Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 42 of 295
Found at i:12063980 original size:18 final size:17
Alignment explanation
Indices: 12063924--12063997 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 17
12063914 AAATTTTAAA
*
12063924 TATATTTTTTATTAGTTT
1 TATATTTTTTATGA-TTT
12063942 TATATTTTTT-TAGAATTTT
1 TATATTTTTTAT-G-A-TTT
12063961 TATATTTTTTATGATATT
1 TATATTTTTTATGAT-TT
*
12063979 TATTAGTTTTTATGATTT
1 TA-TATTTTTTATGATTT
12063997 T
1 T
12063998 TTATAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.04
18 18 0.38
19 27 0.56
20 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
TATATTTTTTATGATTT
Found at i:12063981 original size:37 final size:38
Alignment explanation
Indices: 12063924--12064007 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
12063914 AAATTTTAAA
* *
12063924 TATATTTTTTATTAGTTTTA-TA-TTTTTTTAGAATTTT
1 TATATTTTTTATGAGTTTTATTAGTTTTTAT-GAATTTT
*
12063961 TATATTTTTTATGA-TATTTATTAGTTTTTATGATTTTT
1 TATATTTTTTATGAGT-TTTATTAGTTTTTATGAATTTT
*
12063999 TATAATTTT
1 TATATTTTT
12064008 AAAAGTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 17 0.43
38 16 0.40
39 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (38 bp):
TATATTTTTTATGAGTTTTATTAGTTTTTATGAATTTT
Found at i:12064007 original size:19 final size:18
Alignment explanation
Indices: 12063924--12064007 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
12063914 AAATTTTAAA
* * *
12063924 TATATTTTTTATTAGTTT
1 TATAATTTTTATGATTTT
*
12063942 TAT-ATTTTTTTAGAATTTT
1 TATAATTTTTAT-G-ATTTT
* *
12063961 TATATTTTTTATGATATT
1 TATAATTTTTATGATTTT
*
12063979 TATTAGTTTTTATGATTTTT
1 TA-TAATTTTTATGA-TTTT
12063999 TATAATTTT
1 TATAATTTT
12064008 AAAAGTTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 25 0.49
20 11 0.22
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATAATTTTTATGATTTT
Found at i:12064103 original size:11 final size:10
Alignment explanation
Indices: 12064093--12064181 Score: 51
Period size: 10 Copynumber: 8.9 Consensus size: 10
12064083 ATTTATTACA
12064093 ATTTTTATAC
1 ATTTTTATAC
*
12064103 ATTTTTATATAA
1 A-TTTT-TATAC
* * *
12064115 AATTTTAAAT
1 ATTTTTATAC
**
12064125 ATTTTTATTT
1 ATTTTTATAC
12064135 A-TTTTATA-
1 ATTTTTATAC
12064143 ATTTATTATAAC
1 ATTT-TTAT-AC
*
12064155 ATTTTTATAT
1 ATTTTTATAC
12064165 ATTTTT-TA-
1 ATTTTTATAC
12064173 ATTTTTATA
1 ATTTTTATA
12064182 AGTTTATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
8 7 0.11
9 12 0.19
10 23 0.37
11 12 0.19
12 9 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTTATAC
Found at i:12064109 original size:22 final size:21
Alignment explanation
Indices: 12064068--12064207 Score: 81
Period size: 22 Copynumber: 7.0 Consensus size: 21
12064058 TTTTATAGTT
*
12064068 TTAAATTTTT-T-TATGATTTA
1 TTAAATTTTTATATAT-TTTTA
*
12064088 TTACAATTTTTATACATTTTTA
1 TTA-AATTTTTATATATTTTTA
* *
12064110 TATAAAATTTTAAATATTTTTA
1 T-TAAATTTTTATATATTTTTA
*
12064132 TT-TA-TTTTATA-ATTTATTA
1 TTAAATTTTTATATATTT-TTA
12064151 -TAACATTTTTATATA-TTTT-
1 TTAA-ATTTTTATATATTTTTA
*
12064170 TT-AATTTTTATA-A-GTTTA
1 TTAAATTTTTATATATTTTTA
12064188 TATAAA-TTTTA-ATATTTTTA
1 T-TAAATTTTTATATATTTTTA
12064208 ATCTTTAATA
Statistics
Matches: 95, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
17 4 0.04
18 16 0.17
19 17 0.18
20 14 0.15
21 17 0.18
22 23 0.24
23 4 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (21 bp):
TTAAATTTTTATATATTTTTA
Found at i:12064161 original size:30 final size:29
Alignment explanation
Indices: 12064117--12064207 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 29
12064107 TTATATAAAA
* *
12064117 TTTTA-AATATTTTTATTTATTTTATAAT
1 TTTTATAACATTTTTATATATTTTATAAT
*
12064145 TTATTATAACATTTTTATATATTTTTTAAT
1 TT-TTATAACATTTTTATATATTTTATAAT
* * *
12064175 TTTTATAA-GTTTATATAAATTTTA-ATAT
1 TTTTATAACATTTTTATATATTTTATA-AT
12064203 TTTTA
1 TTTTA
12064208 ATCTTTAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 9 0.17
30 22 0.42
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTATAACATTTTTATATATTTTATAAT
Found at i:12064173 original size:51 final size:50
Alignment explanation
Indices: 12064066--12064165 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 50
12064056 GTTTTTATAG
*
12064066 TTTTAAATTTTTTTATGATTTATTACAATTTTTATACATTTTTATATAAAA
1 TTTTAAATATTTTTAT-ATTTATTACAATTTTTATACATTTTTATATAAAA
* *
12064117 TTTTAAATATTTTTAT-TTATTTTATAATTTATTATAACATTTTTATATA
1 TTTTAAATATTTTTATATT-TATTACAATTT-TTAT-ACATTTTTATATA
12064166 TTTTTTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 2 0.05
50 9 0.21
51 19 0.44
52 13 0.30
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (50 bp):
TTTTAAATATTTTTATATTTATTACAATTTTTATACATTTTTATATAAAA
Found at i:12064218 original size:26 final size:25
Alignment explanation
Indices: 12064158--12064233 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
12064148 TTATAACATT
* *
12064158 TTTATATATTTTTTAATTTTTATAAG
1 TTTATATA-ATTTTAATTTTTATAAC
12064184 TTTATATAAATTTTAATATTTT-TAATC
1 TTTATAT-AATTTTAAT-TTTTATAA-C
*
12064211 TTTA-ATAATTTATAATTTATATA
1 TTTATATAATTT-TAATTTTTATA
12064234 TTTTTCTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 8 0.19
26 25 0.60
27 9 0.21
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTATATAATTTTAATTTTTATAAC
Found at i:12064259 original size:20 final size:20
Alignment explanation
Indices: 12064234--12064276 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12064224 AATTTATATA
12064234 TTTTTCTGATTTTTATAATT
1 TTTTTCTGATTTTTATAATT
** *
12064254 TTTTTCTTTTTTTTATGATT
1 TTTTTCTGATTTTTATAATT
12064274 TTT
1 TTT
12064277 ATGAGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTCTGATTTTTATAATT
Found at i:12066680 original size:19 final size:20
Alignment explanation
Indices: 12066638--12066687 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
12066628 ATTATAAAAT
*
12066638 AATTCAAAATAATTTTTTAA
1 AATTCAAAATAATTTTATAA
12066658 AATTCAAAAT-A-TTTATAA
1 AATTCAAAATAATTTTATAA
12066676 CAATTTCAAAAT
1 -AA-TTCAAAAT
12066688 TTATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 6 0.22
19 3 0.11
20 18 0.67
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATTTTATAA
Found at i:12073545 original size:18 final size:16
Alignment explanation
Indices: 12073500--12073536 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12073490 TTTTCTTATG
* *
12073500 ATATAAATTACAAAAT
1 ATATAAAATAAAAAAT
12073516 ATATAAAATAAAAAAT
1 ATATAAAATAAAAAAT
12073532 ATATA
1 ATATA
12073537 TATCATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
ATATAAAATAAAAAAT
Found at i:12075267 original size:14 final size:14
Alignment explanation
Indices: 12075233--12075267 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12075223 TTATTTGATT
*
12075233 AAAAATATTTTTTA
1 AAAAATAATTTTTA
*
12075247 AATAATAATTTTTA
1 AAAAATAATTTTTA
12075261 AAAAATA
1 AAAAATA
12075268 GTAAAAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:12076149 original size:31 final size:32
Alignment explanation
Indices: 12076080--12076141 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
12076070 TTTTTTGTAT
*
12076080 ATTTGAATCCTTATACTTTTTTGTATATTTAAA
1 ATTT-AATCCTTATACTTTTTTGTATATTCAAA
12076113 ATTTAATCCTTATAC-TTTTTGTATATTCA
1 ATTTAATCCTTATACTTTTTTGTATATTCA
12076142 TGTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 13 0.46
32 11 0.39
33 4 0.14
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (32 bp):
ATTTAATCCTTATACTTTTTTGTATATTCAAA
Found at i:12076783 original size:14 final size:14
Alignment explanation
Indices: 12076738--12076783 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12076728 CTATTCTTTA
*
12076738 TTAATTTTATAT-T
1 TTAATGTTATATAT
12076751 TTAATGTCTAT-TAT
1 TTAATGT-TATATAT
*
12076765 CTAATGTTATATAT
1 TTAATGTTATATAT
12076779 TTAAT
1 TTAAT
12076784 TTTTAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (14 bp):
TTAATGTTATATAT
Found at i:12082204 original size:30 final size:28
Alignment explanation
Indices: 12082144--12082204 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
12082134 ACTTATTTTA
*
12082144 TTGTTAATTTTTTTTATTTTAAAGATAT
1 TTGTTAATTTTTTTTATTTTAAAGACAT
12082172 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
1 TTGTTAATTTT-TT-TTATTTTA-AAGACAT
12082202 TTG
1 TTG
12082205 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
29 2 0.07
30 14 0.48
31 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.61
Consensus pattern (28 bp):
TTGTTAATTTTTTTTATTTTAAAGACAT
Found at i:12082324 original size:20 final size:18
Alignment explanation
Indices: 12082280--12082326 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
12082270 TTATTGAGAA
*
12082280 ATATTTTTTTGATGTTTT
1 ATATATTTTTGATGTTTT
12082298 -TAGTATTTTTGATGGTTTAT
1 ATA-TATTTTTGAT-GTTT-T
12082318 ATATATTTT
1 ATATATTTT
12082327 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 9 0.38
19 4 0.17
20 7 0.29
21 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
ATATATTTTTGATGTTTT
Found at i:12082350 original size:12 final size:12
Alignment explanation
Indices: 12082327--12082360 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
12082317 TATATATTTT
12082327 AAAATT-ATATA
1 AAAATTAATATA
12082338 AAAATTAATATA
1 AAAATTAATATA
12082350 AAAATTAATAT
1 AAAATTAATAT
12082361 GGGCAGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:12082649 original size:29 final size:31
Alignment explanation
Indices: 12082585--12082650 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
12082575 ATATGTTGCT
*
12082585 AGTCCCTATACTTTGAAAAAAATTCAAAATTT
1 AGTCCCTATACTTT-AAAAAAATTCAAAATTA
*
12082617 AGTCCCTATAC-TT-AAAAAGTT-AGAAATTA
1 AGTCCCTATACTTTAAAAAAATTCA-AAATTA
12082646 AGTCC
1 AGTCC
12082651 TCCAACTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.55
31 2 0.06
32 11 0.35
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (31 bp):
AGTCCCTATACTTTAAAAAAATTCAAAATTA
Found at i:12083248 original size:20 final size:21
Alignment explanation
Indices: 12083202--12083254 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
12083192 TACTAATTAC
12083202 AAATATTTAATAATTATATTT
1 AAATATTTAATAATTATATTT
12083223 AAATATTTAA-AA-TATAGTTT
1 AAATATTTAATAATTATA-TTT
*
12083243 ATATATTCTAAT
1 AAATATT-TAAT
12083255 TAAATTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAATAATTATATTT
Found at i:12083518 original size:12 final size:13
Alignment explanation
Indices: 12083500--12083529 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12083490 TTTAAACCAA
12083500 ACTTTTTAAAAGT
1 ACTTTTTAAAAGT
12083513 ACTTTTTAAAAGT
1 ACTTTTTAAAAGT
12083526 ACTT
1 ACTT
12083530 CACAGCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (13 bp):
ACTTTTTAAAAGT
Found at i:12089923 original size:87 final size:87
Alignment explanation
Indices: 12089793--12089966 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
12089783 CCATGTTAAT
12089793 CATGTAAATCTATATATGGAAGATGGTGGGATGAAAAAGAAAAACTATTTTTCTTCTTCTTCCTT
1 CATGTAAATCTATATATGGAAGATGGTGGGATGAAAAAGAAAAACTATTTTTCTTCTTCTTCCTT
12089858 ATTCGGTTAAACCATCAAAACA
66 ATTCGGTTAAACCATCAAAACA
12089880 CATGTAAATCTATATATGGAAGATGGTGGGATGAAAAAGAAAAACTATTTTTCTTCTTCTTCCTT
1 CATGTAAATCTATATATGGAAGATGGTGGGATGAAAAAGAAAAACTATTTTTCTTCTTCTTCCTT
12089945 ATTCGGTTAAACCATCAAAACA
66 ATTCGGTTAAACCATCAAAACA
12089967 AAAAGAAATA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (87 bp):
CATGTAAATCTATATATGGAAGATGGTGGGATGAAAAAGAAAAACTATTTTTCTTCTTCTTCCTT
ATTCGGTTAAACCATCAAAACA
Found at i:12094881 original size:161 final size:161
Alignment explanation
Indices: 12094616--12094920 Score: 493
Period size: 161 Copynumber: 1.9 Consensus size: 161
12094606 TTTGTTGGAA
* * *
12094616 AAATAAATAATGAAGTAACCACTGTGTCGTGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTG
1 AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
* *
12094681 ATTGGTGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTGTACAAC
66 ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
* *
12094746 TGAATAAATAAGGTAAACAAATAATGAGCAT
131 CGAATAAAGAAGGTAAACAAATAATGAGCAT
** *
12094777 AAATAAATAATGAAGTAGTCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTTGCCCTA
1 AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
* * *
12094842 ATTGATGTAGTCGAGTAATGGACGTCGCCCCCAAGGTTAACACAATACTTCTATATTTATACACC
66 ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
12094907 CGAATAAAGAAGGT
131 CGAATAAAGAAGGT
12094921 GGAACAAAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
161 131 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (161 bp):
AAATAAATAATGAAGTAACCACTATGTCATGGAAGAACAACTGCCTTAAAAGTGAATTCGCCCTA
ATTGATGTAGTCGAGTAATAGACGTCGCCCCCAAGGTTAACACAATACTTCTATATCTATACAAC
CGAATAAAGAAGGTAAACAAATAATGAGCAT
Found at i:12099022 original size:17 final size:18
Alignment explanation
Indices: 12099000--12099034 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12098990 ATTTAGCCAT
12099000 TTTAAATTATA-ATAATA
1 TTTAAATTATATATAATA
*
12099017 TTTAAATTCTATATAATA
1 TTTAAATTATATATAATA
12099035 ATTATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAATTATATATAATA
Found at i:12099704 original size:21 final size:23
Alignment explanation
Indices: 12099679--12099720 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12099669 CGAAAAATAA
*
12099679 ATTTTA-A-ATTAATTTTTCACG
1 ATTTTATAGATTAATTGTTCACG
12099700 ATTTTATAGATTAATTGTTCA
1 ATTTTATAGATTAATTGTTCA
12099721 AGCCCGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTTTATAGATTAATTGTTCACG
Found at i:12106756 original size:25 final size:25
Alignment explanation
Indices: 12106726--12106794 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 25
12106716 AGAATATGTG
12106726 GTTGTTGCTTACAAATTGTAATATT
1 GTTGTTGCTTACAAATTGTAATATT
****
12106751 GTTGTT-C--ATGTTTTGTAATATT
1 GTTGTTGCTTACAAATTGTAATATT
12106773 GTTGTTGCTTACAAATTGTAAT
1 GTTGTTGCTTACAAATTGTAAT
12106795 GGGAGAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 17 0.52
23 1 0.03
24 1 0.03
25 14 0.42
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (25 bp):
GTTGTTGCTTACAAATTGTAATATT
Found at i:12111342 original size:15 final size:15
Alignment explanation
Indices: 12111324--12111363 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
12111314 CTTTATCCTA
*
12111324 TTAGACACATCACTT
1 TTAGACACATCACTG
*
12111339 TTAGATACATCACTG
1 TTAGACACATCACTG
*
12111354 ATAGACACAT
1 TTAGACACAT
12111364 TACTACCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (15 bp):
TTAGACACATCACTG
Found at i:12111898 original size:26 final size:27
Alignment explanation
Indices: 12111864--12111920 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
12111854 CATTAATAAC
12111864 AAATGAAACCAAAATCAAAATAACCCA
1 AAATGAAACCAAAATCAAAATAACCCA
* * *
12111891 AAAT-AAACCTAAATCGAAATAACCCT
1 AAATGAAACCAAAATCAAAATAACCCA
12111917 AAAT
1 AAAT
12111921 CTAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.60, C:0.21, G:0.04, T:0.16
Consensus pattern (27 bp):
AAATGAAACCAAAATCAAAATAACCCA
Found at i:12111910 original size:16 final size:16
Alignment explanation
Indices: 12111891--12111921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12111881 AAATAACCCA
12111891 AAATAAACCTAAATCG
1 AAATAAACCTAAATCG
*
12111907 AAATAACCCTAAATC
1 AAATAAACCTAAATC
12111922 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATAAACCTAAATCG
Found at i:12112681 original size:21 final size:20
Alignment explanation
Indices: 12112642--12112695 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
12112632 TATAATTTTG
**
12112642 AAATTAAAAAAATTGATAATA
1 AAATT-AAAAAATAAATAATA
*
12112663 AAATCTAAAAAATAAATAATT
1 AAAT-TAAAAAATAAATAATA
*
12112684 ACATTAAAAAAT
1 AAATTAAAAAAT
12112696 TAATCATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.29
21 19 0.68
22 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATTAAAAAATAAATAATA
Found at i:12113646 original size:11 final size:11
Alignment explanation
Indices: 12113632--12113704 Score: 51
Period size: 11 Copynumber: 6.6 Consensus size: 11
12113622 TTTTTTTTAA
12113632 TATTATTTTCT
1 TATTATTTTCT
*
12113643 TATTGTTTTCT
1 TATTATTTTCT
12113654 TATTAATTTTC-
1 TATT-ATTTTCT
** *
12113665 TACCATTTTAT
1 TATTATTTTCT
*
12113676 TATTATGTTGC-
1 TATTAT-TTTCT
* *
12113687 TACTATTTTAT
1 TATTATTTTCT
12113698 TATTATT
1 TATTATT
12113705 ATTGGGATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
10 7 0.16
11 31 0.69
12 7 0.16
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.64
Consensus pattern (11 bp):
TATTATTTTCT
Found at i:12113673 original size:22 final size:23
Alignment explanation
Indices: 12113648--12113702 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
12113638 TTTCTTATTG
* *
12113648 TTTTCTTATTAAT-TTTCTACCA
1 TTTTATTATTAATGTTGCTACCA
*
12113670 TTTTATTATT-ATGTTGCTACTA
1 TTTTATTATTAATGTTGCTACCA
12113692 TTTTATTATTA
1 TTTTATTATTA
12113703 TTATTGGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTATTATTAATGTTGCTACCA
Found at i:12113767 original size:30 final size:31
Alignment explanation
Indices: 12113733--12113790 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
12113723 ACTTATTTTA
12113733 TTGTTAATCTTGTTATTATTTTA-AAGACAT
1 TTGTTAATCTTGTTATTATTTTAGAAGACAT
*
12113763 TTGTTAATTTTGTTATTATTTTAGAAGA
1 TTGTTAATCTTGTTATTATTTTAGAAGA
12113791 GACATTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (31 bp):
TTGTTAATCTTGTTATTATTTTAGAAGACAT
Found at i:12117716 original size:11 final size:11
Alignment explanation
Indices: 12117674--12117722 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
12117664 ACTTAATAAA
12117674 AATAATATTTT
1 AATAATATTTT
* *
12117685 AATAAGATATT
1 AATAATATTTT
*
12117696 --GAAT-TTTT
1 AATAATATTTT
12117704 AATAATATTTT
1 AATAATATTTT
12117715 AATAATAT
1 AATAATAT
12117723 CATAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
8 3 0.10
9 2 0.07
10 3 0.10
11 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (11 bp):
AATAATATTTT
Found at i:12123841 original size:41 final size:41
Alignment explanation
Indices: 12123789--12123869 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
12123779 CCAATAAGTG
*
12123789 TATATATATCAAATTTGAAAATGGAAAATGTGTCATAATTA
1 TATATATATCAAAATTGAAAATGGAAAATGTGTCATAATTA
12123830 TATATATATCAAAATTGAAAATGGAAAATGTGTCATAATT
1 TATATATATCAAAATTGAAAATGGAAAATGTGTCATAATT
12123870 TGCTTATATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (41 bp):
TATATATATCAAAATTGAAAATGGAAAATGTGTCATAATTA
Found at i:12127348 original size:20 final size:19
Alignment explanation
Indices: 12127325--12127367 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
12127315 TAAATAACAT
12127325 TAATATAAATGATTCTAAAA
1 TAATATAAAT-ATTCTAAAA
*
12127345 TAAT-TAAATATTTTAAAA
1 TAATATAAATATTCTAAAA
12127363 -AATAT
1 TAATAT
12127368 TTTGTAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 5 0.24
20 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATATAAATATTCTAAAA
Found at i:12129207 original size:35 final size:35
Alignment explanation
Indices: 12129136--12129207 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
12129126 AACTGTGTCG
* **
12129136 GTATTTGAAATGGGCTCAGGCCCGAATCTGTTTCT
1 GTATTTGAAATGGGCTCAGACCCGAATCTGAATCT
* *
12129171 GTATTTGACATGGGCTCAGACCCGAATGTGAATCT
1 GTATTTGAAATGGGCTCAGACCCGAATCTGAATCT
12129206 GT
1 GT
12129208 TTGATTTGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (35 bp):
GTATTTGAAATGGGCTCAGACCCGAATCTGAATCT
Found at i:12131724 original size:37 final size:37
Alignment explanation
Indices: 12131683--12131758 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
12131673 TTTAAGCATC
*
12131683 TTTTAGCAAGGTAAGAAACTGCGACTAGTTCCTCCTT
1 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
12131720 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
1 TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
12131757 TT
1 TT
12131759 GGCCATCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (37 bp):
TTTTAGCAAGGTAAGAAACTGCAACTAGTTCCTCCTT
Found at i:12134843 original size:33 final size:33
Alignment explanation
Indices: 12134805--12134871 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12134795 AAAAACATAA
*
12134805 AATTATTATTATACACTCTTTCATAGAGAAATT
1 AATTATTATTATACACTCATTCATAGAGAAATT
12134838 AATTATTATTATACACTCATTCATAGAGAAATT
1 AATTATTATTATACACTCATTCATAGAGAAATT
12134871 A
1 A
12134872 TTTTATGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (33 bp):
AATTATTATTATACACTCATTCATAGAGAAATT
Found at i:12134870 original size:29 final size:30
Alignment explanation
Indices: 12134803--12134877 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 30
12134793 TTAAAAACAT
*
12134803 AAAATTATTATTATACACTCTTTCATAGAG
1 AAAATTATTATTATACACTCATTCATAGAG
12134833 AAATTAATTATTATTATACACTCATTCATAGAG
1 -AA--AATTATTATTATACACTCATTCATAGAG
12134866 -AAATTATT-TTAT
1 AAAATTATTATTAT
12134878 GAACCTTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 4 0.10
29 7 0.17
31 3 0.07
33 27 0.66
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (30 bp):
AAAATTATTATTATACACTCATTCATAGAG
Found at i:12143652 original size:17 final size:18
Alignment explanation
Indices: 12143630--12143670 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12143620 TGATTTGGGC
12143630 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
12143647 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
*
12143665 CGTGTG
1 CATGTG
12143671 AAAATTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:12147129 original size:27 final size:27
Alignment explanation
Indices: 12147098--12147156 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
12147088 AATAAAGCAC
12147098 ATTCTCTGTTGCTTTTATATTTTCTTT
1 ATTCTCTGTTGCTTTTATATTTTCTTT
*
12147125 GTTCTCTGTTGCTTTTATATTTTCTTT
1 ATTCTCTGTTGCTTTTATATTTTCTTT
12147152 ATTCT
1 ATTCT
12147157 TTATTCTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.10, C:0.15, G:0.08, T:0.66
Consensus pattern (27 bp):
ATTCTCTGTTGCTTTTATATTTTCTTT
Found at i:12151552 original size:13 final size:13
Alignment explanation
Indices: 12151534--12151561 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12151524 GAAGCACGAC
12151534 TCACACGGGTGTG
1 TCACACGGGTGTG
12151547 TCACACGGGTGTG
1 TCACACGGGTGTG
12151560 TC
1 TC
12151562 CCTGTCGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.25, G:0.36, T:0.25
Consensus pattern (13 bp):
TCACACGGGTGTG
Found at i:12152567 original size:20 final size:20
Alignment explanation
Indices: 12152544--12152583 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12152534 AAATTTTAGG
12152544 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
12152564 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
12152584 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:12153340 original size:17 final size:18
Alignment explanation
Indices: 12153307--12153340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12153297 TATTTCTCAT
*
12153307 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
12153325 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
12153341 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:12157813 original size:20 final size:20
Alignment explanation
Indices: 12157790--12157829 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12157780 AAATTTTAGA
12157790 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
12157810 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
12157830 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:12170074 original size:19 final size:17
Alignment explanation
Indices: 12170035--12170074 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
12170025 CCGTGTGGGT
12170035 CACACAAGTGTGTAGGC
1 CACACAAGTGTGTAGGC
* *
12170052 CACACAAGTGTGTGGGA
1 CACACAAGTGTGTAGGC
12170069 CACACA
1 CACACA
12170075 GGTGAACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.15
Consensus pattern (17 bp):
CACACAAGTGTGTAGGC
Found at i:12170621 original size:38 final size:39
Alignment explanation
Indices: 12170529--12170624 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 39
12170519 ACGGTACCAT
*
12170529 ATGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATAC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTGTATCCCCA-AC
* *
12170569 TTGGTGTGTAGGGTTGGGTGGGTCGATTGTATCCCC-AC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTGTATCCCCAAC
*
12170607 ATGGTGTGTTGGGTTGGA
1 ATGGTGTGTAGGGTTGGA
12170625 CGGAGATGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 17 0.34
40 33 0.66
ACGTcount: A:0.14, C:0.12, G:0.39, T:0.35
Consensus pattern (39 bp):
ATGGTGTGTAGGGTTGGATGGGTCGATTGTATCCCCAAC
Found at i:12183872 original size:63 final size:62
Alignment explanation
Indices: 12183802--12183983 Score: 249
Period size: 63 Copynumber: 2.9 Consensus size: 62
12183792 ACCCATGGAG
12183802 AAGGTGTTGATGCGGTGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAACTGG-TGCTA
1 AAGGTGTTGATGCGG-GAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAACTGGATG-TA
* * *
12183865 AATGTGTTGATGCAAGGAATGATTGTGCGTGCTGCGGTGCTTGTGTAAAATAAACTGGATGTA
1 AAGGTGTTGATGC-GGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAACTGGATGTA
* * * * *
12183928 AAGGTGTTGATGCGGGGAATGATTGTGTGTGTTGTGATGATTGTGTCAAATAAACT
1 AAGGTGTTGATGC-GGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAACT
12183984 TGGTTAGAAC
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
63 102 0.97
64 3 0.03
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.34
Consensus pattern (62 bp):
AAGGTGTTGATGCGGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAACTGGATGTA
Found at i:12184764 original size:6 final size:6
Alignment explanation
Indices: 12184753--12184782 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12184743 TACAACAATG
12184753 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
12184783 GACAATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:12185502 original size:12 final size:12
Alignment explanation
Indices: 12185485--12185524 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
12185475 ACCTCAAGAT
12185485 GAATGTGTGCGC
1 GAATGTGTGCGC
*
12185497 GAATGTGTGTGC
1 GAATGTGTGCGC
12185509 GAATGTGTGCGC
1 GAATGTGTGCGC
12185521 GAAT
1 GAAT
12185525 TATTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.40, T:0.28
Consensus pattern (12 bp):
GAATGTGTGCGC
Found at i:12187393 original size:30 final size:29
Alignment explanation
Indices: 12187359--12187415 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
12187349 TTCCCAATTT
*
12187359 CACACAATCGTGTGAGCCACCCATGTGGGG
1 CACACAACCGTGTG-GCCACCCATGTGGGG
**
12187389 CACACGCCCGTGTGGCCACCCATGTGG
1 CACACAACCGTGTGGCCACCCATGTGG
12187416 TCATGAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (29 bp):
CACACAACCGTGTGGCCACCCATGTGGGG
Found at i:12187907 original size:7 final size:6
Alignment explanation
Indices: 12187880--12187916 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
12187870 GACTTCTTTT
*
12187880 AAAATG AAAATA AAAATA AAAATA AAAATA ATAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA
12187917 TTTAAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:12188220 original size:25 final size:24
Alignment explanation
Indices: 12188190--12188237 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
12188180 TGAGTATATA
12188190 AACATAAAAAATT-AATAATCTAAAC
1 AACAT-AAAAATTAAATAAT-TAAAC
*
12188215 AACATAATAATTAAATAATTAAA
1 AACATAAAAATTAAATAATTAAA
12188238 ATTTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AACATAAAAATTAAATAATTAAAC
Found at i:12188233 original size:8 final size:8
Alignment explanation
Indices: 12188219--12188255 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
12188209 CTAAACAACA
12188219 TAATAATT
1 TAATAATT
*
12188227 AAATAA-T
1 TAATAATT
12188234 TAA-AATT
1 TAATAATT
12188241 TAATAATT
1 TAATAATT
12188249 TAATAAT
1 TAATAAT
12188256 ATTTTGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
6 2 0.08
7 7 0.28
8 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATAATT
Found at i:12188446 original size:21 final size:21
Alignment explanation
Indices: 12188391--12188439 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
12188381 TTAAAAAAAT
* *
12188391 AATTGAGAATTAAGAATTCAA
1 AATTGAAAATTGAGAATTCAA
*
12188412 AATTGAAAATTGAGAATTTAA
1 AATTGAAAATTGAGAATTCAA
*
12188433 GATTGAA
1 AATTGAA
12188440 GAATGAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (21 bp):
AATTGAAAATTGAGAATTCAA
Found at i:12188545 original size:15 final size:15
Alignment explanation
Indices: 12188525--12188554 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12188515 ATCCTTTTAG
12188525 CCATTGGAAAAGTTA
1 CCATTGGAAAAGTTA
*
12188540 CCATTGGAATAGTTA
1 CCATTGGAAAAGTTA
12188555 TTGTTGAAAG
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:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (15 bp):
CCATTGGAAAAGTTA
Found at i:12190767 original size:19 final size:20
Alignment explanation
Indices: 12190731--12190769 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12190721 ATTTATTTAA
12190731 TATTTTATTTAAAATAATAT
1 TATTTTATTTAAAATAATAT
*
12190751 TATTTTA-TTAAAGTAATAT
1 TATTTTATTTAAAATAATAT
12190770 AATAACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTTATTTAAAATAATAT
Found at i:12193920 original size:7 final size:7
Alignment explanation
Indices: 12193908--12193950 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
12193898 AAACATTAAT
12193908 TTCAACA
1 TTCAACA
12193915 TTCAACA
1 TTCAACA
12193922 TTCAACA
1 TTCAACA
12193929 TTCAACA
1 TTCAACA
12193936 TTCAACA
1 TTCAACA
12193943 TTCAACA
1 TTCAACA
12193950 T
1 T
12193951 CCAATACCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (7 bp):
TTCAACA
Found at i:12195415 original size:33 final size:33
Alignment explanation
Indices: 12195367--12195433 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
12195357 TAGAAAGGGC
*
12195367 CAGTTATTCGTAGCTCAACCTGGCATGCACATT
1 CAGTTATTCGCAGCTCAACCTGGCATGCACATT
* * *
12195400 CAGTTGTTCGCAGCTCAACTTGGCATGCATATT
1 CAGTTATTCGCAGCTCAACCTGGCATGCACATT
12195433 C
1 C
12195434 TTCAGGTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (33 bp):
CAGTTATTCGCAGCTCAACCTGGCATGCACATT
Found at i:12198062 original size:14 final size:15
Alignment explanation
Indices: 12198043--12198072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12198033 GATAGGATGA
12198043 GCTTAA-AACCCTAG
1 GCTTAACAACCCTAG
12198057 GCTTAACAACCCTAG
1 GCTTAACAACCCTAG
12198072 G
1 G
12198073 AAGTCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (15 bp):
GCTTAACAACCCTAG
Found at i:12199791 original size:50 final size:50
Alignment explanation
Indices: 12199716--12199817 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
12199706 TATAAAACAG
12199716 AAGAAAGAAAGAAAAATGAGTAAGCATTTAAATGCTTAGTAAGTTCGTAT
1 AAGAAAGAAAGAAAAATGAGTAAGCATTTAAATGCTTAGTAAGTTCGTAT
12199766 AAGAAAGAAAGAAAAATGAGTAAGCATTTAAATGCTTAGTAAGTTCGTAT
1 AAGAAAGAAAGAAAAATGAGTAAGCATTTAAATGCTTAGTAAGTTCGTAT
12199816 AA
1 AA
12199818 CAGGAAATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (50 bp):
AAGAAAGAAAGAAAAATGAGTAAGCATTTAAATGCTTAGTAAGTTCGTAT
Found at i:12200417 original size:24 final size:26
Alignment explanation
Indices: 12200352--12200410 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
12200342 GCTATATCAA
12200352 GAAGCTCACAAAGAGCCAATTAATGG
1 GAAGCTCACAAAGAGCCAATTAATGG
*
12200378 GAAGCTCACGAAGAGCC-A-TAATCGG
1 GAAGCTCACAAAGAGCCAATTAAT-GG
12200403 GAAGCTCA
1 GAAGCTCA
12200411 TAAGAGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 4 0.13
25 11 0.35
26 16 0.52
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCAATTAATGG
Found at i:12207196 original size:20 final size:20
Alignment explanation
Indices: 12207171--12207216 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
12207161 CTCCCACGCT
12207171 CGTGTCATGTCCACGACTCC
1 CGTGTCATGTCCACGACTCC
12207191 CGTGTCATGTCCACGACTCC
1 CGTGTCATGTCCACGACTCC
12207211 CGTGTC
1 CGTGTC
12207217 TTGTAGACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.39, G:0.22, T:0.26
Consensus pattern (20 bp):
CGTGTCATGTCCACGACTCC
Found at i:12209961 original size:20 final size:20
Alignment explanation
Indices: 12209908--12209974 Score: 89
Period size: 20 Copynumber: 3.1 Consensus size: 20
12209898 CTTCTACAAG
12209908 TTCATCAAAAATGGCCAACA
1 TTCATCAAAAATGGCCAACA
*
12209928 TGCATCGCTCAAAAATGGCCAACA
1 T---TC-ATCAAAAATGGCCAACA
12209952 TTCATCAAAAATGGCCAACA
1 TTCATCAAAAATGGCCAACA
12209972 TTC
1 TTC
12209975 GTTTATAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 20 0.49
21 2 0.05
23 2 0.05
24 17 0.41
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (20 bp):
TTCATCAAAAATGGCCAACA
Found at i:12215613 original size:42 final size:41
Alignment explanation
Indices: 12215554--12215703 Score: 119
Period size: 41 Copynumber: 3.7 Consensus size: 41
12215544 AATACTCAAT
* *
12215554 ATCTCACACACTAAGTGCCAAAGCATAGCCAAAGCTAT-TATA
1 ATCTCGCACACTAAGTGCCAAA-CATAGCCAAAGCTATCT-CA
** *
12215596 ATCTCGCACACTAAGTGCCTTACATAGCTAAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCAAACATAGCCAAAGCTATCTCA
* * ** * *
12215637 GTCTTGCACACTAAGTGCCGTATATAGCCGAAGCTAT-TCCGA
1 ATCTCGCACACTAAGTGCCAAACATAGCCAAAGCTATCT-C-A
* *
12215679 A--TCGCACATTAAGTGCTAAACATAG
1 ATCTCGCACACTAAGTGCCAAACATAG
12215704 TTGATTTGTC
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 19 0.22
41 47 0.54
42 21 0.24
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCAAACATAGCCAAAGCTATCTCA
Found at i:12215646 original size:41 final size:41
Alignment explanation
Indices: 12215554--12215674 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
12215544 AATACTCAAT
* * *
12215554 ATCTCACACACTAAGTGCCAAAGCATAGCCAAAGCTATTATA
1 ATCTCGCACACTAAGTGCCATA-CATAGCCAAAGCTATTACA
* *
12215596 ATCTCGCACACTAAGTGCCTTACATAGCTAAAGCTATCT-CA
1 ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTAT-TACA
* * * * *
12215637 GTCTTGCACACTAAGTGCCGTATATAGCCGAAGCTATT
1 ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTATT
12215675 CCGAATCGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.01
41 46 0.69
42 20 0.30
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATACATAGCCAAAGCTATTACA
Found at i:12218407 original size:38 final size:38
Alignment explanation
Indices: 12218356--12218432 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
12218346 TGTTAAATAT
12218356 CTAGAGAATCAAAATTGAGGGCTTTTAAAGGGAAATTA
1 CTAGAGAATCAAAATTGAGGGCTTTTAAAGGGAAATTA
12218394 CTAGAGAATCAAAATTGAGGGCTTTTAAAGGGAAATTA
1 CTAGAGAATCAAAATTGAGGGCTTTTAAAGGGAAATTA
12218432 C
1 C
12218433 ACCCTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (38 bp):
CTAGAGAATCAAAATTGAGGGCTTTTAAAGGGAAATTA
Found at i:12219867 original size:33 final size:33
Alignment explanation
Indices: 12219830--12219897 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
12219820 TAATTTAGAA
12219830 AATGAGACTCGAGTAGAAGATAATGAGTAAGTT
1 AATGAGACTCGAGTAGAAGATAATGAGTAAGTT
* *
12219863 AATGAGACTTGAGTAGATGATAATGAGTAAGTT
1 AATGAGACTCGAGTAGAAGATAATGAGTAAGTT
12219896 AA
1 AA
12219898 GTTATGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.26
Consensus pattern (33 bp):
AATGAGACTCGAGTAGAAGATAATGAGTAAGTT
Found at i:12231522 original size:16 final size:16
Alignment explanation
Indices: 12231498--12231528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12231488 TAGCCATTAT
12231498 TTTTATTTTTATTTAA
1 TTTTATTTTTATTTAA
*
12231514 TTTTGTTTTTATTTA
1 TTTTATTTTTATTTA
12231529 CTAAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTAA
Found at i:12231591 original size:82 final size:82
Alignment explanation
Indices: 12231501--12231664 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
12231491 CCATTATTTT
12231501 TATTTTTATTTAATTTTGTTTTTATTTACTAAATTTTCTTGTTCTTACTTTTGGCAAGTTTTTAT
1 TATTTTTATTTAATTTTGTTTTTATTTACTAAATTTTCTTGTTCTTACTTTTGGCAAGTTTTTAT
12231566 AGTTTACAACTAGAAGA
66 AGTTTACAACTAGAAGA
*
12231583 TATTTTTATTTAATTTTGTTTTTATTTACTAAATTTTCTTGTTCTTACTTTTGGCAGGTTTTTAT
1 TATTTTTATTTAATTTTGTTTTTATTTACTAAATTTTCTTGTTCTTACTTTTGGCAAGTTTTTAT
12231648 AGTTTACAACTAGAAGA
66 AGTTTACAACTAGAAGA
12231665 AACCCATCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (82 bp):
TATTTTTATTTAATTTTGTTTTTATTTACTAAATTTTCTTGTTCTTACTTTTGGCAAGTTTTTAT
AGTTTACAACTAGAAGA
Found at i:12243603 original size:12 final size:11
Alignment explanation
Indices: 12243575--12243667 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 11
12243565 TATATTATTT
12243575 TTATTTATATA
1 TTATTTATATA
*
12243586 TTATTTATCATG
1 TTATTTAT-ATA
12243598 TTA-TT-TATA
1 TTATTTATATA
* *
12243607 TTATTCTACATT
1 TTATT-TATATA
*
12243619 TTATTTATAAA
1 TTATTTATATA
* *
12243630 TTTTATTATATG
1 TTAT-TTATATA
*
12243642 TTA--TATATT
1 TTATTTATATA
*
12243651 TTACTATATATA
1 TTA-TTTATATA
12243663 TTATT
1 TTATT
12243668 CCTTAATTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
9 13 0.22
10 2 0.03
11 18 0.30
12 27 0.45
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATTTATATA
Found at i:12243608 original size:21 final size:21
Alignment explanation
Indices: 12243582--12243627 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12243572 TTTTTATTTA
12243582 TATATTATT-TATCATGTTATT
1 TATATTATTCTA-CATGTTATT
*
12243603 TATATTATTCTACATTTTATT
1 TATATTATTCTACATGTTATT
12243624 TATA
1 TATA
12243628 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATTATTCTACATGTTATT
Found at i:12243651 original size:19 final size:19
Alignment explanation
Indices: 12243623--12243659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12243613 TACATTTTAT
*
12243623 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
12243642 TTATATATTTTACTATAT
1 TTATAAATTTTACTATAT
12243660 ATATTATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:12243667 original size:44 final size:44
Alignment explanation
Indices: 12243575--12243667 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
12243565 TATATTATTT
* * * * *
12243575 TTATTTATATATTATTTATCATGTTATTTATATTATTCTACATT
1 TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
* * *
12243619 TTATTTATAAATTTTATTAT-ATGTTATATATTTTACTATATATA
1 TTATTTATAAATTAT-TTATCATGTTATATATATTACTATACATA
12243663 TTATT
1 TTATT
12243668 CCTTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (44 bp):
TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
Found at i:12255882 original size:44 final size:44
Alignment explanation
Indices: 12255810--12256444 Score: 849
Period size: 44 Copynumber: 14.4 Consensus size: 44
12255800 GGGACAATGT
12255810 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * * * * *
12255854 ATATCAAAAATAACAGATTTGGTGTCTCTGTATTGACAAAAAGT
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
12255898 AGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
12255942 AGATCGAAGATAGCAAATCTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
** *
12255986 AGATTAAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
*
12256030 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
12256074 AGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAAAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
12256118 AGATCGAAGATAACAGATTTGACATCTCTTTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * *
12256162 GGATTGAAAATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * *
12256206 AAATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAAAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * *
12256250 AGATCGAAGATAGCAGATTTGACATCTTTGTATTGACAGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* *
12256294 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAAAAAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * *
12256338 AGATCAAAGATAACAGATTTGGAGTCTCTGTATTGATAGAGGGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
* * * * *
12256382 AGGTTGAAGATGACAGACTTGGTGTCTCTGTATTAGACA-AGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATT-GACAGA-GAGC
*
12256427 AGATCGAAGATACCAGAT
1 AGATCGAAGATAACAGAT
12256445 CTGACATTTG
Statistics
Matches: 509, Mismatches: 80, Indels: 3
0.86 0.14 0.01
Matches are distributed among these distances:
44 490 0.96
45 19 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCGTCTCTGTATTGACAGAGAGC
Found at i:12257636 original size:21 final size:21
Alignment explanation
Indices: 12257611--12257688 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 21
12257601 GTAAAAATAG
12257611 TATATTTATTATTTTTATTTA
1 TATATTTATTATTTTTATTTA
*
12257632 TATA-TTATTTATCATGTTATTTA
1 TATATTTA-TTAT--TTTTATTTA
*
12257655 TAT-TATTA-TACATTTTATTTA
1 TATAT-TTATTA-TTTTTATTTA
*
12257676 TAAATTTTATTAT
1 TATA-TTTATTAT
12257689 ATGTTATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 17
0.66 0.08 0.26
Matches are distributed among these distances:
20 3 0.07
21 18 0.42
22 5 0.12
23 14 0.33
24 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TATATTTATTATTTTTATTTA
Found at i:12257653 original size:12 final size:11
Alignment explanation
Indices: 12257625--12257663 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
12257615 TTTATTATTT
12257625 TTATTTATATA
1 TTATTTATATA
*
12257636 TTATTTATCATG
1 TTATTTAT-ATA
12257648 TTATTTATATTA
1 TTATTTATA-TA
12257660 TTAT
1 TTAT
12257664 ACATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (11 bp):
TTATTTATATA
Found at i:12257701 original size:19 final size:19
Alignment explanation
Indices: 12257673--12257709 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12257663 TACATTTTAT
*
12257673 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
12257692 TTATATATTTTACTATAT
1 TTATAAATTTTACTATAT
12257710 ATATTATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:12257717 original size:44 final size:44
Alignment explanation
Indices: 12257625--12257717 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
12257615 TTTATTATTT
* * * *
12257625 TTATTTATATATTATTTATCATGTTATTTATATTATTATACATT
1 TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
* * *
12257669 TTATTTATAAATTTTATTAT-ATGTTATATATTTTACTATATATA
1 TTATTTATAAATTAT-TTATCATGTTATATATATTACTATACATA
12257713 TTATT
1 TTATT
12257718 CCTTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (44 bp):
TTATTTATAAATTATTTATCATGTTATATATATTACTATACATA
Found at i:12257932 original size:2 final size:2
Alignment explanation
Indices: 12257925--12257953 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12257915 TCATGTAGTG
12257925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12257954 TAATCATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12280905 original size:30 final size:30
Alignment explanation
Indices: 12280833--12280917 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
12280823 GATTAAATAA
** *
12280833 AAATTAAAGTTTCAAATATACATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGAACC
* * * *
12280863 ACAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGAACC
12280894 AAATTAAAGTTT-ATGTATACAATT
1 AAATTAAAGTTTCATGTATACAATT
12280918 ATACATTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 10 0.23
30 11 0.25
31 23 0.52
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGAACC
Found at i:12281139 original size:21 final size:20
Alignment explanation
Indices: 12281115--12281161 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12281105 TTAGTTTTTG
12281115 AAAATTTTTTTCTATTTCTAA
1 AAAATTTTTTT-TATTTCTAA
* * *
12281136 AAAATATTTTTTATTTTTTA
1 AAAATTTTTTTTATTTCTAA
12281156 AAAATT
1 AAAATT
12281162 AAAAAACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAATTTTTTTTATTTCTAA
Found at i:12281158 original size:20 final size:20
Alignment explanation
Indices: 12281104--12281160 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
12281094 TCCAGCTTCA
* * *
12281104 TTTAGTTTTTGAAAATTTTT
1 TTTATTTTTTAAAAATATTT
* *
12281124 TTCTATTTCTAAAAAATATTT
1 TT-TATTTTTTAAAAATATTT
12281145 TTTATTTTTTAAAAAT
1 TTTATTTTTTAAAAAT
12281161 TAAAAAACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATTTTTTAAAAATATTT
Found at i:12283385 original size:15 final size:15
Alignment explanation
Indices: 12283365--12283416 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
12283355 ACTACAAAAC
12283365 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
12283380 ATTTATAATTGAAATAAAT
1 ATTTATTATT--AAT--AT
*
12283399 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
12283414 ATT
1 ATT
12283417 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 14 0.47
17 5 0.17
19 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:12283402 original size:19 final size:19
Alignment explanation
Indices: 12283378--12283414 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12283368 TATTATTAAT
*
12283378 ATATTTATAATTGAAATAA
1 ATATTTATAATTAAAATAA
*
12283397 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
12283415 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:12283474 original size:15 final size:16
Alignment explanation
Indices: 12283454--12283484 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
12283444 AATAACATTG
12283454 TTTAAAATT-ATTATT
1 TTTAAAATTCATTATT
12283469 TTTAAAATTCATTATT
1 TTTAAAATTCATTATT
12283485 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAAATTCATTATT
Found at i:12289653 original size:17 final size:18
Alignment explanation
Indices: 12289621--12289655 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12289611 CTGTGTGGCT
12289621 TACCCGTGTGGGCCCACA
1 TACCCGTGTGGGCCCACA
12289639 TACCCGTGT-GGCCCACA
1 TACCCGTGTGGGCCCACA
12289656 CACCTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
TACCCGTGTGGGCCCACA
Found at i:12290340 original size:49 final size:49
Alignment explanation
Indices: 12290283--12290380 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
12290273 CGATGAATCA
12290283 AAAGTAAGAAAATGAAAAGACAGAGGCAAGCAGAAGAATAAATTGACGT
1 AAAGTAAGAAAATGAAAAGACAGAGGCAAGCAGAAGAATAAATTGACGT
12290332 AAAGTAAGAAAATGAAAAGACAGAGGCAAGCAGAAGAATAAATTGACGT
1 AAAGTAAGAAAATGAAAAGACAGAGGCAAGCAGAAGAATAAATTGACGT
12290381 CAATCTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.55, C:0.08, G:0.24, T:0.12
Consensus pattern (49 bp):
AAAGTAAGAAAATGAAAAGACAGAGGCAAGCAGAAGAATAAATTGACGT
Found at i:12300747 original size:17 final size:17
Alignment explanation
Indices: 12300721--12300753 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12300711 GAAAACCATT
12300721 TTTTACATAAAACTGTTG
1 TTTTACATAAAA-TGTTG
12300739 TTTTA-ATAAAATGTT
1 TTTTACATAAAATGTT
12300754 TTACCAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (17 bp):
TTTTACATAAAATGTTG
Found at i:12306773 original size:18 final size:18
Alignment explanation
Indices: 12306752--12306790 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12306742 TTAAGGTTTG
* *
12306752 ATTTAGTCCTTTTTTGTT
1 ATTTAGTACTATTTTGTT
*
12306770 ATTTATTACTATTTTGTT
1 ATTTAGTACTATTTTGTT
12306788 ATT
1 ATT
12306791 AGATTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (18 bp):
ATTTAGTACTATTTTGTT
Found at i:12309655 original size:15 final size:15
Alignment explanation
Indices: 12309631--12309664 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12309621 AACAATTACG
*
12309631 ATAATGCGAGTAAAA
1 ATAATACGAGTAAAA
12309646 ATAATACGAGTAAAA
1 ATAATACGAGTAAAA
12309661 ATAA
1 ATAA
12309665 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (15 bp):
ATAATACGAGTAAAA
Found at i:12312542 original size:40 final size:40
Alignment explanation
Indices: 12312481--12312585 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 40
12312471 AAAAGTTAAA
** *
12312481 CATTAGTGGCGTTAATTAGAAAACG-CTGCAAAAGGTCTGG
1 CATTAGTGGCGTTTGTGAGAAAACGTC-GCAAAAGGTCTGG
* *
12312521 CATTAGTGGCGTTTGTGAGAAAAAATGTCGCAAAATGTCTGG
1 CATTAGTGGCGTTTGTGAG--AAAACGTCGCAAAAGGTCTGG
* *
12312563 TATTAGCGGCGTTTGTGAGAAAA
1 CATTAGTGGCGTTTGTGAGAAAA
12312586 ATGCCTCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 20 0.36
42 34 0.62
43 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (40 bp):
CATTAGTGGCGTTTGTGAGAAAACGTCGCAAAAGGTCTGG
Found at i:12312608 original size:41 final size:42
Alignment explanation
Indices: 12312508--12312618 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 42
12312498 AGAAAACGCT
** * * *
12312508 GCAAAAGGTCTGGCATTAGTGGCGTTTGTGAGAAAAAATGTC
1 GCAAAAGGTCAAGTATTAGCGGCGTTTGTGAGAAAAAATGCC
* **
12312550 GCAAAATGTCTGGTATTAGCGGCGTTTGTGAG-AAAAATGCC
1 GCAAAAGGTCAAGTATTAGCGGCGTTTGTGAGAAAAAATGCC
* *
12312591 TCAAAAGGTCAATTATTAGCGGCGTTTG
1 GCAAAAGGTCAAGTATTAGCGGCGTTTG
12312619 CAAAAAATCA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 31 0.52
42 29 0.48
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (42 bp):
GCAAAAGGTCAAGTATTAGCGGCGTTTGTGAGAAAAAATGCC
Found at i:12313413 original size:7 final size:7
Alignment explanation
Indices: 12313403--12313483 Score: 53
Period size: 7 Copynumber: 11.6 Consensus size: 7
12313393 AGTTTAAGGT
12313403 TTTAGTG
1 TTTAGTG
*
12313410 TTTAGAG
1 TTTAGTG
*
12313417 TTTAGGG
1 TTTAGTG
12313424 TTTAG-G
1 TTTAGTG
12313430 ATTTA-TAG
1 -TTTAGT-G
12313438 TTTTAG-G
1 -TTTAGTG
12313445 TTTTAG-G
1 -TTTAGTG
* *
12313452 TTTTGGG
1 TTTAGTG
12313459 TTTAGTG
1 TTTAGTG
*
12313466 TTTAGGG
1 TTTAGTG
12313473 TTTAGTG
1 TTTAGTG
12313480 TTTA
1 TTTA
12313484 AGGTTTTGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
6 5 0.08
7 51 0.84
8 5 0.08
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
TTTAGTG
Found at i:12313434 original size:21 final size:20
Alignment explanation
Indices: 12313337--12313489 Score: 81
Period size: 21 Copynumber: 7.2 Consensus size: 20
12313327 TTCATTTTAT
* *
12313337 TTTAGGCTTTAGAGTCTATGG
1 TTTAGG-TTTAGAGTTTAGGG
* *
12313358 TTTAAAGTTTAGGGTTTAGGG
1 TTT-AGGTTTAGAGTTTAGGG
* ** *
12313379 TTTTATGATTTTTTAGTTTAAGGT
1 -TTTA-G-GTTTAGAGTTT-AGGG
12313403 TTTAGTGTTTAGAGTTTAGGG
1 TTTAG-GTTTAGAGTTTAGGG
* *
12313424 TTTAGGATTTATAGTTTTAGGT
1 TTTAGG-TTTAGAG-TTTAGGG
* * *
12313446 TTTAGGTTTTGGGTTTAGTG
1 TTTAGGTTTAGAGTTTAGGG
* *
12313466 TTTAGGGTTTAGTGTTTAAGG
1 TTTA-GGTTTAGAGTTTAGGG
12313487 TTT
1 TTT
12313490 TGATAAAAAC
Statistics
Matches: 98, Mismatches: 26, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
20 10 0.10
21 48 0.49
22 26 0.27
23 11 0.11
24 3 0.03
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.52
Consensus pattern (20 bp):
TTTAGGTTTAGAGTTTAGGG
Found at i:12313488 original size:14 final size:14
Alignment explanation
Indices: 12313394--12313489 Score: 74
Period size: 14 Copynumber: 6.8 Consensus size: 14
12313384 TGATTTTTTA
12313394 GTTTAAGGTTTTAGT
1 GTTTAAGG-TTTAGT
*
12313409 GTTT-AGAGTTTAGG
1 GTTTAAG-GTTTAGT
12313423 GTTT-AGGATTTA-T
1 GTTTAAGG-TTTAGT
*
12313436 AGTTTTAGGTTTTAG-
1 -GTTTAAGG-TTTAGT
**
12313451 GTTTTGGGTTTAGT
1 GTTTAAGGTTTAGT
*
12313465 GTTTAGGGTTTAGT
1 GTTTAAGGTTTAGT
12313479 GTTTAAGGTTT
1 GTTTAAGGTTT
12313490 TGATAAAAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
13 6 0.09
14 51 0.74
15 12 0.17
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
GTTTAAGGTTTAGT
Found at i:12313728 original size:6 final size:6
Alignment explanation
Indices: 12313713--12313747 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
12313703 TTTTTAAAGC
*
12313713 TTTTT- TTTTTG CTTTTG TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
12313748 ATTTCTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:12313959 original size:40 final size:41
Alignment explanation
Indices: 12313907--12313983 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
12313897 GTTTATGAAA
* *
12313907 AAACGCTGC-AAAAGGTAAGCAATAGCGGCGTTTTTGTTGG
1 AAACGCCGCAAAAAGGTAAGCAATAGCGGCATTTTTGTTGG
* * *
12313947 AAACGCCGCAAAAAGTTGAGCAATAGTGGCATTTTTG
1 AAACGCCGCAAAAAGGTAAGCAATAGCGGCATTTTTG
12313984 GTCTAAATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 8 0.26
41 23 0.74
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (41 bp):
AAACGCCGCAAAAAGGTAAGCAATAGCGGCATTTTTGTTGG
Found at i:12313971 original size:41 final size:40
Alignment explanation
Indices: 12313876--12313983 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
12313866 AAAAATTGTA
* * * *
12313876 AAAAAGTCGAGCACTAGCGGCGTTTATGAAAAAACGCTGC
1 AAAAAGTTGAGCAATAGCGGCGTTTTTGAAAAAACGCCGC
* * ***
12313916 -AAAAGGTAAGCAATAGCGGCGTTTTTGTTGGAAACGCCGC
1 AAAAAGTTGAGCAATAGCGGCGTTTTTG-AAAAAACGCCGC
* *
12313956 AAAAAGTTGAGCAATAGTGGCATTTTTG
1 AAAAAGTTGAGCAATAGCGGCGTTTTTG
12313984 GTCTAAATGC
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
39 22 0.42
40 8 0.15
41 23 0.43
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (40 bp):
AAAAAGTTGAGCAATAGCGGCGTTTTTGAAAAAACGCCGC
Found at i:12315218 original size:23 final size:23
Alignment explanation
Indices: 12315192--12316301 Score: 832
Period size: 23 Copynumber: 48.4 Consensus size: 23
12315182 TTAATTTATT
*
12315192 AAGTGTTTAAATGTTGTAAATTT
1 AAGTGTTTAAATGTTGTAAATTG
12315215 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* * *
12315238 AAGTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
** * *
12315261 AAGTGTTTAGTTGATGCAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315284 -AGATGTTT-TATCATTGT-AATTG
1 AAG-TGTTTAAAT-GTTGTAAATTG
* *
12315306 AAGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315329 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
* * *
12315352 AAGTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
** *
12315375 AAGTGTTTAGTTGTTGGAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315398 -AGATGTTT-TATCGCTGT-AATTG
1 AAG-TGTTTAAAT-GTTGTAAATTG
* * *
12315420 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315443 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
*
12315466 ATGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12315489 AAGTG-TTAAAGTGTTGCAAATTG
1 AAGTGTTTAAA-TGTTGTAAATTG
12315512 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* ** * * *
12315535 AATTGTTTAAGCGCTGCAAGTTG
1 AAGTGTTTAAATGTTGTAAATTG
** * *
12315558 AAGTGTTTAGTTGCTGGAAATT-
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315580 AAGATGTTT-TATCGCTGT-AATTG
1 AAG-TGTTTAAAT-GTTGTAAATTG
* * *
12315603 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12315626 -AGATG-TTAAAGTGCTGTAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
*
12315649 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12315672 AAGTG-TTAAAGTGTTGCAAATTG
1 AAGTGTTTAAA-TGTTGTAAATTG
* *
12315695 AAGTGTTCAAATGTTGTAAATTA
1 AAGTGTTTAAATGTTGTAAATTG
*
12315718 AAGTGTTTAAATGTTGTAAGTTG
1 AAGTGTTTAAATGTTGTAAATTG
* * *
12315741 AAGTGATTAAGTGTTGCAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12315764 AAGTGTTTAATTAGTTGCTGGAAATTG
1 AAGTGTTTAAAT-GTTG-T--AAATTG
* *
12315791 -AGATGTTT-TATCGCTGT-AATTG
1 AAG-TGTTTAAAT-GTTGTAAATTG
* * * *
12315813 AGGTGTATAAATATTGTTAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12315836 -AGATG-TTAAAGTGTTGCAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
12315859 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315882 AAGTGTTTAAATGCTGTAATTTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12315905 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGTTGTAAATTG
12315928 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
12315951 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
** * *
12315974 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* * *
12315997 AAATGTTT-TATCGCTGT-AATTG
1 AAGTGTTTAAAT-GTTGTAAATTG
* * *
12316019 AGGTGTATAAATGTTGTTAATT-
1 AAGTGTTTAAATGTTGTAAATTG
* *
12316041 AAGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
* *
12316065 AAGTGTTTAAATGCTATAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12316088 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* *
12316111 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGTTGTAAATTG
12316134 AAGTGTTTAAATGTT-TAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
12316156 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
* * *
12316179 AAGTGTTTAAGTGCTGCAAATTG
1 AAGTGTTTAAATGTTGTAAATTG
** *
12316202 AAGTGTTTAGTTGCTAG-AAATTG
1 AAGTGTTTAAATG-TTGTAAATTG
* **
12316225 -AGATGTTT-TATCCATGT-AATTG
1 AAG-TGTTTAAAT-GTTGTAAATTG
* * *
12316247 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGTTGTAAATTG
*
12316270 -AGATG-TTAAAGTGTTGCAAATTG
1 AAG-TGTTTAAA-TGTTGTAAATTG
12316293 AAGTGTTTA
1 AAGTGTTTA
12316302 GTTGCTGGTT
Statistics
Matches: 874, Mismatches: 147, Indels: 131
0.76 0.13 0.11
Matches are distributed among these distances:
22 164 0.19
23 629 0.72
24 63 0.07
25 1 0.00
26 6 0.01
27 11 0.01
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
AAGTGTTTAAATGTTGTAAATTG
Found at i:12315351 original size:91 final size:92
Alignment explanation
Indices: 12315205--12316202 Score: 346
Period size: 91 Copynumber: 10.9 Consensus size: 92
12315195 TGTTTAAATG
* * *
12315205 TTGTAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-
1 TTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
12315269 AGTTGATGCAAATTGAGATGTTTTATCA
66 AG-TGATGCAAATTGAGATGTTTTATCA
*
12315297 TTGT-AATTGAAGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTT
1 TTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTT
* **
12315360 AAGTGCTGCAAATTGA-A-GTGTTTAGTTG
65 AAGTGATGCAAATTGAGATGT-TTTA-TCA
* ** * * * **
12315388 TTGGAAATTG-AGATGT-TTTATCGCTGT-AATTGAGGTGTATAAA-TGTTGTTAATTG-AGATG
1 TTGTAAATTGAAG-TGTATAAAT-GTTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TG
* * * *
12315448 TTAAAGTGCTGCAAATTGATG-TGTTTAAAT-G
62 TTTAAGTGATGCAAATTGA-GATGTTT-TATCA
* * * *
12315479 TTGTAAATTGAAGTGT-TAAAGTGTTGCAAATTGAAGTGTTTAAA-TGTTGTAAATTGAATTGTT
1 TTGTAAATTGAAGTGTATAAA-TGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTT
* * * **
12315542 TAAGCGCTGCAAGTTGA-A-GTGTTTAGTTG
64 TAAGTGATGCAAATTGAGATGT-TTTA-TCA
* * ** * * * **
12315571 CTGGAAATT-AAGATGT-TTTATCGCTGT-AATTGAGGTGTATAAA-TGTTGTTAATTG-AGATG
1 TTGTAAATTGAAG-TGTATAAAT-GTTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TG
* * * *
12315631 TTAAAGTGCTGTAAATTGA-A-GTGTTTA-AA
62 TTTAAGTGATGCAAATTGAGATGT-TTTATCA
* * * *
12315660 TGCTGTAAATTGAAGTGT-TAAAGTGTTGCAAATTGAAGTGTTCAAA-TGTTGTAAATTAAAGTG
1 T--TGTAAATTGAAGTGTATAAA-TGTTGTAAATTGAAGTGTT-AAAGTGCTGCAAATTGAAGTG
* * * * * * *
12315723 TTTAAATGTTGTAAGTTGA-AGTGATTAAGT-G
62 TTTAAGTGATGCAAATTGAGA-TGTTTTA-TCA
* * * ** * *
12315754 TTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGG
1 TTGTAAATTGAAGTGTATAAAT-GTTG-T--AAATTGAAG-TGTTAAAGT-GCTGCAAATTGAAG
* * ** ** *
12315816 TGTATAAAT-ATTGTTAATTGAGATGTTAAAGT-G
60 TGTTTAAGTGA-TGCAAATTGAGATGTTTTA-TCA
* * * * *
12315849 TTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAA-TGCTGTAATTTGAAGTGTTA
1 TTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT
* * *
12315913 AAGTGCTGCAAATTGA-AGTGTTTAAAT-G
65 AAGTGATGCAAATTGAGA-TGTTT-TATCA
* * * *
12315941 TTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTT-TAGTTGCTGGAAATTGAAATGTTT
1 TTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAGTGTTT
* * * * ** *
12316005 TA-TCGCTG-TAATTGAGGTGTATAAAT-G
65 AAGT-GATGCAAATTGAGATGT-TTTATCA
* * * **
12316032 TTGTTAATT-AAGATGT-TAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTATAAATTGAAGTGT
1 TTGTAAATTGAAG-TGTATAAA-TGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGT
* * * * *
12316094 TTAAATGCTGTAAATTGA-A-GTGTTA-AA
63 TTAAGTGATGCAAATTGAGATGTTTTATCA
* * * *
12316121 GTGCTGCAAATTGAAGTGTTTAAATGTT-TAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTG
1 -T--TGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG
*
12316184 TTTAAGTGCTGCAAATTGA
62 TTTAAGTGATGCAAATTGA
12316203 AGTGTTTAGT
Statistics
Matches: 716, Mismatches: 120, Indels: 141
0.73 0.12 0.14
Matches are distributed among these distances:
89 3 0.00
90 25 0.03
91 326 0.46
92 259 0.36
93 28 0.04
94 6 0.01
95 55 0.08
96 14 0.02
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (92 bp):
TTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
AGTGATGCAAATTGAGATGTTTTATCA
Found at i:12315465 original size:137 final size:134
Alignment explanation
Indices: 12315195--12316301 Score: 797
Period size: 137 Copynumber: 8.0 Consensus size: 134
12315185 ATTTATTAAG
* * * * *
12315195 TGTTTAAATGTTGTAAATTTAAGTGTTTAAA-TGTTGTAAATTGAAGTGTTTAAGTGCTGCAAAT
1 TGTTTAAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* * * ** * *
12315259 TGAAGTGTTTAGTTGATGCAAATTG-AGATGTTTTATCATTGT-AATTGA-AGTGTATAAATGTT
65 TGAAGTGTTTA-ATGCTG-TAATTGAAG-TGTTAAAT-GTTGTAAATTGAGA-TGT-TAAATGCT
*
12315321 GTTAATTGAGA
124 GTAAATTGAGA
* * * ** * *
12315332 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGGAAAT
1 TGTTTAAA-TGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* * * *
12315396 TG-AGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGC
65 TGAAG-TGTTTAAT-GCTGTAATTGAAGTGT-TAAATGTTGTAAATTGAGATGTTAAA-TGCTGT
12315460 AAATTGATG-
126 AAATTGA-GA
* *
12315469 TGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAATT
1 TGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATT
* * * ** * * * **
12315534 GAATTGTTTAAGCGCTGCAAGTTGAAGTGTTTAGTTGCTGGAAATTAAGATGTTTTATCGCTGT-
66 GAAGTGTTTAA-TGCTGTAA-TTGAAGTG-TTAAATGTTGTAAATTGAGATGTTAAAT-GCTGTA
*
12315598 AATTGAGG
127 AATTGAGA
* * *
12315606 TGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGTAAAT
1 TGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* * * * *
12315670 TGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATT-AAAGTGTTTAAATGTTG
65 TGAAGTGTTTAA-TGCTG-TAATTGAAGTGTT-AAATGTTGTAAATTGAGA-TG-TTAAATGCTG
*
12315734 TAAGTTGA-A
125 TAAATTGAGA
* * * * *
12315743 GTGATTAAGTGTTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTG-AGATGTTT-TATCGCT
1 -TGTTTAAATGTTGTAAATTGAAGTG-TTAA--AG-TGCTGCAAATTGAAG-TGTTTAAAT-GCT
* * ** *
12315806 GT-AATTGAGGTGTATAAATATTGTTAATTG-AGATGTTAAAGTGTTGCAAATTGA-AGTGTTTA
59 GTAAATTGAAGTGT-TTAATGCTG-TAATTGAAG-TGTTAAA-TGTTGTAAATTGAGA-TG-TTA
*
12315868 AATGTTGTAAATTGA-A
118 AATGCTGTAAATTGAGA
* * *
12315884 GTGTTTAAATGCTGTAATTTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAAT
1 -TGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* ** * * * **
12315949 TGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAGTTGCTGGAAATTGAAATGTTTTATCGCTGT
65 TGAAGTGTTT-AATGCTGT-AATTGAAGTG-TTAAATGTTGTAAATTGAGATGTTAAAT-GCTGT
*
12316014 -AATTGAGG
126 AAATTGAGA
* * *
12316022 TGTATAAATGTTGTTAATT-AAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTATAAAT
1 TGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* * *
12316086 TGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA-AGTGTTTAAATG-TT
65 TGAAGTGTTT-AATGCTGT-AATTGAAGTGTTAAA-TGTTGTAAATTGAGA-TG-TTAAATGCTG
12316149 TAAATTGA-A
125 TAAATTGAGA
* **
12316158 GTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAG-AAA
1 -TGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCT-GTAAA
* * * * *
12316222 TTG-AGATGTTTTATCCATGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGTTG
64 TTGAAG-TGTTTAATGC-TGTAATTGAAGTGT-TAAATGTTGTAAATTGAGATGTTAAA-TGCTG
*
12316286 CAAATTGA-A
125 TAAATTGAGA
12316295 GTGTTTA
1 -TGTTTA
12316302 GTTGCTGGTT
Statistics
Matches: 789, Mismatches: 122, Indels: 118
0.77 0.12 0.11
Matches are distributed among these distances:
135 5 0.01
136 73 0.09
137 462 0.59
138 118 0.15
139 13 0.02
140 9 0.01
141 83 0.11
142 26 0.03
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (134 bp):
TGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATT
GAAGTGTTTAATGCTGTAATTGAAGTGTTAAATGTTGTAAATTGAGATGTTAAATGCTGTAAATT
GAGA
Found at i:12315553 original size:183 final size:181
Alignment explanation
Indices: 12315297--12316210 Score: 854
Period size: 183 Copynumber: 5.0 Consensus size: 181
12315287 TGTTTTATCA
** *
12315297 TTGT-AATTGAAGTGTATAAA-TGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGT
1 TTGTAAATTGAAGTGT-TAAAGTGTTGCAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGT
*
12315358 TTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATTG-AGATGTTTTATCGCTGTAATTGAG
63 TTAAGTGCTGCAAATTGAAGTGTTTAG-TGTTGCAAATTGAAG-TGTTTTAT-GCTGTAATTGAG
*
12315422 GTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGATGTGTTTAAATG
125 GTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
* *
12315479 TTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAATTGTTTA
1 TTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
* * * *
12315544 AGCGCTGCAAGTTGAAGTGTTTAGTTGCTGGAAATT-AAGATGTTTTATCGCTGTAATTGAGGTG
66 AGTGCTGCAAATTGAAGTGTTTAG-TGTTGCAAATTGAAG-TGTTTTAT-GCTGTAATTGAGGTG
*
12315608 TATAAATGTTGTTAATTGAGATGTTAAAGTGCTGTAAATTGAAGTGTTTAAATG
128 TATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
* * * *
12315662 CTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTA
1 TTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
* * * * * *
12315727 AATGTTGTAAGTTGAAGTGATTAAGTGTTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGA
66 AGTGCTGCAAATTGAAGTG-TTTAGTGTTGCAAATTGAAGTG-TT--TTA--TGCT-GTAATTGA
* ** * * ** **
12315792 GATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-TATTGTTAATTG-AGATG-TTAAAGTG
124 GGTGTATAAAT-GTTGTTAATTGAGATGT-TAAAGTGCTGCAAATTGAAG-TGTTTAAA-TG
* * * *
12315849 TTGCAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAGTGTTTAAATGCTGTAATTTGAAGTGTTA
1 TTGTAAATTGAAGTG-TTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTT
* * * * *
12315913 AAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGT
65 AAGTGCTGCAAATTGAAGTGTTT-AGTGTTGCAAATTGAAGTGTTT-TATGCTGT-AATTGAGGT
* ** * ** * ** * * *
12315978 GTTTAGTTGCTGGAAATTGAAATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATG
127 GTATAAATGTTGTTAATTGAGATGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATG
* * *
12316032 TTGTTAATT-AAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAGTGTTT
1 TTGTAAATTGAAG-TGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTT
* * * * * * *
12316096 AAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TTTAAATTGAAGT
65 AAGTGCTGCAAATTGAAGTGTT-TAGTGTTGCAAATTGAAGTGTTT-TATGCTGT-AATTGAGGT
* * *
12316160 GTTTAAATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTA
127 GTATAAATGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGTTTA
12316211 GTTGCTAGAA
Statistics
Matches: 616, Mismatches: 84, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
181 1 0.00
182 55 0.09
183 373 0.61
184 35 0.06
185 1 0.00
186 14 0.02
187 113 0.18
188 24 0.04
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (181 bp):
TTGTAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
AGTGCTGCAAATTGAAGTGTTTAGTGTTGCAAATTGAAGTGTTTTATGCTGTAATTGAGGTGTAT
AAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
Found at i:12315857 original size:164 final size:165
Alignment explanation
Indices: 12315192--12316210 Score: 555
Period size: 160 Copynumber: 6.3 Consensus size: 165
12315182 TTAATTTATT
* * * * * *
12315192 AAGTGTTTAAA-TGTTGTAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCA
1 AAGTG-TTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGCTGTA
* * * * *
12315256 AATTGAAGTGTT-TAGTTGATGCAAATTG-AGATGTTTTATCA-TTG-T---AATTGA-AGTGTA
65 AGTTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTTTAATTAGTTGCTGGAAATTGAGA-TGT-
* * * *
12315313 TAAA-TGTTGTTAATTG-AGATGT-TAAAGTGCTGCAAATTG
126 TAAAGTGCTGTAAATTGAAG-TGTATAAA-TACTGTAAATTG
* * * ** * * *
12315352 AAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATT-GAGATGTTT-TATCGCTGT
1 AAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAG-TGTTTAAAT-GCTGT
* * ** *
12315415 AA-TTGAGGTGTATAAA-TGTTGTTAATTG-AGATG-TTAA--AG-TGCTGCAAATTGATG-TGT
64 AAGTTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TGTTTAATTAGTTGCTGGAAATTGA-GATG-
* ** *
12315472 TTAAA-TGTTGTAAATTGAAGTGT-TAAAGTGTTGCAAATTG
125 TTAAAGTGCTGTAAATTGAAGTGTATAAA-TACTGTAAATTG
* * * ** * * * * ** *
12315512 AAGTGTTTAAA-TGTTGTAAATTGAATTGTTTAAGCGCTGCAAGTTGAAGTGTTTAGTTGCTGGA
1 AAGTG-TTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGCTGTA
* ** * * * * *
12315576 AATT-AAGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAAT-GTTG-T--TAATTGAGATGTTA
65 AGTTGAAG-TGTTAAAGT-GCTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGATGTTA
* *
12315634 AAGTGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTG
128 AAGTGCTGTAAATTGAAGTGTATAAATACTGTAAATTG
*
12315672 AAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGTTGTAA
1 AAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGCTGTAA
* **
12315737 GTTGAAGTGATT-AAGTGTTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGATGTTTTA
66 GTTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGATGTTAAA
* * *
12315801 -TCGCTGT-AATTGAGGTGTATAAATATTGTTAATTG
130 GT-GCTGTAAATTGAAGTGTATAAATACTGTAAATTG
* *
12315836 -AGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTA
1 AAG-TGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGCTGTA
* *
12315900 ATTTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAAT-GTTG-T--AAATTGA-AGTGTTTA
65 AGTTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGA-TG-TTA
* * ** * *
12315960 AA-TGTTGTAAATTGAAGTGTTTAGTTGCTGGAAATTG
128 AAGTGCTGTAAATTGAAGTGTATAAATACTGTAAATTG
* ** * * * *
12315997 AAATGTTTTA-TCGCTG-TAATTGAGGTGTAT-AAATGTTGTTAATT-AAGATG-TTAAAGTGCT
1 AAGTGTTAAAGT-GTTGCAAATTGAAGTGT-TCAAATGTTGTAAATTAAAG-TGTTTAAA-TGCT
* * ** *
12316057 GCAAATTGAAGTGTTTAAA-TGCTATAAATTGAAGTGTTTAA--A--TGCTGTAAATTGA-AGTG
62 GTAAGTTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGA-TG
* * * *
12316116 TTAAAGTGCTGCAAATTGAAGTGTTTAAAT-GTTTAAATTG
125 TTAAAGTGCTGTAAATTGAAGTGTATAAATACTGTAAATTG
* * * * * *
12316156 AAGTGTTTAAA-TGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTA
1 AAGTG-TTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTA
12316211 GTTGCTAGAA
Statistics
Matches: 684, Mismatches: 116, Indels: 117
0.75 0.13 0.13
Matches are distributed among these distances:
156 3 0.00
157 3 0.00
158 4 0.01
159 69 0.10
160 361 0.53
161 91 0.13
162 8 0.01
163 11 0.02
164 116 0.17
165 18 0.03
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (165 bp):
AAGTGTTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTAAATTAAAGTGTTTAAATGCTGTAA
GTTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAATTAGTTGCTGGAAATTGAGATGTTAAAG
TGCTGTAAATTGAAGTGTATAAATACTGTAAATTG
Found at i:12316223 original size:114 final size:115
Alignment explanation
Indices: 12315192--12316301 Score: 765
Period size: 114 Copynumber: 9.7 Consensus size: 115
12315182 TTAATTTATT
* * * * * *
12315192 AAGTGTTTAAATGTTGTAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAA
1 AAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAA
*
12315257 ATTGAAGTGTTT-AGTTGATGCAAATTG-AGATGTTT--TAT-CATTGT-AATTG
65 ATTGAAGTGTTTAAG-TGTTGCAAATTGAAG-TGTTTAGT-TGC-TTGTAAATTG
* * * * * *
12315306 AAGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGC
1 AAGTGT-TAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGT
* *
12315369 AAATTGAAGTGTTT-AGTTGTTGGAAATTG-AGATGTTTTA-TCGC-TGT-AATTG
63 AAATTGAAGTGTTTAAG-TGTTGCAAATTGAAG-TG-TTTAGTTGCTTGTAAATTG
* * * * *
12315420 AGGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGATGTGTTTAAATGTTGT
1 AAGTGT-TAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGT
* **
12315483 AAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATG-TTGTAAATTG
63 AAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
* ** * * ** * * *
12315535 AATTGTTTAAGCGCTGCAAGTTGAAGTGTTTAGTTGCTGGAAATT-AAGATGTTT-TATCGCTGT
1 AAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAAT-GTTGT
* * * ** *
12315598 -AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAG-TGC-TGTAAATTG
63 AAATTGAAGTGTTTAAGTGTTGCAAATTGAAG-TGTT-TAGTTGCTTGTAAATTG
* * *
12315649 AAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGTTGCAAATTGAAGTGTTCAAATGTTGTA
1 AAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTA
* * * * * *
12315713 AATTAAAGTGTTTAAATGTTGTAAGTTGAAGTGATTAAG-TG-TTGCAAATTG
64 AATTGAAGTGTTTAAGTGTTGCAAATTGAAGTG-TTTAGTTGCTTGTAAATTG
* * * * *
12315764 AAGTGTTTAATTAGTTGCTGGAAATTG-AGATGTTT-TATCGCTGT-AATTGAGGTGTATAAATA
1 AAGTG-TTAA--A--TGCTGTAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAGTGTTTAAATG
* * **
12315826 TTGTTAATTG-AGATGTTAAAGTGTTGCAAATTGAAGTGTTTAAATG-TTGTAAATTG
59 TTGTAAATTGAAG-TGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
* *
12315882 AAGTGTTTAAATGCTGTAATTTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTA
1 AAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTA
* * *
12315946 AATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAGTTGC-TGGAAATTG
64 AATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
* ** * * * * * *
12315997 AAATGTTTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATT-AAGATG-TTAAAGTGCTGC
1 AAGTGTTAAAT-GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAA-TGTTGT
* * ** **
12316059 AAATTGAAGTGTTTAAATGCTATAAATTGAAGTGTTTAAATGC-TGTAAATTG
63 AAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
* *
12316111 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG-TTTAAATTGAAGTGTTTAAATGTTGTAA
1 AAGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAA
* *
12316175 ATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAG-AAATTG
65 ATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
** * * * * *
12316225 -AGATGTTTTATCCATGT-AATTGAGGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGTTG
1 AAG-TGTTAAATGC-TGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAA-TGTTG
*
12316286 CAAATTGAAGTGTTTA
62 TAAATTGAAGTGTTTA
12316302 GTTGCTGGTT
Statistics
Matches: 813, Mismatches: 128, Indels: 110
0.77 0.12 0.10
Matches are distributed among these distances:
113 54 0.07
114 450 0.55
115 202 0.25
116 15 0.02
117 6 0.01
118 67 0.08
119 17 0.02
120 2 0.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (115 bp):
AAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAA
TTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTGCTTGTAAATTG
Found at i:12317201 original size:43 final size:43
Alignment explanation
Indices: 12316964--12317253 Score: 273
Period size: 43 Copynumber: 6.8 Consensus size: 43
12316954 TTTTCATGAC
* **
12316964 CTTTAGCGGCATTTTTGGGAAAA-CTGTTGCTAAAAGTCAT-TT
1 CTTTAGCGGCATTTGTGGGAAAAGC-GCCGCTAAAAGTCATGTT
* * *
12317006 CTTTATCAGCATTTTTGGGAAAAGCGCCGCTAAAAGTCATGTT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTT
* * * *
12317049 TTTTAGCGGC-TTTTTGGGAAAAGCGCCGCTAAAGGTAATGTT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTT
* * ** * * *
12317091 CTCTAGCGGCATTTGT-AGAGAAAGCATCGTTAAAGGTTATGTT
1 CTTTAGCGGCATTTGTGGGA-AAAGCGCCGCTAAAAGTCATGTT
* * * *
12317134 CTTTAGCGACATTTATGGGGAAAGCACCGCTAAAAGTCATGTT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTT
** * * *
12317177 CTTTAGCGGTGTTTGTGGGTAAAGCGTCGCTAAAAGTCATATT
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTT
* * *
12317220 CTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAA
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAA
12317254 TGTAATGTAA
Statistics
Matches: 204, Mismatches: 39, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
42 74 0.36
43 129 0.63
44 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTT
Found at i:12320823 original size:69 final size:69
Alignment explanation
Indices: 12320707--12320844 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
12320697 TGATTCTAAC
12320707 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
1 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
12320772 AAAA
66 AAAA
* * *
12320776 TAATTCATATCTTTAGTGCCATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTGG
1 TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
12320841 AAAA
66 AAAA
12320845 GGTAGAGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (69 bp):
TAATCCATATCTTTAGTGCAATTGGACAATGAATCAAGTGACTTGTGATCAAATAAAGAATCTAG
AAAA
Found at i:12322663 original size:27 final size:26
Alignment explanation
Indices: 12322618--12322717 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 26
12322608 GAATATCCAA
*
12322618 CCCAAACACACCCAGAATAATATAAATCCT
1 CCCAAACACA-CC--AAT-ATATATATCCT
* *
12322648 CCCTAACACACCAATATAATATAGCCT
1 CCCAAACACACCAATAT-ATATATCCT
* **
12322675 CCCAAACACATCGGTATATCATATCCT
1 CCCAAACACACCAATATAT-ATATCCT
12322702 CCCAAACACACCAATA
1 CCCAAACACACCAATA
12322718 AGGCATTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.07
27 42 0.74
29 2 0.04
30 9 0.16
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (26 bp):
CCCAAACACACCAATATATATATCCT
Found at i:12323245 original size:17 final size:17
Alignment explanation
Indices: 12323212--12323252 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12323202 TTGAATTTTT
*
12323212 ATTCAATTTATTCCCTA
1 ATTCAATTTAATCCCTA
12323229 ATTCTAATTTAAT-CCTA
1 ATTC-AATTTAATCCCTA
12323246 ATT-AATT
1 ATTCAATT
12323253 CTTTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTCAATTTAATCCCTA
Found at i:12323676 original size:18 final size:18
Alignment explanation
Indices: 12323653--12323688 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12323643 TTTTCTTCCC
12323653 CTGTTTCCGTTTTGTTCT
1 CTGTTTCCGTTTTGTTCT
**
12323671 CTGTTTCTTTTTTGTTCT
1 CTGTTTCCGTTTTGTTCT
12323689 TATTTCTTTC
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:0.00, C:0.19, G:0.14, T:0.67
Consensus pattern (18 bp):
CTGTTTCCGTTTTGTTCT
Found at i:12323694 original size:17 final size:18
Alignment explanation
Indices: 12323662--12323697 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12323652 CCTGTTTCCG
*
12323662 TTTTGTTCTCTGTTTCTT
1 TTTTGTTCTCTATTTCTT
12323680 TTTTGTTCT-TATTTCTT
1 TTTTGTTCTCTATTTCTT
12323697 T
1 T
12323698 CATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.03, C:0.14, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTGTTCTCTATTTCTT
Found at i:12324481 original size:19 final size:19
Alignment explanation
Indices: 12324457--12324496 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12324447 ATTTTTTATT
12324457 TAATA-TTTATTTAAAATAA
1 TAATATTTTA-TTAAAATAA
*
12324476 TAATATTTTATTAAAGTAA
1 TAATATTTTATTAAAATAA
12324495 TA
1 TA
12324497 TAATAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAATATTTTATTAAAATAA
Found at i:12325878 original size:17 final size:17
Alignment explanation
Indices: 12325858--12325909 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
12325848 TTAGTATATC
12325858 ATTAATATTATTATTTT
1 ATTAATATTATTATTTT
* *
12325875 ATTACTATTATTGTTTT
1 ATTAATATTATTATTTT
* *
12325892 ATTAACATAATTATTTT
1 ATTAATATTATTATTTT
12325909 A
1 A
12325910 ATTTGTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTAATATTATTATTTT
Found at i:12326848 original size:17 final size:16
Alignment explanation
Indices: 12326828--12326886 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
12326818 GGCGAACTGC
12326828 GAGCTCACTAGAACTAT
1 GAGCTCACTA-AACTAT
*
12326845 GAGCTCACCAAA-TAT
1 GAGCTCACTAAACTAT
12326860 ACGAGCTCTA-TAAAACTAT
1 --GAGCTC-ACT-AAACTAT
12326879 GAGCTCAC
1 GAGCTCAC
12326887 CAAGACCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 21 0.62
18 4 0.12
19 3 0.09
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (16 bp):
GAGCTCACTAAACTAT
Found at i:12326919 original size:17 final size:16
Alignment explanation
Indices: 12326878--12326913 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
12326868 TATAAAACTA
12326878 TGAGCTCACCAAGACCT
1 TGAGCTCACCAAGA-CT
12326895 TGAGCTCACCAAG-CT
1 TGAGCTCACCAAGACT
12326910 TGAG
1 TGAG
12326914 AGCTCAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (16 bp):
TGAGCTCACCAAGACT
Found at i:12332119 original size:12 final size:13
Alignment explanation
Indices: 12332090--12332122 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12332080 TTAATTTTAA
12332090 ATTTAAATAAATT
1 ATTTAAATAAATT
*
12332103 ATTTAAATACA-T
1 ATTTAAATAAATT
12332115 ATTTAAAT
1 ATTTAAAT
12332123 TTTAATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAATAAATT
Found at i:12340113 original size:13 final size:13
Alignment explanation
Indices: 12340095--12340126 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12340085 TTCGTTTTAG
12340095 TTTTTATATTAAT
1 TTTTTATATTAAT
*
12340108 TTTTTATTTTAAT
1 TTTTTATATTAAT
12340121 TTTTTA
1 TTTTTA
12340127 GACTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATATTAAT
Found at i:12340871 original size:56 final size:57
Alignment explanation
Indices: 12340806--12340919 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 57
12340796 GAGTGTTATG
12340806 TATGTGAGAACTTTTAAGAAAATTTAAAATATTA-TTTGTTTACTTTAAATAAATTA
1 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTGTTTACTTTAAATAAATTA
*
12340862 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTTACTTTAAATAAATTA
1 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTGTTTACTTTAAATAAATTA
12340919 T
1 T
12340920 TCTCAGCAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 34 0.61
57 22 0.39
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTGTTTACTTTAAATAAATTA
Found at i:12341887 original size:2 final size:2
Alignment explanation
Indices: 12341880--12341909 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12341870 ATAATAATAC
*
12341880 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12341910 ATAGAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12342258 original size:3 final size:3
Alignment explanation
Indices: 12342250--12342320 Score: 51
Period size: 3 Copynumber: 23.3 Consensus size: 3
12342240 TATATACAAT
12342250 ATA ATA ATA AT- ATAA ATA ATAA ATA CATGA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA AT-A ATA -AT-A -ATA ATA ATA ATA ATA
* *
12342295 AT- ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12342321 AAAAATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.13
3 39 0.71
4 7 0.13
5 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Done.