Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 50 of 133
Found at i:10586194 original size:2 final size:2
Alignment explanation
Indices: 10586187--10586219 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10586177 GTGAGATTAC
10586187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10586220 ATGCTGCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10591462 original size:25 final size:25
Alignment explanation
Indices: 10591412--10591457 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
10591402 ATGAATTATC
*
10591412 TTACTTAAGGAATTTTTAAGAATTA
1 TTACTTAAGGAATTTTTAAAAATTA
10591437 TTACTT-A-GAATTTTTAAAAAT
1 TTACTTAAGGAATTTTTAAAAAT
10591458 CTTATCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (25 bp):
TTACTTAAGGAATTTTTAAAAATTA
Found at i:10594069 original size:101 final size:101
Alignment explanation
Indices: 10593904--10594097 Score: 309
Period size: 101 Copynumber: 1.9 Consensus size: 101
10593894 CTTTTGTTTT
* ** *
10593904 TTTCAAAAAACCTCCAACCTTAAAAAACAAACCTCCCACACTACTCTAAAAAACTTTTCTATTAC
1 TTTCAAAAAACCTCCAACCTTAAAAAACAAACCTCCCACACTACTCTAAAAAACCTCCCCATTAC
*
10593969 ATTGTGTTTGCCTTCACTTTTTTAAACTCCCTCAAC
66 ATTGTGTTTGCCCTCACTTTTTTAAACTCCCTCAAC
*
10594005 TTTCAGAAAACCTCCAACCTTAAAAAACAAACCTCCCACACTACT-TCAAAAAACCTCCCCATTA
1 TTTCAAAAAACCTCCAACCTTAAAAAACAAACCTCCCACACTACTCT-AAAAAACCTCCCCATTA
*
10594069 CATTGTGTTTGCCCTCCCTTTTTTAAACT
65 CATTGTGTTTGCCCTCACTTTTTTAAACT
10594098 TTCTTAGCCT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 84 0.99
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (101 bp):
TTTCAAAAAACCTCCAACCTTAAAAAACAAACCTCCCACACTACTCTAAAAAACCTCCCCATTAC
ATTGTGTTTGCCCTCACTTTTTTAAACTCCCTCAAC
Found at i:10595708 original size:126 final size:126
Alignment explanation
Indices: 10595477--10595757 Score: 341
Period size: 126 Copynumber: 2.2 Consensus size: 126
10595467 TGTTCGAAAG
* * * * * * * * * *
10595477 TCTTAGAGATTTTGCCTAAAGGTTTTACAAATCTTATAATCTTTGAATGCTTATTGTAATAGAGG
1 TCTTAAAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTAAATGCTCATTATAATAGAAG
* * * *
10595542 CATTGAAACTTTAAAAATTTAAAATGTTTTGCCTAAAGGTCTTAAAAATTATG-TCTGGAGG
66 CATTGAAACTTTAAAAATTTAAAATATTTTACCTAAAGGTCTTAAAAATTATGCT-TGAAGA
* * * *
10595603 TTTTACAGATTATGCCCT-GAGGTCTTACAAATCTCAAAATCTTTAAATGCTCCTTATATTAGAA
1 TCTTAAAGATTATG-CCTAGAGGTCTTACAAATCTCAAAATCTTTAAATGCTCATTATAATAGAA
* **
10595667 GTATTGAAACTTTAAAAATTTAAAATATTTTACCTAAAGGTCTTAGTAATTATGCTTGAAGA
65 GCATTGAAACTTTAAAAATTTAAAATATTTTACCTAAAGGTCTTAAAAATTATGCTTGAAGA
10595729 TCTTAAAGATTATGCCTAGAGGTCTTACA
1 TCTTAAAGATTATGCCTAGAGGTCTTACA
10595758 GATTTGGGTG
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
125 3 0.02
126 123 0.95
127 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (126 bp):
TCTTAAAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTAAATGCTCATTATAATAGAAG
CATTGAAACTTTAAAAATTTAAAATATTTTACCTAAAGGTCTTAAAAATTATGCTTGAAGA
Found at i:10597627 original size:149 final size:152
Alignment explanation
Indices: 10597450--10597804 Score: 344
Period size: 160 Copynumber: 2.3 Consensus size: 152
10597440 TTTTATTTGA
* * * * *
10597450 GATTCTAACTAAAACCTTATTCACTTTTCACTTTGCACTCTCATCTTTGAGGTGTATG-T-CTT-
1 GATTCTAATTAAAGCCTTATTCAATTTTCACTTAG-ACTCTCATCTTTGAGGTATATGTTCCTTG
* *
10597512 TT-TTTCTTTGTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTGGCATTATTCTTT-TCTGA
65 TTCTTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTTTCT-TGA
* **
10597575 GTTTTATCTC-CATTTTTTACTTAG
129 ATTCCATCTCTC-TTTTTTACTTAG
* *** * * *
10597599 GATTCTAATTGAAGCCTTATTCAATTTTCACCCCGGACTTTTATTTTTGAGGTATATGTCTTTCT
1 GATTCTAATTAAAGCCTTATTCAATTTTCA-CTTAGACTCTCATCTTTGAGGTATATG-------
* *
10597664 TTCCTTGTTCTTTCTTTCTTTTTTTTTTTTTGGAAACATTTAACTTTAACTTTAGCATTCTTCTT
58 TTCCTTGTTCTTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTT
* *
10597729 TCTTGAATTCCATTTCTCTTTTTTACTTGG
123 TCTTGAATTCCATCTCTCTTTTTTACTTAG
* * *
10597759 GATTGTAATTAAAGCCTTATTCATTTTTTACTCTAGACTCTCATCT
1 GATTCTAATTAAAGCCTTATTCAATTTTCACT-TAGACTCTCATCT
10597805 CCAAAATGTA
Statistics
Matches: 161, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
149 44 0.27
150 2 0.01
157 1 0.01
158 3 0.02
159 3 0.02
160 106 0.66
161 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.53
Consensus pattern (152 bp):
GATTCTAATTAAAGCCTTATTCAATTTTCACTTAGACTCTCATCTTTGAGGTATATGTTCCTTGT
TCTTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTTTCTTGAAT
TCCATCTCTCTTTTTTACTTAG
Found at i:10597825 original size:160 final size:160
Alignment explanation
Indices: 10597514--10597826 Score: 351
Period size: 160 Copynumber: 2.0 Consensus size: 160
10597504 TATGTCTTTT
* * * *
10597514 TTTCTTTGTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTGGCATTATTCTTTTCTGAGTTT
1 TTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTTTTCTGAATTC
* * * * * *
10597579 TATCTCCATTTTTTACTTAGGATTCTAATTGAAGCCTTATTCAATTTTCACCCCGGACTTTTATT
66 CATCTCCATTTTTTACTTAGGATTCTAATTAAAGCCTTATTCAATTTTCACCCCAGACTCTCATC
*** ** *
10597644 TTTGAGGTATATGTCTTTCTTTCCTTGTTC
131 TCCAAAATATATGTATTTCTTTCCTTGTTC
* *
10597674 TTTCTTTCTTTTTTTTTTTTTGGAAACATTTAACTTTAACTTTAGCATTCTTC-TTTCTTGAATT
1 TTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTTTTC-TGAATT
* * * * * * *
10597738 CCATTTCTC-TTTTTTACTTGGGATTGTAATTAAAGCCTTATTCATTTTTTACTCTAGACTCTCA
65 CCATCTC-CATTTTTTACTTAGGATTCTAATTAAAGCCTTATTCAATTTTCACCCCAGACTCTCA
* *
10597802 TCTCCAAAATGTATTTATTTCTTTC
129 TCTCCAAAATATATGTATTTCTTTC
10597827 TTCATTTTTT
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
159 4 0.03
160 119 0.96
161 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (160 bp):
TTTCTTTCTTTTTTATTTTTTGGAAACATTTAACTTTAACTTTAGCATTATTCTTTTCTGAATTC
CATCTCCATTTTTTACTTAGGATTCTAATTAAAGCCTTATTCAATTTTCACCCCAGACTCTCATC
TCCAAAATATATGTATTTCTTTCCTTGTTC
Found at i:10600152 original size:14 final size:12
Alignment explanation
Indices: 10600133--10600181 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 12
10600123 GACATAATTT
10600133 ATGCATGGGATACA
1 ATGCAT-GG-TACA
10600147 ATGCAT-GTACA
1 ATGCATGGTACA
10600158 ATGCAT-GTACA
1 ATGCATGGTACA
10600169 AT-CAT-GTACA
1 ATGCATGGTACA
10600179 ATG
1 ATG
10600182 TAAATCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.29
11 17 0.50
12 1 0.03
14 6 0.18
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (12 bp):
ATGCATGGTACA
Found at i:10600176 original size:10 final size:11
Alignment explanation
Indices: 10600143--10600181 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
10600133 ATGCATGGGA
10600143 TACAATGCATG
1 TACAATGCATG
10600154 TACAATGCATG
1 TACAATGCATG
10600165 TACAAT-CATG
1 TACAATGCATG
10600175 TACAATG
1 TACAATG
10600182 TAAATCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (11 bp):
TACAATGCATG
Found at i:10600443 original size:16 final size:17
Alignment explanation
Indices: 10600414--10600454 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
10600404 TTAGATGTGC
10600414 CTTTTTATCTATTTTTT
1 CTTTTTATCTATTTTTT
*
10600431 CTTTTTTTC-ATTTTTT
1 CTTTTTATCTATTTTTT
10600447 CTTTTTAT
1 CTTTTTAT
10600455 TCTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTTTATCTATTTTTT
Found at i:10600444 original size:25 final size:25
Alignment explanation
Indices: 10600416--10600463 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10600406 AGATGTGCCT
*
10600416 TTTTATCTATTTT-TTCTTTTTTTCA
1 TTTTATCT-TTTTATTCTTCTTTTCA
*
10600441 TTTTTTCTTTTTATTCTTCTTTT
1 TTTTATCTTTTTATTCTTCTTTT
10600464 ACTTGCTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTATCTTTTTATTCTTCTTTTCA
Found at i:10600463 original size:17 final size:16
Alignment explanation
Indices: 10600414--10600463 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
10600404 TTAGATGTGC
*
10600414 CTTTTTATCTATTTTTT
1 CTTTTTAT-TCTTTTTT
10600431 CTTTTT-TTCATTTTTT
1 CTTTTTATTC-TTTTTT
10600447 CTTTTTATTCTTCTTTT
1 CTTTTTATTCTT-TTTT
10600464 ACTTGCTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 1 0.03
16 15 0.52
17 13 0.45
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTTTATTCTTTTTT
Found at i:10605568 original size:11 final size:10
Alignment explanation
Indices: 10605542--10605575 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
10605532 TTTAATCAGC
10605542 TTTTC-CTTT
1 TTTTCTCTTT
10605551 TTTTCTCTTT
1 TTTTCTCTTT
10605561 TTTCTCTCTTT
1 TTT-TCTCTTT
10605572 TTTT
1 TTTT
10605576 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 8 0.35
11 10 0.43
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:10607337 original size:16 final size:16
Alignment explanation
Indices: 10607316--10607353 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10607306 AAAGAGAAGG
10607316 AAGATGCAAATGTAAA
1 AAGATGCAAATGTAAA
10607332 AAGATGCAAATGTAAA
1 AAGATGCAAATGTAAA
10607348 AAGATG
1 AAGATG
10607354 TGAAACAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.18
Consensus pattern (16 bp):
AAGATGCAAATGTAAA
Found at i:10609777 original size:17 final size:17
Alignment explanation
Indices: 10609757--10609803 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10609747 TAAATATATT
10609757 TTAAAAT-TAAAATTTAA
1 TTAAAATATAAAATTT-A
*
10609774 TTAAAATATAATATTTA
1 TTAAAATATAAAATTTA
*
10609791 TTAACATA-AAAAT
1 TTAAAATATAAAAT
10609804 ATTTTTAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 15 0.58
18 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAATATAAAATTTA
Found at i:10610133 original size:18 final size:18
Alignment explanation
Indices: 10610105--10610139 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10610095 AAAAACATGA
10610105 ATTTTTATTTAATATTTAG
1 ATTTTTATTTAAT-TTTAG
10610124 ATTTTT-TTTAATTTTA
1 ATTTTTATTTAATTTTA
10610140 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTATTTAATTTTAG
Found at i:10618426 original size:20 final size:18
Alignment explanation
Indices: 10618403--10618445 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10618393 GGGGCAAATA
10618403 TTTTCTTTTATTCTCTCTTC
1 TTTTCTTTTA-TCT-TCTTC
*
10618423 TTTTCTTTTATGTTCTTC
1 TTTTCTTTTATCTTCTTC
10618441 TTTTC
1 TTTTC
10618446 ATGCATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTATCTTCTTC
Found at i:10621188 original size:3 final size:3
Alignment explanation
Indices: 10621180--10621227 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
10621170 GTTTTTATAA
* * *
10621180 ATT ATT ATT ATC ATT GTT A-T ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10621227 A
1 A
10621228 CTTTCCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10621385 original size:3 final size:3
Alignment explanation
Indices: 10621377--10621427 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
10621367 GTTTTTATAA
* * *
10621377 ATT ATT ATT ATC ATT GTT A-T ATT ATT ATT ATT ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10621424 ATT A
1 ATT A
10621428 CTTTCCTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:10621529 original size:21 final size:23
Alignment explanation
Indices: 10621490--10621535 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
10621480 TATTATTATA
*
10621490 TTTCTATTTTCATTTTTCATTTT
1 TTTCTATTTTCATTCTTCATTTT
10621513 TTTCT-TTTTC-TTCTTCATTTT
1 TTTCTATTTTCATTCTTCATTTT
10621534 TT
1 TT
10621536 ATTTCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 5 0.23
23 5 0.23
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTCTATTTTCATTCTTCATTTT
Found at i:10621869 original size:19 final size:21
Alignment explanation
Indices: 10621841--10621879 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10621831 TCTAGAGTTA
*
10621841 ATTCATGG-TTCTGAAAGTGG
1 ATTCATGGTTTCTAAAAGTGG
10621861 ATTCA-GGTTTCTAAAAGTG
1 ATTCATGGTTTCTAAAAGTG
10621880 AATTTAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (21 bp):
ATTCATGGTTTCTAAAAGTGG
Found at i:10621964 original size:22 final size:22
Alignment explanation
Indices: 10621937--10621980 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10621927 ATTTTTCTAC
10621937 ATTTTTTTAGGTTCTTTTTTAAA
1 ATTTTTTTAGGTT-TTTTTTAAA
*
10621960 ATTTTTTTGGGTTTTTTTTAA
1 ATTTTTTTAGGTTTTTTTTAA
10621981 GAACTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (22 bp):
ATTTTTTTAGGTTTTTTTTAAA
Found at i:10622315 original size:20 final size:21
Alignment explanation
Indices: 10622284--10622334 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
10622274 TCGATCGCAG
10622284 ATTTT-TTCTTTTTCATTTTAT
1 ATTTTATT-TTTTTCATTTTAT
*
10622305 -TTTTATTTTTTTCATTTTTT
1 ATTTTATTTTTTTCATTTTAT
10622325 ATTTTATTTT
1 ATTTTATTTT
10622335 CAACTTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (21 bp):
ATTTTATTTTTTTCATTTTAT
Found at i:10624054 original size:20 final size:21
Alignment explanation
Indices: 10624029--10624081 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
10624019 ATATATTTAT
10624029 ATATTTATATTT-AAAAAATA
1 ATATTTATATTTAAAAAAATA
10624049 ATATTTTATATTTCAAAAAAATA
1 ATA-TTTATATTT-AAAAAAATA
10624072 ATATTT-TATT
1 ATATTTATATT
10624082 AATTTTTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.10
21 13 0.43
22 3 0.10
23 11 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTATATTTAAAAAAATA
Found at i:10624058 original size:21 final size:22
Alignment explanation
Indices: 10624027--10624080 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 22
10624017 ATATATATTT
10624027 ATATATTTATATTT-AAAAAATA
1 ATAT-TTTATATTTAAAAAAATA
10624049 ATATTTTATATTTCAAAAAAATA
1 ATATTTTATATTT-AAAAAAATA
10624072 ATATTTTAT
1 ATATTTTAT
10624081 TAATTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 17 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTTATATTTAAAAAAATA
Found at i:10629642 original size:61 final size:63
Alignment explanation
Indices: 10629575--10629735 Score: 197
Period size: 61 Copynumber: 2.6 Consensus size: 63
10629565 TTGTGCAGGA
* * *
10629575 AAAATTGATACTTTCAAATTTTCCTCAAAATCTTTTTTTTTTG-AGATTT-TATTTTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATATTTTTTAAGG
* ** *
10629636 AAAATTGATACTTTCAACTTTTTCTCAAAA-C--CCTTTTTTGAAAATTTATTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATATTTTTTAAGG
* *
10629696 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTT-CCTCAAAATCTTTTTTT
10629736 GGAAAGCTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
58 7 0.09
59 5 0.06
60 33 0.40
61 34 0.41
64 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (63 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATATTTTTTAAGG
Found at i:10629702 original size:60 final size:60
Alignment explanation
Indices: 10629575--10629719 Score: 186
Period size: 60 Copynumber: 2.4 Consensus size: 60
10629565 TTGTGCAGGA
* ** * *
10629575 AAAATTGATACTTTCAAATTTTCCTCAAAATCTTTTTTTTTTGAGATTTTATTTTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATC-TCCTTTTTTGAAATTTTATTTTTTAAGG
* *
10629636 AAAATTGATACTTTCAACTTTTTCTCAAAA-C-CCTTTTTTGAAAATTTATTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATCTCCTTTTTTG-AAATTT-TATTTTTTAAGG
10629696 AAAATTGATACTTTCAACTTTTCC
1 AAAATTGATACTTTCAACTTTTCC
10629720 CTAAAAATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 7 0.09
59 5 0.07
60 34 0.46
61 28 0.38
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATCTCCTTTTTTGAAATTTTATTTTTTAAGG
Found at i:10629733 original size:60 final size:58
Alignment explanation
Indices: 10629575--10629793 Score: 176
Period size: 60 Copynumber: 3.7 Consensus size: 58
10629565 TTGTGCAGGA
* * * * * *
10629575 AAAATTGATACTTTCAAATTTTCCTCAAAATCTTTTTTTTTTGAGATTTTATTTTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA---ATATTTTTTGAAATTTTTTTTTTTAAGG
* ***
10629636 AAAATTGATACTTTCAACTTTTTCTCAAAACCCTTTTTTGAAAATTTATTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAATTT-TTTTTTTTAAGG
** * *
10629696 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGGAAA-GCTTGTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTT-GAAATTTTTTTTTTTAAGG
* *
10629755 AAAATTGATA-GTTCTAACTTTTTCC-CAGAAATATTTTTT
1 AAAATTGATACTTTC-AAC-TTTTCCTCAAAAATATTTTTT
10629794 TTTGGATTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
58 16 0.12
59 35 0.26
60 44 0.33
61 37 0.28
62 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTTTTTTTTAAGG
Found at i:10629759 original size:59 final size:60
Alignment explanation
Indices: 10629633--10629794 Score: 161
Period size: 59 Copynumber: 2.7 Consensus size: 60
10629623 TTATTTTTTG
* * *** * * *
10629633 AGGAAAATTGATACTTTCAACTTTT-TCTCAAAACCCTTTTTTGAAAATTTATTTTTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAA-TGATTGTTTTCA
* *
10629693 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-GCTTGTTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATGATTGTTTTCA
* *
10629752 AGGAAAATTGATA-GTTCTAACTTTTTCCC-AGAAATATTTTTTT
1 AGGAAAATTGATACTTTC-AAC-TTTTCCCTAAAAATATTTTTTT
10629795 TTGGATTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 3 0.03
59 36 0.41
60 32 0.37
61 16 0.18
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (60 bp):
AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATGATTGTTTTCA
Found at i:10629820 original size:5 final size:5
Alignment explanation
Indices: 10629812--10629895 Score: 64
Period size: 5 Copynumber: 15.8 Consensus size: 5
10629802 TTATTTAAAG
*
10629812 AAAAT AAAAT AATA- AAAAT AAAAT AAAAAT GAAAAT AAAAGT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAA-T AAA-AT
* *
10629859 GAAGT AAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAA
10629896 GAATATCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
4 3 0.05
5 34 0.53
6 23 0.36
7 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10629833 original size:6 final size:6
Alignment explanation
Indices: 10629812--10629895 Score: 66
Period size: 6 Copynumber: 13.5 Consensus size: 6
10629802 TTATTTAAAG
* *
10629812 AAAATAA AATAATA AAAAT- AAAATA AAAATG AAAATA AAAGTA AAGAGA-A
1 AAAAT-A AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-A-ATA
*
10629862 GTAAAATA AAAAT- AAAATA AAGATA AAAATA AAA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAA
10629896 GAATATCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
5 10 0.16
6 38 0.60
7 8 0.13
8 5 0.08
9 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:10629958 original size:13 final size:13
Alignment explanation
Indices: 10629940--10629964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10629930 AAATAAATAA
10629940 ATAATATATATAT
1 ATAATATATATAT
10629953 ATAATATATATA
1 ATAATATATATA
10629965 AAAAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:10630327 original size:19 final size:19
Alignment explanation
Indices: 10630299--10630335 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10630289 GCTAGAATTA
*
10630299 TTGTCAAAAAATTTAACCT
1 TTGTCAAAAAATTCAACCT
*
10630318 TTGTCGAAAAATTCAACC
1 TTGTCAAAAAATTCAACC
10630336 GAAATCTGGA
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:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
TTGTCAAAAAATTCAACCT
Found at i:10630671 original size:14 final size:15
Alignment explanation
Indices: 10630652--10630736 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 15
10630642 AAAAATCAAA
10630652 TAATAAATAAAT-AT
1 TAATAAATAAATAAT
10630666 TAATAAATAAATAAT
1 TAATAAATAAATAAT
* *
10630681 TAGATAAACCAAAAAAT
1 TA-ATAAA-TAAATAAT
* *
10630698 TAACAGATAAATTAAT
1 TAATAAATAAA-TAAT
*
10630714 T-AT-AATATATAAT
1 TAATAAATAAATAAT
*
10630727 CAGATAAATA
1 TA-ATAAATA
10630737 TATATAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.07
14 16 0.30
15 10 0.19
16 16 0.30
17 8 0.15
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (15 bp):
TAATAAATAAATAAT
Found at i:10630746 original size:26 final size:25
Alignment explanation
Indices: 10630696--10630771 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 25
10630686 AAACCAAAAA
10630696 ATTAACAGATAAAT-TAATTATAAT
1 ATTAACAGATAAATATAATTATAAT
10630720 ATATAATCAGATAAATAT-A-TATAAAT
1 AT-TAA-CAGATAAATATAATTAT-AAT
*
10630746 ATTAACAGA-AAATAATAATAATAAT
1 ATTAACAGATAAAT-ATAATTATAAT
10630771 A
1 A
10630772 AGGATATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
23 4 0.09
24 8 0.18
25 14 0.32
26 17 0.39
27 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTAACAGATAAATATAATTATAAT
Found at i:10630764 original size:3 final size:3
Alignment explanation
Indices: 10630756--10630837 Score: 51
Period size: 3 Copynumber: 26.3 Consensus size: 3
10630746 ATTAACAGAA
* * * *
10630756 AAT AAT AAT AAT AAT AAG GAT -AT ATAT ATT AAT AAAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT
* *
10630802 AAT AAT AAAT ACAT AAG AAA AAT -AT ATAT AAT AAT A
1 AAT AAT -AAT A-AT AAT AAT AAT AAT A-AT AAT AAT A
10630838 TATATAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 4 0.06
3 43 0.69
4 15 0.24
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10631154 original size:46 final size:44
Alignment explanation
Indices: 10631051--10631286 Score: 297
Period size: 46 Copynumber: 5.4 Consensus size: 44
10631041 TTTAATCAAG
10631051 GCTCCTCTAAGT-AGAGGCTCAACGACTTTGAAAAACATAAACAAT
1 GCTCCTCTAA-TCAGAGGCTCAACGACTTTGAAAAA-ATAAACAAT
*
10631096 GCTCTTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAACAAT
* *
10631142 GCTCCTTTAATCAGAGGCTCAACGACTTTGGAAAAAT--A-AAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAACAAT
* *
10631183 GGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAA
1 -GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAACAAT
* * *
10631228 GCTCCTCTAATCAGAGGCTCAACGACTTTG-GAAAGT-AA-ATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAACAAT
*
10631269 GCTCCTCTAAACAGAGGC
1 GCTCCTCTAATCAGAGGC
10631287 AACGAAACTT
Statistics
Matches: 173, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
41 21 0.12
42 39 0.23
43 4 0.02
44 35 0.20
45 33 0.19
46 40 0.23
47 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (44 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAACAAT
Found at i:10631285 original size:41 final size:41
Alignment explanation
Indices: 10631051--10631565 Score: 464
Period size: 41 Copynumber: 12.2 Consensus size: 41
10631041 TTTAATCAAG
** * * *
10631051 GCTCCTCTAAGTAGAGGCTCAACGACTTTGAAAAACATAAACAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-GAAA-GT-AA-ATT
* * * *
10631096 GCTCTTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAACAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAA-G--T-AA-ATT
* * * *
10631142 GCTCCTTTAATCAGAGGCTCAACGACTTTGGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGG-AAAGTAAATT
* * **
10631184 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAACAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGG-AAAGT-AA-ATT
*
10631228 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
*
10631269 GCTCCTCTAAACAGAGG--CAACGAAACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACG--ACTTTGGAAAGTAAATT
* * * * * *
10631310 GCTCTTTTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
* *
10631351 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
* * * *
10631392 ACTACTTTAAACAGAGGCATC-ACGACTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTGGAAAGTAAATT
* *
10631433 GCTCCTCTAAACAGAGG--CAACGAAACTTTAGAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACG--ACTTTGGAAAGTAAATT
* * * * *
10631474 GTTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
* * *
10631515 GCTCCTCTAAACAGAGGCACCACGGCTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
10631556 GCTCCTCTAA
1 GCTCCTCTAA
10631566 CTTTGAAAAG
Statistics
Matches: 407, Mismatches: 48, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.00
39 8 0.02
41 239 0.59
42 40 0.10
43 16 0.04
44 37 0.09
45 27 0.07
46 36 0.09
47 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
Found at i:10631379 original size:123 final size:121
Alignment explanation
Indices: 10631141--10631787 Score: 693
Period size: 123 Copynumber: 5.3 Consensus size: 121
10631131 GAATAAACAA
* * * * * * *
10631141 TGCTCCTTTAATCAGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAA
1 TGCTCCTCTAAACAGAGGCAC-ACGACTTTGG-AAAATAAATTGCT-CTCTAAACAGAGGCACCA
* ** * * *
10631206 CGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAGTAAAT
63 CGACTTT-GAAAAGT-AA-ATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
* *
10631268 TGCTCCTCTAAACAGAGGCA-ACGAAACTTTGGAAAATAAATTGCTCTTTTAAACAAAGGCACCA
1 TGCTCCTCTAAACAGAGGCACACG--ACTTTGGAAAATAAATTGCTC-TCTAAACAGAGGCACCA
10631332 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
63 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
* * * * *
10631391 TACTACTTTAAACAGAGGCATCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 TGCTCCTCTAAACAGAGGCA-CACGACTTTGGAAAATAAATTGCT-CTCTAAACAGAGGCACCAC
* * *
10631454 GAAACTTTAGAAAA-TAAATTGTTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAAT
64 G--ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
* * *
10631514 TGCTCCTCTAAACAGAGGCACCACGGCTTTGGAAAGTAAATTGCTC-CT-----------CTA--
1 TGCTCCTCTAAACAGAGGCA-CACGACTTTGGAAAATAAATTGCTCTCTAAACAGAGGCACCACG
* * *
10631565 ACTTTGAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATGACTTTGGAAAGTAAAT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
10631622 TGCTCCTCTAAACAGAGGCA-ACGAAACTTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCA
1 TGCTCCTCTAAACAGAGGCACACG--ACTTTGGAAAATAAATTGCTC-TCTAAACAGAGGCACCA
* *
10631686 CGACTTTGAAAAGTAAATTGCTCTTCTAAATAGAGGCACCACGACTTTGGAAAGTAAAT
63 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
*
10631745 TGCTCCTTTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 TGCTCCTCTAAACAGAGGCA-CACGACTTTGG-AAAATAAATT
10631788 ACTCCTTGAC
Statistics
Matches: 444, Mismatches: 44, Indels: 67
0.80 0.08 0.12
Matches are distributed among these distances:
106 3 0.01
107 5 0.01
108 84 0.19
110 2 0.00
112 1 0.00
121 7 0.02
122 1 0.00
123 252 0.57
124 18 0.04
125 16 0.04
126 31 0.07
127 24 0.05
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (121 bp):
TGCTCCTCTAAACAGAGGCACACGACTTTGGAAAATAAATTGCTCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
Found at i:10631610 original size:41 final size:41
Alignment explanation
Indices: 10631565--10631794 Score: 297
Period size: 41 Copynumber: 5.6 Consensus size: 41
10631555 TGCTCCTCTA
* *
10631565 ACTTTGAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATG
1 ACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
* *
10631606 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 ACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
* *
10631645 AAACTTTGGAAAA-TAAATTGCTCATCTAAACAGAGGCACCACG
1 --ACTTT-GAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
*
10631688 ACTTTGAAAAGTAAATTGCT-CTTCTAAATAGAGGCACCACG
1 ACTTTGAAAAGTAAATTGCTCCTT-TAAACAGAGGCACCACG
*
10631729 ACTTTGGAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
1 ACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
* *
10631770 ACTTTGGAAAAATAAATTACTCCTT
1 ACTTT-GAAAAGTAAATTGCTCCTT
10631795 GACAATCATG
Statistics
Matches: 166, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 132 0.80
42 23 0.14
43 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (41 bp):
ACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACG
Found at i:10631611 original size:67 final size:67
Alignment explanation
Indices: 10631498--10631632 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
10631488 AGGCACCACG
*
10631498 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGGCTTTGGAAAGTAAATTGCTCCTC
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTC
10631563 TA
66 TA
* * *
10631565 ACTTTGAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGCTCCTC
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTC
10631630 TA
66 TA
10631632 A
1 A
10631633 ACAGAGGCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (67 bp):
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTC
TA
Found at i:10631652 original size:108 final size:107
Alignment explanation
Indices: 10631456--10631673 Score: 305
Period size: 108 Copynumber: 2.0 Consensus size: 107
10631446 GAGGCAACGA
*
10631456 AACTTTAGAAAATAAATTGTTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 AACTTTAGAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
* * *
10631521 CTAAACAGAGGCACCACGGCTTTGGAAAGTAAATTGCTCCTCT
66 CTAAACAGAGGCA-CACGACTTTGGAAAATAAATTGCTCATCT
* * * * *
10631564 AACTTT-GAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGCTCC
1 AACTTTAGAAAA-TAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCC
10631628 TCTAAACAGAGGCA-ACGAAACTTTGGAAAATAAATTGCTCATCT
65 TCTAAACAGAGGCACACG--ACTTTGGAAAATAAATTGCTCATCT
10631672 AA
1 AA
10631674 ACAGAGGCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
106 3 0.03
107 5 0.05
108 90 0.92
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (107 bp):
AACTTTAGAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAGAGGCACACGACTTTGGAAAATAAATTGCTCATCT
Found at i:10631686 original size:149 final size:148
Alignment explanation
Indices: 10631423--10631714 Score: 410
Period size: 149 Copynumber: 2.0 Consensus size: 148
10631413 ACGACTTTAG
* *
10631423 AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTAGAAAATAAATTGTTCCTCTAAACAA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCAACCAAACTTTAGAAAATAAATTGCTCCTCTAAACAA
* * *
10631488 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGGCTTTGGAAAGTAA
66 AGGCA-CACGACTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAA
10631553 ATTGCTCCTCTAACTTTGA
130 ATTGCTCCTCTAACTTTGA
* * * * *
10631572 AAAGTAAATTGCTCCTTTAAATAGAGGC-ACCATGACTTTGGAAAGTAAATTGCTCCTCTAAACA
1 AAAGTAAATTGCTCCTCTAAACAGAGGCAACCA-AACTTTAGAAAATAAATTGCTCCTCTAAACA
*
10631636 GAGGCA-ACGAAACTTTGGAAAA-TAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAG
65 AAGGCACACG--ACTTT-GAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAG
*
10631699 TAAATTGCTCTTCTAA
127 TAAATTGCTCCTCTAA
10631715 ATAGAGGCAC
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
147 3 0.02
148 3 0.02
149 116 0.91
150 5 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (148 bp):
AAAGTAAATTGCTCCTCTAAACAGAGGCAACCAAACTTTAGAAAATAAATTGCTCCTCTAAACAA
AGGCACACGACTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
TTGCTCCTCTAACTTTGA
Found at i:10631705 original size:190 final size:190
Alignment explanation
Indices: 10631375--10631751 Score: 628
Period size: 190 Copynumber: 2.0 Consensus size: 190
10631365 AGGCACCACG
* *
10631375 ACTTTGGAAAGTAAATTACTACTTTAAACAGAGGCATCACGACTTTAGAAAGTAAATTGCTCCTC
1 ACTTTGAAAAGTAAATTACTACTTTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTC
* *
10631440 TAAACAGAGGCAACGAAACTTTAGAAAATAAATTGTTCCTCTAAACAAAGGCACCACGACTTTGA
66 TAAACAGAGGCAACGAAACTTTAGAAAATAAATTGCTCATCTAAACAAAGGCACCACGACTTTGA
*
10631505 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGGCTTTGGAAAGTAAATTGCTCCTCTA
131 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTA
* * * * *
10631565 ACTTTGAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGCTCCTC
1 ACTTTGAAAAGTAAATTACTACTTTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTC
* *
10631630 TAAACAGAGGCAACGAAACTTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTGA
66 TAAACAGAGGCAACGAAACTTTAGAAAATAAATTGCTCATCTAAACAAAGGCACCACGACTTTGA
* *
10631695 AAAGTAAATTGCTCTTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
131 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
10631752 TTAAACAGAG
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
190 173 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (190 bp):
ACTTTGAAAAGTAAATTACTACTTTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTC
TAAACAGAGGCAACGAAACTTTAGAAAATAAATTGCTCATCTAAACAAAGGCACCACGACTTTGA
AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTA
Found at i:10631742 original size:231 final size:230
Alignment explanation
Indices: 10631334--10631793 Score: 667
Period size: 231 Copynumber: 2.0 Consensus size: 230
10631324 AGGCACCACG
*
10631334 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTACTT
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTACTC
* *
10631399 TAAACAGAGGCATCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTAG
66 TAAACAGAGGCA-CACGACTTTAGAAAATAAATTGCTCATCTAAACAGAGGCAACG-AACTTTAG
*
10631464 AAAATAAATTGTTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
129 AAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* * *
10631529 AGGCACCACGGCTTTGG-AAAGTAAATTGCTCCTCTA
194 AGGCACCACGACTTTGGAAAAATAAATTACTCCTCTA
* * * * *
10631565 ACTTTGAAAAGTAAATTGCTCCTTTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGCTCCTC
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTACTC
*
10631630 TAAACAGAGGCA-ACGAAACTTTGGAAAATAAATTGCTCATCTAAACAGAGGCACCACG-ACTTT
66 TAAACAGAGGCACACG--ACTTTAGAAAATAAATTGCTCATCTAAACAGAGGCA--ACGAACTTT
* * * * *
10631693 -GAAAAGTAAATTGCTCTTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTTTAAA
127 AGAAAA-TAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAA
10631757 CAGAGGCACCACGACTTTGGAAAAATAAATTACTCCT
191 CAGAGGCACCACGACTTTGGAAAAATAAATTACTCCT
10631794 TGACAATCAT
Statistics
Matches: 205, Mismatches: 18, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
229 3 0.01
230 5 0.02
231 180 0.88
232 14 0.07
233 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (230 bp):
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTACTC
TAAACAGAGGCACACGACTTTAGAAAATAAATTGCTCATCTAAACAGAGGCAACGAACTTTAGAA
AATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAG
GCACCACGACTTTGGAAAAATAAATTACTCCTCTA
Found at i:10632799 original size:9 final size:9
Alignment explanation
Indices: 10632786--10632827 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
10632776 TCATTCACTT
10632786 TTTTTTTC-
1 TTTTTTTCA
10632794 TTTTTTTCA
1 TTTTTTTCA
10632803 TTTTTTTTCA
1 -TTTTTTTCA
10632813 TTTTTTTCA
1 TTTTTTTCA
10632822 TTTTTT
1 TTTTTT
10632828 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.25
9 15 0.47
10 9 0.28
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:10632808 original size:19 final size:20
Alignment explanation
Indices: 10632779--10632832 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10632769 TCCTTTTTCA
10632779 TTCACTTTTTTTTTC-TTTTT
1 TTCA-TTTTTTTTTCATTTTT
10632799 TTCA-TTTTTTTTCATTTTT
1 TTCATTTTTTTTTCATTTTT
*
10632818 TTCATTTTTTCTTCA
1 TTCATTTTTTTTTCA
10632833 AGCATAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 9 0.29
19 9 0.29
20 13 0.42
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCATTTTTTTTTCATTTTT
Found at i:10632826 original size:10 final size:10
Alignment explanation
Indices: 10632785--10632832 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
10632775 TTCATTCACT
10632785 TTTTTTTTC-
1 TTTTTTTTCA
10632794 -TTTTTTTCA
1 TTTTTTTTCA
10632803 TTTTTTTTCA
1 TTTTTTTTCA
10632813 -TTTTTTTCA
1 TTTTTTTTCA
10632822 TTTTTTCTTCA
1 TTTTTT-TTCA
10632833 AGCATAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.23
9 9 0.26
10 14 0.40
11 4 0.11
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:10643549 original size:122 final size:120
Alignment explanation
Indices: 10643216--10643551 Score: 422
Period size: 122 Copynumber: 2.8 Consensus size: 120
10643206 TTGTGCAGGA
* * *
10643216 AAAATTGATACTTTCAACTTTTTCC-CAAAATATTTTTT-GAAA-CTT-TAATTTCGAGGAAAAT
1 AAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTGGAAAGCTTGT--TTTCAAGAAAAAT
* * *
10643277 TGATACTTTCAACTTTTCTTC-AAA-A--TCTTTTTTTTGAGAATTTATTTTTTAAGG
63 TGATACTTTCAAATTTTCCTCAAAATATTTTTTTTTTTTGAGAATTTATTTTTTAAGG
10643331 AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAAGCTTGTTTTCAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAAGCTTGTTTTCAAGAAAAATTGA
* * *
10643396 TACTTTCAAATTTTCCTCAAAATCTTTTTTTTTTTTGAGAATTTATTTTTTGAGT
66 TACTTTCAAATTTTCCTCAAAATATTTTTTTTTTTTGAGAATTTATTTTTTAAGG
* *
10643451 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGGAAAGCTTGTTTTCAAGGAAATTT
1 AAAATTGATACTTTCAACTTTTCC-TAAAAATA-TTTTTTGGAAAGCTTGTTTTCAAGAAAAATT
* *
10643516 GATA-GTTCTAATTTTTTCC-CAAAATATTTTTTTTTT
64 GATACTTTC-AA-ATTTTCCTCAAAATATTTTTTTTTT
10643552 GGATTTTATT
Statistics
Matches: 195, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
114 6 0.03
115 30 0.15
116 34 0.17
117 6 0.03
118 1 0.01
120 50 0.26
121 11 0.06
122 51 0.26
123 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAAGCTTGTTTTCAAGAAAAATTGA
TACTTTCAAATTTTCCTCAAAATATTTTTTTTTTTTGAGAATTTATTTTTTAAGG
Found at i:10643575 original size:5 final size:5
Alignment explanation
Indices: 10643567--10643648 Score: 62
Period size: 5 Copynumber: 15.8 Consensus size: 5
10643557 TTATTTAAAG
* *
10643567 AAAAT AAAAT AATA- AAAAC AAAA- AAAAT GAAAAT AAAAGT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA-T AAA-AT
*
10643612 AAAGT AAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAA
10643649 ATATCAAACA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
4 7 0.11
5 35 0.55
6 18 0.28
7 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:10643601 original size:21 final size:21
Alignment explanation
Indices: 10643577--10643651 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
10643567 AAAATAAAAT
*
10643577 AATAAAAACAAAAAAAATGAA
1 AATAAAAATAAAAAAAATGAA
* *
10643598 AATAAAAGTAAAGAAAA-GTAA
1 AATAAAAATAAAAAAAATG-AA
*
10643619 AATAAAAATAAAATAAAGATAAA
1 AATAAAAATAAAA-AAA-ATGAA
10643642 AATAAAAATA
1 AATAAAAATA
10643652 TCAAACAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 27 0.61
22 3 0.07
23 13 0.30
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (21 bp):
AATAAAAATAAAAAAAATGAA
Found at i:10643644 original size:44 final size:44
Alignment explanation
Indices: 10643562--10643648 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
10643552 GGATTTTATT
*
10643562 TAAAGAAAATAAAATAATAAAAACAAAAAAAATGAAAATAAAAG
1 TAAAGAAAATAAAATAATAAAAACAAAAAAAATAAAAATAAAAG
* *
10643606 TAAAGAAAAGTAAAATAA-AAATAA-AATAAAGATAAAAATAAAA
1 TAAAGAAAA-TAAAATAATAAA-AACAAAAAAAATAAAAATAAAA
10643649 ATATCAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 28 0.74
45 10 0.26
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (44 bp):
TAAAGAAAATAAAATAATAAAAACAAAAAAAATAAAAATAAAAG
Found at i:10643651 original size:6 final size:6
Alignment explanation
Indices: 10643567--10643651 Score: 61
Period size: 6 Copynumber: 14.0 Consensus size: 6
10643557 TTATTTAAAG
* * *
10643567 AAAAT- AAAATA ATAAA-A ACAAA-A AAAATG AAAATA AAAGTA AAGAAAA
1 AAAATA AAAATA A-AAATA A-AAATA AAAATA AAAATA AAAATA AA-AATA
*
10643615 GTAAAATA AAAAT- AAAATA AAGATA AAAATA AAAATA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10643652 TCAAACAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
5 13 0.20
6 41 0.64
7 5 0.08
8 3 0.05
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10643709 original size:17 final size:17
Alignment explanation
Indices: 10643669--10643720 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
10643659 AATCTAATCT
10643669 AATAATAATA-ATAAATA
1 AATAA-AATATATAAATA
10643686 AAT-AAATATATAAATA
1 AATAAAATATATAAATA
* *
10643702 TATAAAATATATATATA
1 AATAAAATATATAAATA
10643719 AA
1 AA
10643721 AAGCTGGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
17 16 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAATATATAAATA
Found at i:10644210 original size:19 final size:19
Alignment explanation
Indices: 10644186--10644222 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10644176 GCCGAAATTG
*
10644186 TCGTCGAAAAATTTAACCT
1 TCGTCGAAAAATTCAACCT
10644205 TCGTCGAAAAATTCAACC
1 TCGTCGAAAAATTCAACC
10644223 GAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (19 bp):
TCGTCGAAAAATTCAACCT
Found at i:10644549 original size:18 final size:16
Alignment explanation
Indices: 10644518--10644570 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10644508 TCCAATCTTC
*
10644518 AATCGAAAAAA-AAAGA
1 AATC-AAAAAATAAAAA
10644534 AATCAAAAAAATAAAAAA
1 AATC-AAAAAAT-AAAAA
*
10644552 AATCAAATAATAAAAA
1 AATCAAAAAATAAAAA
10644568 AAT
1 AAT
10644571 ATTAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 18 0.56
17 6 0.19
18 8 0.25
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (16 bp):
AATCAAAAAATAAAAA
Found at i:10644563 original size:17 final size:18
Alignment explanation
Indices: 10644523--10644569 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
10644513 TCTTCAATCG
*
10644523 AAAAA-AAAAGAAATCAA
1 AAAAATAAAAAAAATCAA
10644540 AAAAATAAAAAAAATC-A
1 AAAAATAAAAAAAATCAA
*
10644557 AATAATAAAAAAA
1 AAAAATAAAAAAA
10644570 TATTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAAATAAAAAAAATCAA
Found at i:10644577 original size:17 final size:18
Alignment explanation
Indices: 10644527--10644583 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
10644517 CAATCGAAAA
*
10644527 AAAAAGAAATCAAAAAAAT
1 AAAAA-AAATCAAATAAAT
10644546 AAAAAAAATCAAAT-AAT
1 AAAAAAAATCAAATAAAT
*
10644563 AAAAAAATAT-TAATAAAT
1 AAAAAAA-ATCAAATAAAT
10644581 AAA
1 AAA
10644584 TAATCTGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 13 0.38
18 16 0.47
19 5 0.15
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAAAAATCAAATAAAT
Found at i:10644581 original size:18 final size:16
Alignment explanation
Indices: 10644518--10644583 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 16
10644508 TCCAATCTTC
*
10644518 AATCGAAAAA-AAAAGA
1 AATC-AAAAATAAAAAA
10644534 AATCAAAAAAATAAAAAA
1 AATC--AAAAATAAAAAA
10644552 AATCAAATAATAAAAAA
1 AATCAAA-AATAAAAAA
*
10644569 ATATTAATAAATAAA
1 A-ATCAA-AAATAAA
10644584 TAATCTGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.17
17 15 0.36
18 19 0.45
19 1 0.02
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (16 bp):
AATCAAAAATAAAAAA
Found at i:10644699 original size:3 final size:3
Alignment explanation
Indices: 10644686--10644769 Score: 50
Period size: 3 Copynumber: 27.0 Consensus size: 3
10644676 GGATATATAT
* * *
10644686 TAA TAAA TAA TAA TAA TAAA TAA -AA AAA TAA TAAA TACA TAA GAA AAA
1 TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA
10644734 T-A TATA TAA TAA TAA TAA -AA TATA TAAA TAA -AA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA
10644770 AAATGTGAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
2 8 0.12
3 38 0.58
4 19 0.29
5 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:10644715 original size:57 final size:56
Alignment explanation
Indices: 10644625--10644766 Score: 137
Period size: 57 Copynumber: 2.5 Consensus size: 56
10644615 ATTAATTATA
* * * * * *
10644625 ATAATAATAAGATAAATATATATATATATAAAT-ATTAATAGA-AAAAAATAAGGATAT
1 ATAATAATAATA-AAATATATAAATAAAAAAATAATAAATACATAAAAAA-AA-GATAT
* * *
10644682 ATATTAATAAATAATAATA-ATAAATAAAAAAATAATAAATACATAAGAAAAATATAT
1 ATAATAAT-AATAA-AATATATAAATAAAAAAATAATAAATACATAAAAAAAAGATAT
10644739 ATAATAATAATAAAATATATAAATAAAA
1 ATAATAATAATAAAATATATAAATAAAA
10644767 TAAAAATGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
55 4 0.06
56 15 0.21
57 30 0.43
58 16 0.23
59 5 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (56 bp):
ATAATAATAATAAAATATATAAATAAAAAAATAATAAATACATAAAAAAAAGATAT
Found at i:10644768 original size:18 final size:18
Alignment explanation
Indices: 10644680--10644771 Score: 82
Period size: 18 Copynumber: 5.1 Consensus size: 18
10644670 AAATAAGGAT
*
10644680 ATATATTAAT-AAATAATA
1 ATATATAAATAAAATAA-A
*
10644698 ATA-ATAAATAAAAAAATA
1 ATATATAAATAAAATAA-A
* * *
10644716 ATAAATACATAAGA-AAA
1 ATATATAAATAAAATAAA
10644733 ATATATATAATAATAATAAA
1 ATATATA-AATAA-AATAAA
10644753 ATATATAAATAAAATAAA
1 ATATATAAATAAAATAAA
10644771 A
1 A
10644772 ATGTGAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.19
18 26 0.42
19 14 0.23
20 10 0.16
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (18 bp):
ATATATAAATAAAATAAA
Found at i:10644781 original size:18 final size:19
Alignment explanation
Indices: 10644704--10644771 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
10644694 AATAATAATA
*
10644704 AATAAAAAAATA-ATAAAT
1 AATAATAAAATATATAAAT
*
10644722 ACATAAGAAAAATATATATAAT
1 A-ATAA-TAAAATATATA-AAT
10644744 AATAATAAAATATATAAAT
1 AATAATAAAATATATAAAT
10644763 AA-AATAAAA
1 AATAATAAAA
10644772 ATGTGAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 8 0.18
19 9 0.20
20 17 0.38
21 7 0.16
22 4 0.09
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (19 bp):
AATAATAAAATATATAAAT
Found at i:10645900 original size:43 final size:41
Alignment explanation
Indices: 10645793--10645907 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 41
10645783 TGGAAGTGAA
* * *
10645793 TGAGGCTTTGAAACTTTTTAACATAAAATACTCCTCCACAAC
1 TGAGGCTTTGAAAC-TTTGAAAATAAAATGCTCCTCCACAAC
* ** **
10645835 TGAAGCTTTGGAATTTTTGAAAAATAAAATGCTCCTTTACAAC
1 TGAGGCTTT-GAAACTTTG-AAAATAAAATGCTCCTCCACAAC
*
10645878 TGAGGCTTTGAAACATTGGAAAATAAAATG
1 TGAGGCTTTGAAAC-TTTGAAAATAAAATG
10645908 AGATCATTCT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (41 bp):
TGAGGCTTTGAAACTTTGAAAATAAAATGCTCCTCCACAAC
Found at i:10647273 original size:12 final size:12
Alignment explanation
Indices: 10647252--10647290 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
10647242 TTATTTGTAT
10647252 TTTAATTTTTTAG
1 TTTAA-TTTTTAG
*
10647265 TTTAATTTTTGG
1 TTTAATTTTTAG
10647277 TTTAA-TTTTAG
1 TTTAATTTTTAG
10647288 TTT
1 TTT
10647291 TGTAGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.33
12 11 0.46
13 5 0.21
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:10648018 original size:44 final size:46
Alignment explanation
Indices: 10647968--10648071 Score: 142
Period size: 44 Copynumber: 2.3 Consensus size: 46
10647958 TGTTTGCATA
*
10647968 ATTAATATATTTATTTGTGTGACTAT-TAGT-ATTT-TTGCATGATT
1 ATTAATATATTTATTTGTATGACTATAT-GTAATTTATTGCATGATT
* *
10648012 ATTAATATATTTATTTGTATGATTATATTTAATTTGATTGCATGATT
1 ATTAATATATTTATTTGTATGACTATATGTAATTT-ATTGCATGATT
10648059 ATTAATATATTTA
1 ATTAATATATTTA
10648072 ATTGCTTGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 25 0.47
45 5 0.09
47 23 0.43
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (46 bp):
ATTAATATATTTATTTGTATGACTATATGTAATTTATTGCATGATT
Found at i:10648033 original size:24 final size:24
Alignment explanation
Indices: 10647954--10648108 Score: 128
Period size: 24 Copynumber: 6.6 Consensus size: 24
10647944 TTGCCTAATA
* *
10647954 TATTTGTTTGCATAATTAATATATT
1 TATTTGTATG-ATTATTAATATATT
* * *
10647979 TATTTGTGTGACTATT-A-GTA-T
1 TATTTGTATGATTATTAATATATT
*
10648000 T-TTTGCATGATTATTAATATATT
1 TATTTGTATGATTATTAATATATT
*
10648023 TATTTGTATGATTA-T-ATTTAATT
1 TATTTGTATGATTATTAATAT-ATT
*
10648046 TGA-TTGCATGATTATTAATATATT
1 T-ATTTGTATGATTATTAATATATT
*
10648070 TAATTGCT-TGATTATTAATATATT
1 TATTTG-TATGATTATTAATATATT
*
10648094 TATTTGCATGATTAT
1 TATTTGTATGATTAT
10648109 ATATTTAATT
Statistics
Matches: 104, Mismatches: 15, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
20 11 0.11
21 3 0.03
22 7 0.07
23 19 0.18
24 52 0.50
25 12 0.12
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (24 bp):
TATTTGTATGATTATTAATATATT
Found at i:10648066 original size:47 final size:43
Alignment explanation
Indices: 10647968--10648086 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 43
10647958 TGTTTGCATA
*
10647968 ATTAATATATTTATTTGTGTGACTATTAGTATTTTTGCATGATT
1 ATTAATATATTTATTTGT-TGATTATTAGTATTTTTGCATGATT
*
10648012 ATTAATATATTTATTTGTATGATTA-TATTTAATTTGATTGCATGATT
1 ATTAATATATTTATTTGT-TGATTATTA-GT-ATTT--TTGCATGATT
*
10648059 ATTAATATATTTAATTGCTTGATTATTA
1 ATTAATATATTTATTTG-TTGATTATTA
10648087 ATATATTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
43 2 0.03
44 24 0.37
45 4 0.06
47 32 0.49
48 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (43 bp):
ATTAATATATTTATTTGTTGATTATTAGTATTTTTGCATGATT
Found at i:10648169 original size:55 final size:55
Alignment explanation
Indices: 10648097--10648271 Score: 205
Period size: 55 Copynumber: 3.2 Consensus size: 55
10648087 ATATATTTAT
*
10648097 TTGCATGATTATATATTTAATTGCATGTTTAGTTACATGATTTATATATTATTAG
1 TTGCATGATTATATATTTAATTGCATGTTTAGTTACATGATTTATATATTATTAA
* * * * * * *
10648152 TTACATGATTATTTATTTAATTGCATATTT-GTTTGCATGGTTTATATATTTTTAT
1 TTGCATGATTATATATTTAATTGCATGTTTAG-TTACATGATTTATATATTATTAA
* * *
10648207 TTGCAGGATTATATATTTAATTGCATGTTTATTTGA-ATGA-TT-TATATTGTTAA
1 TTGCATGATTATATATTTAATTGCATGTTTAGTT-ACATGATTTATATATTATTAA
10648260 TTGCATGATTAT
1 TTGCATGATTAT
10648272 TAATTTATTT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
53 20 0.20
54 3 0.03
55 77 0.77
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (55 bp):
TTGCATGATTATATATTTAATTGCATGTTTAGTTACATGATTTATATATTATTAA
Found at i:10648225 original size:20 final size:21
Alignment explanation
Indices: 10648176--10648233 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
10648166 ATTTAATTGC
* *
10648176 ATATTTGTTTGCATGGTTTAT
1 ATATTTATTTGCATGGATTAT
10648197 ATATTTTTATTTGCA-GGATTAT
1 ATA--TTTATTTGCATGGATTAT
*
10648219 ATATTTAATTGCATG
1 ATATTTATTTGCATG
10648234 TTTATTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.29
21 4 0.13
22 9 0.29
23 9 0.29
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (21 bp):
ATATTTATTTGCATGGATTAT
Found at i:10648260 original size:33 final size:32
Alignment explanation
Indices: 10648202--10648272 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
10648192 TTTATATATT
*
10648202 TTTATTTGCAGGATTATATATTTAATTGCATG
1 TTTATTTGAAGGATTATATATTTAATTGCATG
*
10648234 TTTATTTGAATGATT-TATATTGTTAATTGCATG
1 TTTATTTGAAGGATTATATA-T-TTAATTGCATG
*
10648267 ATTATT
1 TTTATT
10648273 AATTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 4 0.12
32 14 0.41
33 16 0.47
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (32 bp):
TTTATTTGAAGGATTATATATTTAATTGCATG
Found at i:10648300 original size:32 final size:31
Alignment explanation
Indices: 10648223--10648318 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
10648213 GATTATATAT
* *
10648223 TTAATTGCATGTTTATTTGAAT-GATTTATATTG
1 TTAATTGCATGATTA-TT-AATATATTTAT-TTG
*
10648256 TTAATTGCATGATTATTAATTTATTTATTTG
1 TTAATTGCATGATTATTAATATATTTATTTG
* *
10648287 TATGATTGTATGATTATTAATATATTTATTTG
1 T-TAATTGCATGATTATTAATATATTTATTTG
10648319 CATAGTTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
31 7 0.12
32 35 0.62
33 14 0.25
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (31 bp):
TTAATTGCATGATTATTAATATATTTATTTG
Found at i:10648378 original size:19 final size:19
Alignment explanation
Indices: 10648341--10648379 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10648331 TTTATTATTA
* *
10648341 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
10648360 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
10648379 T
1 T
10648380 ACGTGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:10648543 original size:20 final size:20
Alignment explanation
Indices: 10648482--10648559 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
10648472 TTACATAATT
*
10648482 ATTAATATATTTGCATGA-T
1 ATTAATATATTTGCATGACA
** **
10648501 ATT-ATATATTTATATGATT
1 ATTAATATATTTGCATGACA
*
10648520 ATTATTAT-TATTGCATGACA
1 ATTAATATAT-TTGCATGACA
10648540 ATTAATATATTTGCATGACA
1 ATTAATATATTTGCATGACA
10648560 TTCTTGCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.26
19 8 0.17
20 26 0.55
21 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTAATATATTTGCATGACA
Found at i:10649272 original size:2 final size:2
Alignment explanation
Indices: 10649265--10649292 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10649255 TATAGGACTT
10649265 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10649293 CAGATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10649728 original size:2 final size:2
Alignment explanation
Indices: 10649721--10649752 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
10649711 CATATGTATG
10649721 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
10649753 GATTAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10651379 original size:2 final size:2
Alignment explanation
Indices: 10651372--10651397 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10651362 TTTGATTTTC
10651372 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
10651398 TCATAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10652089 original size:63 final size:63
Alignment explanation
Indices: 10652004--10652167 Score: 179
Period size: 64 Copynumber: 2.6 Consensus size: 63
10651994 TAGAGATTAG
* * * **
10652004 TTAAGAT-ATTTTTAGACTAAAAATACTTTAAATAATCTTTCATATTTTTTAAATGGTATTTAT
1 TTAAGATGA-TTTTAGACCAAAAATACTTTAAATAATCTCTCAAATTTTTTAAATGACATTTAT
* * *
10652067 TTAAGATGATTTTGGACCAAAAACACCTTAAATAATTCTCTCAAATTTTTTAAATGACATTTAT
1 TTAAGATGATTTTAGACCAAAAATACTTTAAATAA-TCTCTCAAATTTTTTAAATGACATTTAT
** * *
10652131 TTAAGGCGCTTTTAGATCAAAAATA-TCTTAAATAATC
1 TTAAGATGATTTTAGACCAAAAATACT-TTAAATAATC
10652168 CCTTTTAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 31 0.37
64 52 0.63
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (63 bp):
TTAAGATGATTTTAGACCAAAAATACTTTAAATAATCTCTCAAATTTTTTAAATGACATTTAT
Found at i:10653578 original size:22 final size:22
Alignment explanation
Indices: 10653543--10653592 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
10653533 TTTTATAGTT
* *
10653543 AAATTTATTTAAAT-ATATTAA
1 AAATTTATTGAAATAATATAAA
10653564 AAATTATATTGAAATAATATAAA
1 AAATT-TATTGAAATAATATAAA
10653587 AAATTT
1 AAATTT
10653593 TAAAATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTTATTGAAATAATATAAA
Found at i:10660955 original size:25 final size:25
Alignment explanation
Indices: 10660921--10660981 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
10660911 ATTGTAGAAG
10660921 TCTGATTCTCTTACATTAGTACAGA
1 TCTGATTCTCTTACATTAGTACAGA
* *
10660946 TCTGATTCTCTTACATTAGTGCAGC
1 TCTGATTCTCTTACATTAGTACAGA
10660971 T-TGATT-TCTTA
1 TCTGATTCTCTTA
10660982 ATTTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 5 0.15
24 5 0.15
25 24 0.71
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (25 bp):
TCTGATTCTCTTACATTAGTACAGA
Found at i:10664133 original size:53 final size:51
Alignment explanation
Indices: 10664042--10664144 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 51
10664032 TTTATTTATT
** *
10664042 TTTTGGATTTTAAAATTTTTCACAATTTGGGTCAATTTAGAACTATTTTCTC
1 TTTTGGATTTTAAAATTTTTCACAATTTGGACCAATTTAGAA-AATTTTCTC
*
10664094 TTTTGGAATTTCT-AAATTTTTCATC-ATTTGGACCTATTTAGAAAATTTTCT
1 TTTTGG-ATTT-TAAAATTTTTCA-CAATTTGGACCAATTTAGAAAATTTTCT
10664145 TTTCTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
52 13 0.30
53 29 0.66
54 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (51 bp):
TTTTGGATTTTAAAATTTTTCACAATTTGGACCAATTTAGAAAATTTTCTC
Found at i:10664894 original size:18 final size:19
Alignment explanation
Indices: 10664865--10664915 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
10664855 TAAATTTTCC
*
10664865 TTCCCTTCTCTCTCTCTCT
1 TTCCCTTTTCTCTCTCTCT
*
10664884 TT-CCTTTTCTC-CTTTCT
1 TTCCCTTTTCTCTCTCTCT
*
10664901 TTCCCTCTTCTCTCT
1 TTCCCTTTTCTCTCT
10664916 AACCTAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCCCTTTTCTCTCTCTCT
Found at i:10665702 original size:42 final size:42
Alignment explanation
Indices: 10665646--10666117 Score: 126
Period size: 42 Copynumber: 11.3 Consensus size: 42
10665636 TTAAAAAAAT
* *
10665646 AAATAAATAAGGCTCCTT-TAAACAAA-AGCCTAACAACTTTGGA
1 AAATAAA-AAGGCT-CTTCTAAACAAAGA-CATAACAACTTTAGA
* *
10665689 AAATAAAAAGGCTCTTCTAAACAGAGATATAACAACTTTAGA
1 AAATAAAAAGGCTCTTCTAAACAAAGACATAACAACTTTAGA
* * * * ** *
10665731 AAATAAAAA-GTTCCCTCTAAACAAAGGCTTAATGACTTTTGA
1 AAATAAAAAGGCT-CTTCTAAACAAAGACATAACAACTTTAGA
* * * * *
10665773 AAA-ATAAAAGGCT-TCTCTAAATAGAGGCACAACAACTAT-GAA
1 AAATA-AAAAGGCTCT-TCTAAACAAAGACATAACAACTTTAG-A
** * * ** * *
10665815 AAATAAAAAGTTTC-TCTAAATAGAGGTACAATAACTTT-GAA
1 AAATAAAAAGGCTCTTCTAAACAAAGACATAACAACTTTAG-A
* * ** * *
10665856 AAATAAAAA-GCTCATT-TAAATAAAGGC-TCAATGATTTTTGAA
1 AAATAAAAAGGCTC-TTCTAAACAAAGACAT-AACAACTTTAG-A
* * * *
10665898 AAATAAAAA-GCTCTTCTAAACAGAGGCATAATAACTTTGGA
1 AAATAAAAAGGCTCTTCTAAACAAAGACATAACAACTTTAGA
* * ** * ** * *
10665939 AAATAAAAA-GCTCCTCTAAATAGTGGC-TCAATGATTTTTGA
1 AAATAAAAAGGCTCTTCTAAACAAAGACAT-AACAACTTTAGA
* * * * *
10665980 AAA-ATAAAAGGCTCTTTTAAACAGAGGCACAATAACTTT-GA
1 AAATA-AAAAGGCTCTTCTAAACAAAGACATAACAACTTTAGA
* *
10666021 AAA-ATAAAAGGCTCATT-TAAACAAA-AGC-TCAACGACTTTTGAA
1 AAATA-AAAAGGCTC-TTCTAAACAAAGA-CAT-AACAACTTTAG-A
* * * *
10666064 AAATAAAAA-GCT-TCTCTAAACAAAGGCACAATAATTTTAGA
1 AAATAAAAAGGCTCT-TCTAAACAAAGACATAACAACTTTAGA
10666105 AAAT-AAAAGGCTC
1 AAATAAAAAGGCTC
10666118 ATCGATAACT
Statistics
Matches: 335, Mismatches: 63, Indels: 63
0.73 0.14 0.14
Matches are distributed among these distances:
40 9 0.03
41 139 0.41
42 166 0.50
43 20 0.06
44 1 0.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (42 bp):
AAATAAAAAGGCTCTTCTAAACAAAGACATAACAACTTTAGA
Found at i:10665775 original size:84 final size:83
Alignment explanation
Indices: 10665681--10666116 Score: 194
Period size: 83 Copynumber: 5.3 Consensus size: 83
10665671 AAGCCTAACA
* * *
10665681 ACTTTGG-AAAATAAAAAGGC-TCTTCTAAACAGAGATATAACAACT-TTAGAAAATAAAAAGTT
1 ACTTTGGAAAAAT-AAAAGGCTTC-TCTAAACAGAGACACAACAACTATGA-AAAATAAAAAGTT
10665743 CCCTCTAAACAAAGGCTTAATG
63 -CCTCTAAACAAAGGCTTAATG
* * * *
10665765 ACTTTTGAAAAATAAAAGGCTTCTCTAAATAGAGGCACAACAACTATGAAAAATAAAAAGTTTCT
1 ACTTTGGAAAAATAAAAGGCTTCTCTAAACAGAGACACAACAACTATGAAAAATAAAAAGTTCCT
* * * *
10665830 CTAAATAGAGG-TACAATA
66 CTAAACAAAGGCT-TAATG
* * * * * * * ** * *
10665848 ACTTT-GAAAAATAAAAAGC-TCATTTAAATAAAGGCTCAATGATTTTTGAAAAATAAAAAGCTC
1 ACTTTGGAAAAATAAAAGGCTTC-TCTAAACAGAGACACAA-CAACTATGAAAAATAAAAAGTTC
* * * *
10665911 TTCTAAACAGAGGCATAATA
64 CTCTAAACAAAGGCTTAATG
* * * * * * * ** * * * *
10665931 ACTTTGG-AAAATAAAAAGCTCCTCTAAATAGTGGCTCAATGATTTTTGAAAAATAAAAGGCTCT
1 ACTTTGGAAAAATAAAAGGCTTCTCTAAACAGAGACACAA-CAACTATGAAAAATAAAAAGTTCC
* * ** *
10665995 TTTAAACAGAGGCACAATA
65 TCTAAACAAAGGCTTAATG
* * * * *
10666014 ACTTT-GAAAAATAAAAGGC-TCATTTAAACA-AAAGCTCAACGACTTTTGAAAAATAAAAAGCT
1 ACTTTGGAAAAATAAAAGGCTTC-TCTAAACAGAGA-CACAACAAC-TATGAAAAATAAAAAG-T
** *
10666076 T-CTCTAAACAAAGGCACAATA
62 TCCTCTAAACAAAGGCTTAATG
* *
10666097 ATTTTAG-AAAATAAAAGGCT
1 ACTTTGGAAAAATAAAAGGCT
10666117 CATCGATAAC
Statistics
Matches: 287, Mismatches: 49, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
81 2 0.01
82 30 0.10
83 198 0.69
84 48 0.17
85 9 0.03
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (83 bp):
ACTTTGGAAAAATAAAAGGCTTCTCTAAACAGAGACACAACAACTATGAAAAATAAAAAGTTCCT
CTAAACAAAGGCTTAATG
Found at i:10665822 original size:41 final size:42
Alignment explanation
Indices: 10665680--10666120 Score: 305
Period size: 41 Copynumber: 10.6 Consensus size: 42
10665670 AAAGCCTAAC
* * ** * *
10665680 AACTTTGGAAAATAAAAAGGC-TCTTCTAAACAGAGATATAAC
1 AACTTTGAAAAATAAAAA-GCTTCATCTAAACAGAGGCACAAT
* * **
10665722 AACTTT-AGAAAATAAAAAG-TTCCCTCTAAACAAAGGCTTAAT
1 AACTTTGA-AAAATAAAAAGCTT-CATCTAAACAGAGGCACAAT
* * * *
10665764 GACTTTTGAAAAATAAAAGGCTTC-TCTAAATAGAGGCACAAC
1 AAC-TTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* * * *
10665806 AACTATGAAAAATAAAAAGTTTC-TCTAAATAGAGGTACAAT
1 AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* * * *
10665847 AACTTTGAAAAATAAAAAGC-TCATTTAAATAAAGGCTCAAT
1 AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
** * *
10665888 GATTTTTGAAAAATAAAAAGC-TCTTCTAAACAGAGGCATAAT
1 -AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* * * * *
10665930 AACTTTGGAAAATAAAAAGC-TCCTCTAAATAGTGGCTCAAT
1 AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
** * * *
10665971 GATTTTTGAAAAATAAAAGGC-TCTTTTAAACAGAGGCACAAT
1 -AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* * * * * *
10666013 AACTTTGAAAAATAAAAGGC-TCATTTAAACAAAAGCTCAAC
1 AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* *
10666054 GACTTTTGAAAAATAAAAAGCTTC-TCTAAACAAAGGCACAAT
1 AAC-TTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
* *
10666096 AA-TTTTAGAAAATAAAAGGC-TCATC
1 AACTTTGA-AAAATAAAAAGCTTCATC
10666121 GATAACTATA
Statistics
Matches: 319, Mismatches: 67, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
40 8 0.03
41 149 0.47
42 143 0.45
43 16 0.05
44 3 0.01
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (42 bp):
AACTTTGAAAAATAAAAAGCTTCATCTAAACAGAGGCACAAT
Found at i:10665898 original size:83 final size:83
Alignment explanation
Indices: 10665730--10666119 Score: 387
Period size: 83 Copynumber: 4.7 Consensus size: 83
10665720 ACAACTTTAG
* * ** * * *
10665730 AAAATAAAAAGTTCCCTCTAAACAAAGGCTTAATGACTTTTGAAAAATAAAAGGCTTC-TCTAAA
1 AAAATAAAAAGTT-TCTCTAAACAGAGGCACAATAAC-TTTGAAAAATAAAAAGC-TCATTTAAA
* * * ** *
10665794 TAGAGGCACAA-CAACTATGA
63 TAAAGGCTCAATGATTTTTGA
* *
10665814 AAAATAAAAAGTTTCTCTAAATAGAGGTACAATAACTTTGAAAAATAAAAAGCTCATTTAAATAA
1 AAAATAAAAAGTTTCTCTAAACAGAGGCACAATAACTTTGAAAAATAAAAAGCTCATTTAAATAA
10665879 AGGCTCAATGATTTTTGA
66 AGGCTCAATGATTTTTGA
* * * * *
10665897 AAAATAAAAAG-CTCTTCTAAACAGAGGCATAATAACTTTGGAAAATAAAAAGCTCCTCTAAATA
1 AAAATAAAAAGTTTC-TCTAAACAGAGGCACAATAACTTTGAAAAATAAAAAGCTCATTTAAATA
**
10665961 GTGGCTCAATGATTTTTGA
65 AAGGCTCAATGATTTTTGA
* * *
10665980 AAAATAAAAGGCTCTT-T-TAAACAGAGGCACAATAACTTTGAAAAATAAAAGGCTCATTTAAAC
1 AAAATAAAAAG-T-TTCTCTAAACAGAGGCACAATAACTTTGAAAAATAAAAAGCTCATTTAAAT
* * *
10666043 AAAAGCTCAACGACTTTTGA
64 AAAGGCTCAATGATTTTTGA
* * * *
10666063 AAAATAAAAAGCTTCTCTAAACAAAGGCACAATAA-TTTTAGAAAATAAAAGGCTCAT
1 AAAATAAAAAGTTTCTCTAAACAGAGGCACAATAACTTTGA-AAAATAAAAAGCTCAT
10666120 CGATAACTAT
Statistics
Matches: 256, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
81 4 0.02
82 37 0.14
83 200 0.78
84 14 0.05
86 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (83 bp):
AAAATAAAAAGTTTCTCTAAACAGAGGCACAATAACTTTGAAAAATAAAAAGCTCATTTAAATAA
AGGCTCAATGATTTTTGA
Found at i:10666016 original size:166 final size:165
Alignment explanation
Indices: 10665730--10666117 Score: 476
Period size: 166 Copynumber: 2.3 Consensus size: 165
10665720 ACAACTTTAG
* * * * * *
10665730 AAAATAAAAAGTTCCCTCTAAACAAAGGCTTAATGACTTTTGAAAAATAAAAGGCTTCTCTAAAT
1 AAAATAAAAAGCT-CTTCTAAACAAAGGCATAATAAC-TTTGGAAAATAAAAGGCTCCTCTAAAT
* *
10665795 AGAGGCACAACAACTATGAAAAATAAAAAGTTTCTCTAAATAGAGGTACAATAACTTTGAAAAAT
64 AGAGGCACAACAACTATGAAAAATAAAAAGTTTCTCTAAACAGAGGCACAATAACTTTGAAAAAT
* * * *
10665860 AAAAAGCTCATTTAAATAAAGGCTCAATGATTTTTGA
129 AAAAAGCTCATTTAAACAAAAGCTCAACGACTTTTGA
* *
10665897 AAAATAAAAAGCTCTTCTAAACAGAGGCATAATAACTTTGGAAAATAAAAAGCTCCTCTAAATAG
1 AAAATAAAAAGCTCTTCTAAACAAAGGCATAATAACTTTGGAAAATAAAAGGCTCCTCTAAATAG
* * * ** * *
10665962 TGGCTCAATGATTTTTGAAAAATAAAAGGCTCTT-T-TAAACAGAGGCACAATAACTTTGAAAAA
66 AGGCACAA-CAACTATGAAAAATAAAAAG-T-TTCTCTAAACAGAGGCACAATAACTTTGAAAAA
*
10666025 TAAAAGGCTCATTTAAACAAAAGCTCAACGACTTTTGA
128 TAAAAAGCTCATTTAAACAAAAGCTCAACGACTTTTGA
* * *
10666063 AAAATAAAAAGCT-TCTCTAAACAAAGGCACAATAATTTTAGAAAATAAAAGGCTC
1 AAAATAAAAAGCTCT-TCTAAACAAAGGCATAATAACTTTGGAAAATAAAAGGCTC
10666118 ATCGATAACT
Statistics
Matches: 190, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
165 33 0.17
166 141 0.74
167 14 0.07
168 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (165 bp):
AAAATAAAAAGCTCTTCTAAACAAAGGCATAATAACTTTGGAAAATAAAAGGCTCCTCTAAATAG
AGGCACAACAACTATGAAAAATAAAAAGTTTCTCTAAACAGAGGCACAATAACTTTGAAAAATAA
AAAGCTCATTTAAACAAAAGCTCAACGACTTTTGA
Found at i:10666368 original size:22 final size:23
Alignment explanation
Indices: 10666323--10666370 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10666313 CAAGAATTCA
** *
10666323 TATTTGCAAGATTTTAAGATTCG
1 TATTTGCAAGATTACAAGACTCG
10666346 TATTTGCAA-ATTACAAGACTCG
1 TATTTGCAAGATTACAAGACTCG
10666368 TAT
1 TAT
10666371 CCAACATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (23 bp):
TATTTGCAAGATTACAAGACTCG
Found at i:10666506 original size:21 final size:22
Alignment explanation
Indices: 10666479--10666536 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
10666469 AGTTTTACGT
10666479 CTCAAAGATTCTCATTTGA-AA
1 CTCAAAGATTCTCATTTGAGAA
* *
10666500 TTCAAAGACTCTCATTTGAGAA
1 CTCAAAGATTCTCATTTGAGAA
*
10666522 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
10666537 CAAAAGATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGAA
Found at i:10667727 original size:15 final size:16
Alignment explanation
Indices: 10667696--10667735 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
10667686 AGTCTTCTTT
10667696 TTCTC-TTTTTTCATC
1 TTCTCATTTTTTCATC
*
10667711 TTTTCATTTTTTC-TC
1 TTCTCATTTTTTCATC
10667726 TTCTCATTTT
1 TTCTCATTTT
10667736 CCATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTCATTTTTTCATC
Found at i:10668647 original size:19 final size:19
Alignment explanation
Indices: 10668623--10668666 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
10668613 GATAACAAAT
10668623 GAAATCCTATTGCATAAAA
1 GAAATCCTATTGCATAAAA
10668642 GAAATCCTATTGCATAAAA
1 GAAATCCTATTGCATAAAA
10668661 GAAATC
1 GAAATC
10668667 TTAACATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (19 bp):
GAAATCCTATTGCATAAAA
Found at i:10670765 original size:59 final size:59
Alignment explanation
Indices: 10670673--10670804 Score: 228
Period size: 59 Copynumber: 2.2 Consensus size: 59
10670663 TGACATGATA
*
10670673 ATGCAAATGCACAAAGTCAAATAAACAAAATAGCTAATTTTATGGATGAAATAAAAGTG
1 ATGCAAATGCACAAAGTCAAACAAACAAAATAGCTAATTTTATGGATGAAATAAAAGTG
* *
10670732 ATGCAAATGTACAAAGTCAAACAAACAAAATAGCTAATTTTATGGATGAAATGAAAGTG
1 ATGCAAATGCACAAAGTCAAACAAACAAAATAGCTAATTTTATGGATGAAATAAAAGTG
*
10670791 ATGCAGATGCACAA
1 ATGCAAATGCACAA
10670805 TGTTACATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (59 bp):
ATGCAAATGCACAAAGTCAAACAAACAAAATAGCTAATTTTATGGATGAAATAAAAGTG
Found at i:10671994 original size:119 final size:118
Alignment explanation
Indices: 10671855--10672069 Score: 331
Period size: 119 Copynumber: 1.8 Consensus size: 118
10671845 TTATTCCACT
* *** * *
10671855 ATTTGGGTTAAATTAAAAATATTTTCTCTTTTGAAATTTCTAAATTTTTCACTATTTGGGCCTAT
1 ATTTGGGTCAAATTAAAAATATTTTCTCTTTTGAAATTTCTAAAAAATCCACCATTTGGGCCTAT
10671920 TTAGAAATTCTCTTTATTTATTTATTTTTTTTTTGGATTTCTAAATTTTTCACC
66 TTAGAAATTCTCTTTATTTATTT-TTTTTTTTTTGGATTTCTAAATTTTTCACC
* * *
10671974 ATTTGGGTCAATTTAGAAATATTTTCTCTTTTGGAATTTCTAAAAAATCCACCATTTGGGCCTAT
1 ATTTGGGTCAAATTAAAAATATTTTCTCTTTTGAAATTTCTAAAAAATCCACCATTTGGGCCTAT
*
10672039 TTAGAAATTCTCTTTTTTTATTTTTTTTTTT
66 TTAGAAATTCTCTTTATTTATTTTTTTTTTT
10672070 GAAAGAAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 8 0.09
119 78 0.91
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (118 bp):
ATTTGGGTCAAATTAAAAATATTTTCTCTTTTGAAATTTCTAAAAAATCCACCATTTGGGCCTAT
TTAGAAATTCTCTTTATTTATTTTTTTTTTTTTGGATTTCTAAATTTTTCACC
Found at i:10672015 original size:53 final size:51
Alignment explanation
Indices: 10671942--10672046 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 51
10671932 TTTATTTATT
* *** * *
10671942 TATTTTTTTTTTGGATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAAA
1 TATTTTTCTTTTGGATTTCTAAAAAATCCACCATTTGGGCCAATTTAGAAA
*
10671993 TATTTTCTCTTTTGGAATTTCTAAAAAATCCACCATTTGGGCCTATTTAGAAA
1 TATTTT-TCTTTTGG-ATTTCTAAAAAATCCACCATTTGGGCCAATTTAGAAA
10672046 T
1 T
10672047 TCTCTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 6 0.13
52 7 0.16
53 32 0.71
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (51 bp):
TATTTTTCTTTTGGATTTCTAAAAAATCCACCATTTGGGCCAATTTAGAAA
Found at i:10672188 original size:26 final size:28
Alignment explanation
Indices: 10672139--10672193 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
10672129 TGGGATAAAT
*
10672139 TTAAAGAAATTTCTCACCTTGAAATTTC
1 TTAAAGAAATTTATCACCTTGAAATTTC
*
10672167 TTAAA-AAATTTATCA-TTTGAAATTTC
1 TTAAAGAAATTTATCACCTTGAAATTTC
10672193 T
1 T
10672194 AAGAATCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 9 0.36
28 5 0.20
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (28 bp):
TTAAAGAAATTTATCACCTTGAAATTTC
Found at i:10672999 original size:12 final size:12
Alignment explanation
Indices: 10672968--10672998 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
10672958 TCGGAATATG
10672968 AAATTTTTCAAA
1 AAATTTTTCAAA
10672980 AAATTTTTC-AA
1 AAATTTTTCAAA
10672991 AAATTTTT
1 AAATTTTT
10672999 TTTTAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTTCAAA
Found at i:10682656 original size:129 final size:125
Alignment explanation
Indices: 10682500--10682845 Score: 367
Period size: 129 Copynumber: 2.7 Consensus size: 125
10682490 TAGCATTTTA
*
10682500 TTTGAAAATTATTATAATATCTT-TATTAAATTACTTATTAAATTTTAACATAGTATAAAATTAA
1 TTTGAAAATTATTATAATA-CTTCTATTAAATTACATATTAAA-TTTAACATA-TATAAAATTAA
* * * * * * * *
10682564 TTATATATTAAATTATTTAGATA-TCCTTACTATTCTTTCATTAAAATTTGATATTTGGTATTT
63 TTATATATTAAATTACTAAAATACT-CTTACCAATCTTTCATGAAAATTTGACATGTGGTATTT
* *
10682627 TTGTCTAAAATTATTATAATACTTCTATTAAAATACATATTAAAATTTAACATAATATAAAATTA
1 TT-T-GAAAATTATTATAATACTTCTATTAAATTACATATT-AAATTTAACAT-ATATAAAATTA
* * *
10682692 ACTACATATTAAATTACTAAAATACTCTTACCAATGTTTCATGAAAATTTGACATGTGGTATTT
62 ATTATATATTAAATTACTAAAATACTCTTACCAATCTTTCATGAAAATTTGACATGTGGTATTT
* ** * * * *
10682756 TTTGAAAATTATTATAAAACCCCTATGAAATAACATATTAAA-TTAA-TTACATAAAACTTAATT
1 TTTGAAAATTATTATAATACTTCTATTAAATTACATATTAAATTTAACATATATAAAA-TTAATT
* * *
10682819 ATATATTAAATTAATATAATACCCTTA
65 ATATATTAAATTACTAAAATACTCTTA
10682846 TCATTTGCTT
Statistics
Matches: 184, Mismatches: 28, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
123 7 0.04
124 29 0.16
125 4 0.02
126 3 0.02
127 31 0.17
128 5 0.03
129 100 0.54
130 5 0.03
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (125 bp):
TTTGAAAATTATTATAATACTTCTATTAAATTACATATTAAATTTAACATATATAAAATTAATTA
TATATTAAATTACTAAAATACTCTTACCAATCTTTCATGAAAATTTGACATGTGGTATTT
Found at i:10682700 original size:16 final size:17
Alignment explanation
Indices: 10682653--10682707 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
10682643 TAATACTTCT
*
10682653 ATTAAAATACATATTAAA
1 ATTAACATACATA-TAAA
10682671 ATTTAACATA-ATATAAA
1 A-TTAACATACATATAAA
*
10682688 ATTAAC-TACATATTAA
1 ATTAACATACATATAAA
10682704 ATTA
1 ATTA
10682708 CTAAAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 15 0.45
17 5 0.15
18 4 0.12
19 7 0.21
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAACATACATATAAA
Found at i:10682704 original size:17 final size:19
Alignment explanation
Indices: 10682654--10682704 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 19
10682644 AATACTTCTA
*
10682654 TTAAAATACATATTAAAAT
1 TTAACATACATATTAAAAT
10682673 TTAACATA-ATA-TAAAA-
1 TTAACATACATATTAAAAT
10682689 TTAAC-TACATATTAAA
1 TTAACATACATATTAAA
10682705 TTACTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 8 0.28
17 9 0.31
18 3 0.10
19 7 0.24
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAACATACATATTAAAAT
Found at i:10682836 original size:15 final size:15
Alignment explanation
Indices: 10682790--10682836 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10682780 ATGAAATAAC
10682790 ATATTAAATTAAT-T
1 ATATTAAATTAATAT
* *
10682804 ACATAAAACTTAATTAT
1 ATATTAAA-TTAA-TAT
10682821 ATATTAAATTAATAT
1 ATATTAAATTAATAT
10682836 A
1 A
10682837 ATACCCTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 6 0.23
15 8 0.31
16 5 0.19
17 7 0.27
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATTAAATTAATAT
Found at i:10684703 original size:31 final size:32
Alignment explanation
Indices: 10684637--10684705 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
10684627 TTAAATTAAG
*
10684637 ATATCAAATAATAAATTTATTAATATAATACAT
1 ATAT-AAATAATAAATTTATTAAAATAATACAT
10684670 ATATAAAT-ATAAATTATATTAACAATAA-A-AT
1 ATATAAATAATAAATT-TATTAA-AATAATACAT
10684701 ATATA
1 ATATA
10684706 TCTTTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 14 0.42
32 11 0.33
33 8 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (32 bp):
ATATAAATAATAAATTTATTAAAATAATACAT
Found at i:10685164 original size:15 final size:17
Alignment explanation
Indices: 10685146--10685182 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
10685136 ATCAAAAAGA
10685146 AAAAAGAAAAA-AAAC-
1 AAAAAGAAAAATAAACT
10685161 AAAAAGAAAAATAAACT
1 AAAAAGAAAAATAAACT
10685178 AAAAA
1 AAAAA
10685183 AGGAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAATAAACT
Found at i:10685841 original size:16 final size:15
Alignment explanation
Indices: 10685814--10685843 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10685804 TTTATTTAAA
10685814 TTAAAAACTAAAAAT
1 TTAAAAACTAAAAAT
10685829 TTAAAAGACTAAAAA
1 TTAAAA-ACTAAAAA
10685844 CAATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (15 bp):
TTAAAAACTAAAAAT
Found at i:10686029 original size:29 final size:29
Alignment explanation
Indices: 10685983--10686056 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
10685973 ATTATATCTT
*
10685983 AATTATATATAAATATAATATTTTTATTA
1 AATTATATATAAATATAATAATTTTATTA
*
10686012 AATTAATATATTAA-ATAATAATTTTATT-
1 AATT-ATATATAAATATAATAATTTTATTA
*
10686040 AA-TATA-ATACATATAAT
1 AATTATATATAAATATAAT
10686057 TTTAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.08
26 8 0.21
27 1 0.03
28 2 0.05
29 17 0.44
30 8 0.21
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTATATATAAATATAATAATTTTATTA
Found at i:10686040 original size:24 final size:24
Alignment explanation
Indices: 10686012--10686069 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
10686002 ATTTTTATTA
10686012 AATTAATATATTAAATAATAATTTT
1 AATTAATATATTAAAT-ATAATTTT
* *
10686037 -ATTAATATAATACATATAATTTT
1 AATTAATATATTAAATATAATTTT
10686060 AATT-ATATAT
1 AATTAATATAT
10686070 CTATACTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 13 0.45
24 16 0.55
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTAATATATTAAATATAATTTT
Found at i:10686970 original size:27 final size:26
Alignment explanation
Indices: 10686934--10687026 Score: 82
Period size: 25 Copynumber: 3.5 Consensus size: 26
10686924 TTATCTATTT
* *
10686934 AAAAAGAAGAAATAAAGGAAAAAACTA
1 AAAAAAAAGAAATAAAGGAAAAAA-AA
10686961 AAAAAAAAGAAAT--AGGAAAAAAAA
1 AAAAAAAAGAAATAAAGGAAAAAAAA
* *
10686985 AATAAAAAAAAAATGAAAGTGAAAATGAAA
1 AA-AAAAAAGAAAT-AAAG-GAAAA-AAAA
*
10687015 AAAGAAAAGAAA
1 AAAAAAAAGAAA
10687027 GTTGAATTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 3 0.06
25 19 0.35
27 12 0.22
28 2 0.04
29 13 0.24
30 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (26 bp):
AAAAAAAAGAAATAAAGGAAAAAAAA
Found at i:10687009 original size:24 final size:24
Alignment explanation
Indices: 10686983--10687028 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10686973 TAGGAAAAAA
10686983 AAAAT-AAAAAA-AAAATGAAAGTG
1 AAAATGAAAAAAGAAAA-GAAAGTG
10687006 AAAATGAAAAAAGAAAAGAAAGT
1 AAAATGAAAAAAGAAAAGAAAGT
10687029 TGAATTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (24 bp):
AAAATGAAAAAAGAAAAGAAAGTG
Found at i:10687009 original size:29 final size:27
Alignment explanation
Indices: 10686934--10686996 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
10686924 TTATCTATTT
* * *
10686934 AAAAAGAAGAAATA-AAGGAAAAAACTA
1 AAAAAAAAGAAATAGAA-AAAAAAAATA
10686961 AAAAAAAAGAAATAGGAAAAAAAAAATA
1 AAAAAAAAGAAATA-GAAAAAAAAAATA
10686989 AAAAAAAA
1 AAAAAAAA
10686997 ATGAAAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.42
28 16 0.52
29 2 0.06
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (27 bp):
AAAAAAAAGAAATAGAAAAAAAAAATA
Found at i:10687901 original size:23 final size:23
Alignment explanation
Indices: 10687875--10687919 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10687865 TTTTTATTTA
10687875 ATATTAGTACATAT-TAATAATAC
1 ATATTAGTA-ATATATAATAATAC
*
10687898 ATATTATTAATATATAATAATA
1 ATATTAGTAATATATAATAATA
10687920 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATTAGTAATATATAATAATAC
Found at i:10687905 original size:16 final size:16
Alignment explanation
Indices: 10687872--10687924 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
10687862 CTATTTTTAT
*
10687872 TTAATAT-TAGTACATA
1 TTAATATATAATA-ATA
*
10687888 TTAATA-ATACATATTA
1 TTAATATATA-ATAATA
10687904 TTAATATATAATAATA
1 TTAATATATAATAATA
10687920 TTAAT
1 TTAAT
10687925 TGTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (16 bp):
TTAATATATAATAATA
Found at i:10688059 original size:16 final size:17
Alignment explanation
Indices: 10688033--10688064 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10688023 ATATTAAATA
10688033 TATACTATAAATTTTAT
1 TATACTATAAATTTTAT
10688050 TATA-TATAAATTTTA
1 TATACTATAAATTTTA
10688065 ATTTAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATACTATAAATTTTAT
Found at i:10688374 original size:2 final size:2
Alignment explanation
Indices: 10688367--10688402 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10688357 AATACTTCCC
10688367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10688403 TCAGGCCCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10690432 original size:18 final size:18
Alignment explanation
Indices: 10690406--10690440 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10690396 CATTATAACT
10690406 TGCCACATGCTGGAGCTC
1 TGCCACATGCTGGAGCTC
* *
10690424 TGCCTCATGTTGGAGCT
1 TGCCACATGCTGGAGCT
10690441 TGGCTTGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (18 bp):
TGCCACATGCTGGAGCTC
Found at i:10692023 original size:2 final size:2
Alignment explanation
Indices: 10692018--10692048 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10692008 ATATATATAT
10692018 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10692049 TATATATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10693653 original size:13 final size:13
Alignment explanation
Indices: 10693635--10693660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10693625 GTTCATCAGT
10693635 CTTTCTTACATTA
1 CTTTCTTACATTA
10693648 CTTTCTTACATTA
1 CTTTCTTACATTA
10693661 ATCACAACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTTCTTACATTA
Found at i:10696079 original size:16 final size:16
Alignment explanation
Indices: 10696056--10696094 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10696046 GGAATTAATA
* *
10696056 TTTATTTAAATT-ATT
1 TTTATTTTAATTAACT
10696071 TTTATTTTAATTAACT
1 TTTATTTTAATTAACT
10696087 TTTATTTT
1 TTTATTTT
10696095 TTATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTTTAATTAACT
Found at i:10697719 original size:32 final size:32
Alignment explanation
Indices: 10697682--10697752 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
10697672 ATCAATATAA
10697682 ATTTTGAGATTGAA-TCACTTCAAATTT-AGATT
1 ATTTTGAGATT-AATTCACTTCAAATTTGA-ATT
* *
10697714 ATTTTGAGATTAATTCATTTCAAGTTTGAATT
1 ATTTTGAGATTAATTCACTTCAAATTTGAATT
10697746 ATTTTGA
1 ATTTTGA
10697753 ATTTAGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 32 0.91
33 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (32 bp):
ATTTTGAGATTAATTCACTTCAAATTTGAATT
Found at i:10700405 original size:12 final size:12
Alignment explanation
Indices: 10700390--10700414 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10700380 TTTCATTTTA
10700390 TTTGTTTTTATT
1 TTTGTTTTTATT
10700402 TTTGTTTTTATT
1 TTTGTTTTTATT
10700414 T
1 T
10700415 CCCTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTGTTTTTATT
Found at i:10703955 original size:23 final size:24
Alignment explanation
Indices: 10703929--10703977 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
10703919 AAAAAAGGAT
10703929 GTTGTATTCTAAT-AGGTGAAGAA
1 GTTGTATTCTAATAAGGTGAAGAA
*
10703952 GTTGTATTTTAATAAGGTGAAGAA
1 GTTGTATTCTAATAAGGTGAAGAA
10703976 GT
1 GT
10703978 ACAAAGAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (24 bp):
GTTGTATTCTAATAAGGTGAAGAA
Found at i:10705796 original size:18 final size:19
Alignment explanation
Indices: 10705765--10705810 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
10705755 TTTTTTTTTG
10705765 GTTATTTTTGTTT-CTGATT
1 GTTATTTTTGTTTCCT-ATT
10705784 -TTATTTTAT-TTTCCTATT
1 GTTATTTT-TGTTTCCTATT
10705802 GTTATTTTT
1 GTTATTTTT
10705811 ATTACTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.72
Consensus pattern (19 bp):
GTTATTTTTGTTTCCTATT
Found at i:10710487 original size:29 final size:29
Alignment explanation
Indices: 10710418--10710487 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
10710408 TATATTTCCA
*
10710418 TCAGTTTAGTACCTAAAGAAATAAAATTT
1 TCAGTTTAGTACCCAAAGAAATAAAATTT
* * *
10710447 TCAATTTGGTACCCAAAGAAATAGAATTT
1 TCAGTTTAGTACCCAAAGAAATAAAATTT
* *
10710476 TTAGTTCAGTAC
1 TCAGTTTAGTAC
10710488 TTCAATTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (29 bp):
TCAGTTTAGTACCCAAAGAAATAAAATTT
Done.