Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 50 of 161
Found at i:15379187 original size:53 final size:53
Alignment explanation
Indices: 15379128--15379230 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
15379118 ATTTTTAGTA
* *
15379128 AAATTATCAATTGTTAATTGTATTAATTTTTAGTAAATTTATCAAATTATATC
1 AAATTATCAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
*
15379181 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTAT
1 AAATTATCAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTAT
15379231 TAATTGTTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (53 bp):
AAATTATCAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
Found at i:15379489 original size:7 final size:7
Alignment explanation
Indices: 15379479--15379504 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15379469 TTATATACAT
15379479 AATACTA
1 AATACTA
15379486 AATACTA
1 AATACTA
15379493 AATACTA
1 AATACTA
15379500 AATAC
1 AATAC
15379505 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:15382043 original size:61 final size:58
Alignment explanation
Indices: 15381936--15382051 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
15381926 ATCAATTTAA
*
15381936 TATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
* * *
15381994 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTTAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAA
15382052 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.39
60 1 0.02
61 30 0.59
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
Found at i:15382087 original size:30 final size:30
Alignment explanation
Indices: 15382031--15382089 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15382021 AAGATAAATA
* *
15382031 TTTAATTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAAGTTAATATAAAGATAATCAC
*
15382061 TTTAATATTAAGTTAATA-AAATATAATCA
1 TTTAAT-TTAAGTTAATATAAAGATAATCA
15382090 AGATAAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAATTTAAGTTAATATAAAGATAATCAC
Found at i:15383397 original size:15 final size:15
Alignment explanation
Indices: 15383379--15383408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15383369 AATCACTTTA
15383379 ATATTAAATTAATAT
1 ATATTAAATTAATAT
*
15383394 ATATTAATTTAATAT
1 ATATTAAATTAATAT
15383409 TAAATCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAATTAATAT
Found at i:15383425 original size:26 final size:26
Alignment explanation
Indices: 15383375--15383427 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15383365 ACTTAATCAC
*
15383375 TTTAATATTAAATTAATATATATTAA
1 TTTAATATTAAATTAATATAAATTAA
*
15383401 TTTAATATTAAATCTTATA-AAATTAA
1 TTTAATATTAAAT-TAATATAAATTAA
15383427 T
1 T
15383428 AGAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAATATTAAATTAATATAAATTAA
Found at i:15383433 original size:26 final size:26
Alignment explanation
Indices: 15383378--15383435 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
15383368 TAATCACTTT
* **
15383378 AATATTAAATTAATATATATTAATTT
1 AATATTAAATTAATATAAATTAATAG
*
15383404 AATATTAAATCTTATA-AAATTAATAG
1 AATATTAAAT-TAATATAAATTAATAG
15383430 AATATT
1 AATATT
15383436 TATCTACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATATTAAATTAATATAAATTAATAG
Found at i:15389775 original size:19 final size:18
Alignment explanation
Indices: 15389733--15389775 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
15389723 ATGCAAGTAG
*
15389733 TTTGGTTTGTAATGTGGA
1 TTTGGTTTGTAATGTGAA
15389751 TTTGGTTTGATAAT-TGAA
1 TTTGGTTTG-TAATGTGAA
15389769 TTGTGGT
1 TT-TGGT
15389776 GTTAATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGTAATGTGAA
Found at i:15391050 original size:20 final size:20
Alignment explanation
Indices: 15391022--15391079 Score: 53
Period size: 25 Copynumber: 2.6 Consensus size: 20
15391012 TAGCTCCCAT
*
15391022 CTCCAATCCACAACGAGAAC
1 CTCCTATCCACAACGAGAAC
15391042 CTCCTATCCAATCCACAACGAGAAC
1 CTCC--T---ATCCACAACGAGAAC
15391067 CTCCTATCACACA
1 CTCCTATC-CACA
15391080 GGCTTCTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 7 0.23
21 4 0.13
23 1 0.03
25 19 0.61
ACGTcount: A:0.36, C:0.41, G:0.07, T:0.16
Consensus pattern (20 bp):
CTCCTATCCACAACGAGAAC
Found at i:15391051 original size:25 final size:25
Alignment explanation
Indices: 15391023--15391074 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
15391013 AGCTCCCATC
15391023 TCCAATCCACAACGAGAACCTCCTA
1 TCCAATCCACAACGAGAACCTCCTA
15391048 TCCAATCCACAACGAGAACCTCCTA
1 TCCAATCCACAACGAGAACCTCCTA
15391073 TC
1 TC
15391075 ACACAGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.40, G:0.08, T:0.17
Consensus pattern (25 bp):
TCCAATCCACAACGAGAACCTCCTA
Found at i:15393077 original size:24 final size:22
Alignment explanation
Indices: 15393046--15393105 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
15393036 ATATATATAT
15393046 CAAA-ATTATAACATTACATAAAA
1 CAAATATTATAACATT--ATAAAA
*
15393069 TAAATATTATAAACTATTATAAAA
1 CAAATATTAT-AAC-ATTATAAAA
15393093 CAAATA-TATAACA
1 CAAATATTATAACA
15393106 GGATAGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 1 0.03
22 3 0.09
23 6 0.19
24 16 0.50
25 3 0.09
26 3 0.09
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (22 bp):
CAAATATTATAACATTATAAAA
Found at i:15394093 original size:69 final size:68
Alignment explanation
Indices: 15394010--15394144 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 68
15394000 TAATTAAACT
* * * *
15394010 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAAGA-CTATCAAGATAAATATTAAATTAAATTTAATATT
15394075 AAGA
65 AAGA
* * * * *
15394079 TAATCATTTTAATATTAAATTAATAAAAGACTATTACGATAAGTATTAAATTTAATTTAATATTA
1 TAATCACTTTAATATTAAATTAATAAAAGACTATCAAGATAAATATTAAATTAAATTTAATATTA
15394144 A
66 A
15394145 ATTTATTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 30 0.53
69 27 0.47
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAAGACTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:15394157 original size:17 final size:17
Alignment explanation
Indices: 15394122--15394154 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15394112 TTACGATAAG
*
15394122 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
15394139 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
15394155 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:15399193 original size:56 final size:53
Alignment explanation
Indices: 15399064--15399227 Score: 165
Period size: 50 Copynumber: 3.0 Consensus size: 53
15399054 TACATCGGAG
* ***
15399064 TTCTCATATTGGTGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCA
1 TTCTCA-A-TGGTGCCAATGCCATGT-CCAAACATGGTCTTACATGGGACCTCTCA
* *
15399120 -TCTCAA---TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAAA
1 TTCTCAATGGTGCCAATGCCATGTCC-AAACATGGTCTTACATGGGACCTCTC--A
*
15399172 TTCTCAATGGTGCCAATGCCATGTTCCAAACATGGTCTTACATGGGATCTCATCA
1 TTCTCAATGGTGCCAATGCCATG-TCCAAACATGGTCTTACATGGGACCTC-TCA
15399227 T
1 T
15399228 CCAAATGTCA
Statistics
Matches: 90, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
49 2 0.02
50 34 0.38
52 1 0.01
53 6 0.07
54 1 0.01
55 7 0.08
56 34 0.38
57 5 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (53 bp):
TTCTCAATGGTGCCAATGCCATGTCCAAACATGGTCTTACATGGGACCTCTCA
Found at i:15404351 original size:21 final size:23
Alignment explanation
Indices: 15404290--15404358 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
15404280 TACGGAACAG
*
15404290 AATAGAACACCGTC-GAAGCAGAT
1 AATAGAACACCG-CAGAAGCGGAT
*
15404313 AATAGAACACCGCTGAAGCGGAT
1 AATAGAACACCGCAGAAGCGGAT
*
15404336 AATA-AA-ACCGCAGAAGCGAAT
1 AATAGAACACCGCAGAAGCGGAT
15404357 AA
1 AA
15404359 ACAGATAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 15 0.36
22 3 0.07
23 24 0.57
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (23 bp):
AATAGAACACCGCAGAAGCGGAT
Found at i:15408172 original size:18 final size:17
Alignment explanation
Indices: 15408149--15408187 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
15408139 TTTTCATCAA
15408149 ACATATATACATTATTTC
1 ACATATAT-CATTATTTC
15408167 AC--ATATCATTATTTC
1 ACATATATCATTATTTC
15408182 ACATAT
1 ACATAT
15408188 TTCTCATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.58
16 4 0.21
17 2 0.11
18 2 0.11
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (17 bp):
ACATATATCATTATTTC
Found at i:15408178 original size:15 final size:16
Alignment explanation
Indices: 15408153--15408187 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
15408143 CATCAAACAT
15408153 ATATACATTATTTCAC
1 ATATACATTATTTCAC
15408169 ATAT-CATTATTTCAC
1 ATATACATTATTTCAC
15408184 ATAT
1 ATAT
15408188 TTCTCATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATACATTATTTCAC
Found at i:15409641 original size:22 final size:24
Alignment explanation
Indices: 15409613--15409656 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15409603 ATTTTGTTTA
15409613 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTTAACTTGTTATATCAAAAAC
*
15409635 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
15409657 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAC
Found at i:15413793 original size:16 final size:16
Alignment explanation
Indices: 15413768--15413826 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
15413758 AGTCGTTCTC
15413768 TTTATAATAATTATTT
1 TTTATAATAATTATTT
*
15413784 TTTATGATAA-TATTT
1 TTTATAATAATTATTT
15413799 TATTATAATAATTAAATTT
1 T-TTATAATAATT--ATTT
*
15413818 GTTATAATA
1 TTTATAATA
15413827 TTGAGTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 1 0.03
18 8 0.22
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTATAATAATTATTT
Found at i:15417982 original size:5 final size:5
Alignment explanation
Indices: 15417968--15418000 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15417958 TGCTTCTAAA
*
15417968 ATGA- ATGAT ATGAT ATGGT ATGAT ATGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
15418001 ATTGATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (5 bp):
ATGAT
Found at i:15425554 original size:98 final size:98
Alignment explanation
Indices: 15425377--15425571 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
15425367 ACAATAAAAT
*
15425377 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
15425442 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
15425475 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
15425540 TTTAAAATCTCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
15425572 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:15441573 original size:49 final size:49
Alignment explanation
Indices: 15441411--15441574 Score: 147
Period size: 49 Copynumber: 3.4 Consensus size: 49
15441401 CCAGCTTGTA
* *
15441411 TTGAACTACATCAATTATGGTATTATGCTTAGATGCTTGTATTAAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
* * * * * * * *
15441460 TTGAACTGCATTAATTATGTTTTTTTTACTTAGATCCTT-TGTGGTAAC--
1 TTGAACTGCATCAATTATG-GTATTATGCTTAGATGCTTGTATTG-AACAT
* ** *
15441508 -TCATTTGCATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
*
15441556 TTGAACTGCATCCATTATG
1 TTGAACTGCATCAATTATG
15441575 TTCTTTTTAC
Statistics
Matches: 83, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
46 17 0.20
47 16 0.19
49 33 0.40
50 17 0.20
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (49 bp):
TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
Found at i:15441588 original size:96 final size:97
Alignment explanation
Indices: 15441419--15441612 Score: 336
Period size: 96 Copynumber: 2.0 Consensus size: 97
15441409 TATTGAACTA
* *
15441419 CATCAATTATGGTATTATGCTTAGATGCTTGTATTAAACATTTGAACTGCATTAATTATGTTTTT
1 CATCAATTATGGTATTATGCTTAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
15441484 TTTACTTAGAT-CCTTTGTGGTAACTCATTTG
66 TTTACTTAGATACCTTTGTGGTAACTCATTTG
* * *
15441515 CATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATCCATTATGTTCTT
1 CATCAATTATGGTATTATGCTTAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
15441580 TTTACTTAGATACCTTTGTGGTAACTCATTTG
66 TTTACTTAGATACCTTTGTGGTAACTCATTTG
15441612 C
1 C
15441613 CTCTTTTTAA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 71 0.77
97 21 0.23
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (97 bp):
CATCAATTATGGTATTATGCTTAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
TTTACTTAGATACCTTTGTGGTAACTCATTTG
Found at i:15442136 original size:19 final size:19
Alignment explanation
Indices: 15442112--15442173 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
15442102 AAAACTTTGA
15442112 TCTTAACATTAATTTTAAT
1 TCTTAACATTAATTTTAAT
* ** * *
15442131 TCTTAATAAAAACTTTGA-
1 TCTTAACATTAATTTTAAT
*
15442149 TCTCAACATTAATTTTAAT
1 TCTTAACATTAATTTTAAT
15442168 TCTTAA
1 TCTTAA
15442174 TCTTGGATTT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.47
Consensus pattern (19 bp):
TCTTAACATTAATTTTAAT
Found at i:15442141 original size:37 final size:37
Alignment explanation
Indices: 15442100--15442174 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
15442090 TCGACGATGG
*
15442100 TAAAAACTTTGATCTTAACATTAATTTTAATTCTTAA
1 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
15442137 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
1 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
15442174 T
1 T
15442175 CTTGGATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (37 bp):
TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
Found at i:15442311 original size:28 final size:30
Alignment explanation
Indices: 15442279--15442342 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
15442269 CTAATCTAAT
*
15442279 TATTAA-GAAAGAT-TTTTAATATGTAGTA
1 TATTAATGAAAAATATTTTAATATGTAGTA
*
15442307 TATTAATGAAAAATGATTTTCATATGTAGTA
1 TATTAATGAAAAAT-ATTTTAATATGTAGTA
15442338 TATTA
1 TATTA
15442343 TTGTCAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.19
29 6 0.19
31 19 0.61
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (30 bp):
TATTAATGAAAAATATTTTAATATGTAGTA
Found at i:15442333 original size:31 final size:31
Alignment explanation
Indices: 15442292--15442358 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
15442282 TAAGAAAGAT
*
15442292 TTTTAATATGTAGTATATTAATGAAAAATGA
1 TTTTCATATGTAGTATATTAATGAAAAATGA
* **
15442323 TTTTCATATGTAGTATATTATTGTCAAATGA
1 TTTTCATATGTAGTATATTAATGAAAAATGA
15442354 TTTTC
1 TTTTC
15442359 TAATGTCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (31 bp):
TTTTCATATGTAGTATATTAATGAAAAATGA
Found at i:15442546 original size:76 final size:76
Alignment explanation
Indices: 15442423--15442650 Score: 417
Period size: 76 Copynumber: 3.0 Consensus size: 76
15442413 TATCAAATTT
*
15442423 TATTTGTTTAAATATATA---TAATTGCCCACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
15442485 TAAATAAAGAA
66 TAAATAAAGAA
15442496 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
15442561 TAAATAAAGAA
66 TAAATAAAGAA
*
15442572 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTTTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
15442637 TAAATAAAGAA
66 TAAATAAAGAA
15442648 TAT
1 TAT
15442651 ATTGGAACGT
Statistics
Matches: 150, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
73 18 0.12
76 132 0.88
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (76 bp):
TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
TAAATAAAGAA
Found at i:15443086 original size:44 final size:44
Alignment explanation
Indices: 15443023--15443110 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
15443013 ATTAACGCAA
* * * *
15443023 TATTTGGTAGTACAAAATTATTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTAGTACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
15443067 TATTTGGTCA-TACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
1 TATTTGGT-AGTACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
15443111 ATATCAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (44 bp):
TATTTGGTAGTACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
Found at i:15445112 original size:27 final size:27
Alignment explanation
Indices: 15445002--15445138 Score: 91
Period size: 27 Copynumber: 5.1 Consensus size: 27
15444992 AGCCTACTAG
* * **
15445002 GACAATAAACAC-AAGGTAGTCTGTCGG
1 GACAATAAACACGGA-GTAGTCTGCCAA
* *
15445029 GACAATAAACGCGGTGTAGTCTGCCAA
1 GACAATAAACACGGAGTAGTCTGCCAA
* * * *
15445056 GACAATAAACATAGG-GTAATCCGCTAA
1 GACAATAAACA-CGGAGTAGTCTGCCAA
* ***
15445083 GACAATAAACATGGAGTAGTCTGTTGA
1 GACAATAAACACGGAGTAGTCTGCCAA
*
15445110 GACAGTAAACACGGAGTAG-CTTGCCAA
1 GACAATAAACACGGAGTAGTC-TGCCAA
15445137 GA
1 GA
15445139 TAGTAATGAC
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.04
27 80 0.94
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (27 bp):
GACAATAAACACGGAGTAGTCTGCCAA
Found at i:15448964 original size:11 final size:12
Alignment explanation
Indices: 15448950--15448979 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15448940 AAAATTTTTA
15448950 TAAACTA-TAAT
1 TAAACTATTAAT
15448961 TAAACTATTAAT
1 TAAACTATTAAT
15448973 TAAACTA
1 TAAACTA
15448980 ACTAAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAACTATTAAT
Found at i:15451045 original size:23 final size:24
Alignment explanation
Indices: 15451001--15451045 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
15450991 AACAGTGATA
*
15451001 ATTTATTTTCTAATTATAAATTCT
1 ATTTATTTTCTAAATATAAATTCT
* *
15451025 ATTTTTTTTC-AAATATCAATT
1 ATTTATTTTCTAAATATAAATT
15451046 TTAGTTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTATTTTCTAAATATAAATTCT
Found at i:15460183 original size:41 final size:40
Alignment explanation
Indices: 15460101--15460202 Score: 127
Period size: 41 Copynumber: 2.6 Consensus size: 40
15460091 GAAATCCTTG
*
15460101 TTATAATTATTGTAATTATAA--TTTACGGTCGAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGGTCAAATATTA
* * *
15460139 TTATAATTATTGTAATTGTAATTTTTTTCGGTCAAATGTTA
1 TTATAATTATTGTAATTATAA-TTTTTACGGTCAAATATTA
* *
15460180 TTATTATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
15460203 ATTATATTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 20 0.37
40 2 0.04
41 32 0.59
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGGTCAAATATTA
Found at i:15462268 original size:58 final size:56
Alignment explanation
Indices: 15462205--15462321 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 56
15462195 ATAGAAATGG
* * * *
15462205 TGAAATGGAGAAATAGAAAACATTTGGAATTGATTATGGTGTTCTCCAAAAATGAAAA
1 TGAAATGGAGAAAT-GAAAACATTAGGAAATGAATATAGTGTTCTCC-AAAATGAAAA
* * * *
15462263 TGAAATGGAGAAATGGAATCATTAGGAAATGAATCTAGTTTTCTCCAAAATGAAAA
1 TGAAATGGAGAAATGAAAACATTAGGAAATGAATATAGTGTTCTCCAAAATGAAAA
15462319 TGA
1 TGA
15462322 CCTGAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 13 0.25
57 24 0.47
58 14 0.27
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (56 bp):
TGAAATGGAGAAATGAAAACATTAGGAAATGAATATAGTGTTCTCCAAAATGAAAA
Found at i:15470895 original size:11 final size:11
Alignment explanation
Indices: 15470879--15470913 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
15470869 TGCTCGTTGA
15470879 ACCGTTAGAAT
1 ACCGTTAGAAT
15470890 ACCGTTAGAAT
1 ACCGTTAGAAT
15470901 ACCGTTAG-AT
1 ACCGTTAGAAT
15470911 ACC
1 ACC
15470914 TAGGATAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (11 bp):
ACCGTTAGAAT
Found at i:15486451 original size:22 final size:23
Alignment explanation
Indices: 15486404--15486453 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15486394 TTTGAAAAAT
*
15486404 TTTAT-TTAAATGAAATGTAATC
1 TTTATGTTAAATGAAATGTAATA
15486426 TTTATGTTAAAT-AAAT-TAGATA
1 TTTATGTTAAATGAAATGTA-ATA
15486448 TTTATG
1 TTTATG
15486454 AAGATAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTATGTTAAATGAAATGTAATA
Found at i:15486794 original size:3 final size:3
Alignment explanation
Indices: 15486788--15486820 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15486778 GCAGTAGTAG
15486788 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15486821 GAGTATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15488445 original size:51 final size:51
Alignment explanation
Indices: 15488381--15489008 Score: 705
Period size: 51 Copynumber: 12.5 Consensus size: 51
15488371 CATAACTTGT
* * *
15488381 AGCTTTAATCTATTCCGCTGCAACACCAGGGAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * ** *
15488432 AGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCGTTGCCCTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * *
15488483 AGCTTTAATCTGCTCTACTGCAACGCCAGGGAAATAATATTTACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* *
15488534 AGCTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCATTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * * *
15488585 AGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGATTCACTGTCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * **
15488636 AGCTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGACTCGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * * *
15488687 TA-CTTTAATCTATTCTACTGCAATGCTAGGGAAATAAGATTTACTGCCTTC
1 -AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * **
15488738 AGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * *
15488789 AACTTTAATC---T--ACTGTAACGCTAGGGAAA-AAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * * *
15488834 AGCTTTAATCAGTTCCACTACAACGCCAGGGAAATAAGATTCGCCGCTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* ** * *
15488885 AGCTTTAATCTGTTCCAATAAAATGCCA-GGAAAAAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
* * * * * ** *
15488935 AGTTTTAATCTATTCCATTGTAAAGCCAGGGAAATAAGATTCGTTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
15488986 AGCTTTAATCTGTTCCACTGCAA
1 AGCTTTAATCTGTTCCACTGCAA
15489009 ATTTAGCTGT
Statistics
Matches: 487, Mismatches: 81, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
45 24 0.05
46 14 0.03
48 2 0.00
50 56 0.11
51 390 0.80
52 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
Found at i:15491793 original size:50 final size:50
Alignment explanation
Indices: 15491715--15492016 Score: 291
Period size: 50 Copynumber: 5.9 Consensus size: 50
15491705 TTTCTTGTAC
* * * * * **
15491715 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATATAGG
* * ** * *
15491765 TGCCCATGCCATGTCCTAGACAAGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATATAGG
**
15491815 TGCCAACGCCATGTCCT-GATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCTAGA---C--A-A-GGTCTTACATGGGACCTCTCATATAGG
* * ** * *
15491871 TGCCCATGCCATGTCCTAGACAAGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATATAGG
* * * *
15491921 TGCCAACGCCATGTCCTGGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATATAGG
* *
15491971 TTCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATA
15492017 ATCTCAATGA
Statistics
Matches: 207, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.01
50 161 0.78
51 1 0.00
52 2 0.01
54 2 0.01
55 1 0.00
56 36 0.17
57 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCTAGACAAGGTCTTACATGGGACCTCTCATATAGG
Found at i:15491848 original size:106 final size:106
Alignment explanation
Indices: 15491727--15492015 Score: 437
Period size: 106 Copynumber: 2.8 Consensus size: 106
15491717 CCAATGCCAT
15491727 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
1 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
15491792 TTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTG
66 TTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTG
15491833 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
1 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
15491898 TTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTG
66 TTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTG
* ** * * * * * *
15491939 ------GACATGGTCTTACATGGGACCTCTCATCTCGGTTCCAACGCCATGTCCTAGACATGGTC
1 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
**
15491998 TTACATGGGACCTCTCAT
66 TTACGGGGGACCTCTCAT
15492016 AATCTCAATG
Statistics
Matches: 172, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
100 66 0.38
106 106 0.62
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (106 bp):
ATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAGACAAGGTC
TTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTG
Found at i:15492036 original size:156 final size:152
Alignment explanation
Indices: 15491719--15492057 Score: 349
Period size: 156 Copynumber: 2.2 Consensus size: 152
15491709 TTGTACTGCC
* * * ** ** * *
15491719 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCTAG
1 AATGCCATGTCCCAGACAAGGTCTTACGGGGGACCTCTCATATAGGTGCCAACGCCATGTCCTAG
* * *
15491784 ACAAGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTGATCCCAGATATGGTCT
66 ACAAGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCC--AT--CAGACATGGTCT
** * *
15491849 TACATGGGAGTTCTCATATAGGTGCC
127 TACATGGGACCTCTCATATAGATGCA
* * * * *
15491875 CATGCCATGTCCTAGACAAGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTGG
1 AATGCCATGTCCCAGACAAGGTCTTACGGGGGACCTCTCATATAGGTGCCAACGCCATGTCCTAG
* * *
15491940 ACATGGTCTTACATGGGACCTCTCATCTCGGTTCCAACGCCATGTCC-T-AGACATGGTCTTACA
66 ACAAGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCATCAGACATGGTCTTACA
15492003 TGGGACCTCTCATAATCTCAATGATGCA
131 TGGGACCTCTCAT-A--T--A-GATGCA
*
15492031 AATGCCATGTCCCAGACATGGTCTTAC
1 AATGCCATGTCCCAGACAAGGTCTTAC
15492058 ATGGGATCTT
Statistics
Matches: 150, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
150 25 0.17
151 1 0.01
153 2 0.01
155 1 0.01
156 121 0.81
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (152 bp):
AATGCCATGTCCCAGACAAGGTCTTACGGGGGACCTCTCATATAGGTGCCAACGCCATGTCCTAG
ACAAGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCATCAGACATGGTCTTACA
TGGGACCTCTCATATAGATGCA
Found at i:15513060 original size:10 final size:10
Alignment explanation
Indices: 15513047--15513084 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
15513037 AAAAATAGTC
15513047 AAAATTAATT
1 AAAATTAATT
15513057 AAAATTAACTAT
1 AAAATTAA-T-T
15513069 AAAATTAATT
1 AAAATTAATT
15513079 AAAATT
1 AAAATT
15513085 CATCATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:15513140 original size:19 final size:20
Alignment explanation
Indices: 15513092--15513140 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
15513082 ATTCATCATG
15513092 TTAA-TATTTTTAACATAAT
1 TTAATTATTTTTAACATAAT
15513111 TTAATTA-TTTTATA-AT-AT
1 TTAATTATTTTTA-ACATAAT
15513129 TTAATTATTTTT
1 TTAATTATTTTT
15513141 TGAAAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
19 15 0.56
20 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATTATTTTTAACATAAT
Found at i:15517193 original size:15 final size:16
Alignment explanation
Indices: 15517163--15517197 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15517153 TTTGATTGAA
15517163 TTGAATAGAATGAAGT
1 TTGAATAGAATGAAGT
*
15517179 TTGAAT-GAATTAAGT
1 TTGAATAGAATGAAGT
15517194 TTGA
1 TTGA
15517198 TTATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (16 bp):
TTGAATAGAATGAAGT
Found at i:15522562 original size:28 final size:28
Alignment explanation
Indices: 15522492--15522632 Score: 162
Period size: 28 Copynumber: 5.1 Consensus size: 28
15522482 AGGGCTTTCA
* *
15522492 TTTCAT-GATCCGCCACACAAGCTTCT-A
1 TTTCATAGAT-CGCCACAAAAGCTTCTCT
15522519 TTTCATAGATCGCCACAAAAGCTTCTCT
1 TTTCATAGATCGCCACAAAAGCTTCTCT
* * *
15522547 TTTGATATATCGCCACAAAGGCTTCTCT
1 TTTCATAGATCGCCACAAAAGCTTCTCT
* * *
15522575 TTTCATAAATCGCCACAAAGGCTTCCCT
1 TTTCATAGATCGCCACAAAAGCTTCTCT
* *
15522603 TTTCTTAGATCACCACAAAAGCTTC-CT
1 TTTCATAGATCGCCACAAAAGCTTCTCT
15522630 TTT
1 TTT
15522633 TCTCATGTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
27 26 0.26
28 74 0.74
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (28 bp):
TTTCATAGATCGCCACAAAAGCTTCTCT
Found at i:15528531 original size:22 final size:22
Alignment explanation
Indices: 15528505--15528549 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
15528495 ATTACATGTA
15528505 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
15528527 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
15528549 T
1 T
15528550 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:15531216 original size:13 final size:13
Alignment explanation
Indices: 15531185--15531269 Score: 53
Period size: 13 Copynumber: 6.5 Consensus size: 13
15531175 TAACATTTCA
*
15531185 CATTTCAAGTAAC
1 CATTTCAAATAAC
* *
15531198 CTTTTCAAATAGC
1 CATTTCAAATAAC
* *
15531211 CATTTCATATATC
1 CATTTCAAATAAC
* * *
15531224 TATTTCCATATAAT
1 CATTT-CAAATAAC
* *
15531238 CATTTCACATATC
1 CATTTCAAATAAC
* *
15531251 CATTTCATATCAC
1 CATTTCAAATAAC
15531264 CATTTC
1 CATTTC
15531270 TGTTTACCCA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
13 45 0.82
14 10 0.18
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (13 bp):
CATTTCAAATAAC
Found at i:15531243 original size:27 final size:26
Alignment explanation
Indices: 15531200--15531269 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 26
15531190 CAAGTAACCT
* * * *
15531200 TTTCAAATAGCCATTTCATATATCTA
1 TTTCATATAACCATTTCACATATCCA
*
15531226 TTTCCATATAATCATTTCACATATCCA
1 TTT-CATATAACCATTTCACATATCCA
*
15531253 TTTCATATCACCATTTC
1 TTTCATATAACCATTTC
15531270 TGTTTACCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 15 0.42
27 21 0.58
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.43
Consensus pattern (26 bp):
TTTCATATAACCATTTCACATATCCA
Found at i:15533874 original size:19 final size:19
Alignment explanation
Indices: 15533852--15533893 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15533842 TCTCAGCACT
15533852 AAAGCTGAAAACTAAAATA
1 AAAGCTGAAAACTAAAATA
* * *
15533871 AAAGTTGTAACCTAAAATA
1 AAAGCTGAAAACTAAAATA
15533890 AAAG
1 AAAG
15533894 AACAGTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (19 bp):
AAAGCTGAAAACTAAAATA
Found at i:15536797 original size:25 final size:25
Alignment explanation
Indices: 15536730--15536826 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
15536720 ATGTTCTAAC
* *
15536730 TCACAGCTCATATGAGCAGACCCATT-T
1 TCACAGCTCATGTGAGCATA--C-TTAT
* *
15536757 TCACAACTCGTGTGAGCATACTTAT
1 TCACAGCTCATGTGAGCATACTTAT
* *
15536782 TCATAGCTCATTTGAGCATACTTAT
1 TCACAGCTCATGTGAGCATACTTAT
*
15536807 TCACAGCTCGTGTGAGCATA
1 TCACAGCTCATGTGAGCATA
15536827 TATGTACATA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 2 0.03
25 40 0.69
27 16 0.28
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (25 bp):
TCACAGCTCATGTGAGCATACTTAT
Found at i:15537974 original size:15 final size:16
Alignment explanation
Indices: 15537956--15537985 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15537946 TGGTGTCTTG
15537956 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
15537971 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
15537986 AGCATCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:15547010 original size:26 final size:27
Alignment explanation
Indices: 15546954--15547027 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
15546944 CAGAAAATTG
*
15546954 AAGCCTTTGTGGCCATCTATGAAATGC
1 AAGCCTTTGTGGCCATCTATGAAATGA
*
15546981 AAGCCTTTGTGGCGTAT-T-TGAAATGA
1 AAGCCTTTGTGGC-CATCTATGAAATGA
*
15547007 AAGCCTCTGTGG-CAGTCTATG
1 AAGCCTTTGTGGCCA-TCTATG
15547028 GAAAGGGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 19 0.49
27 16 0.41
28 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (27 bp):
AAGCCTTTGTGGCCATCTATGAAATGA
Found at i:15552737 original size:26 final size:27
Alignment explanation
Indices: 15552681--15552754 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
15552671 CAGAAAATTG
*
15552681 AAGCCTTTGTGGCCATCTATGAAATGC
1 AAGCCTTTGTGGCCATCTATGAAATGA
*
15552708 AAGCCTTTGTGGCGTAT-T-TGAAATGA
1 AAGCCTTTGTGGC-CATCTATGAAATGA
*
15552734 AAGCCTCTGTGG-CAGTCTATG
1 AAGCCTTTGTGGCCA-TCTATG
15552755 GAAAGGGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 19 0.49
27 16 0.41
28 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (27 bp):
AAGCCTTTGTGGCCATCTATGAAATGA
Found at i:15558048 original size:20 final size:20
Alignment explanation
Indices: 15558023--15558085 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
15558013 AGACAAACTG
*
15558023 CCAGTAATGTAGATAAGCCA
1 CCAGTAATGTAGACAAGCCA
*
15558043 CCAGTAATGTAGACAA-ACA
1 CCAGTAATGTAGACAAGCCA
*
15558062 GCCAGTAATGTGGACAAGCCA
1 -CCAGTAATGTAGACAAGCCA
15558083 CCA
1 CCA
15558086 AAATTTTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.05
20 33 0.89
21 2 0.05
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CCAGTAATGTAGACAAGCCA
Found at i:15558096 original size:40 final size:40
Alignment explanation
Indices: 15558013--15558098 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
15558003 CTAATATTGC
* * *
15558013 AGACAAACTGCCAGTAATGTAGATAAGCCACCAGTAATGT
1 AGACAAACAGCCAGTAATGTAGACAAGCCACCAGAAATGT
* *
15558053 AGACAAACAGCCAGTAATGTGGACAAGCCACCA-AAATTTT
1 AGACAAACAGCCAGTAATGTAGACAAGCCACCAGAAA-TGT
15558093 AGACAA
1 AGACAA
15558099 GATGCTAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (40 bp):
AGACAAACAGCCAGTAATGTAGACAAGCCACCAGAAATGT
Found at i:15561749 original size:55 final size:56
Alignment explanation
Indices: 15561663--15561780 Score: 202
Period size: 55 Copynumber: 2.1 Consensus size: 56
15561653 TTTAGAGGTT
*
15561663 GGGTATCGCGATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTAC-AA
1 GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
* *
15561718 GGGTATCGCAATACCACTGTAGATGGTTTCAATTCTTCTCGTTTCAACACTACTAG
1 GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
15561774 GGGTATC
1 GGGTATC
15561781 ACGACTTCCA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
55 51 0.86
56 8 0.14
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (56 bp):
GGGTATCGCAATACCACTGTAGATGGCTTCAATTCTTCTCGTTTCAACACTACTAA
Found at i:15563219 original size:29 final size:29
Alignment explanation
Indices: 15563177--15563237 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
15563167 GTAATACAGT
15563177 AGTAATTGAATGTCAAGTTTATTGTGCTA
1 AGTAATTGAATGTCAAGTTTATTGTGCTA
*
15563206 AGTATTTGAATGTCAAGTTTATTGTGCTA
1 AGTAATTGAATGTCAAGTTTATTGTGCTA
15563235 AGT
1 AGT
15563238 CTGAGAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (29 bp):
AGTAATTGAATGTCAAGTTTATTGTGCTA
Found at i:15566344 original size:18 final size:18
Alignment explanation
Indices: 15566318--15566367 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
15566308 GACCAGAGGT
*
15566318 TGTAAAAGAGCCAGTGTG
1 TGTAGAAGAGCCAGTGTG
* * * *
15566336 TTTGGAAGAACCTGTGTG
1 TGTAGAAGAGCCAGTGTG
15566354 TGTAGAAGAGCCAG
1 TGTAGAAGAGCCAG
15566368 ATTTTGTATG
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (18 bp):
TGTAGAAGAGCCAGTGTG
Found at i:15566537 original size:18 final size:18
Alignment explanation
Indices: 15566516--15566552 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15566506 AACCAGAGGT
15566516 TTTGAAAGAACCTGTGTG
1 TTTGAAAGAACCTGTGTG
* *
15566534 TTTGGAGGAACCTGTGTG
1 TTTGAAAGAACCTGTGTG
15566552 T
1 T
15566553 GTAGAAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.32, T:0.35
Consensus pattern (18 bp):
TTTGAAAGAACCTGTGTG
Found at i:15566552 original size:198 final size:198
Alignment explanation
Indices: 15566309--15566679 Score: 625
Period size: 198 Copynumber: 1.9 Consensus size: 198
15566299 TGGAAGAGTG
*
15566309 ACCAGAGGTTGTAAAAGAGCCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
1 ACCAGAGGTTGTAAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
* *
15566374 TATGAGTAGAAGTCGTGTGACTATTACTCTTATGAGAAGTAGAACCAGAAGAGTGGCTCGAAATA
66 TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAGTGGCTCGAAATA
15566439 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
131 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
15566504 AGA
196 AGA
* * * *
15566507 ACCAGAGGTTTTGAAAGAACCTGTGTGTTTGGAGGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
1 ACCAGAGGTTGTAAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
* * * *
15566572 TATGAGCAGATGTCGTGTGACTGTTAGTCTTATGAGAACTAGAACCTGAAGAGTGGCTCGAAATA
66 TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAGTGGCTCGAAATA
* *
15566637 GAACCAGTAGTTGTATGGCCATCAGTTGTAGCAGAACCAGTGT
131 GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGT
15566680 GATTGGAAGA
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 160 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (198 bp):
ACCAGAGGTTGTAAAAGAACCAGTGTGTTTGGAAGAACCTGTGTGTGTAGAAGAGCCAGATTTTG
TATGAGCAGAAGTCGTGTGACTATTACTCTTATGAGAACTAGAACCAGAAGAGTGGCTCGAAATA
GAACCAGTAGTTGTATGGCCACCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAATTTT
AGA
Found at i:15566832 original size:33 final size:33
Alignment explanation
Indices: 15566789--15566863 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
15566779 GGCTTGAAAT
* *
15566789 AGAACTAGTAGTTTCATGGCCATCAATCGTAGC
1 AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
* * *
15566822 AGAACCAGTAGTTGCATGGCCATTAGTCGTAGT
1 AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
15566855 AGAACCAGT
1 AGAACCAGT
15566864 GCTTGTGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (33 bp):
AGAACCAGTAGTTGCATGGCCATCAATCGTAGC
Found at i:15567124 original size:18 final size:18
Alignment explanation
Indices: 15567103--15567144 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15567093 GAGGTTGTCA
15567103 AAGAACCAGTGTGACTGG
1 AAGAACCAGTGTGACTGG
* **
15567121 AAGAACCGGTGTGTGTGG
1 AAGAACCAGTGTGACTGG
15567139 AAGAAC
1 AAGAAC
15567145 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.17
Consensus pattern (18 bp):
AAGAACCAGTGTGACTGG
Found at i:15567172 original size:198 final size:198
Alignment explanation
Indices: 15566822--15567290 Score: 683
Period size: 198 Copynumber: 2.4 Consensus size: 198
15566812 CAATCGTAGC
* * *
15566822 AGAACCAGTAGTTGCATGGCCATTAGTCGTAGTAGAACCAGTGCTTGTGGAAGAGCCTGAAGTTT
1 AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTTT
* * ** * * *
15566887 TGGAACCAGATGTTGTGAAAGAACCAGTGTGTTTGGATGAACCTGTGTGTGTAGAAGAGCCTGAT
66 TGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACTGAT
* * *
15566952 TTTGTATGACCGGAACTCATGTGACTATTAGTCTTATGAGAACTAGAACCTGAAGAGTG-GCTTA
131 TTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAAAACCTGAAGAG-GCGCTCA
15567016 AAAT
195 AAAT
15567020 AGAACCAGTAGTTGCACT-GCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTT
1 AGAACCAGTAGTTGCA-TGGCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTT
*
15567084 TTGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTGGAAGA-ACTAG
65 TTGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACT-G
* *
15567148 ATTTTGTATGACTAGAAGTCATGTGACTATTAGTCTTATGAGAACTAAAACCTGAAGAGGCGCTC
129 ATTTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAAAACCTGAAGAGGCGCTC
*
15567213 AAAGT
194 AAAAT
* * * * * *
15567218 AGAACCGGTAGCTGTATGGCCATCAGTCGTAGCAGAACCAATGTTCGTGGAAGAGCTTGAAGTTT
1 AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTTT
15567283 TGGAACCA
66 TGGAACCA
15567291 AAACTATTGC
Statistics
Matches: 244, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
197 4 0.02
198 239 0.98
199 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (198 bp):
AGAACCAGTAGTTGCATGGCCATCAGTCGTAGCAGAACCAGTGTTTGTGGAAGAGCCTGAAGTTT
TGGAACCAGAGGTTGTCAAAGAACCAGTGTGACTGGAAGAACCGGTGTGTGTAGAAGAGACTGAT
TTTGTATGACCAGAACTCATGTGACTATTAGTCTTATGAGAACTAAAACCTGAAGAGGCGCTCAA
AAT
Found at i:15569751 original size:898 final size:901
Alignment explanation
Indices: 15567889--15571237 Score: 5961
Period size: 901 Copynumber: 3.7 Consensus size: 901
15567879 GAAGAGTGAC
* *
15567889 TAGAAGCTGTAGGACCATTTGTCATTGAAGTACTAGTGCCTGTGGAAGCACCCGTATCTTTAGTA
1 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
15567954 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
66 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
* * * * *
15568019 AATATAGAATATGTAAAAGCATGTTAAATAAATAAAGTAATACAAAAAAGATAGAATATTTGAAC
131 ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
*
15568084 CTGAAGGGTTACTTGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAACATTCATATAA
196 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
15568149 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
261 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
15568214 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
326 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
15568279 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
391 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
*
15568344 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCACGACCCATAAAATT
456 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCATAAAATT
* * * *
15568409 TCTAGAACTTTATTATAAAGTATGTATAAGCATGTTAAATGGATGAAATAAAAGAAAATGATATG
521 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAAAAGAAAATGATAGG
* *
15568474 GAATCCAAACCTGAAGAGTCACTTGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
586 GAATCCAAACCTGAAGAATCACTCGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
15568539 AGTCATATAAATGTTAAAAACTTTAGAATCGTTATAACCTTATAAAAAACCCAACATCATAAAAT
651 AGTCATATAAATGTTAAAAACTTTAGAATCGTTATAACCTTATAAAAAACCCAACATCATAAAAT
15568604 AGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAA
716 AGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAA
*
15568669 GAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGATCAGATCC
781 GAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCC
* * * *
15568734 TTTATGGCTATTAGTTGTGAAAGAACTAACACCTGTGGAAGGACTCGAAGAAGGGG
846 CTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
*
15568790 TAGAAGCTGTAGGACCGTTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
1 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
15568855 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
66 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
*
15568920 ATTATAAAATATGTACAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
131 ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
*
15568985 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAAT-AAAATTCAACATTCATATAA
196 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
*
15569049 TGGTTAAAAACCTTAGAATCATTATAACATTATTCAGAACTCAACATCATAAAATAACCATAAAT
261 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
* * *
15569114 AGTTGAACTAGTTGACGATCTTGAAGTTTTAGCAGGTCCAGCACCTGTGGAAGGGCTCGTAGGAA
326 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
* * *
15569179 TAAAAGTCGTAGAACCATTAGTCGCTGAAGCATCGGTACCCATGGAAGCACTTTCATTTTTAGTA
391 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
* * ** *
15569244 CTTGAAGCCTTAGAATTACCAGACACTGATAAAGAATAGATATCTATGTCAAGACCCA-AAAATT
456 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCATAAAATT
*
15569308 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGG
521 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAAAAGAAAATGATAGG
* * *
15569373 GAATCCAAACCTGGAGAATCACTCGTAGAGGACTTATATCCTTCAGAACCTAATAAAAAGTCAAA
586 GAATCCAAACCTGAAGAATCACTCGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
* * * * *
15569438 ATTCATATAAATGCTAAAAACTTTA-ACATCATTAAAACCTTAT-AAAAACCCAAAATCATAAAA
651 AGTCATATAAATGTTAAAAACTTTAGA-ATCGTTATAACCTTATAAAAAACCCAACATCATAAAA
* * * * * * * * *
15569501 TAACAAAAAATGGCTGAACCTGATGAGGAGCCTGAAGCTTTAAAACCATAACTATGACTTGCGGA
715 TAGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGA
* * *
15569566 AGAGTGACCAGAAGCTGTAAACGAACCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATC
780 AGAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATC
15569631 CCTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
845 CCTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
15569688 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
1 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
15569753 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
66 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
* *
15569818 ATTATAAAATATGTACAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAGATTTGAAC
131 ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
*
15569883 CTGAAGGGTTACTTGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAACATTCATATAA
196 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
15569948 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
261 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
15570013 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
326 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
15570078 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
391 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
*
15570143 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCACGACCCATAAAATT
456 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCATAAAATT
* * * *
15570208 TCTAGAACTTTATTATAAAGTATGTATAAGCATGTTAAATGGATGAAATAAAAGAAAATGATATG
521 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAAAAGAAAATGATAGG
* *
15570273 GAATCCAAACCTGAAGAGTCACTTGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
586 GAATCCAAACCTGAAGAATCACTCGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
15570338 AGTCATATAAATGTTAAAAACTTTAGAATCGTTATAACCTTATAAAAAACCCAACATCATAAAAT
651 AGTCATATAAATGTTAAAAACTTTAGAATCGTTATAACCTTATAAAAAACCCAACATCATAAAAT
15570403 AGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAA
716 AGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAA
15570468 GAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCC
781 GAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCC
15570533 CTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
846 CTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
15570589 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
1 TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
*
15570654 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAAGAAGTAGACAAGTCAAAACCCACAAAATT
66 CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
*
15570719 ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACGAAAAAGATAGAAAATTTGAAC
131 ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
15570784 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
196 CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
*
15570849 TGGTTAAAAACCTTAGAATCATTATAATATTATTAAGAACTCAACATCATAAAATAACCATAAAT
261 TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
15570914 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
326 AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
15570979 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
391 TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
* * ** *
15571044 CTTGAAGCCTTAGAATTACCAGACACTGATAAAGAATAGATATCTATGTCAAGACCCA-AAAATT
456 CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCATAAAATT
*
15571108 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGG
521 TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAAAAGAAAATGATAGG
* *
15571173 GAATCCAAACCTGAAGAATCACTCGTAGAAGATTTATATCCTTCAGAACCTAATAAAAAGTCAAA
586 GAATCCAAACCTGAAGAATCACTCGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
15571238 TTATACCAGA
Statistics
Matches: 2322, Mismatches: 121, Indels: 11
0.95 0.05 0.00
Matches are distributed among these distances:
898 426 0.18
899 422 0.18
900 549 0.24
901 925 0.40
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (901 bp):
TAGAAGCTGTAGGACCATTTGTCACTGAAGTACTAGTGCCTGTGGAAGCACCCGTATTTTTAGTA
CTAGTTGCTTTAGAATTACAAGAATGTGAAAAACAACAAGTAGACAAGTCAAAACCCACAAAATT
ATTATAAAATATGTAAAAGCATGTTAAATAGATAAAATAATACAAAAAAGATAGAAAATTTGAAC
CTGAAGGGTTACTTGTAGAAGACTTAGATCCGTCAGAACCTAATAAAAAGTCAACATTCATATAA
TGGTTAAAAACCTTAGAATCATTATAACATTATTAAGAACTCAACATCATAAAATAACCATAAAT
AGTTGAACTAGATGACGATCTTGAAGTTTTAGTAGGTCCAGCACCTGTGGAAGGGCTAGTAGGAA
TAAAAGTCGTAGGACCGTTAGTCGCTGAAGCATTGGTACCCATGGAAGCACTTTCATTTTTAGTA
CTTGAAGCCTTAGAAATACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCATAAAATT
TCCAGAACTTGATTATAAAGTATGTATAAGCATGTCAAATGGATGAAATAAAAGAAAATGATAGG
GAATCCAAACCTGAAGAATCACTCGTAGAAGACTTAGATCCTTCAGAACCTAATAAAAAGTCAAA
AGTCATATAAATGTTAAAAACTTTAGAATCGTTATAACCTTATAAAAAACCCAACATCATAAAAT
AGCCAAAAGTAGTTGAACCTGACGAGAAGCCTGAAGCTTTAAAACCAGAACTATGACTTGCAGAA
GAGTGACCAGAATCTGTAAATGATCCAGAGTGAGCAAAATTGCTTGAACTTGTATGACCAGATCC
CTTATGGCTATTAGTTGTGAAAGAACTAACGCCTGTGGAAGGGCTCGAAGAAGGAG
Found at i:15571369 original size:182 final size:181
Alignment explanation
Indices: 15571060--15571419 Score: 621
Period size: 182 Copynumber: 2.0 Consensus size: 181
15571050 GCCTTAGAAT
* ** *
15571060 TACCAGACACTGATAAAGAATAGATATCTATGTCAAGACCCAAAAATTTCCAGAACTTGATTATA
1 TACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCAAAAATTTCCAGAACTTGATTATA
15571125 AAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGA
66 AAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGA
*
15571190 ATCACTCGTAGAAGATTTATATCCTTCAGAACCTAATAAAAAGTCAAATTA
131 ATCACTCGTAGAAGACTTATATCCTTCAGAACCTAATAAAAAGTCAAATTA
* *
15571241 TACCAGAAACTGATAAAGAATAGATAGATAAGTCACGACCCATAAAATTTCTAGAACTTGATTAT
1 TACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCA-AAAATTTCCAGAACTTGATTAT
*
15571306 AAAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAGACCTGAAG
65 AAAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAG
* *
15571371 AGTCACTCGTAGAAGACTTATATCCTTCAGAACCTATTAAAAAGTCAAA
130 AATCACTCGTAGAAGACTTATATCCTTCAGAACCTAATAAAAAGTCAAA
15571420 ATTCATATAA
Statistics
Matches: 168, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
181 37 0.22
182 131 0.78
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (181 bp):
TACCAGAAACTGATAAAGAATAGATAGATAAGTCAAGACCCAAAAATTTCCAGAACTTGATTATA
AAGTATGTATAAGCATGTCAAATGGATGAAATAATAGAAAATGATAGGGAATCCAAACCTGAAGA
ATCACTCGTAGAAGACTTATATCCTTCAGAACCTAATAAAAAGTCAAATTA
Found at i:15572223 original size:18 final size:18
Alignment explanation
Indices: 15572200--15572235 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15572190 GATTGTGAAG
15572200 TTTGAGAAAAGTCAGAAC
1 TTTGAGAAAAGTCAGAAC
**
15572218 TTTGAGAATTGTCAGAAC
1 TTTGAGAAAAGTCAGAAC
15572236 CGAATCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
TTTGAGAAAAGTCAGAAC
Found at i:15573038 original size:18 final size:18
Alignment explanation
Indices: 15573000--15573049 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
15572990 ATGCTCAAAG
* *
15573000 GAACCAGAATGTGAATAT
1 GAACTAGAATGTGAAGAT
*
15573018 GAACTAGAATGTGAAGCT
1 GAACTAGAATGTGAAGAT
*
15573036 GAACTTGAATGTGA
1 GAACTAGAATGTGA
15573050 CAAAGAGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (18 bp):
GAACTAGAATGTGAAGAT
Found at i:15573481 original size:210 final size:210
Alignment explanation
Indices: 15573112--15574080 Score: 1073
Period size: 210 Copynumber: 4.8 Consensus size: 210
15573102 TGTGATGAAA
* * * * * **
15573112 AGCCAGAAGCCTTAGAATTACTAGAACCTGACAAAGAAGCAGAACTTGTAGAGGAACCAGAAGCC
1 AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
* * ** *
15573177 TCATG-TTCTAATGAAGACTTAGAAGCCGTAGTAGGA-CTAGAATCCTTAGAATTGTTCAAACCA
66 TCATGATT-TAATGAAGACTGAGAAGCCGTAGTAGAATC-AGAATCCTTAGAATTGTTGGAACCT
*
15573240 GAATTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGATAA
129 GAGTTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGATAA
15573305 ACTAGAATTTGAGGATG
194 ACTAGAATTTGAGGATG
* *
15573322 AGCCTGAAGCCTTATAATTTCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
1 AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
* * * *
15573387 TTATGGTTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAACCCTTAGAACTGTTGGAACCTGA
66 TCATGATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA
* * * * * *
15573452 GTTTGTGGAGGAGTTACCAGCAATAGAACCAAAATGATTAAAAGAACCAGAATGCGAAGATGAAA
131 GTTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGAT-AAA
15573517 -TAGAATTTGAGGATG
195 CTAGAATTTGAGGATG
* * *
15573532 ACCCATAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGAAGAGGAATTAGAAGCC
1 AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
* * * * *
15573597 CCATGATTTAATGTAGACTGAGAAGCCGCAGTAGAAACAGAATCATTAGAATTGTTGGAACCT-A
66 TCATGATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA
* * *
15573661 TGTTTGTGGAAGAGTTAGAAGCACCAGAACCAGAATGCTTAAAAGAA-C----TG-G-AG-T---
131 -GTTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGATAAA
15573715 CT-G-A----A-GATG
195 CTAGAATTTGAGGATG
* * * ** * ** *
15573724 AGCCAAAAGCCTTAGAACTATTAGAACCTGATAAAGAATCAGAACTTGTGGAGGAACTAGAAGCC
1 AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
* * * *
15573789 CCATGATTTAATGAAGACTGAGAAGCCGTTGTAGAATCAGAATCCTTAGAATGGTTAGAACCTGA
66 TCATGATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA
*
15573854 GTTTATGGATGAGTTAGCAGCACTAGAACCAGAATG--T----G-A--AG-A--T---G---AAC
131 GTTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGATAAAC
* * *
15573901 TGGAATTTGCGGATA
196 TAGAATTTGAGGATG
* *
15573916 AGCCAGAAACCTTATAATTGCTAGAACCTGATAAAGAACTAGAACTTGCAGAGGAATTAGAAGCC
1 AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
* ** *
15573981 TTATGATTTAATGAAGACTGAGAAGTTGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGA
66 TCATGATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA
* *
15574046 GTTTGTGGATGAGTTAGTAGCACTAGAACCGGAAT
131 GTTTGTGGATGAGTTAGCAGCACTAGAACCAGAAT
15574081 CTGAAGATAA
Statistics
Matches: 651, Mismatches: 89, Indels: 56
0.82 0.11 0.07
Matches are distributed among these distances:
184 1 0.00
185 3 0.00
186 2 0.00
187 1 0.00
190 1 0.00
192 293 0.45
193 2 0.00
197 1 0.00
198 1 0.00
199 1 0.00
202 1 0.00
203 2 0.00
204 1 0.00
205 2 0.00
209 2 0.00
210 331 0.51
211 6 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (210 bp):
AGCCAGAAGCCTTATAATTGCTAGAACCTGATAAAGAACCAGAACTTGCAGAGGAATTAGAAGCC
TCATGATTTAATGAAGACTGAGAAGCCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCTGA
GTTTGTGGATGAGTTAGCAGCACTAGAACCAGAATGCTTAAAAGAACCAGAATGTGAAGATAAAC
TAGAATTTGAGGATG
Found at i:15574088 original size:192 final size:192
Alignment explanation
Indices: 15573494--15574108 Score: 765
Period size: 192 Copynumber: 3.2 Consensus size: 192
15573484 AATGATTAAA
* * * *
15573494 AGAACCAGAATGC-GAAGATGAAATAGAATTTGAGGATGACCCATAAGCCTTATAATTGCTAGAA
1 AGAACCAGAATGCTGAAGATGAACTGGAATTTGAGGATGAGCCA-AAACCTTATAATTGCTAGAA
* *
15573558 CCTGATAAAGAACCAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGTAGACTGAGAAGC
65 CCTGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGC
* * * * * *
15573623 CGCAGTAGAAACAGAATCATTAGAATTGTTGGAA-CCTATGTTTGTGGAAGAGTTAGAAGCACC
130 CGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGA-GTTTGTGGATGAGTTAGAAGCACT
* * * * * * * **
15573686 AGAACCAGAATGCTTAA-AAGAACTGGAGTCTGAAGATGAGCCAAAAGCCTTAGAACTATTAGAA
1 AGAACCAGAATGCTGAAGATGAACTGGAATTTGAGGATGAGCCAAAA-CCTTATAATTGCTAGAA
** *
15573750 CCTGATAAAGAA-TCAGAACTTGTGGAGGAACTAGAAGCCCCATGATTTAATGAAGACTGAGAAG
65 CCTGATAAAGAACT-AGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAG
* * * * * *
15573814 CCGTTGTAGAATCAGAATCCTTAGAATGGTTAGAACCTGAGTTTATGGATGAGTTAGCAGCACT
129 CCGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
* *
15573878 AGAACCAGAATG-TGAAGATGAACTGGAATTTGCGGATAAGCCAGAAACCTTATAATTGCTAGAA
1 AGAACCAGAATGCTGAAGATGAACTGGAATTTGAGGATGAGCCA-AAACCTTATAATTGCTAGAA
* ** *
15573942 CCTGATAAAGAACTAGAACTTGCAGAGGAATTAGAAGCCTTATGATTTAATGAAGACTGAGAAGT
65 CCTGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGC
* *
15574007 TGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGTAGCACT
130 CGTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
* * * *
15574070 AGAACCGGAAT-CTGAAGATAAACTAGATTTTGAGGATGA
1 AGAACCAGAATGCTGAAGATGAACTGGAATTTGAGGATGA
15574109 TCCAGAAGTT
Statistics
Matches: 355, Mismatches: 60, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
191 5 0.01
192 342 0.96
193 8 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (192 bp):
AGAACCAGAATGCTGAAGATGAACTGGAATTTGAGGATGAGCCAAAACCTTATAATTGCTAGAAC
CTGATAAAGAACTAGAACTTGAAGAGGAATTAGAAGCCCCATGATTTAATGAAGACTGAGAAGCC
GTAGTAGAATCAGAATCCTTAGAATTGTTGGAACCCGAGTTTGTGGATGAGTTAGAAGCACT
Found at i:15574394 original size:18 final size:18
Alignment explanation
Indices: 15574326--15574388 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
15574316 ATGCTTAAAA
* *
15574326 GAACTTGAATGTGAAGAA
1 GAACCTGAATGTGAAGAT
*
15574344 GAA-CTAGAATGTGAATAT
1 GAACCT-GAATGTGAAGAT
15574362 GAACCTGAATGTGAAGAT
1 GAACCTGAATGTGAAGAT
*
15574380 GAGCCTGAA
1 GAACCTGAA
15574389 GCTGAAACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 1 0.03
18 35 0.92
19 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (18 bp):
GAACCTGAATGTGAAGAT
Found at i:15574938 original size:165 final size:165
Alignment explanation
Indices: 15574750--15575108 Score: 583
Period size: 165 Copynumber: 2.2 Consensus size: 165
15574740 GCCATAGCAG
* *
15574750 AACTAGAATCCTTAGACTTGTTAGAATCTCCGAATGAGCCAGAACCCTTCCAAGAACCATAATGT
1 AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCCAGAACCCTTCCAAGAACCAGAATGT
* *
15574815 GAAGATGAACTAGAATGTGACAATGAGCTGGAAGATTTGGAATGGCTAGAACCTGATAAAGAACT
66 GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
*
15574880 AGAAGTTCCAGAGGATCTAGAATCCCCATGACCTA
131 AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
* *
15574915 AACTAGAATCCTTAGAATTGTTAGAATCTTCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGT
1 AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCCAGAACCCTTCCAAGAACCAGAATGT
**
15574980 GAAGATGAACTAGAATGTGACAATGATTTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
66 GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
**
15575045 AGAAGTTGTAGAGGAACTAGAATCCCCATGACCTA
131 AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
** * *
15575080 AACCGGAATCTTTAGAATTATTAGAATCT
1 AACTAGAATCCTTAGAATTGTTAGAATCT
15575109 ACGGGAGAGC
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 179 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (165 bp):
AACTAGAATCCTTAGAATTGTTAGAATCTCCGAATGAGCCAGAACCCTTCCAAGAACCAGAATGT
GAAGATGAACTAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACT
AGAAGTTCCAGAGGAACTAGAATCCCCATGACCTA
Found at i:15575162 original size:165 final size:165
Alignment explanation
Indices: 15574754--15575177 Score: 505
Period size: 165 Copynumber: 2.6 Consensus size: 165
15574744 TAGCAGAACT
* * * * * * *
15574754 AGAATCCTTAGACTTGTTAGAATCTCCGAATGAGCCAGAACCCTTCCAAGAACCATAATGTGAAG
1 AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
* * * *
15574819 ATGAACTAGAATGTGACAATGAGCTGGAAGATTTGGAATGGCTAGAACCTGATAAAGAACTAGAA
66 AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
* *
15574884 GTTCCAGAGGATCTAGAATCCCCATGACCTAAACT
131 GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
* * * *
15574919 AGAATCCTTAGAATTGTTAGAATCTTCGAATGAGCTAGAACCCTTCCAAGAACCAGAATGTGAAG
1 AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
* * **
15574984 ATGAACTAGAATGTGACAATGATTTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
66 AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
**
15575049 GTTGTAGAGGAACTAGAATCCCCATGACCTAAACC
131 GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
* * * * * *
15575084 GGAATCTTTAGAATTATTAGAATCTACGGGA-GAGCTAGAA-CCTTTAAATGAACCTGAACTCTT
1 AGAATCCTTAGAATTATTAGAATCTAC-GAATGAGCTAGAACCCTTCAAA-GAACCAGAA-TCTG
* *
15575147 AA-AAGATCCAGAATGTGA-AGATGAACTAGAA
63 AAGAAGAACCAGAATGTGACA-ATGAGCTAGAA
15575178 TGTGAAGATG
Statistics
Matches: 228, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
164 7 0.03
165 215 0.94
166 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (165 bp):
AGAATCCTTAGAATTATTAGAATCTACGAATGAGCTAGAACCCTTCAAAGAACCAGAATCTGAAG
AAGAACCAGAATGTGACAATGAGCTAGAAGATTTAGAATGGCTAGAACCTGATAAAGAACTAGAA
GTTCCAGAGGAACTAGAATCCCCATGACCTAAACC
Found at i:15575201 original size:18 final size:18
Alignment explanation
Indices: 15575154--15575195 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15575144 CTTAAAAGAT
15575154 CCAGAATGTGAAGATGAA
1 CCAGAATGTGAAGATGAA
* *
15575172 CTAGAATGTGAAGATGAG
1 CCAGAATGTGAAGATGAA
15575190 CCAGAA
1 CCAGAA
15575196 GCTGAACTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.17
Consensus pattern (18 bp):
CCAGAATGTGAAGATGAA
Found at i:15578897 original size:41 final size:39
Alignment explanation
Indices: 15578823--15578939 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 39
15578813 ACTATGTTTA
* *
15578823 GCACTTAGTGTGCGATTGGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTGAG-ATAGCTTCGGCTATATAAG
*
15578863 GCACTTAGTGTGCAAGATTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGC--GATTGAGATAGCTTCGGCTATATAAG
* *
15578904 GCACTTAGTATGCGGGATT-ATAATAGCTTCGGCTAT
1 GCACTTAGTGTGC--GATTGA-GATAGCTTCGGCTAT
15578940 GCGATGGTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 14 0.21
41 47 0.70
42 6 0.09
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTGAGATAGCTTCGGCTATATAAG
Found at i:15582486 original size:9 final size:10
Alignment explanation
Indices: 15582472--15582520 Score: 70
Period size: 9 Copynumber: 5.3 Consensus size: 10
15582462 ATAAAAATCT
15582472 AAATATTA-A
1 AAATATTATA
15582481 AAATATTA-A
1 AAATATTATA
15582490 AAAT-TTATA
1 AAATATTATA
15582499 AAATATTATA
1 AAATATTATA
15582509 AAA-ATTATA
1 AAATATTATA
15582518 AAA
1 AAA
15582521 ATCACAAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 3 0.08
9 27 0.71
10 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATTATA
Found at i:15582511 original size:19 final size:18
Alignment explanation
Indices: 15582458--15582520 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 18
15582448 TTAGAAATAG
15582458 AATTATAAAA-ATCT-AAA
1 AATTATAAAATAT-TAAAA
*
15582475 TATTA-AAAATATTAAAA
1 AATTATAAAATATTAAAA
*
15582492 ATTTATAAAATATTATAAA
1 AATTATAAAATATTA-AAA
15582511 AATTATAAAA
1 AATTATAAAA
15582521 ATCACAAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 5 0.13
17 12 0.32
18 9 0.24
19 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTATAAAATATTAAAA
Found at i:15582521 original size:9 final size:9
Alignment explanation
Indices: 15582458--15582522 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
15582448 TTAGAAATAG
15582458 AATTATAAA
1 AATTATAAA
*
15582467 AA-TCTAAA
1 AATTATAAA
*
15582475 TATTA-AAA
1 AATTATAAA
15582483 ATATTA-AAA
1 A-ATTATAAA
*
15582492 ATTTATAAA
1 AATTATAAA
15582501 ATATTATAAA
1 A-ATTATAAA
15582511 AATTATAAA
1 AATTATAAA
15582520 AAT
1 AAT
15582523 CACAAACGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 12 0.26
9 26 0.57
10 8 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:15582876 original size:11 final size:10
Alignment explanation
Indices: 15582845--15582887 Score: 56
Period size: 9 Copynumber: 4.5 Consensus size: 10
15582835 TCATAAATAT
15582845 TAAAATATTA
1 TAAAATATTA
15582855 -AAAAT-TTA
1 TAAAATATTA
15582863 TAAAAGTATTA
1 TAAAA-TATTA
15582874 TAAAA-ATTA
1 TAAAATATTA
15582883 TAAAA
1 TAAAA
15582888 AATATTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.10
9 18 0.60
10 1 0.03
11 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TAAAATATTA
Found at i:15582877 original size:36 final size:36
Alignment explanation
Indices: 15582810--15582882 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
15582800 TTTTCTAAGA
* * *
15582810 AAAATAATTAAAATTTTTTAAAAAATCATAAATATT
1 AAAATAATTAAAAATTTATAAAAAATCATAAAAATT
* *
15582846 AAAAT-ATTAAAAATTTATAAAAGTATTATAAAAATT
1 AAAATAATTAAAAATTTATAAAA-AATCATAAAAATT
15582882 A
1 A
15582883 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
AAAATAATTAAAAATTTATAAAAAATCATAAAAATT
Found at i:15582888 original size:21 final size:22
Alignment explanation
Indices: 15582853--15582962 Score: 75
Period size: 21 Copynumber: 4.8 Consensus size: 22
15582843 ATTAAAATAT
*
15582853 TAAAAATT-TATAAAAGTA-TTA
1 TAAAAATTATA-AAAAATATTTA
15582874 TAAAAATTATAAAAAATATTTA
1 TAAAAATTATAAAAAATATTTA
* *
15582896 GACAAAATTATAAAAAA-A-ATA
1 TA-AAAATTATAAAAAATATTTA
*
15582917 CAAAAACTTATAAAAAATCACAAATGTTA
1 TAAAAA-TTATAAAAAAT-----AT-TTA
15582946 TAAAAATTATAAAAAAT
1 TAAAAATTATAAAAAAT
15582963 CATAAAAACT
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.06
21 27 0.38
22 7 0.10
23 14 0.20
27 1 0.01
28 11 0.15
29 7 0.10
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (22 bp):
TAAAAATTATAAAAAATATTTA
Found at i:15582890 original size:10 final size:10
Alignment explanation
Indices: 15582853--15583218 Score: 119
Period size: 10 Copynumber: 36.5 Consensus size: 10
15582843 ATTAAAATAT
*
15582853 TAAAAATTTA
1 TAAAAAATTA
*
15582863 TAAAAGTATTA
1 TAAAA-AATTA
15582874 T-AAAAATTA
1 TAAAAAATTA
*
15582883 TAAAAAATATT
1 TAAAAAAT-TA
15582894 TAGACAAAATTA
1 TA-A-AAAATTA
*
15582906 TAAAAAA-AA
1 TAAAAAATTA
15582915 TACAAAAACTTA
1 TA-AAAAA-TTA
*
15582927 TAAAAAATCA
1 TAAAAAATTA
* **
15582937 -CAAATGTTA
1 TAAAAAATTA
15582946 T-AAAAATTA
1 TAAAAAATTA
*
15582955 TAAAAAATCA
1 TAAAAAATTA
*
15582965 TAAAAACTTA
1 TAAAAAATTA
* **
15582975 TGATATTATT-
1 T-AAAAAATTA
*
15582985 TAAAAATTTA
1 TAAAAAATTA
*
15582995 TTAAAAATT-
1 TAAAAAATTA
** *
15583004 TTTAAATTTA
1 TAAAAAATTA
* *
15583014 TATAAACTTA
1 TAAAAAATTA
** *
15583024 T--AATTTTT
1 TAAAAAATTA
**
15583032 TAAGAAAAACA
1 TAA-AAAATTA
15583043 TAGATAAAATTTA
1 TA-A-AAAA-TTA
*
15583056 TAAAAACTT-
1 TAAAAAATTA
*
15583065 TAAAAAATAA
1 TAAAAAATTA
15583075 TAAAAAATTA
1 TAAAAAATTA
* *
15583085 T-GAACATTA
1 TAAAAAATTA
*
15583094 TAAAAACTTA
1 TAAAAAATTA
* * **
15583104 TTAACAATCC
1 TAAAAAATTA
15583114 TAAAAAA-TA
1 TAAAAAATTA
*
15583123 TAATAAAAATA
1 TAA-AAAATTA
*
15583134 TTAAAAA-TA
1 TAAAAAATTA
*
15583143 TGAAAAATTA
1 TAAAAAATTA
*
15583153 T-AAAACTTA
1 TAAAAAATTA
* *
15583162 GAAAAAAATCA
1 -TAAAAAATTA
15583173 TAAAAAAATTA
1 T-AAAAAATTA
15583184 TAAAAAATTA
1 TAAAAAATTA
** *
15583194 TAATGAGTTA
1 TAAAAAATTA
*
15583204 TAAAAAGTTA
1 TAAAAAATTA
15583214 TAAAA
1 TAAAA
15583219 TTTTTGAATT
Statistics
Matches: 257, Mismatches: 73, Indels: 52
0.67 0.19 0.14
Matches are distributed among these distances:
8 5 0.02
9 63 0.25
10 125 0.49
11 43 0.17
12 13 0.05
13 8 0.03
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:15582933 original size:12 final size:11
Alignment explanation
Indices: 15582854--15582933 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
15582844 TTAAAATATT
*
15582854 AAAAATTTATA
1 AAAAAATTATA
**
15582865 AAAGTATTAT-
1 AAAAAATTATA
15582875 -AAAAATTATA
1 AAAAAATTATA
15582885 AAAAATATT-TA
1 AAAAA-ATTATA
*
15582896 GACAAAATTATA
1 -AAAAAATTATA
15582908 AAAAAA--ATA
1 AAAAAATTATA
*
15582917 CAAAAACTTATA
1 -AAAAAATTATA
15582929 AAAAA
1 AAAAA
15582934 TCACAAATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
9 10 0.19
10 5 0.09
11 26 0.49
12 12 0.23
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:15583004 original size:19 final size:20
Alignment explanation
Indices: 15582982--15583019 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
15582972 TTATGATATT
15582982 ATTTAAAAATTTAT-TAAAA
1 ATTTAAAAATTTATATAAAA
**
15583001 ATTTTTAAATTTATATAAA
1 ATTTAAAAATTTATATAAA
15583020 CTTATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAAAAATTTATATAAAA
Found at i:15583794 original size:10 final size:9
Alignment explanation
Indices: 15583753--15583909 Score: 76
Period size: 9 Copynumber: 17.0 Consensus size: 9
15583743 ACTTTTTTAT
15583753 TTTTTATAAA
1 TTTTTAT-AA
15583763 TTATTTATAA
1 TT-TTTATAA
*
15583773 TTTACTT-GAA
1 TTT--TTATAA
15583783 TTTCTTATAA
1 TTT-TTATAA
*
15583793 TTTTTTAAAA
1 -TTTTTATAA
*
15583803 TATTTATAA
1 TTTTTATAA
15583812 GTTTTTATAAA
1 -TTTTTAT-AA
*
15583823 TTTTTAAAA
1 TTTTTATAA
*
15583832 TATTT-TAA
1 TTTTTATAA
* **
15583840 TATGTT-TGG
1 T-TTTTATAA
15583849 TTTTT-TAA
1 TTTTTATAA
15583857 TTTTT-TAA
1 TTTTTATAA
15583865 TTTTTATAA
1 TTTTTATAA
*
15583874 TATATTA-AA
1 T-TTTTATAA
15583883 TTTTTTATAA
1 -TTTTTATAA
*
15583893 GTTTTAT-A
1 TTTTTATAA
15583901 TTTTTATAA
1 TTTTTATAA
15583910 GCTTATATAA
Statistics
Matches: 114, Mismatches: 20, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
8 27 0.24
9 38 0.33
10 37 0.32
11 12 0.11
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15583886 original size:18 final size:17
Alignment explanation
Indices: 15583849--15583924 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 17
15583839 ATATGTTTGG
* *
15583849 TTTTT-TAATTTTTTAA
1 TTTTTATAAGTTTTAAA
15583865 TTTTTATAA-TATATTAAA
1 TTTTTATAAGT-T-TTAAA
*
15583883 TTTTTTATAAGTTTTATA
1 -TTTTTATAAGTTTTAAA
15583901 TTTTTATAAGCTTATATAAA
1 TTTTTATAAG-TT-T-TAAA
15583921 TTTT
1 TTTT
15583925 AAAGCAAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
16 6 0.12
17 14 0.29
18 10 0.20
19 11 0.22
20 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTATAAGTTTTAAA
Found at i:15584402 original size:28 final size:29
Alignment explanation
Indices: 15584335--15584405 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
15584325 AAAAGAGTCT
15584335 AAAATATTATTTTTCAGTTCTTAAGGGGCC
1 AAAATATT-TTTTTCAGTTCTTAAGGGGCC
* * *
15584365 ATAATTTTTTTTTGA-TT-TTAAGGGGCCC
1 AAAATATTTTTTTCAGTTCTTAAGGGG-CC
15584393 AAAATATTTTTTT
1 AAAATATTTTTTT
15584406 ACCAACTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.23
28 15 0.43
29 6 0.17
30 6 0.17
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (29 bp):
AAAATATTTTTTTCAGTTCTTAAGGGGCC
Found at i:15593074 original size:3 final size:3
Alignment explanation
Indices: 15593066--15593243 Score: 356
Period size: 3 Copynumber: 59.3 Consensus size: 3
15593056 GATGGGGCTA
15593066 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15593114 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15593162 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15593210 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15593244 GGCTATGTTT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 175 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15594237 original size:15 final size:15
Alignment explanation
Indices: 15594213--15594246 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15594203 TCTTTTTTAG
*
15594213 ATAAATATTAATTAA
1 ATAAAAATTAATTAA
*
15594228 ATAAAAATTAATTAG
1 ATAAAAATTAATTAA
15594243 ATAA
1 ATAA
15594247 TTTATCCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAAAAATTAATTAA
Found at i:15601102 original size:42 final size:42
Alignment explanation
Indices: 15601055--15601205 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
15601045 AAATGGTTTT
* *
15601055 ACAAGCTATTTATCAGCGAAGCTCCCCACGTGAGCTTAAATG
1 ACAAGCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * *
15601097 ACAAGCTATGTATCAACGAAGCTCCCCACATGAGCTGAAGTG
1 ACAAGCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
* * * * * *
15601139 ACAAGTTGTGTATTAGTGATGCTCCCCACATGAGTTTAAATG
1 ACAAGCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
** * *
15601181 ACAATTTGTGTATCAACGAAGCTCC
1 ACAAGCTATGTATCAGCGAAGCTCC
15601206 TCATACGAGC
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
ACAAGCTATGTATCAGCGAAGCTCCCCACATGAGCTTAAATG
Found at i:15603220 original size:26 final size:26
Alignment explanation
Indices: 15603191--15603249 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
15603181 TTTGTTGAAT
*
15603191 TGGGGTTCATC-AGGTAAGTTACGAAC
1 TGGGGTTCA-CGAGGTAACTTACGAAC
* * *
15603217 TGGGGTTTACGAGTTAACTTGCGAAC
1 TGGGGTTCACGAGGTAACTTACGAAC
15603243 TGGGGTT
1 TGGGGTT
15603250 TGCCAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.31
Consensus pattern (26 bp):
TGGGGTTCACGAGGTAACTTACGAAC
Found at i:15606138 original size:12 final size:12
Alignment explanation
Indices: 15606121--15606150 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15606111 AGCCACACGC
15606121 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
15606133 CCGTGTGCTAGG
1 CCGTGTGCCAGG
15606145 CCGTGT
1 CCGTGT
15606151 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:15615613 original size:28 final size:28
Alignment explanation
Indices: 15615550--15615703 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
15615540 ATATTAAGTC
*
15615550 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15615577 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
15615605 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
15615633 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15615661 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15615690 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15615704 CAATCTCATG
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 22 0.18
28 79 0.66
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15644634 original size:54 final size:54
Alignment explanation
Indices: 15644561--15644663 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
15644551 TTGTCATTGT
*
15644561 AGGGGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTAC
1 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
15644615 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTAT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTAT
15644664 TAATCCCACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (54 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
Found at i:15646492 original size:23 final size:23
Alignment explanation
Indices: 15646462--15646522 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
15646452 CAATGAAACA
**
15646462 ATACAGAATTTGCCACAAAGGCC
1 ATACAGAATACGCCACAAAGGCC
* *
15646485 ATACAGAATACGCCACATAGGCT
1 ATACAGAATACGCCACAAAGGCC
*
15646508 ATACAAAATACGCCA
1 ATACAGAATACGCCA
15646523 TAAATGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.16
Consensus pattern (23 bp):
ATACAGAATACGCCACAAAGGCC
Found at i:15671244 original size:14 final size:14
Alignment explanation
Indices: 15671225--15671252 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15671215 TAAAATACGG
15671225 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
15671239 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
15671253 ATCAGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (14 bp):
TGGCCCAAAACAAA
Found at i:15672730 original size:21 final size:20
Alignment explanation
Indices: 15672691--15672730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15672681 ATTTTCATAA
* *
15672691 ATATATTATGAATTGTATAT
1 ATATATTATAAATTCTATAT
15672711 ATATATATATAAATTCTATA
1 ATATAT-TATAAATTCTATA
15672731 ACCCAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATATTATAAATTCTATAT
Found at i:15677088 original size:35 final size:35
Alignment explanation
Indices: 15677039--15677137 Score: 108
Period size: 36 Copynumber: 2.8 Consensus size: 35
15677029 CTATTTGGTG
* * * *
15677039 TGTTTCGGATGGATTAGCTCTTATGAGCATCTGGCA
1 TGTTT-GGAAGGATTGGCTCGTATGAGCATATGGCA
* *
15677075 TGTTTGGAAGGATTGGCTCGTGTGAGCATATGGCG
1 TGTTTGGAAGGATTGGCTCGTATGAGCATATGGCA
* *
15677110 TGTTTTGGAGGGATTGGCTCGTGTGAGC
1 TG-TTTGGAAGGATTGGCTCGTATGAGC
15677138 TTCTAGTGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 26 0.47
36 29 0.53
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.34
Consensus pattern (35 bp):
TGTTTGGAAGGATTGGCTCGTATGAGCATATGGCA
Found at i:15677124 original size:36 final size:36
Alignment explanation
Indices: 15677038--15677137 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
15677028 TCTATTTGGT
* * * * * *
15677038 GTGTTTCGGATGGATTAGCTCTTATGAGCATCTGGC
1 GTGTTTTGGAAGGATTGGCTCGTGTGAGCATATGGC
*
15677074 ATG-TTTGGAAGGATTGGCTCGTGTGAGCATATGGC
1 GTGTTTTGGAAGGATTGGCTCGTGTGAGCATATGGC
*
15677109 GTGTTTTGGAGGGATTGGCTCGTGTGAGC
1 GTGTTTTGGAAGGATTGGCTCGTGTGAGC
15677138 TTCTAGTGTG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 28 0.52
36 26 0.48
ACGTcount: A:0.16, C:0.13, G:0.37, T:0.34
Consensus pattern (36 bp):
GTGTTTTGGAAGGATTGGCTCGTGTGAGCATATGGC
Found at i:15677149 original size:36 final size:36
Alignment explanation
Indices: 15677077--15677154 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
15677067 ATCTGGCATG
*
15677077 TTTGGAAGGATTGGCTCGTGTGAGCATATGGCGTGT
1 TTTGGAAGGATTGGCTCGTGTGAGCATATAGCGTGT
* * * *
15677113 TTTGGAGGGATTGGCTCGTGTGAGCTTCTAGTGTGT
1 TTTGGAAGGATTGGCTCGTGTGAGCATATAGCGTGT
15677149 TTTGGA
1 TTTGGA
15677155 TTGACAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.14, C:0.10, G:0.38, T:0.37
Consensus pattern (36 bp):
TTTGGAAGGATTGGCTCGTGTGAGCATATAGCGTGT
Found at i:15684198 original size:15 final size:15
Alignment explanation
Indices: 15684175--15684238 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
15684165 TTCCAGTTCG
*
15684175 AATATTTTTTCGAAA
1 AATAATTTTTCGAAA
*
15684190 AATAATTTTAC-AAA
1 AATAATTTTTCGAAA
*
15684204 AA-AATTTATTTGAAAA
1 AATAATTT-TTCG-AAA
15684220 AATAATTTTT-GAAA
1 AATAATTTTTCGAAA
15684234 AATAA
1 AATAA
15684239 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 14 0.34
15 10 0.24
16 7 0.17
17 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (15 bp):
AATAATTTTTCGAAA
Found at i:15684869 original size:12 final size:12
Alignment explanation
Indices: 15684825--15684863 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15684815 TTAAAATGTA
15684825 TTAAAATATTAT
1 TTAAAATATTAT
15684837 TTAAAATATTTAT
1 TTAAAATA-TTAT
*
15684850 TTTAAATATTAT
1 TTAAAATATTAT
15684862 TT
1 TT
15684864 GCAATAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAAAATATTAT
Found at i:15685460 original size:18 final size:19
Alignment explanation
Indices: 15685434--15685472 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15685424 CTAAAACTTT
*
15685434 ATTTTAATATTT-TTATGC
1 ATTTCAATATTTATTATGC
15685452 ATTTCAATATTTATTATGC
1 ATTTCAATATTTATTATGC
15685471 AT
1 AT
15685473 ATTTTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTCAATATTTATTATGC
Found at i:15685839 original size:7 final size:7
Alignment explanation
Indices: 15685827--15685862 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
15685817 TGTAAAATAA
15685827 ACTATTT
1 ACTATTT
15685834 ACTATTT
1 ACTATTT
15685841 ACTATTT
1 ACTATTT
*
15685848 ACTACTT
1 ACTATTT
15685855 ACTATTT
1 ACTATTT
15685862 A
1 A
15685863 TTTGTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (7 bp):
ACTATTT
Found at i:15685872 original size:6 final size:6
Alignment explanation
Indices: 15685861--15685889 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15685851 ACTTACTATT
15685861 TATTTG TATTTG TATTTG TATTTG TATTT
1 TATTTG TATTTG TATTTG TATTTG TATTT
15685890 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TATTTG
Found at i:15691689 original size:15 final size:14
Alignment explanation
Indices: 15691665--15691707 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
15691655 GACCCAAATC
15691665 AAATAAATAAACAAA
1 AAATAAATAAA-AAA
*
15691680 AAATATATAAAAAA
1 AAATAAATAAAAAA
15691694 ATAA-AAATAAAAAA
1 A-AATAAATAAAAAA
15691708 CAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAA
Found at i:15693040 original size:18 final size:16
Alignment explanation
Indices: 15693006--15693041 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
15692996 TTATATAATA
15693006 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
15693022 TATTTTATAATATACTTT
1 TATTTT-TAATA-ACTTT
15693040 TA
1 TA
15693042 AAAGCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:15693058 original size:28 final size:27
Alignment explanation
Indices: 15692993--15693058 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
15692983 GATGAATTAT
* *
15692993 TTTTTATATAATATATTTTTAATAACT
1 TTTTTATATAATATACTTTTAATAACA
*
15693020 TTTATTTTATAATATACTTTTAA-AAGCCA
1 TTT-TTATATAATATACTTTTAATAA--CA
15693049 TTTTTATATA
1 TTTTTATATA
15693059 TTTCATCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.16
28 23 0.72
29 4 0.12
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTTTATATAATATACTTTTAATAACA
Found at i:15693121 original size:28 final size:28
Alignment explanation
Indices: 15693090--15693144 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15693080 TGATAATATC
*
15693090 CCTAT-TTAATATT-TTTTTATGTATACAA
1 CCTATATTAA-ATTATTCTTAT-TATACAA
15693118 CCTATATTAAATTATTCTTATTATACA
1 CCTATATTAAATTATTCTTATTATACA
15693145 TATGTATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.51
Consensus pattern (28 bp):
CCTATATTAAATTATTCTTATTATACAA
Found at i:15694679 original size:14 final size:15
Alignment explanation
Indices: 15694654--15694685 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
15694644 CCAAAAAATA
15694654 TTTTCAGTAAATCAT
1 TTTTCAGTAAATCAT
15694669 TTTTCAG-AAATCAT
1 TTTTCAGTAAATCAT
15694683 TTT
1 TTT
15694686 CCAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTCAGTAAATCAT
Found at i:15695764 original size:27 final size:27
Alignment explanation
Indices: 15695713--15695766 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15695703 GGAAGGGGAG
*
15695713 GAGAGTAAAAGTTTTTGGAGGAAAGTA
1 GAGAGTAAAAGTTTTTGGAGAAAAGTA
15695740 GAGAGTAAAAG-TTTTGAGAGAAAAGTA
1 GAGAGTAAAAGTTTTTG-GAGAAAAGTA
15695767 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (27 bp):
GAGAGTAAAAGTTTTTGGAGAAAAGTA
Found at i:15702801 original size:27 final size:26
Alignment explanation
Indices: 15702770--15702821 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15702760 TTTAGATTTT
*
15702770 AATTAAGATAATTAGGAGTTTAAATTA
1 AATTAAGAGAATTAGG-GTTTAAATTA
* *
15702797 AATTAGGAGAATTAGGGTTTTAATT
1 AATTAAGAGAATTAGGGTTTAAATT
15702822 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AATTAAGAGAATTAGGGTTTAAATTA
Found at i:15702869 original size:93 final size:93
Alignment explanation
Indices: 15702659--15703071 Score: 652
Period size: 93 Copynumber: 4.5 Consensus size: 93
15702649 AATTAATAGG
* * * * * * * *
15702659 TTAGATAATAATATAAATTTTAATTGAGATAAATAGGAGTTTAAATTGAATTAGG-TAATTAGAG
1 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
* *** * **
15702723 -TTTAATTTA-TGACTTTAATTAATAGG
66 TTTTAATTTATTTAAAATACTTAATAAT
* *
15702749 TTAAATAATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
1 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
15702814 TTTTAATTTATTTAAAATACTTAATAAT
66 TTTTAATTTATTTAAAATACTTAATAAT
15702842 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
1 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
15702907 TTTTAATTTATTTAAAATACTTAATAAT
66 TTTTAATTTATTTAAAATACTTAATAAT
15702935 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
1 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
15703000 TTTTAATTTATTTAAAATACTTAATAAT
66 TTTTAATTTATTTAAAATACTTAATAAT
15703028 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAA
1 TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAA
15703072 GGTTTCTCAA
Statistics
Matches: 303, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
90 49 0.16
91 7 0.02
92 9 0.03
93 238 0.79
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (93 bp):
TTAGATGATAATTTAGATTTTAATTAAGATAATTAGGAGTTTAAATTAAATTAGGAGAATTAGGG
TTTTAATTTATTTAAAATACTTAATAAT
Found at i:15702893 original size:27 final size:26
Alignment explanation
Indices: 15702863--15702914 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15702853 TTTAGATTTT
*
15702863 AATTAAGATAATTAGGAGTTTAAATTA
1 AATTAAGAGAATTAGG-GTTTAAATTA
* *
15702890 AATTAGGAGAATTAGGGTTTTAATT
1 AATTAAGAGAATTAGGGTTTAAATT
15702915 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AATTAAGAGAATTAGGGTTTAAATTA
Found at i:15702986 original size:27 final size:26
Alignment explanation
Indices: 15702956--15703007 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15702946 TTTAGATTTT
*
15702956 AATTAAGATAATTAGGAGTTTAAATTA
1 AATTAAGAGAATTAGG-GTTTAAATTA
* *
15702983 AATTAGGAGAATTAGGGTTTTAATT
1 AATTAAGAGAATTAGGGTTTAAATT
15703008 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AATTAAGAGAATTAGGGTTTAAATTA
Found at i:15705864 original size:25 final size:25
Alignment explanation
Indices: 15705842--15705925 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
15705832 GTATGCTCTC
*
15705842 ACGAGCTGTAGATCGGTAAGCTCAT
1 ACGAGCTGTAAATCGGTAAGCTCAT
* * * **
15705867 ACGAGCTGAAAACCTGTAAGCTTTT
1 ACGAGCTGTAAATCGGTAAGCTCAT
*
15705892 ACGAGCTGCAAATCGGTAAGCTCAT
1 ACGAGCTGTAAATCGGTAAGCTCAT
15705917 ACGAGCTGT
1 ACGAGCTGT
15705926 GGTGTGTCCG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGTAAGCTCAT
Found at i:15710577 original size:18 final size:18
Alignment explanation
Indices: 15710554--15710596 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15710544 ACCCAATTCA
**
15710554 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
15710572 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
15710590 AACCCAA
1 AACCCAA
15710597 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:15710633 original size:6 final size:6
Alignment explanation
Indices: 15710634--15710888 Score: 510
Period size: 6 Copynumber: 42.5 Consensus size: 6
15710624 ATAAAAATAA
15710634 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
15710682 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
15710730 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
15710778 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
15710826 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
15710874 AAAACT AAAACT AAA
1 AAAACT AAAACT AAA
15710889 GTCTAAAAAT
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 249 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAACT
Found at i:15710941 original size:9 final size:9
Alignment explanation
Indices: 15710927--15710967 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
15710917 TGTAGTGATT
15710927 TAATTCGGG
1 TAATTCGGG
*
15710936 TAATTCGGT
1 TAATTCGGG
15710945 TAATTCGGG
1 TAATTCGGG
*
15710954 TAATTCGGT
1 TAATTCGGG
15710963 TAATT
1 TAATT
15710968 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:15710949 original size:18 final size:18
Alignment explanation
Indices: 15710926--15710967 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15710916 ATGTAGTGAT
15710926 TTAATTCGGGTAATTCGG
1 TTAATTCGGGTAATTCGG
15710944 TTAATTCGGGTAATTCGG
1 TTAATTCGGGTAATTCGG
15710962 TTAATT
1 TTAATT
15710968 TTTAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (18 bp):
TTAATTCGGGTAATTCGG
Found at i:15711146 original size:12 final size:12
Alignment explanation
Indices: 15711129--15711153 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15711119 TGTTATTTTG
15711129 GGTCGGTTAACC
1 GGTCGGTTAACC
15711141 GGTCGGTTAACC
1 GGTCGGTTAACC
15711153 G
1 G
15711154 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Done.