTCCACTACTGTTTAG
* * *
100596555 GGGAGATCTGTATTTTTTTTAGTCTGTCACCCTACTGTTTAGGGGGTTAAGGCTTGCTA
194 GGGAGATCTGTA-TTTTTATAG-CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTA
* * * * *
100596614 TCTTCGATCTGTTCCAC-ACTGTTTAGGGGAGATCTGTATTTTTTTAGCCTGTTACCCTAATACT
1 TCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTA-TTTTCTAGCCTGTTACCCTACTACT
* * *
100596678 TAGGGAGTTAAGGCTTGCTGACTTCGATCTACTCCACTACTATTTAGGGGAGATCTGTATTTTCT
65 TAGGGAGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCT
* * *
100596743 A-ACTGGTTACCCTACTGCTTAGGGAGTTAAGACCTGCTGTTTTCGATCTGTTCCACTACTGTTT
130 AGCCT-GTTACCCTACTGCTTAGGGAGTTAAG-CTTGCTGCTTT-GATCTGTTCCACTACTGTTT
* * *
100596807 AGGGGAGATCTATATTTTCAT-GCCTGTTACCCTACTGCTTAGGAGGTTAAGGCTTG
192 AGGGGAGATCTGTATTTTTATAG-CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
100596863 TTGTCTTGAC
Statistics
Matches: 440, Mismatches: 52, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
250 147 0.33
251 5 0.01
252 61 0.14
253 30 0.07
254 196 0.45
255 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (250 bp):
TCTTCGATCTGCTCCACTACTATTTAGGGGAGATCCGTATTTTCTAGCCTGTTACCCTACTACTT
AGGGAGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTA
GCCTGTTACCCTACTGCTTAGGGAGTTAAGCTTGCTGCTTTGATCTGTTCCACTACTGTTTAGGG
GAGATCTGTATTTTTATAGCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTA
Found at i:100596741 original size:338 final size:334
Alignment explanation
Indices: 100596119--100596862 Score: 987
Period size: 338 Copynumber: 2.2 Consensus size: 334
100596109 GTCTTCAATT
* * * **
100596119 TGCTCCACTACTATTTAGGGGAGATTTGTATCTTCTA-ACTGGTTACCCTACTATTTAGGGAGTT
1 TGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTAGCCT-GTTACCCTACTGCTTAGGGAGTT
* * *
100596183 AAGGCTTACTGTCTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTATTTTCTAGCCTGTTA
65 AAGGCTTGCTGACTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTATTTTCTAGCCTGTCA
* * *
100596248 CCCTACTGCTTAGGGAGTTAAGGCTTATTGTCTTCACTGCTCCACTATTGTTTAGGGGAGATCTG
130 CCCTACTGCTTAGGGAGTTAAGGCTTACTATCTTCACTGCTCCACTACTGTTTAGGGGAGATCTG
* * * * *
100596313 TATTTTCTAGCATGTTACCCTATTGCTTAGGGAGTTAAGGCTTATTGTCTTCGATCTGCTCCACT
195 TATTTTCTAGCATGTTACCCTAATACTTAGGGAGTTAAGGCTTACTGACTTCGATCTACTCCACT
* * *
100596378 ACTATTTAGGGGAGATCCGTATTTTCTAGCCT-GTTACCCTACTGCTTAGGGAGTTAAGGCTTAC
260 ACTATTTAGGGGAGATCCGTATTTTCTA-ACTGGTTACCCTACTGCTTAGGGAGTTAAGACCTAC
*
100596442 T-TTCTTTGATC
324 TGTT-TTCGATC
* *
100596453 TGCTCCGCTACTATTTAGGGGAGATCTGTATTTTCTAGCCTCTTACCCTACTGCTTAGGGAGTTA
1 TGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGAGTTA
* * * ** * *
100596518 ACGCTTGCTGACTTTGATCTGTTCCACTACTGTTTAGGGGAGATCTGTATTTTTTTTAGTCTGTC
66 AGGCTTGCTGACTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTA--TTTTCTAGCCTGTC
* * * *
100596583 ACCCTACTGTTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGTTCCAC-ACTGTTTAGGGGAGAT
129 ACCCTACTGCTTAGGGAGTTAAGGCTTACTATCTTC-A-CTGCTCCACTACTGTTTAGGGGAGAT
* * *
100596647 CTGTATTTTTTTAGCCTGTTACCCTAATACTTAGGGAGTTAAGGCTTGCTGACTTCGATCTACTC
192 CTGTA-TTTTCTAGCATGTTACCCTAATACTTAGGGAGTTAAGGCTTACTGACTTCGATCTACTC
*
100596712 CACTACTATTTAGGGGAGATCTGTATTTTCTAACTGGTTACCCTACTGCTTAGGGAGTTAAGACC
256 CACTACTATTTAGGGGAGATCCGTATTTTCTAACTGGTTACCCTACTGCTTAGGGAGTTAAGACC
*
100596777 TGCTGTTTTCGATC
321 TACTGTTTTCGATC
* * *
100596791 TGTTCCACTACTGTTTAGGGGAGATCTATATTTTC-ATGCCTGTTACCCTACTGCTTA-GGAGGT
1 TGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTA-GCCTGTTACCCTACTGCTTAGGGA-GT
100596854 TAAGGCTTG
64 TAAGGCTTG
100596863 TTGTCTTGAC
Statistics
Matches: 356, Mismatches: 44, Indels: 16
0.86 0.11 0.04
Matches are distributed among these distances:
334 97 0.27
335 2 0.01
336 42 0.12
337 27 0.08
338 186 0.52
339 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (334 bp):
TGCTCCACTACTATTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGAGTTA
AGGCTTGCTGACTTCGATCTGCTCCACTACTGTTTAGGAAAGATCTGTATTTTCTAGCCTGTCAC
CCTACTGCTTAGGGAGTTAAGGCTTACTATCTTCACTGCTCCACTACTGTTTAGGGGAGATCTGT
ATTTTCTAGCATGTTACCCTAATACTTAGGGAGTTAAGGCTTACTGACTTCGATCTACTCCACTA
CTATTTAGGGGAGATCCGTATTTTCTAACTGGTTACCCTACTGCTTAGGGAGTTAAGACCTACTG
TTTTCGATC
Found at i:100596765 original size:40 final size:39
Alignment explanation
Indices: 100596721--100596849 Score: 107
Period size: 40 Copynumber: 3.1 Consensus size: 39
100596711 CCACTACTAT
100596721 TTAGGGGAGATCTGTATTTTCTAACTGGTTACCCTACTGC
1 TTAGGGGAGATCTGTATTTTCTAACT-GTTACCCTACTGC
* * * * *
100596761 TTAGGGAGTTAAGACCTGCTGTTTTCGATCTGTT-CCACTACTGT
1 TTAGGG-G---AGATCTG-TATTTTCTAACTGTTACC-CTACTGC
* **
100596805 TTAGGGGAGATCTATATTTTCATGCCTGTTACCCTACTGC
1 TTAGGGGAGATCTGTATTTTC-TAACTGTTACCCTACTGC
100596845 TTAGG
1 TTAGG
100596850 AGGTTAAGGC
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
39 6 0.09
40 27 0.39
41 3 0.04
43 3 0.04
44 21 0.30
45 9 0.13
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (39 bp):
TTAGGGGAGATCTGTATTTTCTAACTGTTACCCTACTGC
Found at i:100603031 original size:93 final size:92
Alignment explanation
Indices: 100602834--100603108 Score: 442
Period size: 93 Copynumber: 3.0 Consensus size: 92
100602824 TTTGACATGA
* * * * ** * *
100602834 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
100602899 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCAGGT
*
100602926 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTT-CAA
100602991 CCATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTACACATTTCATATCAGGT
**
100603019 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGACTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
100603084 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
100603109 AGAGCACACT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 81 0.48
93 89 0.52
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGT
Found at i:100603104 original size:139 final size:138
Alignment explanation
Indices: 100602834--100603108 Score: 442
Period size: 139 Copynumber: 2.0 Consensus size: 138
100602824 TTTGACATGA
* * * ** * *
100602834 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
**
100602899 CATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCAGACTGCCATGATATCTTTCAACCATGGTCTTACACATTTCA
100602964 TATCAGGT
131 TATCAGGT
*
100602972 TGCCATGGTATCTTTCCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTT-CAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
*
100603037 CCATGGTCTTACACATTTCATATCAGACTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCAGACTGCCATGATATCTTTCAACCATGGTCTTACACATTTC
100603102 ATATCAG
130 ATATCAG
100603109 AGAGCACACT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
138 13 0.10
139 112 0.90
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGACTGCCATGATATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:100603109 original size:46 final size:46
Alignment explanation
Indices: 100602834--100603108 Score: 442
Period size: 46 Copynumber: 6.0 Consensus size: 46
100602824 TTTGACATGA
* * * * ** * *
100602834 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100602880 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100602926 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100602972 TGCCATGGTATCTTTCCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTT-CAACCATGGTCTTACACATTTCATATCAGGT
**
100603019 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100603065 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
100603109 AGAGCACACT
Statistics
Matches: 216, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 170 0.79
47 46 0.21
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:100605206 original size:11 final size:11
Alignment explanation
Indices: 100605190--100605220 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
100605180 ATATATATTA
100605190 AATAAAATAAT
1 AATAAAATAAT
*
100605201 AATAAAACAAT
1 AATAAAATAAT
100605212 AATAAAATA
1 AATAAAATA
100605221 TCATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:100605546 original size:30 final size:30
Alignment explanation
Indices: 100605479--100605546 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
100605469 CACCCTTAAA
* * *
100605479 ATATTTGCACTATTAGTCCTTCAAATTTTT
1 ATATTTACACTATTAATCCTTCAAATTTTG
100605509 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTG
100605538 AGTATTTAC
1 A-TATTTAC
100605547 TCTTGAGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTG
Found at i:100620529 original size:6 final size:6
Alignment explanation
Indices: 100620518--100620551 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
100620508 ACAATTTTTG
100620518 AAATCT AAATCT AAATCT AAATCT AAATTCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA-TCT AAA
100620552 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATCT
Found at i:100623856 original size:32 final size:32
Alignment explanation
Indices: 100623784--100623943 Score: 194
Period size: 32 Copynumber: 4.9 Consensus size: 32
100623774 TAACCTCAGT
**
100623784 GGAATGGACAAAACCAACATATTGATTGACCTTAAT
1 GGAATGGACAAAACCAACATATTG---G-CCTTAGC
* *
100623820 GGAATGGACAAAACCGACACATTGGCCTTAGC
1 GGAATGGACAAAACCAACATATTGGCCTTAGC
** **
100623852 GGAATGGACAAAATGAACATGCTGGCCTTAGC
1 GGAATGGACAAAACCAACATATTGGCCTTAGC
*
100623884 GGAATGGACAAAATCAACATATTGGCCTTAGC
1 GGAATGGACAAAACCAACATATTGGCCTTAGC
*
100623916 GGAATGAACAAAACCAACATATTGGCCT
1 GGAATGGACAAAACCAACATATTGGCCT
100623944 CAACTTACTC
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 86 0.79
33 1 0.01
36 22 0.20
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
GGAATGGACAAAACCAACATATTGGCCTTAGC
Found at i:100630266 original size:104 final size:104
Alignment explanation
Indices: 100630086--100630294 Score: 355
Period size: 104 Copynumber: 2.0 Consensus size: 104
100630076 CAAAATTATG
* *
100630086 CAAGGTGACCATCGTAAACAGTCCCTCAATTTTGGTCACCTTCAGTTTTGATATTTTGTACGAAT
1 CAAGGTGACCATCGTAAACAGTCCCTCAACTTTGGTCACATTCAGTTTTGATATTTTGTACGAAT
* *
100630151 CTTTGTGTAATTGTTTTTGTAAATTACAATTTGAAGCTA
66 CTTTGTGTAATTGCTTTTGTAAATTACAACTTGAAGCTA
* **
100630190 CAAGGTGACCATCGTAATCAGTCCCTCAACTTTGGTCACATTCAGTTTTGATATTTTGTTTGAAT
1 CAAGGTGACCATCGTAAACAGTCCCTCAACTTTGGTCACATTCAGTTTTGATATTTTGTACGAAT
100630255 CTTTGTGTAATTGCTTTTGTAAATTACAACTTGAAGCTA
66 CTTTGTGTAATTGCTTTTGTAAATTACAACTTGAAGCTA
100630294 C
1 C
100630295 TAAAAAGTCA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
104 98 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (104 bp):
CAAGGTGACCATCGTAAACAGTCCCTCAACTTTGGTCACATTCAGTTTTGATATTTTGTACGAAT
CTTTGTGTAATTGCTTTTGTAAATTACAACTTGAAGCTA
Found at i:100633016 original size:30 final size:30
Alignment explanation
Indices: 100632982--100633044 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
100632972 ACTTAACAAG
100632982 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
100633012 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
100633042 CAA
1 CAA
100633045 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:100633865 original size:16 final size:15
Alignment explanation
Indices: 100633841--100633875 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
100633831 AACTCAACTG
100633841 AAAAAATATATAATT
1 AAAAAATATATAATT
*
100633856 AAAAATATATATTATT
1 AAAAA-ATATATAATT
100633872 AAAA
1 AAAA
100633876 GAAAAGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAAATATATAATT
Found at i:100635107 original size:6 final size:6
Alignment explanation
Indices: 100635096--100635120 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100635086 TTAGCCTTTA
100635096 ATATTT ATATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT A
100635121 ATGACAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:100635228 original size:30 final size:31
Alignment explanation
Indices: 100635179--100635237 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
100635169 TTCTTTTTAG
*
100635179 TTAAATTTGACCCTCAACC-TATTAAAAATA
1 TTAAATTTGACCATCAACCTTATTAAAAATA
* * *
100635209 TTAAATTTTACCATTAACCTTTTTAAAAA
1 TTAAATTTGACCATCAACCTTATTAAAAA
100635238 AAATAAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (31 bp):
TTAAATTTGACCATCAACCTTATTAAAAATA
Found at i:100642907 original size:43 final size:43
Alignment explanation
Indices: 100642855--100643012 Score: 219
Period size: 43 Copynumber: 3.7 Consensus size: 43
100642845 GGTCCCTACA
* **
100642855 TTATATACTTCAAACTATTATATCTTATTTATTTTGAAATTGC
1 TTATATACTTCAAACTATTATATATTATTTATTTTGAAATTAT
* *
100642898 TTATATACTTCAAACTATTATATTTTATTTCTTTTGAAATTAT
1 TTATATACTTCAAACTATTATATATTATTTATTTTGAAATTAT
* * *
100642941 TTATATGCTTTAAACTTTTATATATTATTTATTTTGAAATTAT
1 TTATATACTTCAAACTATTATATATTATTTATTTTGAAATTAT
* *
100642984 TTATATACTTTAAA-TTTTATATATTATTT
1 TTATATACTTCAAACTATTATATATTATTT
100643013 TGGATTATTT
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
42 15 0.14
43 90 0.86
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (43 bp):
TTATATACTTCAAACTATTATATATTATTTATTTTGAAATTAT
Found at i:100642987 original size:19 final size:19
Alignment explanation
Indices: 100642965--100643024 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
100642955 CTTTTATATA
100642965 TTATTTATTTTGAAATTAT
1 TTATTTATTTTGAAATTAT
* *
100642984 TTATATACTTT-AAATT-T
1 TTATTTATTTTGAAATTAT
*
100643001 TATATATTATTTTG-GATTAT
1 T-TAT-TTATTTTGAAATTAT
100643021 TTAT
1 TTAT
100643025 ATACATATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.06
18 8 0.25
19 20 0.62
20 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTTATTTTGAAATTAT
Found at i:100643183 original size:25 final size:25
Alignment explanation
Indices: 100643130--100643189 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
100643120 ATGTTAAACC
*
100643130 ATTTTATATATTATCTATTTTACGT
1 ATTTTATATATTATCTATTGTACGT
* *
100643155 -TTTTATATGTTATTTTATTGTAC-T
1 ATTTTATATATTA-TCTATTGTACGT
100643179 ATTTTATATAT
1 ATTTTATATAT
100643190 GTGAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (25 bp):
ATTTTATATATTATCTATTGTACGT
Found at i:100643459 original size:17 final size:19
Alignment explanation
Indices: 100643417--100643461 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
100643407 ATTTTGTATA
*
100643417 TTATTTTTTTTAAGATCTC
1 TTATTTATTTTAAGATCTC
100643436 TCT-TTTATTTT-AGAT-TC
1 T-TATTTATTTTAAGATCTC
100643453 TTATTTATT
1 TTATTTATT
100643462 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.04
17 9 0.39
18 4 0.17
19 8 0.35
20 1 0.04
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (19 bp):
TTATTTATTTTAAGATCTC
Found at i:100643485 original size:25 final size:24
Alignment explanation
Indices: 100643452--100643499 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
100643442 ATTTTAGATT
100643452 CTTATTTA-TTATTTTTAAAATTGA
1 CTTATTTATTTA-TTTTAAAATTGA
100643476 CTTATATTATTTATTTTAAAATTG
1 CTTAT-TTATTTATTTTAAAATTG
100643500 TTTTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 14 0.64
26 3 0.14
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (24 bp):
CTTATTTATTTATTTTAAAATTGA
Found at i:100645341 original size:19 final size:18
Alignment explanation
Indices: 100645317--100645381 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
100645307 ATATAAAATT
100645317 TTATAAAGTTGTAAGAAAA
1 TTATAAAGTTGTAA-AAAA
**
100645336 TTATAAAAAATGTAAAAAA
1 TTAT-AAAGTTGTAAAAAA
* *
100645355 ATATAAAGTTCATAAAAAAA
1 TTATAAAGTT-GT-AAAAAA
100645375 TTATAAA
1 TTATAAA
100645382 AATTATTGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.11
19 12 0.33
20 20 0.56
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (18 bp):
TTATAAAGTTGTAAAAAA
Found at i:100645626 original size:9 final size:9
Alignment explanation
Indices: 100645612--100645701 Score: 51
Period size: 9 Copynumber: 9.9 Consensus size: 9
100645602 TAAAAAAAAT
100645612 TAATTTTTA
1 TAATTTTTA
100645621 TAA-TTTTA
1 TAATTTTTA
100645629 -AATTTTTTTA
1 TAA--TTTTTA
100645639 TAA-TTTTA
1 TAATTTTTA
* *
100645647 TTAAAATTTAA
1 -T-AATTTTTA
*
100645658 TAACTTTTA
1 TAATTTTTA
*
100645667 TAACTTTTA
1 TAATTTTTA
** *
100645676 TTGTTTTTT
1 TAATTTTTA
*
100645685 TATTTTTTA
1 TAATTTTTA
100645694 TAATTTTT
1 TAATTTTT
100645702 TTACCACCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 2 0.03
8 10 0.16
9 37 0.59
10 8 0.13
11 6 0.10
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (9 bp):
TAATTTTTA
Found at i:100646008 original size:94 final size:94
Alignment explanation
Indices: 100645836--100646012 Score: 214
Period size: 94 Copynumber: 1.9 Consensus size: 94
100645826 AAAAAAAAGA
* * * * * * *
100645836 CTTAATTGTTTTTTTTGAAAAATTTTAAGGGCCTTTTTTATGTAATTTTGCAGTTCAAGTATCCA
1 CTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCATTTTTAATGTAATTTTGAAGTTCAAATATCAA
*
100645901 ATTGAGTGTAAAAAAAAAAGAAGCAGAGG
66 ATTGAGTGCAAAAAAAAAAGAAGCAGAGG
* * *
100645930 CTTAATTGCTTTTTTTGAAATAGTTTGAGGGCATTTTTAATG-CATTTTGAAAGTTCAAATA-CT
1 CTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCATTTTTAATGTAATTTTG-AAGTTCAAATATC-
*
100645993 AAATTTAGTGCAAAAAAAAA
64 AAATTGAGTGCAAAAAAAAA
100646013 GTAGGAACTT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 7 0.10
94 62 0.90
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (94 bp):
CTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCATTTTTAATGTAATTTTGAAGTTCAAATATCAA
ATTGAGTGCAAAAAAAAAAGAAGCAGAGG
Found at i:100647203 original size:33 final size:33
Alignment explanation
Indices: 100647161--100647226 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
100647151 GTCCCTCACA
100647161 CGGTTGAGACACACGACCGTGTCTCAGCCCGTG
1 CGGTTGAGACACACGACCGTGTCTCAGCCCGTG
100647194 CGGTTGAGACACACGACCGTGTCTCAGCCCGTG
1 CGGTTGAGACACACGACCGTGTCTCAGCCCGTG
100647227 TGGCTAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.18
Consensus pattern (33 bp):
CGGTTGAGACACACGACCGTGTCTCAGCCCGTG
Found at i:100648650 original size:24 final size:26
Alignment explanation
Indices: 100648620--100648674 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
100648610 ATAAATGAAC
100648620 AAAAGAAACAAAAGAA-AGAAA-AAA
1 AAAAGAAACAAAAGAATAGAAACAAA
* *
100648644 AAAAGAAAGAACAGAATAGAAACGAAA
1 AAAAGAAACAAAAGAATAGAAAC-AAA
100648671 AAAA
1 AAAA
100648675 CAGGGTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 14 0.54
25 5 0.19
27 7 0.27
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAAGAAACAAAAGAATAGAAACAAA
Found at i:100648708 original size:17 final size:15
Alignment explanation
Indices: 100648686--100648719 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
100648676 AGGGTAGAAA
100648686 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
100648703 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
100648718 GA
1 GA
100648720 GAAATTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:100648723 original size:17 final size:18
Alignment explanation
Indices: 100648685--100648723 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
100648675 CAGGGTAGAA
100648685 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
100648703 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
100648719 AGAAA
1 AGAAA
100648724 TTAGGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:100650202 original size:16 final size:17
Alignment explanation
Indices: 100650162--100650202 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
100650152 ATAATGATGT
100650162 GAATAATAAAATATATA
1 GAATAATAAAATATATA
*
100650179 AAAT-ATAAAATAT-TA
1 GAATAATAAAATATATA
100650194 GAATAATAA
1 GAATAATAA
100650203 TAATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
GAATAATAAAATATATA
Found at i:100650442 original size:28 final size:27
Alignment explanation
Indices: 100650403--100650462 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
100650393 TATAGTTAAG
*
100650403 ATATATACATAAGATAACATGTAAAAAT
1 ATATATAAATAAGATAACAT-TAAAAAT
* * *
100650431 ATATATAAATAATATAATATTAAAGAT
1 ATATATAAATAAGATAACATTAAAAAT
100650458 ATATA
1 ATATA
100650463 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATATAAATAAGATAACATTAAAAAT
Found at i:100650467 original size:25 final size:25
Alignment explanation
Indices: 100650344--100650562 Score: 129
Period size: 25 Copynumber: 9.0 Consensus size: 25
100650334 TAAATACGTG
* *
100650344 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
100650369 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
100650394 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
100650416 ATAACATGTAAAAATATATATAAATAAT
1 ATAATAT-T--AAAGATATATACATAAT
*
100650444 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
100650469 ATAGTA-TAATATATATATACGTAAT
1 ATAATATTAA-AGATATATACATAAT
* *
100650494 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
100650517 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
100650539 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
100650562 A
1 A
100650563 ACAAAAAAGG
Statistics
Matches: 152, Mismatches: 28, Indels: 30
0.72 0.13 0.14
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 28 0.18
24 11 0.07
25 60 0.39
26 2 0.01
27 1 0.01
28 19 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:100651087 original size:30 final size:30
Alignment explanation
Indices: 100651048--100651162 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
100651038 TAGGTACAAG
* *
100651048 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
100651078 TGGTAGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
100651108 TGGTGGTGGAAAAGGTGTAGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
100651138 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
100651163 TGAGAAAAGT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:100651141 original size:60 final size:60
Alignment explanation
Indices: 100651048--100651162 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
100651038 TAGGTACAAG
* *
100651048 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTAGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTAGCTAGTGGAGTTGGTAGTGGAAAAAGAGTGGCTAGTGGAGT
* *
100651108 TGGTGGTGGAAAAGGTGTAGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTAGCTAGTGGAGTTGGTAGTGGAAAAAGAGTGGCTAGT
100651163 TGAGAAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTAGCTAGTGGAGTTGGTAGTGGAAAAAGAGTGGCTAGTGGAGT
Done.