Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 76 of 410
Found at i:21699806 original size:13 final size:14
Alignment explanation
Indices: 21699788--21699817 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21699778 AAAGATATAA
21699788 TTTAATAAAATT-T
1 TTTAATAAAATTAT
21699801 TTTAATAAAATTAT
1 TTTAATAAAATTAT
21699815 TTT
1 TTT
21699818 TATTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAAAATTAT
Found at i:21699884 original size:32 final size:32
Alignment explanation
Indices: 21699818--21699900 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
21699808 AAATTATTTT
* *
21699818 TATTTCATTTTAAATTATA--TTACATTAAAA
1 TATTTAATTTTAAATTATATTTTACAATAAAA
21699848 TATTTAATTTTAAATTATATTTTGA-AATAAAA
1 TATTTAATTTTAAATTATATTTT-ACAATAAAA
* *
21699880 TATTTTATATTAAATTATATT
1 TATTTAATTTTAAATTATATT
21699901 AAAATATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 18 0.39
32 27 0.59
33 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (32 bp):
TATTTAATTTTAAATTATATTTTACAATAAAA
Found at i:21708847 original size:40 final size:39
Alignment explanation
Indices: 21708792--21708930 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
21708782 GGATATAACG
* *
21708792 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
* *
21708832 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTCGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* *
21708872 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGG-TTTAGTA
* *
21708911 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
21708931 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
38 4 0.05
39 27 0.32
40 48 0.56
41 6 0.07
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:21712739 original size:46 final size:43
Alignment explanation
Indices: 21712681--21712800 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 43
21712671 GTATATGAGT
*
21712681 CAGTGTAAGACATGCTTGGGACATGCATCGGCCACATT-ATGAGAGC
1 CAGTGTAAGACATG-TTGGGACATGCATCGG---CATTGACGAGAGC
* *
21712727 CAGTGTAAGACATGTCTAGGACATGCATCGGTATTGAGACGAGAGC
1 CAGTGTAAGACATGT-TGGGACATGCATCGGCATT--GACGAGAGC
21712773 CAGTGTAAGACATGTTTGGGACATGCAT
1 CAGTGTAAGACATG-TTGGGACATGCAT
21712801 TAGCCTTGGG
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 3 0.05
45 1 0.02
46 60 0.92
47 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (43 bp):
CAGTGTAAGACATGTTGGGACATGCATCGGCATTGACGAGAGC
Found at i:21712845 original size:11 final size:11
Alignment explanation
Indices: 21712829--21712864 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
21712819 TCTAGTGTAA
21712829 GACCTATCTGG
1 GACCTATCTGG
21712840 GACCTATCTGG
1 GACCTATCTGG
21712851 GACCTATCTGG
1 GACCTATCTGG
21712862 GAC
1 GAC
21712865 ATGGTGTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (11 bp):
GACCTATCTGG
Found at i:21719911 original size:62 final size:62
Alignment explanation
Indices: 21719836--21720060 Score: 238
Period size: 62 Copynumber: 3.6 Consensus size: 62
21719826 TGCAGGTTTT
* * *
21719836 CACATGGCCAGGGACACAGGAGTGTGCCCAGGCTGTGTAAATCACTGTTTGTGCTTAAAAAC
1 CACACGGCCAGGGACACAGGAGTGTGCCCAGGCCGTGTAAATCATTGTTTGTGCTTAAAAAC
* * * * *
21719898 CACACGAG-TAGGGACACGAGCA-TGTGCCCAAGCCGTGTAACTCATTGTTTTTGCTTAAAAAC
1 CACACG-GCCAGGGACAC-AGGAGTGTGCCCAGGCCGTGTAAATCATTGTTTGTGCTTAAAAAC
* * * * *
21719960 CACACGGCCAGGGACATAGGCGTGTGCCCAGGCCGTGTAATTCATTGTTTGTGCTTAAAGAT
1 CACACGGCCAGGGACACAGGAGTGTGCCCAGGCCGTGTAAATCATTGTTTGTGCTTAAAAAC
* * * * * *
21720022 CACATGTCCAAGGCACACGGGTGTGTGCCCAGGCTGTGT
1 CACACGGCC-AGGGACACAGGAGTGTGCCCAGGCCGTGT
21720061 GATAGGAGGT
Statistics
Matches: 134, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
61 3 0.02
62 103 0.77
63 28 0.21
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (62 bp):
CACACGGCCAGGGACACAGGAGTGTGCCCAGGCCGTGTAAATCATTGTTTGTGCTTAAAAAC
Found at i:21725668 original size:25 final size:25
Alignment explanation
Indices: 21725639--21725688 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21725629 TAAGAGTTAG
21725639 TGAACATAGGCTCTAATACCACCAA
1 TGAACATAGGCTCTAATACCACCAA
21725664 TGAACATAGGCTCTAATACCACCAA
1 TGAACATAGGCTCTAATACCACCAA
21725689 AATGTAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (25 bp):
TGAACATAGGCTCTAATACCACCAA
Found at i:21728484 original size:55 final size:55
Alignment explanation
Indices: 21728416--21728521 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
21728406 CCCTTAGTCC
** * *
21728416 GTGTGCAACACTGACTTTTTAACACGTCCATGGCACACACCCATGTGGCCTACCT
1 GTGTGCAACACTGACTTTAGAACACGGCCAAGGCACACACCCATGTGGCCTACCT
* * * * *
21728471 GTGTTCAATACTGACTTTAGGACACGGCCAAGGCACACGCCTATGTGGCCT
1 GTGTGCAACACTGACTTTAGAACACGGCCAAGGCACACACCCATGTGGCCT
21728522 GCTCATGTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (55 bp):
GTGTGCAACACTGACTTTAGAACACGGCCAAGGCACACACCCATGTGGCCTACCT
Found at i:21728531 original size:55 final size:55
Alignment explanation
Indices: 21728437--21728540 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
21728427 TGACTTTTTA
* * *
21728437 ACACGTCCATGGCACACACCCATGTGGCCTACCTGTGTTCAATACTGACTTTAGG
1 ACACGGCCAAGGCACACACCCATGTGGCCTACCTATGTTCAATACTGACTTTAGG
* * * *
21728492 ACACGGCCAAGGCACACGCCTATGTGGCCT-GCTCATGTTCAATATTGAC
1 ACACGGCCAAGGCACACACCCATGTGGCCTACCT-ATGTTCAATACTGAC
21728541 CTAAAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.05
55 39 0.95
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (55 bp):
ACACGGCCAAGGCACACACCCATGTGGCCTACCTATGTTCAATACTGACTTTAGG
Found at i:21738671 original size:40 final size:40
Alignment explanation
Indices: 21738626--21738793 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
21738616 CGGAATACAA
21738626 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
21738666 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
21738706 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
21738746 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
21738786 CCGGATAT
1 CCGGATAT
21738794 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:21742167 original size:27 final size:28
Alignment explanation
Indices: 21742129--21742184 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
21742119 TCCAAGGACC
21742129 TCCACTTTAAAA-CCCATTACTCACAAG
1 TCCACTTTAAAATCCCATTACTCACAAG
21742156 TCCACTTTAAAATCCCATTACTCACAAG
1 TCCACTTTAAAATCCCATTACTCACAAG
21742184 T
1 T
21742185 ACTTAGTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.29
Consensus pattern (28 bp):
TCCACTTTAAAATCCCATTACTCACAAG
Found at i:21744948 original size:24 final size:24
Alignment explanation
Indices: 21744907--21744958 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
21744897 CACAAACACA
*
21744907 GCTCTTCATGAGTGTCCTGATATAG
1 GCTCTTCATGAGTGTCCTGACAT-G
21744932 GCTCTT-ATGAGCT-TCCTGACATG
1 GCTCTTCATGAG-TGTCCTGACATG
21744955 GCTC
1 GCTC
21744959 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 13 0.52
25 7 0.28
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GCTCTTCATGAGTGTCCTGACATG
Found at i:21745029 original size:23 final size:25
Alignment explanation
Indices: 21745002--21745068 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
21744992 TGTTACATGA
21745002 CTCTTTGTGAGCTTCCTGA-T-AAG
1 CTCTTTGTGAGCTTCCTGATTAAAG
* * *
21745025 CTCTTCGTGAGTTTACTGATTAAAAG
1 CTCTTTGTGAGCTTCCTGATT-AAAG
* *
21745051 TTCTTTGTGAACTTCCTG
1 CTCTTTGTGAGCTTCCTG
21745069 TTCTAGACTC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
23 16 0.48
24 1 0.03
26 16 0.48
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (25 bp):
CTCTTTGTGAGCTTCCTGATTAAAG
Found at i:21747379 original size:85 final size:85
Alignment explanation
Indices: 21747236--21747412 Score: 300
Period size: 85 Copynumber: 2.1 Consensus size: 85
21747226 GAGAAAGCTT
* ** *
21747236 ACACTCAGAATTTAGAGTAGGGGATTAGGCTACTACTAAATTACCAATTAACATATTGAATCGTG
1 ACACTCAAAATTTAGAGTAGAAGATTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
21747301 TCCACAAGCAGCTATTCTAA
66 TCCACAAGCAGCTATTCTAA
* *
21747321 ACACTCAAAATTTAGAGTAGAAGTTTAGGGTACTACTAAATTACCAATTAACACATTGAATCGTG
1 ACACTCAAAATTTAGAGTAGAAGATTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
21747386 TCCACAAGCAGCTATTCTAA
66 TCCACAAGCAGCTATTCTAA
21747406 ACACTCA
1 ACACTCA
21747413 CCAATACGCT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (85 bp):
ACACTCAAAATTTAGAGTAGAAGATTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
TCCACAAGCAGCTATTCTAA
Found at i:21758026 original size:26 final size:26
Alignment explanation
Indices: 21757948--21758077 Score: 176
Period size: 26 Copynumber: 5.1 Consensus size: 26
21757938 GCCTAGCCTC
21757948 TTTCAAT-AACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
** *
21757972 TTTCGGTAAACTGGGGCA-AAGCCCA
1 TTTCAATAAACTGGGGCATAAGCCCT
21757997 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
** *
21758023 TTTCGGTAAACTGGGGCATAAGCCAT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
21758049 TTTCAATAAACTAGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
21758075 TTT
1 TTT
21758078 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 5 0.05
25 32 0.35
26 54 0.59
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:21758068 original size:52 final size:51
Alignment explanation
Indices: 21757948--21758077 Score: 212
Period size: 52 Copynumber: 2.6 Consensus size: 51
21757938 GCCTAGCCTC
21757948 TTTCAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCA
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCA
21757997 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAG-CCA
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCA
*
21758048 TTTTCAATAAACTAGGGCATAAGCCCTTTT
1 -TTTCAATAAACTGGGGCATAAGCCCTTTT
21758078 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
49 7 0.09
50 10 0.13
51 28 0.37
52 31 0.41
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (51 bp):
TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCA
Found at i:21758162 original size:20 final size:20
Alignment explanation
Indices: 21758127--21758183 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
21758117 TTATGAATTC
* *
21758127 ATCATGTACATTTCATACAT
1 ATCATGTGCATATCATACAT
*
21758147 ATGATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21758167 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
21758184 TTAAACATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21758257 original size:25 final size:25
Alignment explanation
Indices: 21758229--21758278 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21758219 ATAATTAAAC
* * *
21758229 CCTAGGGGTATAATCGTCATTTTCA
1 CCTAGGGGCAAAATAGTCATTTTCA
21758254 CCTAGGGGCAAAATAGTCATTTTCA
1 CCTAGGGGCAAAATAGTCATTTTCA
21758279 TATTATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTCA
Found at i:21762120 original size:26 final size:26
Alignment explanation
Indices: 21762038--21762219 Score: 289
Period size: 26 Copynumber: 7.1 Consensus size: 26
21762028 GCCTAGCCTC
21762038 TTTCAAT-AACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
**
21762062 TTTCGGTAAACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
21762087 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
21762113 TTTTAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
21762139 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
21762165 TTTTAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
* *
21762191 TTTTAATAAACTGGGGCAGAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
21762217 TTT
1 TTT
21762220 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
24 5 0.03
25 33 0.22
26 110 0.74
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:21762297 original size:20 final size:20
Alignment explanation
Indices: 21762269--21762325 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
21762259 TTATGAATTC
*
21762269 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
21762289 ATGATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21762309 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
21762326 TCAAACATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21762334 original size:20 final size:20
Alignment explanation
Indices: 21762271--21762335 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
21762261 ATGAATTCAT
* *
21762271 CATGTGCATTTCATACATAT
1 CATGTGCATATCATACATAA
* **
21762291 GATGTGCATATCATACATGT
1 CATGTGCATATCATACATAA
21762311 CATGTGCATATCATATCA-AA
1 CATGTGCATATCATA-CATAA
21762331 CATGT
1 CATGT
21762336 ATACCATATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTGCATATCATACATAA
Found at i:21764201 original size:15 final size:15
Alignment explanation
Indices: 21764183--21764222 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
21764173 TTCGATTAAT
21764183 AGGTGTAGGATTGGC
1 AGGTGTAGGATTGGC
*
21764198 AGGTGTAGGATTGGT
1 AGGTGTAGGATTGGC
21764213 AGGTGTAGGA
1 AGGTGTAGGA
21764223 GCAGGGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.47, T:0.28
Consensus pattern (15 bp):
AGGTGTAGGATTGGC
Found at i:21765738 original size:39 final size:40
Alignment explanation
Indices: 21765681--21765759 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
21765671 ATTTACATGG
* * *
21765681 TAATCACATTCACTTTTAAGCATATATCACATTACACATA
1 TAATCACATTAACATTTAAGCATATATCACAATACACATA
*
21765721 TAATCACA-TAACATTTAAGCATATATCACAATACTCATA
1 TAATCACATTAACATTTAAGCATATATCACAATACACATA
21765760 AACATATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 27 0.77
40 8 0.23
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.33
Consensus pattern (40 bp):
TAATCACATTAACATTTAAGCATATATCACAATACACATA
Found at i:21767597 original size:199 final size:201
Alignment explanation
Indices: 21767255--21767658 Score: 785
Period size: 199 Copynumber: 2.0 Consensus size: 201
21767245 AAAGGCATGA
21767255 AATATAACTCATTTCAAGATTTATTGGTCACCACTAATCGAATACACAGATCTCCAACACACAAA
1 AATATAACTCATTTCAAGATTTATTGGTCACCACTAATCGAATACACAGATCTCCAACACACAAA
21767320 AAAAAAAGACTCATAAGAGTCAAACATATCCTAAAAAGTGAAGTATGTAGCTAGCACTCTCAATC
66 AAAAAAAGACTCATAAGAGTCAAACATATCCTAAAAAGTGAAGTATGTAGCTAGCACTCTCAATC
21767385 ATACCAAACATGTCCCATTGAATGGAGCTTAGCTCACATTCCTTTATCTCTCCAACATGTCCTAG
131 ATACCAAACATGTCCCATTGAATGGAGCTTAGCTCACATTCCTTTATCTCTCCAACATGTCCTAG
21767450 GGCTTC
196 GGCTTC
21767456 AATATAACTCATTTCAAGATTTATTGGTCACCACTAATCGAATACACAGATCTCC-A-ACACAAA
1 AATATAACTCATTTCAAGATTTATTGGTCACCACTAATCGAATACACAGATCTCCAACACACAAA
21767519 AAAAAAAGACTCATAAGAGTCAAACATATCCTAAAAAGTGAAGTATGTAGCTAGCACTCTCAATC
66 AAAAAAAGACTCATAAGAGTCAAACATATCCTAAAAAGTGAAGTATGTAGCTAGCACTCTCAATC
*
21767584 ATACCAAACATGTCCCGTTGAATGGAGCTTAGCTCACATTCCTTTATCTCTCCAACATGTCCTAG
131 ATACCAAACATGTCCCATTGAATGGAGCTTAGCTCACATTCCTTTATCTCTCCAACATGTCCTAG
21767649 GGCTTC
196 GGCTTC
21767655 AATA
1 AATA
21767659 CCCAAATCAC
Statistics
Matches: 202, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
199 146 0.72
200 1 0.00
201 55 0.27
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (201 bp):
AATATAACTCATTTCAAGATTTATTGGTCACCACTAATCGAATACACAGATCTCCAACACACAAA
AAAAAAAGACTCATAAGAGTCAAACATATCCTAAAAAGTGAAGTATGTAGCTAGCACTCTCAATC
ATACCAAACATGTCCCATTGAATGGAGCTTAGCTCACATTCCTTTATCTCTCCAACATGTCCTAG
GGCTTC
Found at i:21777080 original size:40 final size:40
Alignment explanation
Indices: 21777013--21777272 Score: 427
Period size: 40 Copynumber: 6.5 Consensus size: 40
21777003 CATTTGAATG
21777013 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
21777052 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
21777092 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
21777132 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
21777172 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
21777212 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
21777252 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
21777273 AAACTTGGGT
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 182 0.87
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:21784776 original size:40 final size:40
Alignment explanation
Indices: 21784721--21785044 Score: 526
Period size: 40 Copynumber: 8.2 Consensus size: 40
21784711 GAATGATACC
*
21784721 GGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21784761 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21784801 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21784841 GGCTAAGACCCGAAGGCATTTGTGCGAGTT-TTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* *
21784880 GGTTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
*
21784920 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATCTCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* * *
21784960 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTTCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* * * * *
21785000 GGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21785039 GGCTAA
1 GGCTAA
21785045 ATCTCGAAGA
Statistics
Matches: 266, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 43 0.16
40 223 0.84
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
Found at i:21785053 original size:159 final size:159
Alignment explanation
Indices: 21784721--21785044 Score: 524
Period size: 159 Copynumber: 2.0 Consensus size: 159
21784711 GAATGATACC
* *
21784721 GGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
*
21784786 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
66 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
* * *
21784851 CGAAGGCATTTGTGCGAGTTTTATATCCG
131 CGAAGGCAATTGGGCGAGTGTTATATCCG
*
21784880 GGTTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
* * * *
21784945 GAGTTGTTATCTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTTCGGGTTAAGACC
66 GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
*
21785010 CGAAGGCAATTGGGCGTGTGGTTATATCC-
131 CGAAGGCAATTGGGCGAGT-GTTATATCCG
21785039 GGCTAA
1 GGCTAA
21785045 ATCTCGAAGA
Statistics
Matches: 151, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
159 143 0.95
160 8 0.05
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (159 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
GAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
CGAAGGCAATTGGGCGAGTGTTATATCCG
Found at i:21787940 original size:40 final size:39
Alignment explanation
Indices: 21787885--21788096 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
21787875 CATTTGAATG
* * * *
21787885 ATATCCGGGTTAAGACTCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TT
21787925 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTT
*
21787965 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTT
* *
21788005 ATATACGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTT
* * * **
21788045 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTT
21788085 ATATCC-GGCTAA
1 ATATCCGGGCTAA
21788097 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTT
Found at i:21788018 original size:80 final size:79
Alignment explanation
Indices: 21787885--21788096 Score: 325
Period size: 80 Copynumber: 2.7 Consensus size: 79
21787875 CATTTGAATG
* * *
21787885 ATATCCGGGTTAAGACTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT-CGGGCTAAGACCCGAAGGCA
*
21787950 TTTGTGCGAGTTGTT
65 TTTGTGCGAGTTGCT
*
21787965 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGGTTATATACGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT-CGGGCTAAGACCCGAAGGCA
21788030 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* * * *
21788045 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCGGGCTAA
21788097 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 7 0.06
80 114 0.94
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (79 bp):
ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:21790502 original size:21 final size:20
Alignment explanation
Indices: 21790468--21790517 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
21790458 CAATGAGATG
21790468 GTTGAAAATTCACCAAGTTA
1 GTTGAAAATTCACCAAGTTA
*
21790488 GTTGAATACTTCACCAAGTTA
1 GTTGAA-AATTCACCAAGTTA
*
21790509 GTTCAAAAT
1 GTTGAAAAT
21790518 GAAGATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
GTTGAAAATTCACCAAGTTA
Found at i:21799851 original size:40 final size:40
Alignment explanation
Indices: 21799792--21799999 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
21799782 CAATTGAATG
* * * *
21799792 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
21799832 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21799872 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21799912 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
21799952 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21799992 ATATCCGG
1 ATATCCGG
21800000 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21799930 original size:80 final size:80
Alignment explanation
Indices: 21799793--21799999 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
21799783 AATTGAATGA
* * ** * * *
21799793 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
21799858 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
21799871 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
21799936 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
21799953 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
21800000 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:21807859 original size:40 final size:40
Alignment explanation
Indices: 21807800--21808007 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
21807790 CAATTGAATG
* * * *
21807800 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
21807840 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21807880 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21807920 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
21807960 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
21808000 ATATCCGG
1 ATATCCGG
21808008 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:21818648 original size:29 final size:28
Alignment explanation
Indices: 21818616--21818718 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
21818606 GTGACGAGAT
* *
21818616 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
21818645 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
21818674 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
21818703 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21818719 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:21821443 original size:40 final size:40
Alignment explanation
Indices: 21821398--21821527 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
21821388 CGGAATATAA
*
21821398 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * * *
21821438 CCGGATAGAATG-ACTCGCGCGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
21821478 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
21821518 CCGGATATAA
1 CCGGATATAA
21821528 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 70 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21821542 original size:40 final size:40
Alignment explanation
Indices: 21821414--21821564 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
21821404 ATAAGCATGT
* * **
21821414 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCAC-CA
* * *
21821454 GCGCGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* ***
21821494 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
21821534 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21821565 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 18 0.20
40 71 0.78
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:21828843 original size:40 final size:40
Alignment explanation
Indices: 21828798--21828927 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
21828788 CGGAATATAA
*
21828798 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
21828838 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
21828878 CCAGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
21828918 CCGGATATAA
1 CCGGATATAA
21828928 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 70 0.93
41 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21828942 original size:40 final size:40
Alignment explanation
Indices: 21828814--21828961 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
21828804 ATAAGCATGT
* * *
21828814 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** *
21828854 GCACGAA-TGCCTTCGGGTCTTAGCCCAGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
21828894 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
21828934 GCATAATTGTCTTCGGGGCTTAGCCCGG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG
21828962 GTATCATTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 84 0.95
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:21837266 original size:14 final size:15
Alignment explanation
Indices: 21837235--21837267 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21837225 GTAGAGAAAA
21837235 AAAGAAAGATGAACG
1 AAAGAAAGATGAACG
*
21837250 AAAGAAA-ATGAAGG
1 AAAGAAAGATGAACG
21837264 AAAG
1 AAAG
21837268 GGAAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.27, T:0.06
Consensus pattern (15 bp):
AAAGAAAGATGAACG
Found at i:21839278 original size:20 final size:20
Alignment explanation
Indices: 21839253--21839291 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21839243 GACATATTAG
21839253 TCATTAACCATGACAAAAAC
1 TCATTAACCATGACAAAAAC
21839273 TCATTAACCATGACAAAAA
1 TCATTAACCATGACAAAAA
21839292 GCCCTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.05, T:0.21
Consensus pattern (20 bp):
TCATTAACCATGACAAAAAC
Found at i:21842591 original size:18 final size:18
Alignment explanation
Indices: 21842568--21842610 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21842558 TTCTCATTTT
*
21842568 CAGCAACTTCTTCTT-TAG
1 CAGCAACTTCCTCTTCT-G
21842586 CAGCAACTTCCTCTTCTG
1 CAGCAACTTCCTCTTCTG
21842604 CAGCAAC
1 CAGCAAC
21842611 AACTTCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (18 bp):
CAGCAACTTCCTCTTCTG
Found at i:21850548 original size:45 final size:45
Alignment explanation
Indices: 21850474--21850725 Score: 380
Period size: 45 Copynumber: 5.6 Consensus size: 45
21850464 TATTGTACAG
* *
21850474 TACTATTTGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21850519 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21850564 TACTATTCGGGCCTTTAAGCCTAGCAAGCAATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21850609 TATTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
21850654 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
21850699 TACTATTCGGGCC-TCGAGCCTAGCAGG
1 TACTATTCGGGCCTTTGAGCCTAGCAGG
21850726 TGAAATGCCA
Statistics
Matches: 184, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
44 13 0.07
45 171 0.93
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:21852622 original size:40 final size:39
Alignment explanation
Indices: 21852499--21852637 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 39
21852489 TTTCAAATCT
* *
21852499 TGAAAAGGTTGAAAAGGAGGTTA-CCTTAAAGGGATAAT-AGA
1 TGAAAAGGTTGAAAAGGA-GTTATCC-AAAAAGGAT-ATCA-A
* * *
21852540 TGAAAAAGTTGAAAGGGA-TATATCTAAAAAGGATATCAAA
1 TGAAAAGGTTGAAAAGGAGT-TATCCAAAAAGGATATC-AA
*
21852580 TGAAAAGGTTGAAAAGGACGTTATCCGAAAAGGATATCAA
1 TGAAAAGGTTGAAAAGGA-GTTATCCAAAAAGGATATCAA
* *
21852620 TGACAAGGTCGAAAAGGA
1 TGAAAAGGTTGAAAAGGA
21852638 AATCAATGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
39 3 0.04
40 44 0.54
41 33 0.41
42 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.20
Consensus pattern (39 bp):
TGAAAAGGTTGAAAAGGAGTTATCCAAAAAGGATATCAA
Found at i:21852676 original size:24 final size:24
Alignment explanation
Indices: 21852607--21852676 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
21852597 ACGTTATCCG
* * *
21852607 AAAAGGATATCAATGACAAGGTCG
1 AAAAGGAAATCAATGAAAAGGTCA
*
21852631 AAAAGGAAATCAATGAACAGGTCA
1 AAAAGGAAATCAATGAAAAGGTCA
* *
21852655 AAAAGGACAGCAATGAAAAGGT
1 AAAAGGAAATCAATGAAAAGGT
21852677 TGATATTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.51, C:0.11, G:0.24, T:0.13
Consensus pattern (24 bp):
AAAAGGAAATCAATGAAAAGGTCA
Found at i:21862321 original size:15 final size:15
Alignment explanation
Indices: 21862298--21862332 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
21862288 ATGCCATAGA
*
21862298 AGCTTGGCCGAATGG
1 AGCTCGGCCGAATGG
21862313 AGCTCGGCCGAATGG
1 AGCTCGGCCGAATGG
21862328 AGCTC
1 AGCTC
21862333 ATCCATGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.26, G:0.37, T:0.17
Consensus pattern (15 bp):
AGCTCGGCCGAATGG
Found at i:21863962 original size:18 final size:17
Alignment explanation
Indices: 21863935--21863988 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
21863925 TCAACTTCTT
21863935 ATAATTATAATGAAAATA
1 ATAA-TATAATGAAAATA
*
21863953 ATAATAATAATTCGAGTAATA
1 ATAAT-ATAA-T-GA-AAATA
21863974 ATAATATAATGAAAA
1 ATAATATAATGAAAA
21863989 CCTTATCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 3 0.10
18 10 0.33
19 2 0.07
20 6 0.20
21 9 0.30
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (17 bp):
ATAATATAATGAAAATA
Found at i:21867700 original size:79 final size:79
Alignment explanation
Indices: 21867604--21867806 Score: 300
Period size: 79 Copynumber: 2.6 Consensus size: 79
21867594 AATTTAGCCG
* * * *
21867604 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCT
1 GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCACAAATG-CT
21867669 TCGGGTCTTAGCCCA
65 TCGGGTCTTAGCCCA
* *
21867684 GATATAA-CACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACAAATGCTT
1 GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCACAAATGCTT
*
21867748 CGGGTCTTAGCCCG
66 CGGGTCTTAGCCCA
* * *
21867762 GATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
21867807 CATTCAAATG
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 23 0.21
79 81 0.73
80 7 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
GATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCGCACAAATGCTT
CGGGTCTTAGCCCA
Found at i:21867706 original size:39 final size:40
Alignment explanation
Indices: 21867597--21867802 Score: 267
Period size: 39 Copynumber: 5.2 Consensus size: 40
21867587 TCTTCGGAAT
* ** *
21867597 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
21867636 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
21867676 TTAGCCCAGATATAAC-ACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
21867715 TTAACCCGGATATAACAACTCGCACAAATG-CTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
21867754 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
21867794 TTAGCCCGG
1 TTAGCCCGG
21867803 GTATCATTCA
Statistics
Matches: 146, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 74 0.51
40 72 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:21875630 original size:40 final size:40
Alignment explanation
Indices: 21875572--21875758 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
21875562 ATAACCACAA
* * * *
21875572 GCACAATTGCCTTTGGGTCTTAACCCGGGTTTAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
21875612 GCACAAATGCCTTCGGGTCTTAGCTCGGATATAACCACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
21875652 GCACAAATGCCTTCGGGTCTTAACCC--ATATATGACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-G-CAACTC
* * * * *
21875692 GCACAAATGCGTTCAGGTCTTAGCCC-GATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
21875731 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
21875759 GTATCATTCA
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
38 5 0.04
39 25 0.21
40 86 0.71
41 4 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:21875657 original size:80 final size:81
Alignment explanation
Indices: 21875552--21875762 Score: 268
Period size: 80 Copynumber: 2.6 Consensus size: 81
21875542 TCTTCAGAAT
* * * *
21875552 TTAGCCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAACCCGGGTTTA-G-CAACTCGCA
1 TTAGCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATATGACAACTCGCA
*
21875615 CAAATGCCTTCGGGTC
66 CAAATGCCTTCAGGTC
* *
21875631 TTAGCTCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAACCC--ATATATGACAACTCGC
1 TTAGC-CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATATGACAACTCGC
*
21875694 ACAAATGCGTTCAGGTC
65 ACAAATGCCTTCAGGTC
* * * * *
21875711 TTAGCCCGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
21875763 CATTCAAATG
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 41 0.37
80 65 0.58
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (81 bp):
TTAGCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATATGACAACTCGCA
CAAATGCCTTCAGGTC
Found at i:21875753 original size:39 final size:39
Alignment explanation
Indices: 21875608--21875757 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 39
21875598 GGGTTTAGCA
* *
21875608 ACTCGCACAAATGCCTTCGGGTCTTAGCTCGGATATAACC
1 ACTCGCACAAATGCCTTCGGGTCTTAGC-CCGATATAATC
*
21875648 ACTCGCACAAATGCCTTCGGGTCTTAACCC-ATAT-ATGAC
1 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGATATAAT--C
* *
21875687 AACTCGCACAAATGCGTTCAGGTCTTAGCCCGATATAATC
1 -ACTCGCACAAATGCCTTCGGGTCTTAGCCCGATATAATC
* * *
21875727 ACTAGCATAAATGCCTTCGGGGCTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGTCTTAGCCCG
21875758 GGTATCATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 28 0.30
40 55 0.59
41 4 0.04
42 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGTCTTAGCCCGATATAATC
Found at i:21877898 original size:28 final size:28
Alignment explanation
Indices: 21877858--21877941 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
21877848 AAGCGTCCTG
*
21877858 GTGGCTATGCCACAAATTATCTGATCTA
1 GTGGCTCTGCCACAAATTATCTGATCTA
* * *
21877886 GTGGCTCTGCCACATATATATCTGTTCTG
1 GTGGCTCTGCCACAAAT-TATCTGATCTA
*
21877915 GTGGCTCTGCCAC-GATTATCTGTATCT
1 GTGGCTCTGCCACAAATTATCTG-ATCT
21877942 GGTAACCTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.12
28 20 0.42
29 22 0.46
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATTATCTGATCTA
Found at i:21877918 original size:29 final size:28
Alignment explanation
Indices: 21877855--21877944 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
21877845 AGGAAGCGTC
* *
21877855 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGTT
* *
21877883 CTAGTGGCTCTGCCACATATATATCTGTT
1 CTGGTGGCTCTGCCACAAAT-TATCTGTT
*
21877912 CTGGTGGCTCTGCCAC-GATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTGT-T
21877940 CTGGT
1 CTGGT
21877945 AACCTTGTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 7 0.13
28 25 0.46
29 22 0.41
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGTT
Found at i:21885661 original size:29 final size:28
Alignment explanation
Indices: 21885599--21885689 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
21885589 AGGAAGCATC
*
21885599 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
*
21885627 CTGGTGGCTCTGCCACATATATATCT-ATT
1 CTGGTGGCTCTGCCACAAAT-TATCTGA-T
* * *
21885656 CTGGTGGCTCTACCAC-GATTATCTGTAC
1 CTGGTGGCTCTGCCACAAATTATCTG-AT
21885684 CTGGTG
1 CTGGTG
21885690 ACCTTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.09
28 27 0.50
29 22 0.41
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:21886721 original size:29 final size:29
Alignment explanation
Indices: 21886687--21886760 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
21886677 ATATAGCTCA
* *
21886687 TTAGGCCCAAATCACCTCTATGTGGCCCG
1 TTAGGCCCAAATCACATCTATATGGCCCG
* *
21886716 TTAGGCTCAAATCACATTTATATGGCCCG
1 TTAGGCCCAAATCACATCTATATGGCCCG
*
21886745 TTTGGCCC-AATCACAT
1 TTAGGCCCAAATCACAT
21886761 TAATATTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (29 bp):
TTAGGCCCAAATCACATCTATATGGCCCG
Found at i:21886969 original size:19 final size:19
Alignment explanation
Indices: 21886945--21886981 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21886935 TCCCCGAGTG
21886945 TTCACGCACTCGTGTGACT
1 TTCACGCACTCGTGTGACT
21886964 TTCACGCACTCGTGTGAC
1 TTCACGCACTCGTGTGAC
21886982 CACCGTAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.22, T:0.30
Consensus pattern (19 bp):
TTCACGCACTCGTGTGACT
Found at i:21888270 original size:16 final size:16
Alignment explanation
Indices: 21888246--21888277 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21888236 AAGTTCGAGA
*
21888246 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
21888262 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
21888278 GCATTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:21893810 original size:19 final size:19
Alignment explanation
Indices: 21893788--21893826 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21893778 AGAAGCTACG
*
21893788 TGGGAGCCTAAGGATGCTA
1 TGGGAGCCCAAGGATGCTA
*
21893807 TGGGAGCCCGAGGATGCTA
1 TGGGAGCCCAAGGATGCTA
21893826 T
1 T
21893827 AAGAAAGCAA
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:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (19 bp):
TGGGAGCCCAAGGATGCTA
Found at i:21895235 original size:42 final size:40
Alignment explanation
Indices: 21895119--21895236 Score: 101
Period size: 42 Copynumber: 2.8 Consensus size: 40
21895109 TTCTGAGATG
*
21895119 TGATACATGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 TGATACATGTAAGACCATGTCTGGGA-AATGGCATCGTATA
* * * * * * *
21895160 TAATTTCGTATAAGACCCTGTCTAGGACAATGGCATCGATATT
1 TGA-TACATGTAAGACCATGTCTGGGA-AATGGCATCG-TATA
* *
21895203 TGATAACATGTAAGACCATATCTGGGATATGGCA
1 TGAT-ACATGTAAGACCATGTCTGGGAAATGGCA
21895237 ATGTACCAGT
Statistics
Matches: 58, Mismatches: 16, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
41 2 0.03
42 35 0.60
43 21 0.36
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
TGATACATGTAAGACCATGTCTGGGAAATGGCATCGTATA
Found at i:21896879 original size:28 final size:27
Alignment explanation
Indices: 21896816--21896885 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
21896806 ATAGTGAGTC
21896816 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
21896843 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
21896871 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21896886 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:21904803 original size:28 final size:27
Alignment explanation
Indices: 21904740--21904809 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
21904730 ATAGTGAGTC
21904740 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
21904767 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
21904795 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21904810 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:21910635 original size:29 final size:29
Alignment explanation
Indices: 21910545--21910704 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
21910535 ACTCGATTTC
* * **
21910545 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
21910574 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
21910602 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
21910632 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21910661 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21910690 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21910705 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21918595 original size:29 final size:29
Alignment explanation
Indices: 21918505--21918664 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
21918495 ACTCGATTTC
* * **
21918505 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
21918534 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
21918562 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
21918592 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21918621 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21918650 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21918665 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21919983 original size:24 final size:23
Alignment explanation
Indices: 21919951--21919995 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21919941 ATCCACACTC
21919951 TTTTTTTTCATCATTTTCCTTTT
1 TTTTTTTTCATCATTTTCCTTTT
* *
21919974 TTTTTCTTTCTTTATTTTCCTT
1 TTTTT-TTTCATCATTTTCCTT
21919996 ACATAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTTCATCATTTTCCTTTT
Found at i:21930770 original size:28 final size:28
Alignment explanation
Indices: 21930705--21930805 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
21930695 ATAGTGAACC
*
21930705 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
21930734 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21930762 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
21930792 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21930806 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21933805 original size:22 final size:22
Alignment explanation
Indices: 21933756--21933805 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
21933746 CAGATTTGCC
*
21933756 CACA-ATATACATATTCATACA
1 CACATATACACATATTCATACA
* *
21933777 CATATATACACATATTCATGCA
1 CACATATACACATATTCATACA
*
21933799 TACATAT
1 CACATAT
21933806 CATTACATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (22 bp):
CACATATACACATATTCATACA
Found at i:21935181 original size:12 final size:12
Alignment explanation
Indices: 21935164--21935188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21935154 ACAATTTGAT
21935164 CCAAATTTAAGG
1 CCAAATTTAAGG
21935176 CCAAATTTAAGG
1 CCAAATTTAAGG
21935188 C
1 C
21935189 AGTGGTAGCA
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (12 bp):
CCAAATTTAAGG
Found at i:21937878 original size:40 final size:40
Alignment explanation
Indices: 21937833--21937999 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21937823 CGGAATATAA
21937833 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21937873 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
21937913 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
21937953 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21937992 CCGGATAT
1 CCGGATAT
21938000 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21937983 original size:80 final size:79
Alignment explanation
Indices: 21937833--21937999 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
21937823 CGGAATATAA
* *
21937833 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
21937898 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
21937913 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
21937975 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
21937992 CCGGATAT
1 CCGGATAT
21938000 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:21938848 original size:17 final size:19
Alignment explanation
Indices: 21938825--21938870 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
21938815 AAGAAGCATG
21938825 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
21938843 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
21938861 AATCATGCTC
1 AATCATGCTC
21938871 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:21945885 original size:40 final size:40
Alignment explanation
Indices: 21945840--21946006 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21945830 CGGAATATAA
21945840 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21945880 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
21945920 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
21945960 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21945999 CCGGATAT
1 CCGGATAT
21946007 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21945990 original size:80 final size:79
Alignment explanation
Indices: 21945840--21946006 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
21945830 CGGAATATAA
* *
21945840 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
21945905 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
21945920 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
21945982 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
21945999 CCGGATAT
1 CCGGATAT
21946007 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:21946856 original size:17 final size:19
Alignment explanation
Indices: 21946833--21946878 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
21946823 AAGAAGCATG
21946833 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
21946851 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
21946869 AATCATGCTC
1 AATCATGCTC
21946879 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:21947592 original size:142 final size:141
Alignment explanation
Indices: 21947323--21947606 Score: 559
Period size: 142 Copynumber: 2.0 Consensus size: 141
21947313 CCCATGCTTA
21947323 TTTGTTTACTATTTCTCCCTAATGCCCAACAAAACATGTTTCATGACATGTTTGACCCATATTTT
1 TTTGTTTACTATTTCTCCCTAATGCCCAACAAAACATGTTTCATGACATGTTTGACCCATATTTT
21947388 TTGTCATGGCCGGCCATTACTTGTAGAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCATG
66 TTGTCATGGCCGGCCATTACTTGTAGAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCATG
21947453 CATGCTTTAAT
131 CATGCTTTAAT
21947464 TTTGTTTACTATTTCTCCCTAATGCCCAACAAAACATGTTTCATGACATGTTTGACCCATATTTC
1 TTTGTTTACTATTTCTCCCTAATGCCCAACAAAACATGTTTCATGACATGTTTGACCCATATTT-
21947529 TTTGTCATGGCCGGCCATTACTTGTAGAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCAT
65 TTTGTCATGGCCGGCCATTACTTGTAGAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCAT
21947594 GCATGCTTTAAT
130 GCATGCTTTAAT
21947606 T
1 T
21947607 AGTCATCACC
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 64 0.45
142 78 0.55
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (141 bp):
TTTGTTTACTATTTCTCCCTAATGCCCAACAAAACATGTTTCATGACATGTTTGACCCATATTTT
TTGTCATGGCCGGCCATTACTTGTAGAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCATG
CATGCTTTAAT
Found at i:21948969 original size:47 final size:47
Alignment explanation
Indices: 21948905--21949079 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 47
21948895 ACGAAGCTTA
*
21948905 GCCGATGCATGTTCCAGACACATCTTACACTAGCTACCATCATTGAG
1 GCCGATGCATGTCCCAGACACATCTTACACTAGCTACCATCATTGAG
* * * *
21948952 GCCGATGCATGTCCCAGACACGTTTTACACTGGC-ACTCATC-TCT-AC
1 GCCGATGCATGTCCCAGACACATCTTACACTAGCTAC-CATCAT-TGAG
* ** * * * * *
21948998 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGT-AATGTG
1 GCCGATG-CATGTCCCAGACA-CATCTTACACTAGCTACCATCATTGAG
*
21949046 GCTGATGCATGTCCCAGACACATCTTACACTAGC
1 GCCGATGCATGTCCCAGACACATCTTACACTAGC
21949080 GCTCCTCTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
46 21 0.20
47 62 0.60
48 19 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACATCTTACACTAGCTACCATCATTGAG
Found at i:21949053 original size:94 final size:93
Alignment explanation
Indices: 21948811--21949124 Score: 321
Period size: 94 Copynumber: 3.4 Consensus size: 93
21948801 CTTCATCGAG
* * *
21948811 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGT-GCTGATGCACGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC--GTA-ATGTGGCTGATGCATGTCC
* * * ** *
21948875 CAGACATGTCTTAAACTAGAACGAAGCT-TA
63 CAGACACGTCTTACACTAGCACTCATCTCTA
* ** * * * * *
21948905 GCCGATG-CATGTTCCAGACA-CATCTTACACTAGCTACCATCATTGAGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGT-AATGTGGCTGATGCATGTCCCA
* *
21948968 GACACGTTTTACACTGGCACTCATCTCTA
65 GACACGTCTTACACTAGCACTCATCTCTA
* *
21948997 CGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAATGTGGCTGATGCATGTCCCA
* * * *
21949062 GACACATCTTACACTAGCGCTCCTCTCAA
65 GACACGTCTTACACTAGCACTCATCTCTA
21949091 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
21949125 GTCTCTCACA
Statistics
Matches: 177, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
90 2 0.01
91 33 0.19
92 16 0.09
93 18 0.10
94 93 0.53
95 15 0.08
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAATGTGGCTGATGCATGTCCCAG
ACACGTCTTACACTAGCACTCATCTCTA
Found at i:21949104 original size:47 final size:46
Alignment explanation
Indices: 21948905--21949112 Score: 142
Period size: 47 Copynumber: 4.4 Consensus size: 46
21948895 ACGAAGCTTA
* ** *
21948905 GCCGATGCATGTTCCAGACACATCTTACACTA-GCTACCATCATTGAG
1 GCCGATGCATGTCCCAGACACATCTTACACTAGGCT--CATCATCAAT
* * * *
21948952 GCCGATGCATGTCCCAGACACGTTTTACACT-GGCACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACACATCTTACACTAGG--CTCATCATCAAT
* ** *
21948998 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCT-ATCGT-AATGT
1 GCCGATG-CATGTCCCAGACA-CATCTTACACTAGGCTCATCATCAA--T
* *
21949045 GGCTGATGCATGTCCCAGACACATCTTACACTAGCGCTCCTC-TCAAT
1 -GCCGATGCATGTCCCAGACACATCTTACACTAG-GCTCATCATCAAT
21949092 GCCGATGCCATGTCCCAGACA
1 GCCGATG-CATGTCCCAGACA
21949113 TGGTCTTACA
Statistics
Matches: 130, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
45 4 0.03
46 26 0.20
47 74 0.57
48 20 0.15
49 6 0.05
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACATCTTACACTAGGCTCATCATCAAT
Found at i:21955193 original size:55 final size:55
Alignment explanation
Indices: 21955120--21955238 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
21955110 CGTGTGCAAC
*
21955120 ACTGACTT-TAAGGCACAGCCATGACACACACTC-GTGTGGCCTACCCGTGGACAAT
1 ACTGACTTAT-AGACACAGCCATGACACACAC-CGGTGTGGCCTACCCGTGGACAAT
* * * *
21955175 ACTTACTTATAGACACAGCTATGGCACACGCCGGTGTGGCCTACCCGTGGACAAT
1 ACTGACTTATAGACACAGCCATGACACACACCGGTGTGGCCTACCCGTGGACAAT
21955230 ACTGACTTA
1 ACTGACTTA
21955239 AAAGTTTAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.02
55 54 0.96
56 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (55 bp):
ACTGACTTATAGACACAGCCATGACACACACCGGTGTGGCCTACCCGTGGACAAT
Found at i:21956195 original size:47 final size:44
Alignment explanation
Indices: 21956085--21956347 Score: 249
Period size: 47 Copynumber: 5.7 Consensus size: 44
21956075 TATAAGTACT
* * * *
21956085 GATGCATGTCCCAAACATGTCTTACACTAGCACGAAGCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCTTAGGCC
*
21956129 GATGCATGTCCCAAACATGTCTTACACTGGCTACCATCATTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACCATC-TT-AGGCC
* *
21956176 GATGCATGTCCCTGACATGTCTTACACTGGCACTCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCT-TAGGCC
* ** *
21956222 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACCATCTTA-GGCC
* * * * * *
21956270 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTTAAGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCTTAGGCC
21956315 GATGGCATGTCCCAGACATGGTCTTACACTGGC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGC
21956348 TCTCACATCA
Statistics
Matches: 182, Mismatches: 24, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
44 32 0.18
45 8 0.04
46 42 0.23
47 77 0.42
48 22 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACCATCTTAGGCC
Found at i:21956336 original size:93 final size:93
Alignment explanation
Indices: 21956034--21956348 Score: 325
Period size: 93 Copynumber: 3.4 Consensus size: 93
21956024 TCATCGAGGT
* * * * * * * * *
21956034 CGATGCCATGTCCCAGACGTGGTCTTACAGTAGCTCTCGTGTATAAGTACTGATGCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AATATG-GCTGATGCATGTCCCAG
***
21956099 ACATGTCTTACACTAGCACGAAG-CTT-AGC
64 ACATGTCTTACACTAGC-CCTCGTCTTAAGC
* * * * *
21956128 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTACCATCAT-TGAGGCCGATGCATGTCCCTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATAT--GGCTGATGCATGTCCCAG
* * * *
21956190 ACATGTCTTACACTGGCACTCATCTCTATGC
64 ACATGTCTTACACTAGCCCTCGTCT-TAAGC
21956221 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGATGCATGTCCCAGAC
* *
21956286 ACGTCTTACACTAGCCCTCGTCTTAAGT
66 ATGTCTTACACTAGCCCTCGTCTTAAGC
*
21956314 CGATGGCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
21956349 CTCACATCAC
Statistics
Matches: 181, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
91 33 0.18
92 16 0.09
93 56 0.31
94 55 0.30
95 20 0.11
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCCCTCGTCTTAAGC
Found at i:21963419 original size:157 final size:157
Alignment explanation
Indices: 21963133--21963447 Score: 621
Period size: 157 Copynumber: 2.0 Consensus size: 157
21963123 TATTAATTCT
*
21963133 TAAGATTTATGGATATTGTTCTTGTTATATCGCTTGGTTACTCGGACATGATTTCGATGATTGAA
1 TAAGATTTATGGATATTGTTCTTGTTATATCGCTTGGTTACTCGGACATGATTTCAATGATTGAA
21963198 CTATCGTTGTGGTCATTTTGATGTTTATTTGACGAGGTATTAGTTACATGCTGAATGATTTATGA
66 CTATCGTTGTGGTCATTTTGATGTTTATTTGACGAGGTATTAGTTACATGCTGAATGATTTATGA
21963263 TTGAGATGGATTATTTGCCTTATTATG
131 TTGAGATGGATTATTTGCCTTATTATG
21963290 TAAGATTTATGGATATTGTTCTTGTTATATCGCTTGGTTACTCGGACATGATTTCAATGATTGAA
1 TAAGATTTATGGATATTGTTCTTGTTATATCGCTTGGTTACTCGGACATGATTTCAATGATTGAA
21963355 CTATCGTTGTGGTCATTTTGATGTTTATTTGACGAGGTATTAGTTACATGCTGAATGATTTATGA
66 CTATCGTTGTGGTCATTTTGATGTTTATTTGACGAGGTATTAGTTACATGCTGAATGATTTATGA
21963420 TTGAGATGGATTATTTGCCTTATTATG
131 TTGAGATGGATTATTTGCCTTATTATG
21963447 T
1 T
21963448 TGTATTTCTG
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.45
Consensus pattern (157 bp):
TAAGATTTATGGATATTGTTCTTGTTATATCGCTTGGTTACTCGGACATGATTTCAATGATTGAA
CTATCGTTGTGGTCATTTTGATGTTTATTTGACGAGGTATTAGTTACATGCTGAATGATTTATGA
TTGAGATGGATTATTTGCCTTATTATG
Found at i:21964522 original size:30 final size:32
Alignment explanation
Indices: 21964488--21964546 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
21964478 TTAATTTTTT
*
21964488 AAAATT-ATGACTAAA-TTGATATTATATGTA
1 AAAATTAAGGACTAAATTTGATATTATATGTA
*
21964518 AAAATTAAGGACTAAATTTGTTATTATAT
1 AAAATTAAGGACTAAATTTGATATTATAT
21964547 CAATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 8 0.32
32 11 0.44
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (32 bp):
AAAATTAAGGACTAAATTTGATATTATATGTA
Found at i:21977504 original size:29 final size:29
Alignment explanation
Indices: 21977466--21977523 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
21977456 AGTTTTTGGT
*
21977466 GAATATTATGAAAATGACGTGATTTGGAA
1 GAATATTATGAAAATGACATGATTTGGAA
21977495 GAATATTATGAAAATGACATGATTTGGAA
1 GAATATTATGAAAATGACATGATTTGGAA
21977524 TAAGTCATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
GAATATTATGAAAATGACATGATTTGGAA
Found at i:21983217 original size:40 final size:40
Alignment explanation
Indices: 21983152--21983306 Score: 222
Period size: 40 Copynumber: 3.9 Consensus size: 40
21983142 TCTTCGGAAT
* ** * *
21983152 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTC
* * *
21983191 TTAACCCGGGTATAGCAACTCGCACAAATACCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTC
*
21983231 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTC
21983271 TTAGCCCGGATATAACAACTCGCACAAATACCTTCG
1 TTAGCCCGGATATAACAACTCGCACAAATACCTTCG
21983307 TGTGACACCC
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 3 0.03
40 99 0.97
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTC
Found at i:21984153 original size:17 final size:18
Alignment explanation
Indices: 21984111--21984159 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
21984101 AGTTGAAAAG
21984111 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
21984130 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
21984147 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
21984160 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:21985044 original size:40 final size:40
Alignment explanation
Indices: 21984978--21985144 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
21984968 AAATTGAATG
* * *
21984978 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
21985017 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
21985057 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
21985097 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
21985137 ATATCCGG
1 ATATCCGG
21985145 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:21991961 original size:17 final size:18
Alignment explanation
Indices: 21991919--21991967 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
21991909 AGTTGAAAAG
21991919 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
21991938 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
21991955 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
21991968 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:21992846 original size:40 final size:40
Alignment explanation
Indices: 21992781--21992946 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
21992771 AAATTGAATG
* * *
21992781 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
21992819 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
21992859 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
21992899 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
21992939 ATATCCGG
1 ATATCCGG
21992947 TTATATTCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
38 13 0.12
39 3 0.03
40 86 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22002419 original size:40 final size:40
Alignment explanation
Indices: 22002354--22002600 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
22002344 TCTTCGGAAT
* ** *
22002354 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
22002393 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
22002433 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
22002472 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
22002512 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
22002552 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
22002592 TTAGCCCGG
1 TTAGCCCGG
22002601 GTATCATTCA
Statistics
Matches: 191, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 42 0.22
40 148 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:22002480 original size:79 final size:79
Alignment explanation
Indices: 22002354--22002600 Score: 363
Period size: 79 Copynumber: 3.1 Consensus size: 79
22002344 TCTTCGGAAT
* ** * * *
22002354 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
22002418 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
22002433 TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACG
1 TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
22002498 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
*
22002512 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCA
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCA
* *
22002576 TAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGTC
22002592 TTAGCCCGG
1 TTAGCCCGG
22002601 GTATCATTCA
Statistics
Matches: 154, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 77 0.50
80 76 0.49
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
AATGCCTTCGGGTC
Found at i:22011575 original size:110 final size:110
Alignment explanation
Indices: 22011371--22012144 Score: 1010
Period size: 110 Copynumber: 7.1 Consensus size: 110
22011361 GATACATAAT
* *
22011371 TTCATGTATCGTGATCTTTCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAGTA
1 TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
*
22011436 C-AGACATATCATGCCATGGGTCTGAACCACATGGTCTTACACACA
66 CAAG-CATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * ** * *
22011481 TTTATTTATCATGATCTTCCATTTAAATTCATACACTATCGAAGCCTACATCATGAATATAAATA
1 TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * **
22011546 CAAGTATATCATGCTATGGTTCTTAACCACATGGTCTTACATGCA
66 CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * * * *
22011591 TTCATATATCGTGATATGCTATTTTGATTCATACACTA-C---CGCTACACCATGAATATAAGTA
1 TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
22011652 C-AGACATATCATGCCATGGGTCTTAACCACATGATCTTGCACATA
66 CAAG-CATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
22011697 TTCATTTATCGTGATCTTCAATTTTGATTCATACACTATCAAAGGCTACACCATGAAAATAAATA
1 TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
22011762 TGAA-CATATCATGCTATGGTTCTTAACCACATGGTCTTACACACA
66 -CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
22011807 TTCATGGATCGTGAT-TTACTATTTTGATTCATACACTATCGAAGGCTACACCATAAATATAAAT
1 TTCATGTATCGTGATCTT-CCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
* * * *
22011871 ACAAACATATCATGCCATAGGTTTTAATCACATGGTCTTACACACA
65 ACAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* *
22011917 TTCATGTATCGTGATCTAT-CATTTGGATTCATACACTATTGAAGGCTACACCATGAATATAAAT
1 TTCATGTATCGTGATCT-TCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
* * * *
22011981 ATAGGCATATCATGCCATGGGTCTTAATCACATGGTCTTACATACA
65 ACAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
22012027 TTCATGTATTGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
22012092 CAAGCATATCATGCCAT-GGTCTTAACCACATGGTCTTACACACA
66 CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
22012136 TTCATGTAT
1 TTCATGTAT
22012145 AATGATATGC
Statistics
Matches: 572, Mismatches: 79, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
105 2 0.00
106 86 0.15
107 1 0.00
109 39 0.07
110 439 0.77
111 3 0.01
112 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (110 bp):
TTCATGTATCGTGATCTTCCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:22016545 original size:39 final size:39
Alignment explanation
Indices: 22016451--22016663 Score: 356
Period size: 39 Copynumber: 5.4 Consensus size: 39
22016441 ATGGTAACCG
* *
22016451 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
22016490 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
22016530 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
22016569 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
22016609 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
22016648 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
22016664 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
38 2 0.01
39 89 0.53
40 76 0.46
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:22016582 original size:79 final size:79
Alignment explanation
Indices: 22016451--22016663 Score: 367
Period size: 79 Copynumber: 2.7 Consensus size: 79
22016441 ATGGTAACCG
* *
22016451 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
22016516 GAGTTACTATATCC
66 GAGTTACTATATCC
22016530 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
22016595 GAGTTACTATATCC
66 GAGTTACTATATCC
* *
22016609 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
22016664 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
78 17 0.13
79 112 0.87
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTTACTATATCC
Found at i:22024540 original size:40 final size:40
Alignment explanation
Indices: 22024485--22024662 Score: 281
Period size: 40 Copynumber: 4.5 Consensus size: 40
22024475 CGGATGGTAA
* *
22024485 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
22024525 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
22024565 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22024605 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
22024645 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
22024663 TACTTGGTTT
Statistics
Matches: 132, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
39 17 0.13
40 114 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22027958 original size:68 final size:70
Alignment explanation
Indices: 22027886--22028083 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22027876 ACACCCTGTA
* * * *
22027886 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22027948 ATAAAT
65 ATAAAT
*
22027954 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22028019 ATAAAT
65 ATAAAT
*
22028025 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22028084 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22027997 original size:41 final size:41
Alignment explanation
Indices: 22027952--22028069 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22027942 TGAAAGATAA
22027952 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22027993 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22028023 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22028064 ATGTAG
1 ATGTAG
22028070 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22028009 original size:71 final size:71
Alignment explanation
Indices: 22027920--22028083 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22027910 GAGATGTATC
22027920 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22027985 AGGACA
66 AGGACA
22027991 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22028056 AGGACA
66 AGGACA
22028062 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22028084 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22035528 original size:68 final size:70
Alignment explanation
Indices: 22035456--22035653 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22035446 ACACCCTGTA
* * * *
22035456 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22035518 ATAAAT
65 ATAAAT
*
22035524 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22035589 ATAAAT
65 ATAAAT
*
22035595 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22035654 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22035567 original size:41 final size:41
Alignment explanation
Indices: 22035522--22035639 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22035512 TGAAAGATAA
22035522 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22035563 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22035593 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22035634 ATGTAG
1 ATGTAG
22035640 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22035579 original size:71 final size:71
Alignment explanation
Indices: 22035490--22035653 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22035480 GAGATGTATC
22035490 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22035555 AGGACA
66 AGGACA
22035561 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22035626 AGGACA
66 AGGACA
22035632 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22035654 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22041487 original size:43 final size:39
Alignment explanation
Indices: 22041402--22041481 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
22041392 AAATCTAATG
* * *
22041402 ATAATTCATCCAAAAATGTGCTATGCATGGGATAAAAAT
1 ATAATTAATCCAAAAATGTACTAAGCATGGGATAAAAAT
*
22041441 ATAATTAATTCAAAAATGTACTAAGCATGGGATAAAAAT
1 ATAATTAATCCAAAAATGTACTAAGCATGGGATAAAAAT
22041480 AT
1 AT
22041482 GTATAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (39 bp):
ATAATTAATCCAAAAATGTACTAAGCATGGGATAAAAAT
Found at i:22052272 original size:6 final size:6
Alignment explanation
Indices: 22052242--22052391 Score: 101
Period size: 6 Copynumber: 24.3 Consensus size: 6
22052232 AAGAAACATT
* * * *
22052242 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATTAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
22052291 ATCAGA ATCAGC ATTAGGTA A-GAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
22052340 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGA AACAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA ATCAGA ATCAGA
22052390 AT
1 AT
22052392 GTGAATACAA
Statistics
Matches: 111, Mismatches: 21, Indels: 24
0.71 0.13 0.15
Matches are distributed among these distances:
5 7 0.06
6 89 0.80
7 10 0.09
8 5 0.05
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:22052326 original size:25 final size:25
Alignment explanation
Indices: 22052262--22052328 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
22052252 GAATCAAAAT
*
22052262 GAGAATCAGAATCAAAATTAGGTAA
1 GAGAATCAGAATCAGAATTAGGTAA
* *
22052287 CAGAATCAGAATCAGCATTAGGTAA
1 GAGAATCAGAATCAGAATTAGGTAA
22052312 GAGAATCAGAATCAGAA
1 GAGAATCAGAATCAGAA
22052329 CCAGAATCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (25 bp):
GAGAATCAGAATCAGAATTAGGTAA
Found at i:22052328 original size:37 final size:37
Alignment explanation
Indices: 22052287--22052379 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
22052277 AATTAGGTAA
* *
22052287 CAGAATCAGAATCAGCATTAGGTAAGAGAATCAGAAT
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
*
22052324 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
* *
22052361 CAGTATCAGGAAACAGAAT
1 CAGAATCA-GAATCAGAAT
22052380 CAGAATCAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
37 40 0.82
38 9 0.18
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
Found at i:22052334 original size:62 final size:62
Alignment explanation
Indices: 22052251--22052390 Score: 208
Period size: 62 Copynumber: 2.3 Consensus size: 62
22052241 TATCAGAACT
* * * * * *
22052251 AGAATCAAAATGAGAATCAGAATCAAAATTAGGTAACAGAATCAGAATCAGCATTAGGTAAG
1 AGAATCAGAATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGCATCAGGAAAC
* *
22052313 AGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGAAAC
1 AGAATCAGAATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGCATCAGGAAAC
22052375 AGAATCAGAATCAGAA
1 AGAATCAGAATCAGAA
22052391 TGTGAATACA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (62 bp):
AGAATCAGAATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGCATCAGGAAAC
Found at i:22052353 original size:25 final size:25
Alignment explanation
Indices: 22052313--22052391 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
22052303 ATTAGGTAAG
* *
22052313 AGAATCA-GAATCAGAACCAGAATC
1 AGAATCAGGAAACAGAATCAGAATC
* *
22052337 AGAATTAGGTAACAGAATCAGAATC
1 AGAATCAGGAAACAGAATCAGAATC
*
22052362 AGTATCAGGAAACAGAATCAGAATC
1 AGAATCAGGAAACAGAATCAGAATC
22052387 AGAAT
1 AGAAT
22052392 GTGAATACAA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (25 bp):
AGAATCAGGAAACAGAATCAGAATC
Found at i:22052357 original size:19 final size:19
Alignment explanation
Indices: 22052293--22052360 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
22052283 GTAACAGAAT
*
22052293 CAGAATCAGCATTAGGTAA
1 CAGAATCAGAATTAGGTAA
* *
22052312 GAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
22052329 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
22052349 CAGAATCAGAAT
1 CAGAATCAGAAT
22052361 CAGTATCAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 24 0.59
20 2 0.05
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:22052384 original size:31 final size:31
Alignment explanation
Indices: 22052287--22052391 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
22052277 AATTAGGTAA
* * * *
22052287 CAGAATCAGAATCAGCATTAGGTAAGAGAAT
1 CAGAATCAGAATCAGAATCAGGAAACAGAAT
* **
22052318 CAGAATCAGAACCAGAATCA-GAATTAGGTAA-
1 CAGAATCAGAATCAGAATCAGGAAACA-G-AAT
*
22052349 CAGAATCAGAATCAGTATCAGGAAACAGAAT
1 CAGAATCAGAATCAGAATCAGGAAACAGAAT
22052380 CAGAATCAGAAT
1 CAGAATCAGAAT
22052392 GTGAATACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
30 5 0.08
31 49 0.82
32 6 0.10
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGGAAACAGAAT
Found at i:22052573 original size:2 final size:2
Alignment explanation
Indices: 22052566--22052591 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22052556 ACCAGAACAG
22052566 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
22052592 GTGGCGAAGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22052672 original size:27 final size:26
Alignment explanation
Indices: 22052624--22052675 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22052614 GCGAGGCTGC
*
22052624 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
22052650 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
22052676 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:22052950 original size:27 final size:27
Alignment explanation
Indices: 22052920--22053085 Score: 190
Period size: 27 Copynumber: 6.1 Consensus size: 27
22052910 GGGGTAAAAT
* * *
22052920 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
22052947 GGTAATTCTACCTTAC-AGGAGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * * *
22052974 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
22053001 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
22053028 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
22053055 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
22053082 GGTA
1 GGTA
22053086 TTTCGATATT
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.03
27 112 0.96
28 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:22053045 original size:81 final size:81
Alignment explanation
Indices: 22052919--22053089 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
22052909 AGGGGTAAAA
*
22052919 TGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCT
1 TGGT-ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTTAGTAATTCT
*
22052983 ACCCTATAGGGGTATTT
65 ACCCTACAGGGGTATTT
* * *
22053000 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
1 TGGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTTAGTAATTCTA
22053065 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
*
22053081 CGGTATTTC
1 TGGTATTTC
22053090 GATATTTCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 4 0.05
81 79 0.95
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
TGGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTTAGTAATTCTA
CCCTACAGGGGTATTT
Found at i:22053082 original size:54 final size:54
Alignment explanation
Indices: 22052920--22053085 Score: 215
Period size: 54 Copynumber: 3.1 Consensus size: 54
22052910 GGGGTAAAAT
* * * * * * * *
22052920 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
* * * *
22052974 AGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
*
22053028 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
22053082 GGTA
1 GGTA
22053086 TTTCGATATT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
Found at i:22053138 original size:27 final size:27
Alignment explanation
Indices: 22053108--22053367 Score: 132
Period size: 27 Copynumber: 9.6 Consensus size: 27
22053098 TACCCTATAG
** *
22053108 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCAA
*** **
22053135 GGGTAAAAC-GATAATTTTGTAAATCAA
1 GGGTATTTCAG-TAATTTTACAAATCAA
* *
22053162 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAGTAATTTTACAAATCAA
* * ** *
22053189 GGGTATTTCAATAGTTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAATCAA
* * *
22053216 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTCAGTAATTTTACAAATCAA
** *
22053243 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTCAGTAATTTTACAAATC-AA
* * * *
22053270 GGGTATTT-TGATAATTATACAAACCAG
1 GGGTATTTCAG-TAATTTTACAAATCAA
** ** *
22053297 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCAA
** * *
22053324 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAATCAA
**
22053351 GGGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTT
22053368 GGTAAACTAA
Statistics
Matches: 190, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
26 6 0.03
27 181 0.95
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAA
Found at i:22053359 original size:81 final size:81
Alignment explanation
Indices: 22053146--22053366 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 81
22053136 GGTAAAACGA
* ** * ** * * *
22053146 TAATTTTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAGTTTTACAG
1 TAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTATACAA
**
22053211 GTCGAGGGTATTTTAG
66 ACCGAGGGTATTTTAG
*** * *
22053227 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTATACAA
1 TAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTATACAA
*
22053292 ACC-AGGGGTATTTTGG
66 ACCGA-GGGTATTTTAG
* *
22053308 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 TAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATT
22053367 TGGTAAACTA
Statistics
Matches: 115, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 1 0.01
81 114 0.99
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
TAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTATACAA
ACCGAGGGTATTTTAG
Found at i:22053373 original size:54 final size:54
Alignment explanation
Indices: 22053146--22053374 Score: 233
Period size: 54 Copynumber: 4.2 Consensus size: 54
22053136 GGTAAAACGA
* * ** * ***
22053146 TAATTTTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAA
1 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* ** *** * * * *
22053200 TAGTTTTACAGGTCGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
** * * * *
22053254 TAATTTTACAAACTAGGGGTATTTTGATAATTATACAAACCAGGGGTATTTTGG
1 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
22053308 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
*
22053362 TAATTTGGTAAAC
1 TAATTTTGTAAAC
22053375 TAAAGTATTC
Statistics
Matches: 142, Mismatches: 33, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 142 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
Found at i:22053374 original size:27 final size:27
Alignment explanation
Indices: 22053216--22053367 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
22053206 TACAGGTCGA
* * *
22053216 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
22053243 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
22053270 GGGTATTTTGATAATTATACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
22053297 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
22053324 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
22053351 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
22053368 GGTAAACTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:22055349 original size:6 final size:6
Alignment explanation
Indices: 22055319--22055498 Score: 75
Period size: 6 Copynumber: 29.3 Consensus size: 6
22055309 AAGAAAAATT
* * * *
22055319 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * * * *
22055368 ATCAAA ATAAAA ATCAAA AT-AGA ATTAGGT AGCAGA ATCAAA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA ATCAGA ATCAGA
* * *
22055416 ATCAGGTA A-GAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
22055466 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
22055499 GTGTATGCAA
Statistics
Matches: 129, Mismatches: 29, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
5 12 0.09
6 98 0.76
7 14 0.11
8 5 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:22055391 original size:36 final size:37
Alignment explanation
Indices: 22055328--22055411 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 37
22055318 TATCAGAACT
* * *
22055328 AGAATCAAAATGAGAATCAGAATTAGAATCAGGT-GAC
1 AGAATCAAAATAAAAATCAGAAATAGAATCAGGTAG-C
*
22055365 AGAATCAAAATAAAAATCA-AAATAGAATTAGGTAGC
1 AGAATCAAAATAAAAATCAGAAATAGAATCAGGTAGC
22055401 AGAATCAAAAT
1 AGAATCAAAAT
22055412 CAGTATCAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 24 0.57
37 18 0.43
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATAAAAATCAGAAATAGAATCAGGTAGC
Found at i:22055429 original size:25 final size:25
Alignment explanation
Indices: 22055379--22055498 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 25
22055369 TCAAAATAAA
* *
22055379 AATCAAAAT-AGAATTAGGTAGCAG
1 AATCAAAATCAGAATCAGGTAACAG
* *
22055403 AATCAAAATCAGTATCAGGTAAGAG
1 AATCAAAATCAGAATCAGGTAACAG
*
22055428 AATCAGAACCAGAATCAGAATTAGGTAACAG
1 AATC---A--A-AATCAGAATCAGGTAACAG
* *
22055459 AATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGGTAACAG
*
22055484 AATCAGAATCAGAAT
1 AATCAAAATCAGAAT
22055499 GTGTATGCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
24 9 0.12
25 46 0.59
28 2 0.03
30 1 0.01
31 20 0.26
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAAAATCAGAATCAGGTAACAG
Done.