Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 76 of 189
Found at i:21210932 original size:12 final size:12
Alignment explanation
Indices: 21210893--21210933 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
21210883 CATTTTATTA
21210893 TTATTGTTGTTG
1 TTATTGTTGTTG
*
21210905 TTGTTGTTG-TG
1 TTATTGTTGTTG
21210916 ATTATTGTTGTTG
1 -TTATTGTTGTTG
21210929 TTATT
1 TTATT
21210934 TATTTTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.10, C:0.00, G:0.24, T:0.66
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:21227749 original size:4 final size:4
Alignment explanation
Indices: 21227740--21227785 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
21227730 TATTATTCTA
* * * *
21227740 TATT TATT TATT TATT TATG TATT CATT CATT TATT TATT TCTT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TA
21227786 CTCTTTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:21240147 original size:45 final size:47
Alignment explanation
Indices: 21240098--21240191 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 47
21240088 TGCCGAAATT
*
21240098 ATTTAAGCAACT-AAAATT-AAAACAACTTAATTCATTAAACTAATG
1 ATTTAAGCAACTAAAAATTAAAAACAACTTAATTAATTAAACTAATG
21240143 ATTTAAGCAACTAAAGAAAATTAAAAACAACTTAATTAATTAAACTAAT
1 ATTTAAGCAACT--A-AAAATTAAAAACAACTTAATTAATTAAACTAAT
21240192 TTAATTAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
45 12 0.28
49 6 0.14
50 25 0.58
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (47 bp):
ATTTAAGCAACTAAAAATTAAAAACAACTTAATTAATTAAACTAATG
Found at i:21256068 original size:34 final size:30
Alignment explanation
Indices: 21256017--21256081 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 30
21256007 ATCTCATTAT
21256017 TAAATAAAATAAAAAAA-TAGTAAATAATTTA
1 TAAATAAAATAAAAAAATTA-TAAAT-ATTTA
21256048 TAAATAATAATTAAATAAAATTATAAATATTTA
1 TAAATAA-AA-TAAA-AAAATTATAAATATTTA
21256081 T
1 T
21256082 TTACAAGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 7 0.23
32 2 0.07
33 10 0.33
34 9 0.30
35 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
TAAATAAAATAAAAAAATTATAAATATTTA
Found at i:21266394 original size:25 final size:25
Alignment explanation
Indices: 21266366--21266419 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
21266356 AGCTCCGAAT
*
21266366 AGCCATATATTGGGAAG-TTCAAGCG
1 AGCCATATATTGGGAAGCTTC-AGAG
21266391 AGCC--ATATTGGGAAGCTTCAGAG
1 AGCCATATATTGGGAAGCTTCAGAG
21266414 AGCCAT
1 AGCCAT
21266420 TAATCAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 18 0.72
24 3 0.12
25 4 0.16
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
AGCCATATATTGGGAAGCTTCAGAG
Found at i:21266402 original size:23 final size:23
Alignment explanation
Indices: 21266372--21266419 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
21266362 GAATAGCCAT
*
21266372 ATATTGGGAAG-TTCAAGCGAGCC
1 ATATTGGGAAGCTTC-AGAGAGCC
21266395 ATATTGGGAAGCTTCAGAGAGCC
1 ATATTGGGAAGCTTCAGAGAGCC
21266418 AT
1 AT
21266420 TAATCAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (23 bp):
ATATTGGGAAGCTTCAGAGAGCC
Found at i:21266455 original size:26 final size:26
Alignment explanation
Indices: 21266412--21266480 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
21266402 GAAGCTTCAG
21266412 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
21266438 AGAGCCTTTGATCGGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
21266464 AGAGCCA-TATATCAGGA
1 AGAGCCATTA-ATCAGGA
21266481 CGCTTATAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:21266543 original size:26 final size:26
Alignment explanation
Indices: 21266506--21266563 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21266496 CGTGATATAT
*
21266506 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGATTCCCGATTAAA
* ** *
21266532 GGCTCTTTGTGAGATTCTTGATTAAT
1 GGCTCTTCGTGAGATTCCCGATTAAA
21266558 GGCTCT
1 GGCTCT
21266564 CCGAAGCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGATTCCCGATTAAA
Found at i:21273486 original size:27 final size:27
Alignment explanation
Indices: 21273449--21273563 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 27
21273439 AGAGGTCAAT
*
21273449 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
21273476 AAATGACCGAATTATCCCCACAGGTTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * *
21273503 AAATAACCGAATTACCCCTATAGGATA
1 AAATGACCGAATTACCCCCACAGGGTA
** * *
21273530 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
21273557 AAATGAC
1 AAATGAC
21273564 TATTATACCC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:21273922 original size:28 final size:28
Alignment explanation
Indices: 21273879--21273958 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
21273869 ACTGTACCGA
*
21273879 TACTGTATTAGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
** *
21273907 TGTTGTATTGGGCTAAGGCCTACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
21273935 TACTGTATTGGGCTAAGGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
21273959 CTATACTGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:21284960 original size:15 final size:16
Alignment explanation
Indices: 21284936--21284972 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21284926 TTGAATTAAC
*
21284936 TTTA-TTTATTT-ATT
1 TTTATTTTATTTGACT
21284950 TTTATTTTATTTGACT
1 TTTATTTTATTTGACT
21284966 TTTATTT
1 TTTATTT
21284973 AGTGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTGACT
Found at i:21286226 original size:6 final size:6
Alignment explanation
Indices: 21286215--21286246 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
21286205 GAAGACTGAT
21286215 TTTGCA TTTGCA TTTGCA TTTCGCA TTTGCA T
1 TTTGCA TTTGCA TTTGCA TTT-GCA TTTGCA T
21286247 GAAAATTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (6 bp):
TTTGCA
Found at i:21286240 original size:13 final size:12
Alignment explanation
Indices: 21286215--21286246 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
21286205 GAAGACTGAT
21286215 TTTGCATTTGCA
1 TTTGCATTTGCA
21286227 TTTGCATTTCGCA
1 TTTGCATTT-GCA
21286240 TTTGCAT
1 TTTGCAT
21286247 GAAAATTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:21289085 original size:25 final size:25
Alignment explanation
Indices: 21289055--21289102 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21289045 AAGTTTGTTT
21289055 GTGAAATTATTAAGGACTTTAATCA
1 GTGAAATTATTAAGGACTTTAATCA
**
21289080 GTGAAATTATTCGGGACTTTAAT
1 GTGAAATTATTAAGGACTTTAAT
21289103 GAGGACTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGAAATTATTAAGGACTTTAATCA
Found at i:21296231 original size:16 final size:17
Alignment explanation
Indices: 21296200--21296233 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21296190 AACTTTGAAA
21296200 AAAATATTTAAAATATT
1 AAAATATTTAAAATATT
*
21296217 AAAAT-TTTTAAATATT
1 AAAATATTTAAAATATT
21296233 A
1 A
21296234 TGTTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTTAAAATATT
Found at i:21306818 original size:25 final size:24
Alignment explanation
Indices: 21306762--21306867 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 24
21306752 ACCACAGGTT
*
21306762 GTATGAGCTTACCGATTTCAGCTC
1 GTATGAGCTTACCGATTACAGCTC
* *
21306786 ATGA-GAGCTTACTGATTCACAGCTC
1 GT-ATGAGCTTACCGATT-ACAGCTC
*
21306811 GTATGAGCTTACC-ATTTTTCAGCTC
1 GTATGAGCTTACCGA--TTACAGCTC
* * * *
21306836 GAAAGAGCTTACCGTTTACCGCTC
1 GTATGAGCTTACCGATTACAGCTC
*
21306860 TTATGAGC
1 GTATGAGC
21306868 ATACATGTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
24 27 0.44
25 33 0.53
26 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (24 bp):
GTATGAGCTTACCGATTACAGCTC
Found at i:21306865 original size:49 final size:49
Alignment explanation
Indices: 21306762--21306867 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 49
21306752 ACCACAGGTT
* *
21306762 GTATGAGCTTACCGATTTCAGCTCATGAGAGCTTACTGATTCACAGCTC
1 GTATGAGCTTACCGATTTCAGCTCATAAGAGCTTACCGATTCACAGCTC
* *
21306811 GTATGAGCTTACC-ATTTTTCAGCTCGA-AAGAGCTTACCG-TTTACCGCTC
1 GTATGAGCTTACCGA--TTTCAGCTC-ATAAGAGCTTACCGATTCACAGCTC
*
21306860 TTATGAGC
1 GTATGAGC
21306868 ATACATGTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 1 0.02
49 28 0.57
50 19 0.39
51 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (49 bp):
GTATGAGCTTACCGATTTCAGCTCATAAGAGCTTACCGATTCACAGCTC
Found at i:21309713 original size:18 final size:17
Alignment explanation
Indices: 21309686--21309727 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21309676 ACATAAATTC
*
21309686 AAATAACAAAACACCTAA
1 AAATAGCAAAACA-CTAA
*
21309704 AAATAGC-AAACACTGA
1 AAATAGCAAAACACTAA
21309720 AAATAGCA
1 AAATAGCA
21309728 GTCCTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (17 bp):
AAATAGCAAAACACTAA
Found at i:21318309 original size:20 final size:19
Alignment explanation
Indices: 21318269--21318319 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
21318259 TAATTTCGCC
*
21318269 ATTTTTTAGTTTAATATTT
1 ATTTTTTAATTTAATATTT
21318288 ATGTTTTTAATTTAAT-TATT
1 AT-TTTTTAATTTAATAT-TT
*
21318308 ATATTTTAATTT
1 ATTTTTTAATTT
21318320 TTTTTGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATTTAATATTT
Found at i:21326160 original size:3 final size:3
Alignment explanation
Indices: 21326154--21326203 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
21326144 AAACTAATAA
* * * *
21326154 ATT ATT ATT ATT ATT AGT ATT AAT ATT ATT ATT AAT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21326202 AT
1 AT
21326204 CATCATATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21326363 original size:16 final size:18
Alignment explanation
Indices: 21326342--21326382 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
21326332 GCTTATATTT
21326342 TTTATATATAT-TAT-AA
1 TTTATATATATGTATGAA
*
21326358 TTTATATATATGTATGTA
1 TTTATATATATGTATGAA
21326376 TTTATAT
1 TTTATAT
21326383 GCACATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTATATATATGTATGAA
Found at i:21326365 original size:18 final size:18
Alignment explanation
Indices: 21326334--21326368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21326324 ATATATACGC
* *
21326334 TTATATTTTTTATATATA
1 TTATAATTTATATATATA
21326352 TTATAATTTATATATAT
1 TTATAATTTATATATAT
21326369 GTATGTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATAATTTATATATATA
Found at i:21327909 original size:22 final size:22
Alignment explanation
Indices: 21327884--21327942 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
21327874 GAAACTTAAG
* *
21327884 ATATCAGATATAGTTACAGAAC
1 ATATTAGATATAGATACAGAAC
21327906 ATATTAGATATAGATACAGAAC
1 ATATTAGATATAGATACAGAAC
* *
21327928 AGATTAGATACAGAT
1 ATATTAGATATAGAT
21327943 GTAGATTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.27
Consensus pattern (22 bp):
ATATTAGATATAGATACAGAAC
Found at i:21335086 original size:50 final size:50
Alignment explanation
Indices: 21334972--21335262 Score: 411
Period size: 50 Copynumber: 5.8 Consensus size: 50
21334962 GATCATAATA
* * ** *
21334972 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * **
21335023 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21335073 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
21335123 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACTTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21335173 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21335223 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
21335263 TTTTACCCAA
Statistics
Matches: 212, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 180 0.85
51 32 0.15
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21342652 original size:50 final size:50
Alignment explanation
Indices: 21342536--21342826 Score: 411
Period size: 50 Copynumber: 5.8 Consensus size: 50
21342526 GATCATAATA
* * * ** * *
21342536 TGCCAAAGCCATGTCCCAGACGTGGTCTTACGTGGGATGTACTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
21342587 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21342637 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
21342687 TGCCCATGCCATGTCCCAGACATGGTCTTACAAGGGATCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21342737 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21342787 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
21342827 TTTTACCCAA
Statistics
Matches: 215, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
50 181 0.84
51 34 0.16
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21356452 original size:16 final size:16
Alignment explanation
Indices: 21356431--21356480 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
21356421 ATATCTAATC
21356431 ATATAATAAATTATTA
1 ATATAATAAATTATTA
21356447 ATATAAT--A-TATTA
1 ATATAATAAATTATTA
*
21356460 ATTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
21356477 ATAT
1 ATAT
21356481 TTCAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:21357468 original size:29 final size:29
Alignment explanation
Indices: 21357435--21357492 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
21357425 AAAATATTAT
* * *
21357435 AAAATAAAATATTATTTGAAACTTTAAAC
1 AAAATAAAATATCACTGGAAACTTTAAAC
21357464 AAAATAAAATATCACTGGAAACTTTAAAC
1 AAAATAAAATATCACTGGAAACTTTAAAC
21357493 GAGAGGGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAATAAAATATCACTGGAAACTTTAAAC
Found at i:21357718 original size:24 final size:25
Alignment explanation
Indices: 21357649--21357725 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 25
21357639 ATTTAAATTT
* *
21357649 ATTTTTATAATATAAAATACATATTCA
1 ATTTTTAT-ATATAAAATA-ATTTTAA
21357676 ATTATTTAATATAATAAAATAATTTTAA
1 ATT-TTT-ATAT-ATAAAATAATTTTAA
*
21357704 ATTTTTATATA-AAAATATTTTT
1 ATTTTTATATATAAAATAATTTT
21357726 CAAAAATACA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
24 10 0.23
25 1 0.02
26 4 0.09
27 6 0.14
28 13 0.30
29 10 0.23
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTTATATATAAAATAATTTTAA
Found at i:21359592 original size:22 final size:20
Alignment explanation
Indices: 21359556--21359614 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
21359546 GGCTCGGCCT
21359556 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
21359578 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
21359599 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
21359615 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:21359616 original size:11 final size:11
Alignment explanation
Indices: 21359596--21359702 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
21359586 TAAAAATTAA
21359596 AAAAAGTATTTT
1 AAAAA-TATTTT
21359608 AAAAATATTTT
1 AAAAATATTTT
*
21359619 --TAA-A--TT
1 AAAAATATTTT
*
21359625 AAAAAAATTTT
1 AAAAATATTTT
21359636 AAAAAGTATTTT
1 AAAAA-TATTTT
21359648 AAAAATATTTT
1 AAAAATATTTT
* *
21359659 -TAAA-A-TTA
1 AAAAATATTTT
* *
21359667 AAAAATA-ATA
1 AAAAATATTTT
21359677 AAAAATTATTTT
1 AAAAA-TATTTT
21359689 -AAAATATTTT
1 AAAAATATTTT
21359699 AAAA
1 AAAA
21359703 TTAAAAAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
6 2 0.03
8 5 0.07
9 7 0.09
10 17 0.23
11 28 0.37
12 16 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21359619 original size:12 final size:12
Alignment explanation
Indices: 21359604--21359663 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 12
21359594 AAAAAAAGTA
21359604 TTTTAAAAATAT
1 TTTTAAAAATAT
* *
21359616 TTTTAAATTAAAAAAA
1 TTTT--A--AAAATAT
21359632 TTTTAAAAAGTA-
1 TTTTAAAAA-TAT
21359644 TTTTAAAAATAT
1 TTTTAAAAATAT
21359656 TTTTAAAA
1 TTTTAAAA
21359664 TTAAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
11 2 0.05
12 25 0.64
13 1 0.03
14 2 0.05
16 9 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:21359635 original size:16 final size:17
Alignment explanation
Indices: 21359606--21359638 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21359596 AAAAAGTATT
*
21359606 TTAAAAATATTTTTAAA
1 TTAAAAATAATTTTAAA
21359623 TTAAAAA-AATTTTAAA
1 TTAAAAATAATTTTAAA
21359639 AAGTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAATAATTTTAAA
Found at i:21359637 original size:28 final size:31
Alignment explanation
Indices: 21359589--21359647 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
21359579 TTTATTTTAA
21359589 AAATTAAAAAAAGTATTTTAAAAA-TATTTTT
1 AAATTAAAAAAAG-ATTTTAAAAAGTATTTTT
21359620 AAATT-AAAAAA-ATTTTAAAAAGTATTTT
1 AAATTAAAAAAAGATTTTAAAAAGTATTTT
21359648 AAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 10 0.37
29 6 0.22
30 6 0.22
31 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
AAATTAAAAAAAGATTTTAAAAAGTATTTTT
Found at i:21359665 original size:41 final size:41
Alignment explanation
Indices: 21359587--21359719 Score: 193
Period size: 40 Copynumber: 3.3 Consensus size: 41
21359577 AATTTATTTT
*
21359587 AAAAATTAAAAAAAGTATTTTAAAAATATTTTT-AAATTAA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTTAAAATTAA
*
21359627 AAAAATTTTAAAAAGTATTTTAAAAATATTTTTAAAATT-A
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTTAAAATTAA
* *
21359667 AAAAATAATAAAAAATTATTTT-AAAATA-TTTTAAAATTAA
1 AAAAAT-TTAAAAAAGTATTTTAAAAATATTTTTAAAATTAA
21359707 AAAAATTTAAAAA
1 AAAAATTTAAAAA
21359720 TAAATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 16 0.19
40 51 0.61
41 17 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (41 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTTAAAATTAA
Found at i:21359708 original size:16 final size:16
Alignment explanation
Indices: 21359687--21359730 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
21359677 AAAAATTATT
21359687 TTAAAATATTTTAAAA
1 TTAAAATATTTTAAAA
* *
21359703 TTAAAAAAATTTAAAA
1 TTAAAATATTTTAAAA
*
21359719 ATAAATATATTT
1 TTAAA-ATATTT
21359731 ATTATATCGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATATTTTAAAA
Found at i:21359714 original size:17 final size:17
Alignment explanation
Indices: 21359606--21359639 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21359596 AAAAAGTATT
* *
21359606 TTAAAAATATTTTTAAA
1 TTAAAAAAATTTTAAAA
21359623 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
21359640 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:21363524 original size:20 final size:21
Alignment explanation
Indices: 21363491--21363530 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21363481 TTTTACTTAT
*
21363491 AAAGTTTAAAATTTTTTACAA
1 AAAGTTTAAAATTTGTTACAA
*
21363512 AAAG-TTAACATTTGTTACA
1 AAAGTTTAAAATTTGTTACA
21363531 TTATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAGTTTAAAATTTGTTACAA
Found at i:21367785 original size:31 final size:29
Alignment explanation
Indices: 21367750--21367809 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
21367740 TTTAACAGCC
*
21367750 TTTTATAACTTTTTGAATAGTTCAATGACCA
1 TTTTATAACCTTTTG-A-AGTTCAATGACCA
*
21367781 TTTTATAACCTTTTGAAGTTGAATGACCA
1 TTTTATAACCTTTTGAAGTTCAATGACCA
21367810 AAATGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 1 0.04
31 14 0.52
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (29 bp):
TTTTATAACCTTTTGAAGTTCAATGACCA
Found at i:21368056 original size:16 final size:16
Alignment explanation
Indices: 21368035--21368073 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21368025 TAAAATTGTT
21368035 TATTTGAGAA-TTAAAA
1 TATTTGA-AATTTAAAA
21368051 TATTTGAAATTTAAAA
1 TATTTGAAATTTAAAA
21368067 T-TTTGAA
1 TATTTGAA
21368074 TTAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (16 bp):
TATTTGAAATTTAAAA
Found at i:21369274 original size:15 final size:16
Alignment explanation
Indices: 21369248--21369278 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21369238 CAATTCTATC
21369248 TATTTTTAAATAATTT
1 TATTTTTAAATAATTT
21369264 TATTTTT-AATAATTT
1 TATTTTTAAATAATTT
21369279 ATTCAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAAATAATTT
Found at i:21382686 original size:23 final size:22
Alignment explanation
Indices: 21382645--21382694 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
21382635 GCTTTATTTG
*
21382645 TTAATATGTTTTGATATAACAAA
1 TTAAAATGTTTTGATATAA-AAA
*
21382668 TTAAAATGTTTTTGA-ATAAAAG
1 TTAAAATG-TTTTGATATAAAAA
21382690 TTAAA
1 TTAAA
21382695 GTTGAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 11 0.46
24 6 0.25
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (22 bp):
TTAAAATGTTTTGATATAAAAA
Found at i:21382932 original size:22 final size:21
Alignment explanation
Indices: 21382888--21382929 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21382878 TTCAATTTAC
21382888 ACAAAAAGTATCGACACCTTT
1 ACAAAAAGTATCGACACCTTT
*
21382909 ACAAAAAGTATCGATACCTTT
1 ACAAAAAGTATCGACACCTTT
21382930 TACTAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
ACAAAAAGTATCGACACCTTT
Found at i:21385916 original size:19 final size:19
Alignment explanation
Indices: 21385869--21385926 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
21385859 AAAATGATAA
21385869 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
21385889 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
21385908 AATCAAGTTAAAACTGTTT
1 AATCAAGTTAAAA-TGTTT
21385927 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:21388980 original size:3 final size:3
Alignment explanation
Indices: 21388972--21389050 Score: 70
Period size: 3 Copynumber: 25.0 Consensus size: 3
21388962 ATATATAAGT
* * *
21388972 ATA ATA ATA TTA ATA TGTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
21389018 ATA CAGTA ATA ATA ACA ATA ATA ATA ATTA ATA
1 ATA -A-TA ATA ATA ATA ATA ATA ATA A-TA ATA
21389051 TAACAAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
2 2 0.03
3 48 0.77
4 10 0.16
5 2 0.03
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21389015 original size:16 final size:15
Alignment explanation
Indices: 21388989--21389018 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21388979 TATTAATATG
21388989 TAATATAATAATAAA
1 TAATATAATAATAAA
21389004 TAATACTAATAATAA
1 TAATA-TAATAATAA
21389019 TACAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATAATAATAAA
Found at i:21391256 original size:25 final size:24
Alignment explanation
Indices: 21391198--21391256 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
21391188 TAAATATATG
21391198 TGTAA-TAAATATATGCATACATT
1 TGTAATTAAATATATGCATACATT
21391221 TGTAATT-AATATATGTACATAC-TT
1 TGTAATTAAATATATG--CATACATT
21391245 AT-TAATTAAATA
1 -TGTAATTAAATA
21391257 AAAGATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 13 0.42
24 8 0.26
25 10 0.32
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (24 bp):
TGTAATTAAATATATGCATACATT
Found at i:21391387 original size:26 final size:27
Alignment explanation
Indices: 21391336--21391392 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
21391326 ATAGAATAGC
* *
21391336 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
21391363 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
21391389 AAAA
1 AAAA
21391393 TTTGGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:21392083 original size:22 final size:22
Alignment explanation
Indices: 21392028--21392083 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
21392018 TAAGGCTCCT
21392028 TCTTCTTCTTCTTCCGTTCTTCA
1 TCTTC-TCTTCTTCCGTTCTTCA
* * * *
21392051 TTTTTTTTTCTTCTGTTCTTCA
1 TCTTCTCTTCTTCCGTTCTTCA
21392073 TCTTCTCTTCT
1 TCTTCTCTTCT
21392084 CAGCATATTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.04, C:0.29, G:0.04, T:0.64
Consensus pattern (22 bp):
TCTTCTCTTCTTCCGTTCTTCA
Found at i:21394868 original size:15 final size:15
Alignment explanation
Indices: 21394837--21394882 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
21394827 GAACATTTGG
*
21394837 AATTTAATTAGATAAA
1 AATTTTATTA-ATAAA
21394853 AATTTTATTAATAAA
1 AATTTTATTAATAAA
* *
21394868 AAATTTATTTATAAA
1 AATTTTATTAATAAA
21394883 TAAATCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATTTTATTAATAAA
Found at i:21394961 original size:22 final size:20
Alignment explanation
Indices: 21394918--21394956 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21394908 TAATTTAAAA
21394918 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
21394938 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
21394957 ATGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:21395060 original size:14 final size:15
Alignment explanation
Indices: 21395038--21395114 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
21395028 CAATCAAACA
21395038 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
21395052 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
21395067 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
21395087 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
21395101 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
21395115 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:21395079 original size:20 final size:20
Alignment explanation
Indices: 21395054--21395093 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21395044 AATATTTTCC
*
21395054 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
21395074 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
21395094 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:21395099 original size:34 final size:35
Alignment explanation
Indices: 21395042--21395108 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21395032 CAAACACCAG
*
21395042 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
21395077 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
21395109 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:21395115 original size:14 final size:14
Alignment explanation
Indices: 21395077--21395116 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
21395067 ACAGAAAAGT
*
21395077 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
21395091 AAATCATTTTACGG
1 AAAACATTTTACAG
21395105 AAAACATTTTAC
1 AAAACATTTTAC
21395117 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:21395663 original size:25 final size:25
Alignment explanation
Indices: 21395634--21395717 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 25
21395624 GAACTTTAGT
*
21395634 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
21395659 ATGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
* *
21395684 GTGCTCTCTGAGTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
21395709 GTGCTCTCT
1 GTGCTCTCT
21395718 ATTTAGCACT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTCA
Found at i:21401830 original size:20 final size:20
Alignment explanation
Indices: 21401805--21401842 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21401795 AAAGGTTAAC
21401805 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
21401825 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
21401843 AATAAAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:21402782 original size:41 final size:42
Alignment explanation
Indices: 21402704--21402802 Score: 132
Period size: 41 Copynumber: 2.4 Consensus size: 42
21402694 CTATATGATT
* * *
21402704 AGCACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAA-CG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATCG
* *
21402744 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAATTG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATCG
21402786 -GCACTAAGTGTGCGAAA
1 AGCACTAAGTGTGCGAAA
21402803 TCGAGATCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 15 0.29
41 36 0.69
42 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (42 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATCG
Found at i:21413305 original size:32 final size:32
Alignment explanation
Indices: 21413269--21413332 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21413259 TAAAAAAAGA
21413269 AAGAATATACGAATGGCATAATTGCATTAGTT
1 AAGAATATACGAATGGCATAATTGCATTAGTT
21413301 AAGAATATACGAATGGCATAATTGCATTAGTT
1 AAGAATATACGAATGGCATAATTGCATTAGTT
21413333 GTTGGATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (32 bp):
AAGAATATACGAATGGCATAATTGCATTAGTT
Found at i:21418255 original size:24 final size:24
Alignment explanation
Indices: 21418228--21418279 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21418218 TTAGTAAGTC
*
21418228 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21418252 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21418276 AAAT
1 AAAT
21418280 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:21420225 original size:24 final size:24
Alignment explanation
Indices: 21420198--21420249 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21420188 TTAGTAAGTC
*
21420198 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21420222 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21420246 AAAT
1 AAAT
21420250 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:21422944 original size:17 final size:18
Alignment explanation
Indices: 21422922--21422966 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
21422912 TTATGAATTA
21422922 AAAAATAATTATA-AAAG
1 AAAAATAATTATACAAAG
*
21422939 AAAAATAGTTATACTAAAG
1 AAAAATAATTATAC-AAAG
*
21422958 ATAAATAAT
1 AAAAATAAT
21422967 ATGAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAAATAATTATACAAAG
Found at i:21424826 original size:6 final size:6
Alignment explanation
Indices: 21424802--21424839 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
21424792 ACAAAATTAG
21424802 AAAG-A AAAGAAA GAAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAG-AA -AAAGAA AAAGAA AAAGAA AAAGAA A
21424840 GAAAACCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 19 0.63
7 3 0.10
8 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:21424839 original size:35 final size:34
Alignment explanation
Indices: 21424762--21424844 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
21424752 GCAAAAAAGT
**
21424762 AATA-AAAGAAAGAGAAAGAAAGAAAGCCAAACAA
1 AATAGAAAGAAA-AGAAAGAAAGAAAGAAAAACAA
*
21424796 AATTAGAAAGAAAAGAAAGAAAGAAAAAGAAAAAGAA
1 AA-TAGAAAGAAAAGAAAGAAAG--AAAGAAAAACAA
21424833 AA-AGAAAGAAAA
1 AATAGAAAGAAAA
21424845 CCCACGGCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.05
35 22 0.52
36 7 0.17
37 11 0.26
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (34 bp):
AATAGAAAGAAAAGAAAGAAAGAAAGAAAAACAA
Found at i:21429908 original size:15 final size:14
Alignment explanation
Indices: 21429887--21429922 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21429877 ATAATCATTA
*
21429887 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21429901 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21429916 ATAATTA
1 ATAATTA
21429923 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21430524 original size:22 final size:20
Alignment explanation
Indices: 21430494--21430543 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 20
21430484 CTTTTGTTTC
21430494 TTTTTTATTTATT-TTTGATTA
1 TTTTTTATTTATTATTT-A-TA
21430515 TTTATTTATTTATTATTTATA
1 TTT-TTTATTTATTATTTATA
21430536 TTTTTTAT
1 TTTTTTAT
21430544 GCTTTAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 11 0.41
23 3 0.11
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTATTATTTATA
Found at i:21430532 original size:7 final size:7
Alignment explanation
Indices: 21430498--21430543 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
21430488 TGTTTCTTTT
21430498 TTATTTA
1 TTATTTA
21430505 TT-TTTGA
1 TTATTT-A
21430512 TTATTTA
1 TTATTTA
21430519 TTTATTTA
1 -TTATTTA
21430527 TTATTTA
1 TTATTTA
*
21430534 -TATTTT
1 TTATTTA
21430540 TTAT
1 TTAT
21430544 GCTTTAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
6 8 0.24
7 16 0.47
8 10 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:21431878 original size:5 final size:5
Alignment explanation
Indices: 21431868--21431945 Score: 65
Period size: 5 Copynumber: 15.6 Consensus size: 5
21431858 AGTAATAAAT
* *
21431868 AATAA AATAA AATAA AGTAATA AATAA AGT-A AATAA AATAA AATAA AAT--
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AATAA AATAA
*
21431917 AATAA ATAAAA AATAAA AATAA AA-AA AAT
1 AATAA A-ATAA AAT-AA AATAA AATAA AAT
21431946 TTGGGTTGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 35 0.59
6 11 0.19
7 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:21431882 original size:13 final size:13
Alignment explanation
Indices: 21431860--21431945 Score: 64
Period size: 12 Copynumber: 7.1 Consensus size: 13
21431850 TCCAAATAAG
21431860 TAAT-AAATAATAA
1 TAATAAAATAA-AA
*
21431873 -AATAAAATAAAG
1 TAATAAAATAAAA
*
21431885 TAAT-AAATAAAG
1 TAATAAAATAAAA
21431897 TAAATAAAATAAAA
1 T-AATAAAATAAAA
21431911 TAA-AATAAT-AAA
1 TAATAA-AATAAAA
21431923 TAA-AAAAT-AAA
1 TAATAAAATAAAA
21431934 -AATAAAA-AAAA
1 TAATAAAATAAAA
21431945 T
1 T
21431946 TTGGGTTGCC
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
10 2 0.03
11 13 0.21
12 23 0.37
13 17 0.27
14 8 0.13
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
TAATAAAATAAAA
Found at i:21431895 original size:4 final size:4
Alignment explanation
Indices: 21431861--21431933 Score: 55
Period size: 4 Copynumber: 17.5 Consensus size: 4
21431851 CCAAATAAGT
21431861 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AATAA AATAA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AAT-A AAT-A
21431909 AATA AA-A TAATA AATA AA-A AATA AA
1 AATA AATA -AATA AATA AATA AATA AA
21431934 AATAAAAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
3 8 0.13
4 29 0.48
5 23 0.38
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:21431905 original size:31 final size:30
Alignment explanation
Indices: 21431853--21431945 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 30
21431843 ATTAATATCC
21431853 AAATAAGT-AATAAAT-AATAAAATAAAATA
1 AAATAA-TAAATAAATAAATAAAATAAAATA
*
21431882 AAGTAATAAATAAAGTAAATAAAATAAAATA
1 AAATAATAAATAAA-TAAATAAAATAAAATA
21431913 AAATAATAAATAAA-AAATAAAAATAAAA-A
1 AAATAATAAATAAATAAAT-AAAATAAAATA
21431942 AAAT
1 AAAT
21431946 TTGGGTTGCC
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
28 1 0.02
29 20 0.34
30 10 0.17
31 27 0.47
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (30 bp):
AAATAATAAATAAATAAATAAAATAAAATA
Found at i:21439883 original size:15 final size:15
Alignment explanation
Indices: 21439863--21439896 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21439853 TTTATTTTTG
* *
21439863 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
21439878 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
21439893 TTAT
1 TTAT
21439897 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:21441857 original size:19 final size:20
Alignment explanation
Indices: 21441817--21441860 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
21441807 GTTTCTTTTG
* *
21441817 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
21441836 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
21441855 GCATTA
1 GCATTA
21441861 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:21446042 original size:44 final size:44
Alignment explanation
Indices: 21445987--21446118 Score: 125
Period size: 44 Copynumber: 3.0 Consensus size: 44
21445977 AAATTGAAGA
21445987 CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAG
1 CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAG
* * * * *
21446031 CAAATCTTGCCT-TC-CTGCATTGACAGC-GAAG-TAGATCGAAG--A-
1 CAAACCTTGCCTCTCTC-G-TTTG-TAGCAG-AGCT-GGTTGAAGATAG
21446073 CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAG
1 CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAG
21446117 CA
1 CA
21446119 GATCTTATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 24
0.66 0.10 0.24
Matches are distributed among these distances:
41 11 0.17
42 17 0.26
43 8 0.12
44 19 0.29
45 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAG
Found at i:21446228 original size:43 final size:43
Alignment explanation
Indices: 21446181--21446372 Score: 118
Period size: 43 Copynumber: 4.4 Consensus size: 43
21446171 CTCCCTGATT
*
21446181 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
* * * *** * * **
21446224 ACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCTTAAGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTC-TATCTCCCTGGGCA
* * ** * * * * ***
21446268 ATAGTGGAGCAGGTCGAAGAC-AGTGAATTTTACCTCCCT-GATT
1 ACAGTGGAGTACATCGAAG-CTGGT-AGTTCTATCTCCCTGGGCA
*
21446311 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
* *
21446354 ACAGTGGAATAGATCGAAG
1 ACAGTGGAGTACATCGAAG
21446373 ATTACAGATC
Statistics
Matches: 101, Mismatches: 43, Indels: 10
0.66 0.28 0.06
Matches are distributed among these distances:
42 12 0.12
43 54 0.53
44 33 0.33
45 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
Found at i:21446274 original size:44 final size:44
Alignment explanation
Indices: 21446109--21446436 Score: 155
Period size: 44 Copynumber: 7.5 Consensus size: 44
21446099 AGAGCTGGTT
* * *
21446109 GAAGA-TAGCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTC
1 GAAGATTA-CAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
** * * * * ** * *
21446153 GAAGACGACGGATTTTACCTCCCTGA-TTACAGTGGAGTACATT
1 GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
* *** * ** *
21446196 GAAGCTGGTAGTTC-TATCTCCCTGGGCAACAGTGGAATAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
* * * *
21446239 GAAGATTACAGATCTTATCTCCTTAAGCAATAGTGGAGCAGGTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
* ** * * * ** * *
21446283 GAAGA-CAGTGAATTTTACCTCCCTGA-TTACAGTGGAGTACATT
1 GAAGATTACAG-ATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
* *** * ** *
21446326 GAAGCTGGTAGTTC-TATCTCCCTGGGCAACAGTGGAATAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
**
21446369 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
** * *
21446413 GAAGATGGCAGATTTTACCTCCCT
1 GAAGATTACAGATCTTATCTCCCT
21446437 GTGACTACAG
Statistics
Matches: 197, Mismatches: 80, Indels: 14
0.68 0.27 0.05
Matches are distributed among these distances:
42 18 0.09
43 76 0.39
44 102 0.52
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
GAAGATTACAGATCTTATCTCCCTAAGCAACAGTGGAGTAGATC
Found at i:21446342 original size:130 final size:129
Alignment explanation
Indices: 21446109--21446481 Score: 554
Period size: 130 Copynumber: 2.9 Consensus size: 129
21446099 AGAGCTGGTT
21446109 GAAGA-TAGCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGACGG-ATTTTACC
1 GAAGATTA-CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGAC-A-GGAATTTTACC
21446172 TCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGA
63 TCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGA
21446237 TC
128 TC
*
21446239 GAAGATTACAGATCTTATCTCCTTAAGCAATAGTGGAGCAGGTCGAAGACAGTGAATTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACAG-GAATTTTACCTC
21446304 CCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATC
65 CCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATC
* * * *
21446369 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-TGGCAGATTTTACCT
1 GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACAGG-A-ATTTTACCT
* * * * **
21446433 CCCTGTGACTACAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTG
64 CCC--TGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG
21446482 TATTTGGCAG
Statistics
Matches: 224, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
128 2 0.01
129 4 0.02
130 178 0.79
131 2 0.01
132 38 0.17
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (129 bp):
GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACAGGAATTTTACCTCC
CTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATC
Found at i:21446576 original size:134 final size:134
Alignment explanation
Indices: 21446408--21446910 Score: 880
Period size: 134 Copynumber: 3.7 Consensus size: 134
21446398 GTAGTGGAGT
21446408 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAATACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAATACATTGAAGCCGATAACTCT
21446473 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
21446538 AGAAGC
129 CGAAGC
* *
21446544 AGATCGAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACTCTAT
* * * *
21446609 CTCCTTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGGCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
21446674 AAGC
131 AAGC
*
21446678 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAATGGAATACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACTCTAT
* *
21446743 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTATATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
21446808 AAGC
131 AAGC
* *
21446812 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACTCTAT
21446877 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
21446911 CGAAGATGGC
Statistics
Matches: 347, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 320 0.92
136 27 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:21446897 original size:45 final size:45
Alignment explanation
Indices: 21446846--21447005 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 45
21446836 TCCCTGACTA
*
21446846 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * * *
21446891 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGA-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGT-ATTTGG
*
21446943 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
21446988 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
21447006 ATTGCAGATC
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.14
45 33 0.39
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.20
53 12 0.14
54 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:21446922 original size:95 final size:96
Alignment explanation
Indices: 21446812--21447007 Score: 358
Period size: 97 Copynumber: 2.0 Consensus size: 96
21446802 GCAGCGAAGC
21446812 AGATCAAAGATGGCAGATTTTACCTCC-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
21446876 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
21446907 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
21446972 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
21447004 AGAT
1 AGAT
21447008 TGCAGATCTT
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 26 0.27
97 71 0.73
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:21446964 original size:365 final size:357
Alignment explanation
Indices: 21446467--21447522 Score: 1350
Period size: 365 Copynumber: 2.9 Consensus size: 357
21446457 TGAAGCCGAT
* * * * ** * * *
21446467 AACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
1 AACTCTACCTCCCTGTATCTGACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATT
* *
21446532 TGGCAGAGAAGCAGATCGAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGC
66 TGGCAGAAAAGAAGATCGAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGC
* * * *
21446597 CGATAACTCTATCTCCTTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGGCTTCCTG
131 CGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTG
* * *
21446662 TATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAATGGAATACATTG
196 TATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTG
*
21446727 AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTT
261 AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTACC-T
* * * * *
21446792 CC-TATATTTGGCAGCGAAGCAGATCAAAGATGGC
325 CCATATA-CT-ACAGCGAAGCACATCAAAGACGAC
* * * * *
21446826 AGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGTA
1 A-ACTCTACCTCCCTGTATCTGACAGTGGAATACATTGAAGACCGCAGAACT-TACCTCCCTGTA
21446886 TTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAG
64 TTTGGCA---GAA-A-A--GAAGATCGAAGATGGCAGATTTTACCTCC-T-TGACTACAGTGGAG
21446951 TACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATC
120 TACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATC
*
21447016 TTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT
185 TTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT
*
21447081 GGAGTACATTGAAGCCGATAACTCTATCTCCCTATATTTGGCAGTGGAATAGATTGAAGATCAAA
250 GGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA-C---
* * * * * *** * *
21447146 GATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGCAGCCGAT
311 --T-GCAGATCTTACCTCCATAT-ACTACAGCGAAGCACATCAAAGACGAC
* * * * ** * * *
21447197 AACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
1 AACTCTACCTCCCTGTATCTGACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATT
* * * *
21447262 TGGCAGCAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGC
66 TGGCAGAAAAGAAGATCGAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGC
21447327 CGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTG
131 CGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTG
*
21447392 TATTTGGCAGCGAAGCAGATCAAAGATGGCTGATTTTACCTCCCTGACTACAGTGGAGTACATTG
196 TATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTG
* * *
21447457 AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAGTACAGATCTTATCTC
261 AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTACCTC
21447522 C
326 C
21447523 CTAAGCAATA
Statistics
Matches: 606, Mismatches: 66, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
355 4 0.01
356 17 0.03
357 16 0.03
358 13 0.02
359 5 0.01
360 12 0.02
361 1 0.00
363 28 0.05
364 1 0.00
365 396 0.65
366 1 0.00
367 27 0.04
369 1 0.00
370 12 0.02
371 20 0.03
372 14 0.02
373 17 0.03
374 17 0.03
375 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (357 bp):
AACTCTACCTCCCTGTATCTGACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATT
TGGCAGAAAAGAAGATCGAAGATGGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGC
CGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTG
TATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTG
AAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTACCTC
CATATACTACAGCGAAGCACATCAAAGACGAC
Found at i:21446970 original size:231 final size:231
Alignment explanation
Indices: 21446678--21447372 Score: 1295
Period size: 231 Copynumber: 3.0 Consensus size: 231
21446668 GCAGCGAAGC
* * *
21446678 AGATCGAAGATGGCAGATTTTACCTCC--CTGACTACAATGGAATACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
21446741 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTATATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
21446806 CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
131 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
21446871 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
21446907 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
21446972 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
21447037 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
131 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
*
21447102 CTCTATCTCCCTATATTTGGCAGTGGAATAGATTGA
196 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
21447138 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGCAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
21447203 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
21447268 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
131 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
21447333 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
21447369 AGAT
1 AGAT
21447373 TGCAGATCTT
Statistics
Matches: 454, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
229 27 0.06
231 427 0.94
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (231 bp):
AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAA
CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:21447152 original size:95 final size:96
Alignment explanation
Indices: 21447043--21447238 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 96
21447033 GCAGCAAAGC
21447043 AGATCAAAGATGGCAGATTTTACCTCC-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
21447107 TCTCCCTATATTTGGCAGTGGAATAGATTGA
66 TCTCCCTATATTTGGCAGTGGAATAGATTGA
* *
21447138 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGCAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
21447203 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTATATTTGGCAGTGGAATAGATTGA
21447235 AGAT
1 AGAT
21447239 TGCAGATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 27 0.28
97 69 0.72
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTATATTTGGCAGTGGAATAGATTGA
Found at i:21447260 original size:46 final size:46
Alignment explanation
Indices: 21447205--21447524 Score: 169
Period size: 46 Copynumber: 7.1 Consensus size: 46
21447195 ATAACTCTAT
*
21447205 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* ** * ** * *
21447251 CTTCCTGTATTTGGCAG-CAAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
21447297 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
21447339 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * * *
21447385 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCTGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
21447431 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* * *
21447473 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAGTACAGATCTTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
21447519 CTCCCT
1 CTCCCT
21447525 AAGCAATAGT
Statistics
Matches: 189, Mismatches: 69, Indels: 32
0.65 0.24 0.11
Matches are distributed among these distances:
41 5 0.03
42 20 0.11
43 20 0.11
44 7 0.04
45 39 0.21
46 90 0.48
47 8 0.04
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:21447329 original size:134 final size:134
Alignment explanation
Indices: 21447138--21447516 Score: 686
Period size: 134 Copynumber: 2.8 Consensus size: 134
21447128 AATAGATTGA
* *
21447138 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGCAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
21447203 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
21447268 CAAAGC
129 CAAAGC
21447274 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
21447339 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
21447404 AAGC
131 AAGC
*
21447408 AGATCAAAGATGGCTGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
21447473 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAGTACAGATCTT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTT
21447517 ATCTCCCTAA
Statistics
Matches: 237, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
134 210 0.89
136 27 0.11
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
AAGC
Found at i:21449059 original size:2 final size:2
Alignment explanation
Indices: 21449052--21449076 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21449042 TATTTTAAGT
21449052 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21449077 TTATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21449583 original size:22 final size:24
Alignment explanation
Indices: 21449539--21449601 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
21449529 TTTTTATAAT
*
21449539 TTTATTCATTT-CTTTAT-TATTA
1 TTTATTTATTTACTTTATGTATTA
21449561 -TTATTGT-TTTACTTTATGT-TTA
1 TTTATT-TATTTACTTTATGTATTA
21449583 TTTATTTATTTA-TTTATGT
1 TTTATTTATTTACTTTATGT
21449602 GTCCATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTATTTATTTACTTTATGTATTA
Found at i:21449717 original size:15 final size:15
Alignment explanation
Indices: 21449697--21449730 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21449687 TTTATTTTTG
* *
21449697 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
21449712 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
21449727 TTAT
1 TTAT
21449731 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:21450737 original size:15 final size:14
Alignment explanation
Indices: 21450716--21450751 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21450706 ATAATCTTTA
*
21450716 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21450730 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21450745 ATAATTA
1 ATAATTA
21450752 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21452119 original size:5 final size:5
Alignment explanation
Indices: 21452109--21452147 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
21452099 TTGGAGATTG
* *
21452109 GGAGA GGAGA GGAAA AGAGA GGAGA GGAGA GGAGA GGAG
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GGAG
21452148 GAGAGATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:21462669 original size:31 final size:31
Alignment explanation
Indices: 21462632--21462693 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21462622 TTAGCAATGA
21462632 GATTGATTAGAAAACAAAATAATTGAATGGT
1 GATTGATTAGAAAACAAAATAATTGAATGGT
21462663 GATTGATTAGAAAACAAAATAATTGAATGGT
1 GATTGATTAGAAAACAAAATAATTGAATGGT
21462694 TGTTGAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (31 bp):
GATTGATTAGAAAACAAAATAATTGAATGGT
Found at i:21468759 original size:17 final size:19
Alignment explanation
Indices: 21468726--21468760 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
21468716 TAATAGAATA
21468726 GAAAATAGTGTAAATTGAT
1 GAAAATAGTGTAAATTGAT
21468745 GAAAATA-TG-AAATTGA
1 GAAAATAGTGTAAATTGA
21468761 CTTTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (19 bp):
GAAAATAGTGTAAATTGAT
Found at i:21468914 original size:27 final size:28
Alignment explanation
Indices: 21468852--21468915 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
21468842 GATGAAAATA
21468852 GTGTAAATT-GAAATATGCATACTTAAT
1 GTGTAAATTGGAAATATGCATACTTAAT
*
21468879 GTTGT-AATTGGATATATGCATACTT-AT
1 G-TGTAAATTGGAAATATGCATACTTAAT
21468906 GTGTAAATTG
1 GTGTAAATTG
21468916 ATGAAAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
27 13 0.39
28 17 0.52
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (28 bp):
GTGTAAATTGGAAATATGCATACTTAAT
Found at i:21469605 original size:35 final size:35
Alignment explanation
Indices: 21469554--21469644 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
21469544 TCAAAGGTGA
* * *
21469554 CTTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAAC
1 CTTT-AAAAGGTTGGGATAGACACATCTAAGCCAAC
*
21469590 CTTTAAAAGGCTGGGATAGACACATCTAAGCCAAC
1 CTTTAAAAGGTTGGGATAGACACATCTAAGCCAAC
*
21469625 C-TTAAATATGTTGGGATAGA
1 CTTTAAA-AGGTTGGGATAGA
21469645 TAAGTCTAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.10
35 39 0.81
36 4 0.08
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (35 bp):
CTTTAAAAGGTTGGGATAGACACATCTAAGCCAAC
Found at i:21469766 original size:6 final size:6
Alignment explanation
Indices: 21469749--21469778 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
21469739 ATACAACTAA
21469749 AAAATAT AAAATT AAAATT AAAATT AAAAT
1 AAAAT-T AAAATT AAAATT AAAATT AAAAT
21469779 AGAGGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:21472494 original size:37 final size:37
Alignment explanation
Indices: 21472453--21472548 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 37
21472443 TAATGAAAAA
** *
21472453 AGTGTAAGATAATATTTTTTGTATTAAACAAATAGAT
1 AGTGTAAGATAATATTTTGGGTATTAAACAAATAGAG
21472490 AGTGTAA-ATTTAATGAAATTTTGGGTATTAAACAAATAGAG
1 AGTGTAAGA--TAAT---ATTTTGGGTATTAAACAAATAGAG
21472531 AGTGTAAGATAATATTTT
1 AGTGTAAGATAATATTTT
21472549 ATTTAATTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
36 1 0.02
37 12 0.24
38 4 0.08
40 4 0.08
41 28 0.56
42 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.39
Consensus pattern (37 bp):
AGTGTAAGATAATATTTTGGGTATTAAACAAATAGAG
Found at i:21473121 original size:136 final size:136
Alignment explanation
Indices: 21472918--21473169 Score: 398
Period size: 136 Copynumber: 1.9 Consensus size: 136
21472908 AAAAACTGAC
*
21472918 TCTTATTTAAGCATTGCCTTAAGCATACATAACCCAACCCTTATACAAAGAGTTGGCCAAAGAGT
1 TCTTATTTAAACATTGCCTTAAGCATACATAACCCAACCCTTATACAAAGAGTTGGCCAAAGAGT
* * * *
21472983 ATGTTGGTAAGTCTATCCTAACACTTAGGAAAGTTTCGGCCCAAAAGTGTCGGCATTGTGACAAA
66 ATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCACAAAAGTGTCGGCATTGTGACAAA
21473048 TCCAAA
131 TCCAAA
* * * * *
21473054 TCTTATTTAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCTAAA-ACG
1 TCTTATTTAAACATTGCCTTAAGCATACATAACCCAACCCTTATACAAAGAGTTGGCCAAAGA-G
21473118 TATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCACAAAAGTGTC
65 TATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCACAAAAGTGTC
21473170 ATTTTAAGAC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
135 1 0.01
136 104 0.99
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (136 bp):
TCTTATTTAAACATTGCCTTAAGCATACATAACCCAACCCTTATACAAAGAGTTGGCCAAAGAGT
ATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCACAAAAGTGTCGGCATTGTGACAAA
TCCAAA
Found at i:21473977 original size:20 final size:20
Alignment explanation
Indices: 21473948--21474005 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
21473938 GAACAAAGGG
21473948 TAAT-TAAATAATAATATTT
1 TAATATAAATAATAATATTT
21473967 TAATATAAATAATAATATTT
1 TAATATAAATAATAATATTT
21473987 TAATATAAA-AATAA-ATTT
1 TAATATAAATAATAATATTT
21474005 T
1 T
21474006 CCTATTTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.13
19 9 0.24
20 24 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATAAATAATAATATTT
Found at i:21485917 original size:14 final size:14
Alignment explanation
Indices: 21485898--21485925 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21485888 TGTTGTCTTC
21485898 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
21485912 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
21485926 ATAGATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
TGAGCAAGCAAAGT
Found at i:21491547 original size:21 final size:21
Alignment explanation
Indices: 21491518--21491575 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
21491508 AAAAACAGTG
* *
21491518 GTGGTGGTGAGATTAGTTACT
1 GTGGCGGTGAGATTAGGTACT
*
21491539 GTGGCGGTGAGATTGGGTACT
1 GTGGCGGTGAGATTAGGTACT
* * *
21491560 ATAGCGGTGATATTAG
1 GTGGCGGTGAGATTAG
21491576 AAACAATGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.07, G:0.40, T:0.33
Consensus pattern (21 bp):
GTGGCGGTGAGATTAGGTACT
Found at i:21494756 original size:39 final size:39
Alignment explanation
Indices: 21494702--21494779 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
21494692 CATCCCAAAC
21494702 AGCTTTTGTTGCTAAGCTACTATCTCCCTCCACAAAATT
1 AGCTTTTGTTGCTAAGCTACTATCTCCCTCCACAAAATT
21494741 AGCTTTTGTTGCTAAGCTACTATCTCCCTCCACAAAATT
1 AGCTTTTGTTGCTAAGCTACTATCTCCCTCCACAAAATT
21494780 CCGTGTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (39 bp):
AGCTTTTGTTGCTAAGCTACTATCTCCCTCCACAAAATT
Found at i:21497365 original size:12 final size:12
Alignment explanation
Indices: 21497348--21497372 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21497338 TTGCAGGAGA
21497348 TGTTTTCTTATT
1 TGTTTTCTTATT
21497360 TGTTTTCTTATT
1 TGTTTTCTTATT
21497372 T
1 T
21497373 TATCAGGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TGTTTTCTTATT
Found at i:21498495 original size:17 final size:18
Alignment explanation
Indices: 21498447--21498495 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
21498437 TTTTAATTTA
*
21498447 TTAAATAAAA-AATAATT
1 TTAAATAAAATAATTATT
**
21498464 TTAGTTAAAAT-ATTA-T
1 TTAAATAAAATAATTATT
21498480 TTAAATAAAATAATTA
1 TTAAATAAAATAATTA
21498496 AATTCCAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAATAAAATAATTATT
Found at i:21503374 original size:15 final size:14
Alignment explanation
Indices: 21503354--21503384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21503344 TTCCCATTTG
21503354 TTTTGTTTTTTTGTT
1 TTTTGTTTTTTT-TT
21503369 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
21503383 TT
1 TT
21503385 GAGTTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (14 bp):
TTTTGTTTTTTTTT
Found at i:21507037 original size:14 final size:14
Alignment explanation
Indices: 21507018--21507052 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
21507008 ATTTAAAAGT
21507018 TAACTAAATTTTAA
1 TAACTAAATTTTAA
21507032 TAACTAAATTTTAA
1 TAACTAAATTTTAA
21507046 TAA-TAAA
1 TAACTAAA
21507053 CTAACTACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
TAACTAAATTTTAA
Found at i:21519311 original size:32 final size:31
Alignment explanation
Indices: 21519262--21519332 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
21519252 ATCTAATTAT
*
21519262 TTTTTTTATAATATATATATGTATATATCTA
1 TTTTTTTATAATATATATATATATATATCTA
* * *
21519293 TTTTTTTATATATGTATATGTATATATATTTA
1 TTTTTTTATA-ATATATATATATATATATCTA
21519325 TATTTTTT
1 T-TTTTTT
21519333 TCTAACGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 10 0.29
32 18 0.53
33 6 0.18
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (31 bp):
TTTTTTTATAATATATATATATATATATCTA
Found at i:21519324 original size:24 final size:24
Alignment explanation
Indices: 21519275--21519327 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
21519265 TTTTATAATA
* * *
21519275 TATATATGTATATATCTATTTTTT
1 TATATATGTATATATATATATATT
*
21519299 TATATATGTATATGTATATATATT
1 TATATATGTATATATATATATATT
21519323 TATAT
1 TATAT
21519328 TTTTTTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATATGTATATATATATATATT
Found at i:21526811 original size:30 final size:30
Alignment explanation
Indices: 21526777--21526841 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
21526767 ATTTAAAACC
*
21526777 TTTTTT-AGAAATTAAATATATATTTTGAAT
1 TTTTTTGAAAAATTAAATATA-ATTTTGAAT
** *
21526807 TTTTTTGAAAAATTATTTTTAATTTTGAAT
1 TTTTTTGAAAAATTAAATATAATTTTGAAT
21526837 TTTTT
1 TTTTT
21526842 CTATAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (30 bp):
TTTTTTGAAAAATTAAATATAATTTTGAAT
Found at i:21529051 original size:13 final size:13
Alignment explanation
Indices: 21529035--21529097 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
21529025 TTTAAACCAA
*
21529035 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
21529048 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
21529061 ACTTTTCTATAGC
1 ACTTTTCAAAAGC
* *
21529074 AGTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
21529087 ACTTCTCAAAA
1 ACTTTTCAAAA
21529098 ACAATGAAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:21540985 original size:26 final size:27
Alignment explanation
Indices: 21540932--21540987 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
21540922 TTCTTTATTA
21540932 TTATTTTTTACTTGTTTTTCCTTCTTC
1 TTATTTTTTACTTGTTTTTCCTTCTTC
* *
21540959 TTATTTTTCT-CTTTTTTTTTCTT-TTC
1 TTATTTTT-TACTTGTTTTTCCTTCTTC
21540985 TTA
1 TTA
21540988 AGAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 19 0.73
28 1 0.04
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (27 bp):
TTATTTTTTACTTGTTTTTCCTTCTTC
Found at i:21542151 original size:5 final size:5
Alignment explanation
Indices: 21542141--21542213 Score: 89
Period size: 5 Copynumber: 14.6 Consensus size: 5
21542131 TTATTAACAT
*
21542141 AATAA AATAA AATAA AATAA AATAA AA-AA TAA-AA AATAA AA-AA TATATA
1 AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATA-A
21542190 AATAA AATAA AATAAA AATAA AAT
1 AATAA AATAA AAT-AA AATAA AAT
21542214 TAGGTTGCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
4 7 0.11
5 45 0.74
6 9 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:21548122 original size:19 final size:19
Alignment explanation
Indices: 21548098--21548141 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
21548088 TAAAAGCAAT
21548098 ACAACATCAA-CCCAAATAA
1 ACAACAT-AAGCCCAAATAA
*
21548117 ACAACATAAGTCCAAATAA
1 ACAACATAAGCCCAAATAA
21548136 ACAACA
1 ACAACA
21548142 AAAACAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.11
Consensus pattern (19 bp):
ACAACATAAGCCCAAATAA
Found at i:21548335 original size:22 final size:22
Alignment explanation
Indices: 21548310--21548351 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21548300 AAAGTCCAAT
21548310 AAACTAGA-AACAATAACACACC
1 AAACTA-ATAACAATAACACACC
*
21548332 AAACTAATAACAATGACACA
1 AAACTAATAACAATAACACA
21548352 TTAGATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.60, C:0.24, G:0.05, T:0.12
Consensus pattern (22 bp):
AAACTAATAACAATAACACACC
Found at i:21554518 original size:16 final size:16
Alignment explanation
Indices: 21554497--21554528 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21554487 TAAACCTTAA
21554497 ATCCTAAACCCAAACC
1 ATCCTAAACCCAAACC
21554513 ATCCTAAACCCAAACC
1 ATCCTAAACCCAAACC
21554529 GTAAGGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (16 bp):
ATCCTAAACCCAAACC
Found at i:21557539 original size:4 final size:4
Alignment explanation
Indices: 21557530--21557592 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
21557520 ATGTATGCAA
21557530 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
21557578 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
21557593 GAATCGTTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:21557659 original size:25 final size:26
Alignment explanation
Indices: 21557631--21557693 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
21557621 ATACGTGACT
21557631 GCATGCATAGATCCTA-AATAGTGCG
1 GCATGCATAGATCCTATAATAGTGCG
* *
21557656 GCATGCATAGATCCTATAATGGTGCT
1 GCATGCATAGATCCTATAATAGTGCG
*
21557682 ACATGCATAGAT
1 GCATGCATAGAT
21557694 AGTGTTACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 16 0.47
26 18 0.53
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (26 bp):
GCATGCATAGATCCTATAATAGTGCG
Found at i:21563858 original size:2 final size:2
Alignment explanation
Indices: 21563851--21563875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21563841 TGGTCCAAAT
21563851 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21563876 GCTAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21565022 original size:20 final size:20
Alignment explanation
Indices: 21564997--21565039 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
21564987 TATACGTTTT
21564997 TTTAAAAAAT-ATTTTTAAAA
1 TTTAAAAAATGA-TTTTAAAA
*
21565017 TTTAAAATATGATTTTAAAA
1 TTTAAAAAATGATTTTAAAA
21565037 TTT
1 TTT
21565040 CTTAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTAAAAAATGATTTTAAAA
Found at i:21565203 original size:23 final size:22
Alignment explanation
Indices: 21565157--21565207 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
21565147 TGAAACATTA
21565157 TTTTAAAATAATTTTACAAGTT
1 TTTTAAAATAATTTTACAAGTT
* *
21565179 TTATTAAAATATTATTTATAA-TT
1 TT-TTAAAATAAT-TTTACAAGTT
21565202 TTTTAA
1 TTTTAA
21565208 TGAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 13 0.52
24 6 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAAATAATTTTACAAGTT
Found at i:21565644 original size:19 final size:19
Alignment explanation
Indices: 21565616--21565661 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21565606 CATTAAAATC
* *
21565616 TAAGATATAATAATATTTT
1 TAAGAGATAATAATAATTT
21565635 TAAGAGATAATAATAATTT
1 TAAGAGATAATAATAATTT
*
21565654 TAATAGAT
1 TAAGAGAT
21565662 TTATGATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
TAAGAGATAATAATAATTT
Found at i:21566562 original size:12 final size:12
Alignment explanation
Indices: 21566545--21566582 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21566535 TTCTTAAAAC
21566545 TTAAAAGATATT
1 TTAAAAGATATT
21566557 TTAAAAGA-ATAT
1 TTAAAAGATAT-T
*
21566569 TTAAAACATATT
1 TTAAAAGATATT
21566581 TT
1 TT
21566583 TGTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (12 bp):
TTAAAAGATATT
Done.