Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 55 of 378
Found at i:13833311 original size:15 final size:16
Alignment explanation
Indices: 13833291--13833334 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
13833281 CAAATAAAAT
13833291 TAAAAATTAAAA-AGA
1 TAAAAATTAAAATAGA
13833306 TAAAAA--AAAATTAGA
1 TAAAAATTAAAA-TAGA
13833321 TAAAAATTAAAATA
1 TAAAAATTAAAATA
13833335 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
15 15 0.60
16 2 0.08
17 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
TAAAAATTAAAATAGA
Found at i:13835528 original size:18 final size:19
Alignment explanation
Indices: 13835485--13835528 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
13835475 TATGTTTATT
*
13835485 TTATTTAAATTAAAATTTA
1 TTATTTAAATTAAAATGTA
* *
13835504 TTTTTTAAATT-TAATGTA
1 TTATTTAAATTAAAATGTA
13835522 TTATTTA
1 TTATTTA
13835529 TTTTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATTTAAATTAAAATGTA
Found at i:13855921 original size:58 final size:59
Alignment explanation
Indices: 13855823--13855937 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 59
13855813 TCATTGCAAC
**
13855823 AAGTAATTGGAGACCTTACCATTTAACATACACGTAATTTTGTGGGT-TTTTTTTTTAT
1 AAGTAATTGGAGACCTTACCATTTAACATACAAATAATTTTGTGGGTGTTTTTTTTTAT
* *
13855881 AAGTAATTGGATACCTTACCATTTAACATACAAATGATTTTGTGGGTGTTTTTTTTT
1 AAGTAATTGGAGACCTTACCATTTAACATACAAATAATTTTGTGGGTGTTTTTTTTT
13855938 TTTTTTTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 43 0.83
59 9 0.17
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (59 bp):
AAGTAATTGGAGACCTTACCATTTAACATACAAATAATTTTGTGGGTGTTTTTTTTTAT
Found at i:13864342 original size:31 final size:31
Alignment explanation
Indices: 13864307--13864366 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
13864297 CAATCCAGTG
13864307 ACTTAAAT-AAAAGTTTTCA-AATAGTTTAGCT
1 ACTTAAATGAAAA-TTTT-AGAATAGTTTAGCT
13864338 ACTTAAATGAAAATTTTAGAATAGTTTAG
1 ACTTAAATGAAAATTTTAGAATAGTTTAG
13864367 TGACAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 1 0.04
31 22 0.81
32 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (31 bp):
ACTTAAATGAAAATTTTAGAATAGTTTAGCT
Found at i:13872574 original size:144 final size:143
Alignment explanation
Indices: 13872314--13872598 Score: 489
Period size: 144 Copynumber: 2.0 Consensus size: 143
13872304 TTTGTTTACC
*
13872314 AACATTACAAATTTTTATGTGAATGGTCATTAGCAATCCCTTTGGAATGAGGTTCTTCCGCCAAA
1 AACATTACAAATTTTCATGTGAATGGTCATTAGCAATCCCTTTGGAATGAGGTTCTTCCGCCAAA
* *
13872379 GATTAAAGAATTTTTATAAAGATTATTATGTGGTTTTATGGATTGTATTAGTCAGTTTTTAACTC
66 GATTAAAGAATTTTTATAAAGATTATTATGTGGTTTTATGCATTGTATTAGTCAATTTTTAA-TC
13872444 ATGGGGTGAATACT
130 ATGGGGTGAATACT
* * *
13872458 AACATTATAGATTTTCATGTGAATGGTCATTAGCAATCCCTTTGGAATGAGGTTTTTCCGCCAAA
1 AACATTACAAATTTTCATGTGAATGGTCATTAGCAATCCCTTTGGAATGAGGTTCTTCCGCCAAA
* *
13872523 GATTAAAGAATTTTTATAGAGATTATTATGTGGTTTTATGCATTGTATTAGTCAATTTTTGATCA
66 GATTAAAGAATTTTTATAAAGATTATTATGTGGTTTTATGCATTGTATTAGTCAATTTTTAATCA
13872588 TGGGGTGAATA
131 TGGGGTGAATA
13872599 TTGACCCTTA
Statistics
Matches: 133, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
143 14 0.11
144 119 0.89
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (143 bp):
AACATTACAAATTTTCATGTGAATGGTCATTAGCAATCCCTTTGGAATGAGGTTCTTCCGCCAAA
GATTAAAGAATTTTTATAAAGATTATTATGTGGTTTTATGCATTGTATTAGTCAATTTTTAATCA
TGGGGTGAATACT
Found at i:13874337 original size:29 final size:29
Alignment explanation
Indices: 13874304--13874359 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
13874294 TTTGGTCTTT
*
13874304 ATATTTGTATAATGTTATTAATTAGTTTA
1 ATATTTGTATAATGTAATTAATTAGTTTA
* *
13874333 ATATTTTTGTAATGTAATTAATTAGTT
1 ATATTTGTATAATGTAATTAATTAGTT
13874360 AAACTAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (29 bp):
ATATTTGTATAATGTAATTAATTAGTTTA
Found at i:13876352 original size:46 final size:44
Alignment explanation
Indices: 13876248--13876355 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13876238 TGTCTTTGAC
** * * *
13876248 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13876292 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13876338 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13876356 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13878283 original size:29 final size:30
Alignment explanation
Indices: 13878249--13878307 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
13878239 CTTGGTTTGA
13878249 TGTGTAATTTTATACA-AAAATTTTGATTT
1 TGTGTAATTTTATACATAAAATTTTGATTT
*
13878278 TGTGTAATTTTATATATAAAATTTTGATTT
1 TGTGTAATTTTATACATAAAATTTTGATTT
13878308 GATTTTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (30 bp):
TGTGTAATTTTATACATAAAATTTTGATTT
Found at i:13881805 original size:33 final size:34
Alignment explanation
Indices: 13881762--13881830 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
13881752 CCTTTGTACA
13881762 TTATTCAAACTTTAATGAAATAC-TATGATTTTC
1 TTATTCAAACTTTAATGAAATACATATGATTTTC
*
13881795 TTATTTAAACTTTAATGAAATACATATGATTTTC
1 TTATTCAAACTTTAATGAAATACATATGATTTTC
13881829 TT
1 TT
13881831 CTCTTTTGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.65
34 12 0.35
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (34 bp):
TTATTCAAACTTTAATGAAATACATATGATTTTC
Found at i:13884555 original size:42 final size:42
Alignment explanation
Indices: 13884504--13884599 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
13884494 AAGGCCTGAG
* * *
13884504 ACACGGGTGTGTCTAGAGCCGTGTGAGGCACACGGCCTGTTC
1 ACACGGGTGTGTCTAGAACCGAGTGAGGCACACAGCCTGTTC
* * *
13884546 ACATGGGTGTGTTTGGAACCGAGTGAGGCACACAGCCTGTTC
1 ACACGGGTGTGTCTAGAACCGAGTGAGGCACACAGCCTGTTC
13884588 ACACGGGTGTGT
1 ACACGGGTGTGT
13884600 GACCCCTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (42 bp):
ACACGGGTGTGTCTAGAACCGAGTGAGGCACACAGCCTGTTC
Found at i:13887726 original size:13 final size:13
Alignment explanation
Indices: 13887708--13887737 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13887698 AAATCTGTTA
*
13887708 TTTCTATATTTGT
1 TTTCTATATCTGT
13887721 TTTCTATATCTGT
1 TTTCTATATCTGT
13887734 TTTC
1 TTTC
13887738 GGGTGGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTCTATATCTGT
Found at i:13893480 original size:74 final size:74
Alignment explanation
Indices: 13893394--13893535 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 74
13893384 TGGGGGAAAT
* * *
13893394 TACAACTTTACCATTACTAATTTAAAATTTTATAAATTATAAAAG-GCTTAAATTAAAAATTTAT
1 TACAACTTTACCATAACTAATTTAAAATTTTATAAATTATAAAAGATC-TAAATTAAAAATTTAC
13893458 TATTAAAAAC
65 TATTAAAAAC
* *
13893468 TACAATTTTACCATAACTAATTTAAAATTTTATAAATTATAAAAGATCTAAATTGAAAATTTACT
1 TACAACTTTACCATAACTAATTTAAAATTTTATAAATTATAAAAGATCTAAATTAAAAATTTACT
13893533 ATT
66 ATT
13893536 TTAAAGGAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 61 0.98
75 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (74 bp):
TACAACTTTACCATAACTAATTTAAAATTTTATAAATTATAAAAGATCTAAATTAAAAATTTACT
ATTAAAAAC
Found at i:13898985 original size:10 final size:10
Alignment explanation
Indices: 13898970--13899008 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
13898960 ATATAAACTT
13898970 AAAAATTATA
1 AAAAATTATA
*
13898980 AAAAATTCTA
1 AAAAATTATA
* *
13898990 ATATATTATA
1 AAAAATTATA
13899000 AAAAATTAT
1 AAAAATTAT
13899009 CAAATTAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTATA
Found at i:13899015 original size:18 final size:18
Alignment explanation
Indices: 13898953--13899022 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 18
13898943 TATTTTTTAA
* *
13898953 AAAATTGATATAAACTTA-
1 AAAATT-ATAAAAAATTAT
*
13898971 AAAATTATAAAAAATTCT
1 AAAATTATAAAAAATTAT
13898989 AATATATTATAAAAAATTAT
1 AA-A-ATTATAAAAAATTAT
*
13899009 CAAATTAATAAAAA
1 AAAATT-ATAAAAA
13899023 CATATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 8 0.19
18 11 0.26
19 9 0.21
20 15 0.35
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:13904079 original size:19 final size:19
Alignment explanation
Indices: 13904052--13904130 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
13904042 AAAATTCTTA
13904052 AAAACTTATAAAAATCATAT
1 AAAA-TTATAAAAATCATAT
*
13904072 AAAATTATTAAAAT-A-AT
1 AAAATTATAAAAATCATAT
* *
13904089 AAAATTGATATAAA-CTTAT
1 AAAATT-ATAAAAATCATAT
*
13904108 AAAAATTATAAAAAACATA-
1 -AAAATTATAAAAATCATAT
13904127 AAAA
1 AAAA
13904131 CTTGAATTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 8 0.17
18 10 0.21
19 17 0.35
20 13 0.27
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (19 bp):
AAAATTATAAAAATCATAT
Found at i:13904120 original size:8 final size:8
Alignment explanation
Indices: 13904069--13904120 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
13904059 ATAAAAATCA
13904069 TATAAAAT
1 TATAAAAT
13904077 TATTAAAAT
1 TA-TAAAAT
*
13904086 AATAAAAT
1 TATAAAAT
13904094 TGATATAAACT
1 T-ATA-AAA-T
13904105 TATAAAAAT
1 TAT-AAAAT
13904114 TATAAAA
1 TATAAAA
13904121 AACATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 12 0.32
9 14 0.38
10 8 0.22
11 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (8 bp):
TATAAAAT
Found at i:13904121 original size:9 final size:9
Alignment explanation
Indices: 13904029--13904121 Score: 71
Period size: 10 Copynumber: 9.8 Consensus size: 9
13904019 ATTCATAACA
13904029 ATAAAAATAT
1 ATAAAAAT-T
*
13904039 ATTAAAATT
1 ATAAAAATT
*
13904048 CTTAAAAACTT
1 -ATAAAAA-TT
*
13904059 ATAAAAATC
1 ATAAAAATT
13904068 ATATAAAATT
1 ATA-AAAATT
* *
13904078 ATTAAAATA
1 ATAAAAATT
13904087 AT-AAAATT
1 ATAAAAATT
*
13904095 GATATAAACTT
1 -ATA-AAAATT
13904106 ATAAAAATT
1 ATAAAAATT
13904115 ATAAAAA
1 ATAAAAA
13904122 ACATAAAAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
8 5 0.08
9 26 0.39
10 28 0.42
11 7 0.11
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13904131 original size:28 final size:28
Alignment explanation
Indices: 13904050--13904133 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
13904040 TTAAAATTCT
13904050 TAAAAACTTATAAAAATCATATAAAA-TTA
1 TAAAAA-TTATAAAAATCATA-AAAACTTA
* * * * *
13904079 TTAAAATAATAAAATTGATATAAACTTA
1 TAAAAATTATAAAAATCATAAAAACTTA
*
13904107 TAAAAATTATAAAAAACATAAAAACTT
1 TAAAAATTATAAAAATCATAAAAACTT
13904134 GAATTGGACA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
27 3 0.07
28 35 0.81
29 5 0.12
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (28 bp):
TAAAAATTATAAAAATCATAAAAACTTA
Found at i:13904606 original size:27 final size:28
Alignment explanation
Indices: 13904549--13904623 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 28
13904539 TTTATGATTT
13904549 TTTTAATAATTTTTATAAGTTTATATCAA
1 TTTTAAT-ATTTTTATAAGTTTATATCAA
* *
13904578 TTTTAAT-TTTTTATAAGTTTTTGA-GAA
1 TTTTAATATTTTTATAAGTTTAT-ATCAA
13904605 TTTTAATACATTTTTATAA
1 TTTTAAT--ATTTTTATAA
13904624 AATTTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 23 0.57
28 1 0.03
29 7 0.17
30 9 0.22
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTTAATATTTTTATAAGTTTATATCAA
Found at i:13904660 original size:18 final size:18
Alignment explanation
Indices: 13904637--13904727 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 18
13904627 TTTAAATATG
13904637 TTTTATTAATTTTATAAA
1 TTTTATTAATTTTATAAA
* * *
13904655 TTTTATAAAATTTATAAG
1 TTTTATTAATTTTATAAA
* *
13904673 TTTT-TTCATTTTATTATA
1 TTTTATTAATTTTA-TAAA
* *
13904691 TTTTAATAAGTTTATATAA
1 TTTTATTAATTTTATA-AA
* *
13904710 GTTTATTATTTTTA-AAA
1 TTTTATTAATTTTATAAA
13904727 T
1 T
13904728 ATATTTAATT
Statistics
Matches: 53, Mismatches: 17, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
17 8 0.15
18 28 0.53
19 17 0.32
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTATTAATTTTATAAA
Found at i:13906252 original size:15 final size:15
Alignment explanation
Indices: 13906234--13906275 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13906224 ATATAATTTT
13906234 ATAATTTATATAAAA
1 ATAATTTATATAAAA
*
13906249 ATAATTT-TTTAAAA
1 ATAATTTATATAAAA
*
13906263 TTAAATTTATATA
1 AT-AATTTATATA
13906276 TAATTACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTTATATAAAA
Found at i:13917481 original size:28 final size:27
Alignment explanation
Indices: 13917449--13917501 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
13917439 TATTAACCCT
* *
13917449 TATAAAAATACATATATTATATAATAAA
1 TATAAAAATAAACATATTATA-AATAAA
13917477 TATAAAAATAAACATATTATAAATA
1 TATAAAAATAAACATATTATAAATA
13917502 TTATTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (27 bp):
TATAAAAATAAACATATTATAAATAAA
Found at i:13917625 original size:22 final size:24
Alignment explanation
Indices: 13917582--13917625 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13917572 TTTTAACTAT
*
13917582 TATTTTAATATAATAATATAAATA
1 TATTTCAATATAATAATATAAATA
13917606 TATTTCAA-ATAAT-ATATAAA
1 TATTTCAATATAATAATATAAA
13917626 AATGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATTTCAATATAATAATATAAATA
Found at i:13917628 original size:24 final size:24
Alignment explanation
Indices: 13917582--13917628 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13917572 TTTTAACTAT
* *
13917582 TATTTTAATATAATAATATAAATA
1 TATTTCAATATAATAATAAAAATA
13917606 TATTTCAA-ATAATATATAAAAAT
1 TATTTCAATATAATA-ATAAAAAT
13917629 GTTAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATTTCAATATAATAATAAAAATA
Found at i:13921590 original size:2 final size:2
Alignment explanation
Indices: 13921583--13921607 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13921573 ATGATGAACA
13921583 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
13921608 ATATACCATC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13926107 original size:30 final size:30
Alignment explanation
Indices: 13926068--13926128 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13926058 ACTAACAAAG
*
13926068 TGTATGATATATCATCAAATTCTACATTTT
1 TGTAGGATATATCATCAAATTCTACATTTT
13926098 TGTAGGATATATCATCAAATTCTACATTTT
1 TGTAGGATATATCATCAAATTCTACATTTT
13926128 T
1 T
13926129 TGTTTTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (30 bp):
TGTAGGATATATCATCAAATTCTACATTTT
Found at i:13927139 original size:39 final size:39
Alignment explanation
Indices: 13927087--13927164 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13927077 TTGCTCATCA
13927087 AAACCCAAAGTACTAAGCTGTACTTTTTTAGTTTTTTTC
1 AAACCCAAAGTACTAAGCTGTACTTTTTTAGTTTTTTTC
*
13927126 AAACCCAAAGTACTAAGCTTTACTTTTTTAGTTTTTTTC
1 AAACCCAAAGTACTAAGCTGTACTTTTTTAGTTTTTTTC
13927165 TTAGTGACCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (39 bp):
AAACCCAAAGTACTAAGCTGTACTTTTTTAGTTTTTTTC
Found at i:13927997 original size:23 final size:24
Alignment explanation
Indices: 13927966--13928016 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
13927956 TTATGGTTTT
13927966 AAGGCAAAAAAAAAAAGAAAAAAA
1 AAGGCAAAAAAAAAAAGAAAAAAA
* ** *
13927990 AAGG-AAAATAGTAAAGAGAAAAA
1 AAGGCAAAAAAAAAAAGAAAAAAA
13928013 AAGG
1 AAGG
13928017 GTTTCTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (24 bp):
AAGGCAAAAAAAAAAAGAAAAAAA
Found at i:13932569 original size:5 final size:5
Alignment explanation
Indices: 13932559--13932611 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
13932549 AATAATTAAG
13932559 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
13932609 TAT
1 TAT
13932612 TATATATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:13933708 original size:12 final size:12
Alignment explanation
Indices: 13933691--13933715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13933681 CGACTACTGT
13933691 TACTGTTACCGA
1 TACTGTTACCGA
13933703 TACTGTTACCGA
1 TACTGTTACCGA
13933715 T
1 T
13933716 TCGACACTTT
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:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TACTGTTACCGA
Found at i:13933788 original size:45 final size:45
Alignment explanation
Indices: 13933691--13933797 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
13933681 CGACTACTGT
* * *
13933691 TACTGTTACCGATACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCAAA
* *
13933736 TATTGTTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTAAA
1 TACTGTTACCGTTACTGTTACAGATTCGA-CACTTTGTGTGTCAAA
*
13933781 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
13933798 CTACTACTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCAAA
Found at i:13934010 original size:2 final size:2
Alignment explanation
Indices: 13934003--13934036 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13933993 AATAAGAATG
13934003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13934037 CGAATGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13937712 original size:2 final size:2
Alignment explanation
Indices: 13937705--13937735 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13937695 TGAAAAATAC
13937705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13937736 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13937740 original size:2 final size:2
Alignment explanation
Indices: 13937735--13937759 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13937725 ATATATATAT
13937735 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
13937760 ATCCAACCTT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13938785 original size:30 final size:30
Alignment explanation
Indices: 13938746--13938807 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13938736 TGTATGAGTA
* *
13938746 TGGGTAAAATTCAGCCTAACATGGGTATAT
1 TGGGGAAAATTCAGCCCAACATGGGTATAT
*
13938776 TGGGGAAAATTCGGCCCAACATGGGTATAT
1 TGGGGAAAATTCAGCCCAACATGGGTATAT
13938806 TG
1 TG
13938808 AAATTATGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
TGGGGAAAATTCAGCCCAACATGGGTATAT
Found at i:13938832 original size:38 final size:38
Alignment explanation
Indices: 13938776--13938850 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
13938766 ATGGGTATAT
13938776 TGGGGAAAATTCGGCCCAACATGGGTATATTGAAATTA
1 TGGGGAAAATTCGGCCCAACATGGGTATATTGAAATTA
* *
13938814 TGGGTAAAATTTGGCCCAACATGGGTATATTGAAATT
1 TGGGGAAAATTCGGCCCAACATGGGTATATTGAAATT
13938851 TTGCATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (38 bp):
TGGGGAAAATTCGGCCCAACATGGGTATATTGAAATTA
Found at i:13939535 original size:56 final size:56
Alignment explanation
Indices: 13939460--13939603 Score: 207
Period size: 56 Copynumber: 2.6 Consensus size: 56
13939450 ACCTGGAAGT
* *
13939460 ATATGTGATTCCGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATCG
1 ATATGCGACTCCGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATCG
* *
13939516 ATTTGCGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCG
1 ATATGCGACTCCGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATCG
* * ** *
13939572 ATATGTGATTCCGATATGCGTTTACGAGTAAG
1 ATATGCGACTCCGATATATGTGTACGAGTAAG
13939604 GCCCTATCTG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATGCGACTCCGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATCG
Found at i:13943093 original size:39 final size:40
Alignment explanation
Indices: 13942998--13943095 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 40
13942988 TTATCTTAAA
* *
13942998 TTTAAATTTAAATTAAATAA-TACATATTTTATTATAATT
1 TTTAAATTTAAATTAAATAATTACATAGTATATTATAATT
* *
13943037 TTTAAATTT-GATAAAATAATTA-ATAGTATAGTT-TACA-T
1 TTTAAATTTAAATTAAATAATTACATAGTATA-TTATA-ATT
13943075 TTTAAATTTAAATTAAATAAT
1 TTTAAATTTAAATTAAATAAT
13943096 AATGATAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
38 26 0.53
39 23 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (40 bp):
TTTAAATTTAAATTAAATAATTACATAGTATATTATAATT
Found at i:13943709 original size:13 final size:13
Alignment explanation
Indices: 13943683--13943729 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
13943673 ATTTATATAC
* *
13943683 ATAAATATATAAT
1 ATAAATAAAAAAT
13943696 ATAAATAAAAAAT
1 ATAAATAAAAAAT
*
13943709 AAAAATAAAAAA-
1 ATAAATAAAAAAT
13943721 ATAAA-AAAA
1 ATAAATAAAA
13943730 GAGAGCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 22 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
ATAAATAAAAAAT
Found at i:13944313 original size:3 final size:3
Alignment explanation
Indices: 13944305--13944372 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
13944295 TACCTTTTTC
13944305 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13944353 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
13944373 GTATGTTGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13944475 original size:12 final size:13
Alignment explanation
Indices: 13944458--13944565 Score: 61
Period size: 12 Copynumber: 8.5 Consensus size: 13
13944448 CTAATGTGTC
13944458 TATATTATGTAT-
1 TATATTATGTATA
13944470 TATATTATGTATA
1 TATATTATGTATA
*
13944483 TATA-TATATATA
1 TATATTATGTATA
13944495 TAT-TTATAG-AT-
1 TATATTAT-GTATA
* *
13944506 TATATATACTTTAAA
1 TATAT-TA-TGTATA
*
13944521 TAT-TATATCTTATA
1 TATAT-TAT-GTATA
13944535 TACTATTATGTATA
1 TA-TATTATGTATA
*
13944549 T-TTTTA-GTATA
1 TATATTATGTATA
13944560 TATATT
1 TATATT
13944566 TGTGGAGCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
11 9 0.12
12 35 0.46
13 7 0.09
14 17 0.22
15 7 0.09
16 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (13 bp):
TATATTATGTATA
Found at i:13944509 original size:25 final size:25
Alignment explanation
Indices: 13944481--13944564 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
13944471 ATATTATGTA
13944481 TATATATA-TATATATATTTATAGAT
1 TATATATACTATATATATTTATAG-T
* * *
13944506 TATATATACTTTAAATA-TTATATCT
1 TATATATACTATATATATTTATA-GT
* * *
13944531 TATATACTATTATGTATATTTTTAGT
1 TATATA-TACTATATATATTTATAGT
13944557 ATATATAT
1 -TATATAT
13944565 TTGTGGAGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
25 20 0.44
26 15 0.33
27 10 0.22
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TATATATACTATATATATTTATAGT
Found at i:13944518 original size:18 final size:17
Alignment explanation
Indices: 13944489--13944528 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
13944479 TATATATATA
*
13944489 TATATATATTTATAGAT
1 TATATATATTTAAAGAT
*
13944506 TATATATACTTTAAATAT
1 TATATATA-TTTAAAGAT
13944524 TATAT
1 TATAT
13944529 CTTATATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TATATATATTTAAAGAT
Found at i:13944808 original size:15 final size:14
Alignment explanation
Indices: 13944788--13944841 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
13944778 ATTGCTAATG
13944788 TATATGTATATATCA
1 TATATGTATATAT-A
13944803 TATATGT-T-T-TA
1 TATATGTATATATA
*
13944814 TATATATATATATA
1 TATATGTATATATA
13944828 T-TATGTATATATA
1 TATATGTATATATA
13944841 T
1 T
13944842 TTTCAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 14 0.41
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:13944815 original size:24 final size:24
Alignment explanation
Indices: 13944788--13944841 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
13944778 ATTGCTAATG
*
13944788 TATATGTATATATCATA-TATGTTT
1 TATATATATATAT-ATATTATGTTT
*
13944812 TATATATATATATATATTATG-TA
1 TATATATATATATATATTATGTTT
13944835 TATATAT
1 TATATAT
13944842 TTTCAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
TATATATATATATATATTATGTTT
Found at i:13944824 original size:17 final size:17
Alignment explanation
Indices: 13944788--13944841 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
13944778 ATTGCTAATG
13944788 TATATGTATATATCATATA
1 TATAT-TATATAT-ATATA
* *
13944807 TGTTTTATATATATATA
1 TATATTATATATATATA
*
13944824 TATATTATGTATATATA
1 TATATTATATATATATA
13944841 T
1 T
13944842 TTTCAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 20 0.67
18 7 0.23
19 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (17 bp):
TATATTATATATATATA
Found at i:13944850 original size:24 final size:26
Alignment explanation
Indices: 13944821--13944930 Score: 74
Period size: 26 Copynumber: 4.5 Consensus size: 26
13944811 TTATATATAT
13944821 ATATA-TATTATGTATATATATTTTC
1 ATATACTATTATGTATATATATTTTC
*
13944846 A-ATATTATTA-GT-TATAT-TTTT-
1 ATATACTATTATGTATATATATTTTC
* * * * *
13944867 ATATACTATTCTATGTACATATTTCC
1 ATATACTATTATGTATATATATTTTC
*
13944893 ATAT-CATCTTATGTATATATATTCTT-
1 ATATAC-TATTATGTATATATATT-TTC
*
13944919 AAATACTATTAT
1 ATATACTATTAT
13944931 ATGTATATGT
Statistics
Matches: 63, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
21 1 0.02
22 11 0.17
23 6 0.10
24 9 0.14
25 10 0.16
26 24 0.38
27 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (26 bp):
ATATACTATTATGTATATATATTTTC
Found at i:13946045 original size:21 final size:21
Alignment explanation
Indices: 13946016--13946065 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
13946006 TGATAATTAA
*
13946016 AATAATATTTATATTTATGAT
1 AATATTATTTATATTTATGAT
13946037 AATATTATTTATATTTATGAT
1 AATATTATTTATATTTATGAT
*
13946058 AATTTTAT
1 AATATTAT
13946066 ATAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
AATATTATTTATATTTATGAT
Found at i:13946074 original size:21 final size:21
Alignment explanation
Indices: 13946016--13946075 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
13946006 TGATAATTAA
* *
13946016 AATAATATTTATATTTATGAT
1 AATATTATTAATATTTATGAT
*
13946037 AATATTATTTATATTTATGAT
1 AATATTATTAATATTTATGAT
*
13946058 AATTTTATATAAT-TTTAT
1 AATATTAT-TAATATTTAT
13946076 TTTCTTAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AATATTATTAATATTTATGAT
Found at i:13946074 original size:27 final size:27
Alignment explanation
Indices: 13945983--13946075 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
13945973 TAATGATAAA
* *
13945983 AATTTAAATAATATTTATCTTAATGAT
1 AATTTAAATAATATTTATATTTATGAT
*
13946010 AATTAAAATAATATTTATATTTATGAT
1 AATTTAAATAATATTTATATTTATGAT
13946037 AA--T--AT--TATTTATATTTATGAT
1 AATTTAAATAATATTTATATTTATGAT
*
13946058 AATTTTATATAAT-TTTAT
1 AA-TTTAAATAATATTTAT
13946076 TTTCTTAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
21 18 0.33
23 2 0.04
24 1 0.02
26 2 0.04
27 31 0.56
28 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (27 bp):
AATTTAAATAATATTTATATTTATGAT
Found at i:13946126 original size:20 final size:20
Alignment explanation
Indices: 13946103--13946140 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13946093 TTACGTAAAA
13946103 TTTTCAAAATTTATTTAACT
1 TTTTCAAAATTTATTTAACT
*
13946123 TTTTCAAATTTTATTTAA
1 TTTTCAAAATTTATTTAA
13946141 ATGTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAAAATTTATTTAACT
Found at i:13946782 original size:20 final size:20
Alignment explanation
Indices: 13946759--13946799 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13946749 TTTTAATAAT
13946759 AAAATAGGAATTTTTTT-AAA
1 AAAATA-GAATTTTTTTGAAA
*
13946779 AAAATAGATTTTTTTTGAAA
1 AAAATAGAATTTTTTTGAAA
13946799 A
1 A
13946800 CACTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAATAGAATTTTTTTGAAA
Found at i:13946974 original size:7 final size:7
Alignment explanation
Indices: 13946962--13946986 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13946952 ATATAATTAT
13946962 TTTAAAA
1 TTTAAAA
13946969 TTTAAAA
1 TTTAAAA
13946976 TTTAAAA
1 TTTAAAA
13946983 TTTA
1 TTTA
13946987 TATTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:13951646 original size:19 final size:20
Alignment explanation
Indices: 13951610--13951657 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
13951600 ATATGTAATT
*
13951610 TTTTTAATTTTTATAAAT-A
1 TTTTAAATTTTTATAAATAA
13951629 TTTTAAATTTTTGA-AAATAA
1 TTTTAAATTTTT-ATAAATAA
*
13951649 TTTTGAATT
1 TTTTAAATT
13951658 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTAAATTTTTATAAATAA
Found at i:13952144 original size:21 final size:22
Alignment explanation
Indices: 13952092--13952146 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
13952082 AAAAAATTTA
* *
13952092 AAATATTATTTTGTTAAATAAT
1 AAATATTATATTGTTAAACAAT
* **
13952114 AATTGGTATATT-TTAAACAAT
1 AAATATTATATTGTTAAACAAT
13952135 AAATATTATATT
1 AAATATTATATT
13952147 CATTGAAATT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
AAATATTATATTGTTAAACAAT
Found at i:13952601 original size:29 final size:31
Alignment explanation
Indices: 13952545--13952604 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
13952535 AACCTGAAAT
* *
13952545 TTGAAATCTAAAAAGTAGAAGGACTAAATTC
1 TTGAAATCTAAAAAGTACAAAGACTAAATTC
*
13952576 TTGAAAT-TAAAAA-TACAAAGATTAAATTC
1 TTGAAATCTAAAAAGTACAAAGACTAAATTC
13952605 CTAATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 6 0.23
31 7 0.27
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (31 bp):
TTGAAATCTAAAAAGTACAAAGACTAAATTC
Found at i:13952669 original size:18 final size:17
Alignment explanation
Indices: 13952637--13952670 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13952627 ACCTATGGCA
13952637 TATTTTAGCATTTTTTG
1 TATTTTAGCATTTTTTG
*
13952654 TATTTATAGTATTTTTT
1 TATTT-TAGCATTTTTT
13952671 TAAAAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (17 bp):
TATTTTAGCATTTTTTG
Found at i:13953791 original size:11 final size:10
Alignment explanation
Indices: 13953754--13953796 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
13953744 TTTCTAAAAT
13953754 TTTATATTTA
1 TTTATATTTA
13953764 TTTGA-ATTT-
1 TTT-ATATTTA
13953773 TTTATATTTA
1 TTTATATTTA
13953783 TTATATATTTA
1 TT-TATATTTA
13953794 TTT
1 TTT
13953797 CAATTTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 7 0.24
10 10 0.34
11 11 0.38
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATATTTA
Found at i:13957344 original size:15 final size:15
Alignment explanation
Indices: 13957321--13957351 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13957311 CAAATATTAG
*
13957321 CATCTTCTTCTTCTT
1 CATCATCTTCTTCTT
13957336 CATCATCTTCTTCTT
1 CATCATCTTCTTCTT
13957351 C
1 C
13957352 GGCTGTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (15 bp):
CATCATCTTCTTCTT
Found at i:13963549 original size:35 final size:35
Alignment explanation
Indices: 13963482--13963649 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
13963472 TCCTCATTGA
*** *
13963482 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
13963518 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13963558 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13963593 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13963628 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13963650 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13963608 original size:75 final size:73
Alignment explanation
Indices: 13963477--13963649 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
13963467 GGTTTTCCTC
*** * * **
13963477 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
13963542 TCAGTATGG
65 TCAGTATGG
*
13963551 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
13963615 ACTCAGTATGG
63 ACTCAGTATGG
13963626 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13963650 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13971046 original size:35 final size:35
Alignment explanation
Indices: 13970981--13971146 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13970971 TCCTCATTGA
** *
13970981 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13971015 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13971055 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13971090 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13971125 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13971147 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13971105 original size:75 final size:72
Alignment explanation
Indices: 13970976--13971148 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
13970966 GGTTTTCCTC
* * * **
13970976 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
13971040 CAGTATGG
65 CAGTATGG
13971048 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
13971112 ACTCAGTATGG
62 ACTCAGTATGG
13971123 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
13971149 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:13981338 original size:75 final size:73
Alignment explanation
Indices: 13981250--13981421 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
13981240 GGTTTTCCTC
*** * * **
13981250 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13981314 TCAGTATGG
65 TCAGTATGG
*
13981323 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13981388 CTCAGTATGG
64 CTCAGTATGG
13981398 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13981422 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13981419 original size:35 final size:35
Alignment explanation
Indices: 13981255--13981421 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13981245 TCCTCATTGA
*** *
13981255 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13981290 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13981330 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13981365 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13981400 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13981422 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13988834 original size:75 final size:73
Alignment explanation
Indices: 13988746--13988917 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
13988736 GGTTTTCCTC
*** * * **
13988746 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13988810 TCAGTATGG
65 TCAGTATGG
*
13988819 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13988884 CTCAGTATGG
64 CTCAGTATGG
13988894 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13988918 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13988915 original size:35 final size:35
Alignment explanation
Indices: 13988751--13988917 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13988741 TCCTCATTGA
*** *
13988751 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13988786 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13988826 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13988861 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13988896 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13988918 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13998299 original size:5 final size:5
Alignment explanation
Indices: 13998262--13998295 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13998252 TTCATATTCA
* *
13998262 AACAC AACAC AACAC AACAC AACAT AACAT AACA
1 AACAC AACAC AACAC AACAC AACAC AACAC AACA
13998296 TAACCATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (5 bp):
AACAC
Found at i:14003179 original size:9 final size:9
Alignment explanation
Indices: 14003165--14003192 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14003155 TGAGACTGGG
14003165 GGTGTAAGT
1 GGTGTAAGT
14003174 GGTGTAAGT
1 GGTGTAAGT
14003183 GGTGTAAGT
1 GGTGTAAGT
14003192 G
1 G
14003193 AAGGAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (9 bp):
GGTGTAAGT
Found at i:14007189 original size:25 final size:25
Alignment explanation
Indices: 14007161--14007280 Score: 132
Period size: 25 Copynumber: 4.7 Consensus size: 25
14007151 TTGTACATGT
14007161 ATGCTCACACGAGCTGTAAATCAGA
1 ATGCTCACACGAGCTGTAAATCAGA
* *
14007186 ATGCTCACATGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTAAATCAGA
* *
14007211 ATGCTCACACGAGCTGTGAATTAGA
1 ATGCTCACACGAGCTGTAAATCAGA
* * ** *
14007236 ATGCTTACATGAGCTGTGAAAATGGGT
1 ATGCTCACACGAGCTGT--AAATCAGA
*
14007263 CTGCTCACACGAGCTGTA
1 ATGCTCACACGAGCTGTA
14007281 GGTCGAAACG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
25 62 0.77
27 18 0.22
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTAAATCAGA
Found at i:14007237 original size:50 final size:50
Alignment explanation
Indices: 14007161--14007255 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
14007151 TTGTACATGT
14007161 ATGCTCACACGAGCTGTAAATCAGAATGCTCACATGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTAAATCAGAATGCTCACATGAGCTGTGAATCAGA
* * *
14007211 ATGCTCACACGAGCTGTGAATTAGAATGCTTACATGAGCTGTGAA
1 ATGCTCACACGAGCTGTAAATCAGAATGCTCACATGAGCTGTGAA
14007256 AATGGGTCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (50 bp):
ATGCTCACACGAGCTGTAAATCAGAATGCTCACATGAGCTGTGAATCAGA
Found at i:14009685 original size:38 final size:38
Alignment explanation
Indices: 14009641--14009716 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
14009631 ATTATGTCAC
* *
14009641 CCTATCTCTAGGCATGCAATCAATTCTGCTTAATTATG
1 CCTATCTCTAGGCATGCAATCAACTCCGCTTAATTATG
*
14009679 CCTATCTCTAGGCATGCAATTAACTCCGCTTAATTATG
1 CCTATCTCTAGGCATGCAATCAACTCCGCTTAATTATG
14009717 TTAGATCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (38 bp):
CCTATCTCTAGGCATGCAATCAACTCCGCTTAATTATG
Found at i:14022936 original size:17 final size:16
Alignment explanation
Indices: 14022906--14022940 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14022896 TAAAATTGGG
*
14022906 TTGAAAATTTATTTAA
1 TTGAAAATTAATTTAA
14022922 TTGAGAAATTAATTTAA
1 TTGA-AAATTAATTTAA
14022939 TT
1 TT
14022941 AATTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (16 bp):
TTGAAAATTAATTTAA
Found at i:14022946 original size:13 final size:13
Alignment explanation
Indices: 14022928--14022961 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14022918 TTAATTGAGA
*
14022928 AATTAATTTAATT
1 AATTAAATTAATT
14022941 AATTAAATTAATT
1 AATTAAATTAATT
*
14022954 AAGTAAAT
1 AATTAAAT
14022962 AATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AATTAAATTAATT
Found at i:14028055 original size:29 final size:29
Alignment explanation
Indices: 14028009--14028067 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
14027999 AAATTGAATC
*
14028009 AAATCAAAACGTTATATATAAAATTGCACA
1 AAATCAAAAC-TTATATATAAAATTACACA
*
14028039 AAATCAAAA-TTCATATATAACATTACACA
1 AAATCAAAACTT-ATATATAAAATTACACA
14028068 TTGAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.08
29 15 0.58
30 9 0.35
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.27
Consensus pattern (29 bp):
AAATCAAAACTTATATATAAAATTACACA
Found at i:14028452 original size:2 final size:2
Alignment explanation
Indices: 14028445--14028474 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14028435 GAGTGATACA
14028445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14028475 TTGTTTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14029829 original size:2 final size:2
Alignment explanation
Indices: 14029822--14029903 Score: 68
Period size: 2 Copynumber: 42.5 Consensus size: 2
14029812 AAAACAATGA
14029822 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT GAT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * *
14029861 AG AGT AT GT -T CGT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14029903 A
1 A
14029904 AATAGTAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
1 6 0.09
2 58 0.85
3 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14030572 original size:3 final size:3
Alignment explanation
Indices: 14030545--14030628 Score: 56
Period size: 3 Copynumber: 29.3 Consensus size: 3
14030535 AGCTAGAACA
* * *
14030545 AAT ACT AAT AAT AGT AAA AACT AAT AAT -AT AAT -AT AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
14030587 AAT AA- AGAT AA- AGA- AAT AAT AGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14030629 GAAAATATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 11 0.17
3 50 0.78
4 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14030623 original size:26 final size:24
Alignment explanation
Indices: 14030551--14030623 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 24
14030541 AACAAATACT
*
14030551 AATAATAGTAAAAACTAATAATATAA
1 AATAATAGT-AAAA-TAATAATAAAA
*
14030577 TATAATA-TAAAATAA-AGATAAAGA
1 AATAATAGTAAAATAATA-ATAAA-A
14030601 AATAATAGTAATAATAATAATAA
1 AATAATAGTAA-AATAATAATAA
14030624 TAATAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 1 0.03
23 7 0.18
24 11 0.28
25 4 0.10
26 15 0.38
27 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.27
Consensus pattern (24 bp):
AATAATAGTAAAATAATAATAAAA
Found at i:14032695 original size:75 final size:76
Alignment explanation
Indices: 14032538--14033055 Score: 275
Period size: 89 Copynumber: 6.6 Consensus size: 76
14032528 CATGTAACCA
* *
14032538 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTAAAAAACAGAAACTAAAAATACCTCA
* *
14032603 GCGTGTGACCCG
65 ACGTATGACCCG
* **
14032615 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACATCAACT-AAAATACCTCAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTAAAAAACAGAAACTAAAAATACCTCAA
14032679 CGTATGACCCG
66 CGTATGACCCG
* * * * * * * *
14032690 AGGCTCAGCTCACCTCTAACAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAACAGACAT
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTAAAAAACAGAAACT--AAAA-ATAC-C
* *
14032754 TGAAAATACCTCAGCGTG-CCCTG
62 T---CA-ACGT-A---TGACCC-G
* * * *
14032777 AGGCTCAACTCACCTC-ACGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAC
1 AGGCTCAACTCACCTCTA-GCAATATGAGTTGA-TTTTTTAAAAAACAGAAACT-AAAA--ATAC
* * *
14032841 ATTGAAAATACCTCAGCGTG-CCCTG
61 -CT---CA-ACGT-A---TGACCC-G
* * * * * * *
14032866 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTGAAAAGCGGACATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTT-TAAAAAACAGAAACTAAAAATACCTCA
*
14032931 GCG--TG-CCCTG
65 ACGTATGACCC-G
* * * * * * * *
14032941 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACTGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTAAAAAACAGAAACTAAAAATACCTCAA
* **
14033005 CG--TGTCTTG
66 CGTATGACCCG
* *
14033014 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTAAAA
14033056 TAGAAATAAA
Statistics
Matches: 377, Mismatches: 42, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
73 60 0.16
74 27 0.07
75 88 0.23
76 17 0.05
77 34 0.09
78 3 0.01
79 1 0.00
81 1 0.00
82 2 0.01
83 3 0.01
84 1 0.00
85 1 0.00
86 7 0.02
87 30 0.08
88 12 0.03
89 90 0.24
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTAAAAAACAGAAACTAAAAATACCTCAA
CGTATGACCCG
Found at i:14032744 original size:14 final size:14
Alignment explanation
Indices: 14032725--14032759 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14032715 GAATTGATTT
*
14032725 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
14032739 TTGAAAAACAGACA
1 TTGAAAAACAGAAA
14032753 TTGAAAA
1 TTGAAAA
14032760 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:14032831 original size:89 final size:89
Alignment explanation
Indices: 14032667--14032923 Score: 351
Period size: 89 Copynumber: 2.9 Consensus size: 89
14032657 AACATCAACT
* * * *
14032667 AAAATACCTCAACGTATGACCC-GAGGCTCAGCTCACCTCTA-ACAATATGAATTGA--TTTTTG
1 AAAATACCTCAGCG--TG-CCCTGAGGCTCAACTCACCTC-ACGCAATATGAGTTGATTTTTTTG
* *
14032728 AAAAACATAAATTGAAAAACAGACATTG
62 AAAAGCAGAAATTGAAAAACAGACATTG
14032756 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTTGAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTTGAAAA
*
14032821 GCAGAAATTGAAAAGCAGACATTG
66 GCAGAAATTGAAAAACAGACATTG
* *
14032845 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTGAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTTGAAAA
* *
14032910 GCGGACATTGAAAA
66 GCAGAAATTGAAAA
14032924 TACCTCAGCG
Statistics
Matches: 153, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
86 4 0.03
87 30 0.20
89 119 0.78
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (89 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACGCAATATGAGTTGATTTTTTTGAAAA
GCAGAAATTGAAAAACAGACATTG
Found at i:14032833 original size:14 final size:14
Alignment explanation
Indices: 14032814--14032848 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
14032804 GTTGATTTTT
14032814 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
14032828 TTGAAAAGCAGACA
1 TTGAAAAGCAGAAA
14032842 TTGAAAA
1 TTGAAAA
14032849 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:14033035 original size:73 final size:73
Alignment explanation
Indices: 14032828--14033055 Score: 359
Period size: 75 Copynumber: 3.1 Consensus size: 73
14032818 AAAGCAGAAA
* *
14032828 TTGAAAAGCAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
14032893 GTTGATTTT
66 GTTGA-TTT
*
14032902 TGTGAAAAGCGGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 T-TGAAAAGCGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
14032967 AGTTGATTT
65 AGTTGATTT
* * * *
14032976 TTGACAAA-CTGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAAGCGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
14033040 AGTTGATTT
65 AGTTGATTT
14033049 TTGAAAA
1 TTGAAAA
14033056 TAGAAATAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
72 3 0.02
73 67 0.46
74 8 0.05
75 68 0.47
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (73 bp):
TTGAAAAGCGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:14048053 original size:2 final size:2
Alignment explanation
Indices: 14048046--14048082 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14048036 TATGTTCGTA
14048046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14048083 AATAGTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14048191 original size:22 final size:22
Alignment explanation
Indices: 14048044--14048191 Score: 53
Period size: 20 Copynumber: 6.7 Consensus size: 22
14048034 AGTATGTTCG
*
14048044 TAATATATATAT-ATATATATA
1 TAATATATATATAATATATACA
*
14048065 T-ATATATATAT-ATATATAAA
1 TAATATATATATAATATATACA
* * * * *
14048085 TAGTA-ATAGTGTTAGAAATACA
1 TAATATATA-TATAATATATACA
*
14048107 CT-ATATAGTATTTGAAGTATATACA
1 -TAATATA-TATAT-AA-TATATACA
* *
14048132 TAAGATAGTA-AAAATATATAACTA
1 TAATATA-TATATAATATAT-AC-A
*
14048156 GTAATGT-TA-A-AATATATACA
1 -TAATATATATATAATATATACA
14048176 TAATATATATATAATA
1 TAATATATATATAATA
14048192 AATATTGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
19 5 0.05
20 25 0.26
21 8 0.08
22 24 0.25
23 11 0.12
24 5 0.05
25 17 0.18
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATATATATATAATATATACA
Found at i:14048216 original size:27 final size:25
Alignment explanation
Indices: 14048177--14048252 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
14048167 ATATATACAT
*
14048177 AATATATATATAATAAATATTGAAA
1 AATATATACATAATAAATATTGAAA
* * *
14048202 AATGTATGTACATAACATATA-TGAAA
1 AA--TATATACATAATAAATATTGAAA
*
14048228 AATATATACATAAT-AATATTTAAA
1 AATATATACATAATAAATATTGAAA
14048252 A
1 A
14048253 TAAAATAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
23 3 0.08
24 15 0.38
25 2 0.05
26 7 0.17
27 13 0.32
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (25 bp):
AATATATACATAATAAATATTGAAA
Found at i:14048755 original size:3 final size:3
Alignment explanation
Indices: 14048728--14048811 Score: 56
Period size: 3 Copynumber: 29.3 Consensus size: 3
14048718 AGCTAGAACA
* * *
14048728 AAT ACT AAT AAT AGT AAA AACT AAT AAT -AT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
14048771 -AT AA- AGAT AA- AGA- AAT AAT AGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14048812 GAAAATATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 11 0.17
3 50 0.78
4 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:14054920 original size:24 final size:24
Alignment explanation
Indices: 14054888--14054935 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14054878 TATTAGCATG
14054888 AGTATTATTGTCAATGTAGGAATA
1 AGTATTATTGTCAATGTAGGAATA
*
14054912 AGTATTATTGTTAATGTAGGAATA
1 AGTATTATTGTCAATGTAGGAATA
14054936 CGTAAGTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.40
Consensus pattern (24 bp):
AGTATTATTGTCAATGTAGGAATA
Found at i:14056816 original size:31 final size:34
Alignment explanation
Indices: 14056771--14056842 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
14056761 CATCATTGGA
*
14056771 TATTATTATAGG-A-TATTA-TAAAATACATTGT
1 TATTATCATAGGAATTATTAGTAAAATACATTGT
*
14056802 TATTATCATTGGATATTATTAGTAAAATACATTGT
1 TATTATCATAGGA-ATTATTAGTAAAATACATTGT
14056837 TATTAT
1 TATTAT
14056843 AAAACATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 10 0.29
33 1 0.03
34 5 0.14
35 19 0.54
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (34 bp):
TATTATCATAGGAATTATTAGTAAAATACATTGT
Found at i:14058277 original size:30 final size:28
Alignment explanation
Indices: 14058226--14058283 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 28
14058216 TTAAAAACTG
14058226 GTAAAAAAAAATTTTGAGCCC-TTAAAA
1 GTAAAAAAAAATTTTGAGCCCTTTAAAA
*
14058253 GTAAAAAAAATATTTTTAGGGCCCTTTAAAA
1 GTAAAAAAAA-A-TTTT-GAGCCCTTTAAAA
14058284 ATTGGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.38
28 1 0.04
29 4 0.15
30 5 0.19
31 6 0.23
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (28 bp):
GTAAAAAAAAATTTTGAGCCCTTTAAAA
Found at i:14061963 original size:19 final size:19
Alignment explanation
Indices: 14061926--14061963 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14061916 CATACTACAC
**
14061926 AATATTTATTATTGTAATA
1 AATATTTATTATTAAAATA
14061945 AATATTTATTATTAAAATA
1 AATATTTATTATTAAAATA
14061964 TTAATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
AATATTTATTATTAAAATA
Found at i:14062029 original size:16 final size:16
Alignment explanation
Indices: 14061998--14062034 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14061988 ATGTGAATAA
14061998 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
14062014 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
14062030 TATTA
1 TATTA
14062035 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:14063096 original size:20 final size:19
Alignment explanation
Indices: 14063054--14063098 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
14063044 TACACTCTTC
*
14063054 TAATTTTATAAGTAATATT
1 TAATTTTATAAGTAATATA
14063073 TAATTTTCATAAGT-ATACTA
1 TAATTTT-ATAAGTAATA-TA
14063093 TAATTT
1 TAATTT
14063099 AATTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
TAATTTTATAAGTAATATA
Found at i:14076988 original size:11 final size:11
Alignment explanation
Indices: 14076974--14077013 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
14076964 TATTTTCTCT
14076974 CTATTTTGCTA
1 CTATTTTGCTA
*
14076985 CTATTTTACTA
1 CTATTTTGCTA
*
14076996 CTATATTGCTA
1 CTATTTTGCTA
14077007 CTATTTT
1 CTATTTT
14077014 ATTGTTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:14077267 original size:12 final size:12
Alignment explanation
Indices: 14077237--14077269 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14077227 TATATATTTT
14077237 AAAATT-ATATA
1 AAAATTAATATA
14077248 AAAA-TAATATA
1 AAAATTAATATA
14077259 AAAATTAATAT
1 AAAATTAATAT
14077270 GGGTGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:14080645 original size:14 final size:15
Alignment explanation
Indices: 14080626--14080655 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14080616 GGATTTTGGG
14080626 AATTTT-GGGTTTTA
1 AATTTTAGGGTTTTA
14080640 AATTTTAGGGTTTTA
1 AATTTTAGGGTTTTA
14080655 A
1 A
14080656 GAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
AATTTTAGGGTTTTA
Found at i:14080777 original size:95 final size:97
Alignment explanation
Indices: 14080643--14080848 Score: 242
Period size: 95 Copynumber: 2.1 Consensus size: 97
14080633 GGTTTTAAAT
* * * ** *
14080643 TTTAGGG-TTTTAAGAAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAG--GAAAAATAAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
14080707 CT-AA-TTTT-AAAAAATTAGATTATGG-TTTAGTG
64 -TAAATTTTTAAAAAAATTAGATTA-GGATTTAGGG
* *
14080739 TTTATGGTTTTTAAGGAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
1 TTTAGGGTTTTTAAGGAAAAATAAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATA
14080804 AATTTTTAAAAAAAATTAGATTAGGATTTTAGGG
66 AATTTTT-AAAAAAATTAGATTAGGA-TTTAGGG
14080838 TTTAGGGTTTT
1 TTTAGGGTTTT
14080849 AGGGTATTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
94 1 0.01
95 43 0.46
96 10 0.11
97 9 0.10
98 14 0.15
99 16 0.17
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGGAAAAATAAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATA
AATTTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:14080848 original size:15 final size:15
Alignment explanation
Indices: 14080824--14080853 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14080814 AAAAATTAGA
14080824 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
14080839 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
14080854 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:14081293 original size:126 final size:126
Alignment explanation
Indices: 14080929--14081466 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
14080919 AAAAGCTTCT
* * * *
14080929 ACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAATACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
*
14080994 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTAAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
14081055 ACGTGGACGCTCTTTTGCTACAATAGTATCTG-AAAAATAATTTTGAGAAGACGTGACTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
* *
14081119 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
14081180 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCGTAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
* * *
14081245 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * **
14081306 ACGTGGATGCTCTTTTGCTATAGTGGTCTCTGAAAAAATAATTTTGAAAAGACATGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
* *
14081371 ATAGTGTCAAAAACGCTTCAAGCAAGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
14081432 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAA
14081467 TAACTTGGGC
Statistics
Matches: 379, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
125 118 0.31
126 259 0.68
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:14088733 original size:30 final size:30
Alignment explanation
Indices: 14088676--14088741 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
14088666 GTTGAACTAT
*
14088676 TGGGCCCGGTGACTGTGTAGGTCCTGTT-A
1 TGGGCCCGGTGACTGTGTAGGGCCTGTTGA
* *
14088705 CTGGGCCGGGTGATTGTGT-GGGCGCTGTTGA
1 -TGGGCCCGGTGACTGTGTAGGGC-CTGTTGA
14088736 TGGGCC
1 TGGGCC
14088742 TGCATTCTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 27 0.87
31 1 0.03
ACGTcount: A:0.08, C:0.20, G:0.44, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTAGGGCCTGTTGA
Found at i:14089250 original size:7 final size:7
Alignment explanation
Indices: 14089238--14089271 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14089228 AGTTAAATAA
14089238 AAATACT
1 AAATACT
14089245 AAATACT
1 AAATACT
14089252 AAATACT
1 AAATACT
14089259 AAATACT
1 AAATACT
14089266 AAATAC
1 AAATAC
14089272 GAATCCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:14090388 original size:15 final size:15
Alignment explanation
Indices: 14090365--14090400 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14090355 AAATTTTTTT
14090365 ATTTA-AAAAAATAA
1 ATTTAGAAAAAATAA
14090379 ATTTAGAAAAAATAA
1 ATTTAGAAAAAATAA
*
14090394 AATTAGA
1 ATTTAGA
14090401 GCTTTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
ATTTAGAAAAAATAA
Found at i:14090439 original size:22 final size:22
Alignment explanation
Indices: 14090427--14090476 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
14090417 TAACGAGAGT
14090427 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
14090449 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
14090469 TTTGAGAG
1 TTTGAGAG
14090477 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:14090450 original size:11 final size:11
Alignment explanation
Indices: 14090427--14090478 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
14090417 TAACGAGAGT
*
14090427 TTTGAGAGGAA
1 TTTGAGAGAAA
*
14090438 TTTAAGAGAAA
1 TTTGAGAGAAA
14090449 TTTGAGAG--A
1 TTTGAGAGAAA
14090458 TTTGAGAGAAA
1 TTTGAGAGAAA
14090469 TTTGAGAGAA
1 TTTGAGAGAA
14090479 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:14090490 original size:31 final size:31
Alignment explanation
Indices: 14090427--14090490 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
14090417 TAACGAGAGT
* *
14090427 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
14090458 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
14090489 TT
1 TT
14090491 GTAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:14090701 original size:40 final size:40
Alignment explanation
Indices: 14090657--14090743 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
14090647 ACGTGGACAG
14090657 AAAGCGCGCCCTCAAAGAAGCGTTTTCTGTCCACGTAGGC
1 AAAGCGCGCCCTCAAAGAAGCGTTTTCTGTCCACGTAGGC
** ** *
14090697 AAAGCGCTTCCTTGAGGAAGCGTTTTCTGTCCACGTAGGC
1 AAAGCGCGCCCTCAAAGAAGCGTTTTCTGTCCACGTAGGC
14090737 AAAGCGC
1 AAAGCGC
14090744 TTCCTTGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (40 bp):
AAAGCGCGCCCTCAAAGAAGCGTTTTCTGTCCACGTAGGC
Found at i:14090744 original size:40 final size:40
Alignment explanation
Indices: 14090673--14090763 Score: 182
Period size: 40 Copynumber: 2.3 Consensus size: 40
14090663 CGCCCTCAAA
14090673 GAAGCGTTTTCTGTCCACGTAGGCAAAGCGCTTCCTTGAG
1 GAAGCGTTTTCTGTCCACGTAGGCAAAGCGCTTCCTTGAG
14090713 GAAGCGTTTTCTGTCCACGTAGGCAAAGCGCTTCCTTGAG
1 GAAGCGTTTTCTGTCCACGTAGGCAAAGCGCTTCCTTGAG
14090753 GAAGCGTTTTC
1 GAAGCGTTTTC
14090764 CTGCTTTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (40 bp):
GAAGCGTTTTCTGTCCACGTAGGCAAAGCGCTTCCTTGAG
Found at i:14098361 original size:116 final size:116
Alignment explanation
Indices: 14098157--14098390 Score: 441
Period size: 116 Copynumber: 2.0 Consensus size: 116
14098147 AGTAACTTAA
14098157 GGAAAAGTTCTTAAGGTGGCTACACGCAACACATGTATAAAACAGAAAAGTTCTTTGCAGATGTT
1 GGAAAAGTTCTTAAGGTGGCTACACGCAACACATGTATAAAACAGAAAAGTTCTTTGCAGATGTT
*
14098222 ACTTATTTTTTATTTAGCATCTCCTCTTTAAACCACCCAAAAACTTGGAGG
66 ACTTATTTTTTATTTAGCATCTCCTCTTTAAACCACCCAAAAACATGGAGG
* *
14098273 GGAAAAGTTCTTAAGGTGGCTACACGCAACATATGTATAAAACAGAAAAGTTCTTTGTAGATGTT
1 GGAAAAGTTCTTAAGGTGGCTACACGCAACACATGTATAAAACAGAAAAGTTCTTTGCAGATGTT
14098338 ACTTATTTTTTATTTAGCATCTCCTCTTTAAACCACCCAAAAACATGGAGG
66 ACTTATTTTTTATTTAGCATCTCCTCTTTAAACCACCCAAAAACATGGAGG
14098389 GG
1 GG
14098391 GGATCCTATT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (116 bp):
GGAAAAGTTCTTAAGGTGGCTACACGCAACACATGTATAAAACAGAAAAGTTCTTTGCAGATGTT
ACTTATTTTTTATTTAGCATCTCCTCTTTAAACCACCCAAAAACATGGAGG
Found at i:14098687 original size:39 final size:39
Alignment explanation
Indices: 14098633--14098713 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
14098623 TAGTAGTAAC
14098633 TTAGTTCATTCTAACTCCAATAACTAAATGATTGACAAT
1 TTAGTTCATTCTAACTCCAATAACTAAATGATTGACAAT
14098672 TTAGTTCATTCTAACTCCAATAACTAAATGATTGACAAT
1 TTAGTTCATTCTAACTCCAATAACTAAATGATTGACAAT
14098711 TTA
1 TTA
14098714 ACTGTTCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (39 bp):
TTAGTTCATTCTAACTCCAATAACTAAATGATTGACAAT
Found at i:14101171 original size:73 final size:73
Alignment explanation
Indices: 14101043--14101188 Score: 229
Period size: 73 Copynumber: 2.0 Consensus size: 73
14101033 GCATCCCTAG
*
14101043 AATTAGTCTGTTTCCTAGTATAAAGTTTCCTAAGTTAGGCTCACTAAGTACATAAATATTAATGT
1 AATTAGTCTATTTCCTAGTATAAAGTTTCCTAAGTTAGGCTCACTAAGTACATAAATATTAATGT
*
14101108 ACTTTCTT
66 AATTTCTT
* * ** *
14101116 AATTAGTCTATTTCCTAGTATAGAGTTTCCTAAGTTAGGCTCACTATGTGTATAAATATTTATGT
1 AATTAGTCTATTTCCTAGTATAAAGTTTCCTAAGTTAGGCTCACTAAGTACATAAATATTAATGT
14101181 AATTTCTT
66 AATTTCTT
14101189 GTGAATATAC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (73 bp):
AATTAGTCTATTTCCTAGTATAAAGTTTCCTAAGTTAGGCTCACTAAGTACATAAATATTAATGT
AATTTCTT
Found at i:14102937 original size:33 final size:33
Alignment explanation
Indices: 14102891--14102956 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
14102881 TTTTTTCTTG
* *
14102891 ACATTCCAGCTCCTGT-TCAGCAACCAAACACTC
1 ACATTCCAACTCCTATCT-AGCAACCAAACACTC
*
14102924 ACATTCTAACTCCTATCTAGCAACCAAACACTC
1 ACATTCCAACTCCTATCTAGCAACCAAACACTC
14102957 CCACTCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.38, G:0.06, T:0.23
Consensus pattern (33 bp):
ACATTCCAACTCCTATCTAGCAACCAAACACTC
Found at i:14113725 original size:24 final size:24
Alignment explanation
Indices: 14113666--14113727 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
14113656 TATTTTAATA
14113666 TATAAAATATAAAT-TTAAATATT
1 TATAAAATATAAATATTAAATATT
* *
14113689 TTTAAACA-ATAAATATTAATTATT
1 TATAAA-ATATAAATATTAAATATT
*
14113713 TATAAAATTTAAATA
1 TATAAAATATAAATA
14113728 GAATATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAAATATAAATATTAAATATT
Found at i:14117734 original size:30 final size:30
Alignment explanation
Indices: 14117698--14117760 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
14117688 ACTTAACAAG
**
14117698 CAAATGT-TTCTAAAATAATAACCAAATTAA
1 CAAATGTGTT-TAAAATAATAAAAAAATTAA
14117728 CAAATGTGTTTAAAATAATAAAAAAATTAA
1 CAAATGTGTTTAAAATAATAAAAAAATTAA
14117758 CAA
1 CAA
14117761 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTGTTTAAAATAATAAAAAAATTAA
Found at i:14123054 original size:26 final size:26
Alignment explanation
Indices: 14122993--14123056 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
14122983 TTTGGCAATA
*
14122993 CTTTTGAAAAGTGTTTTTAAAAAGTG
1 CTTTTGAAAAGTCTTTTTAAAAAGTG
* *
14123019 C-TGTGAAAAAGTACTTTTT-AGAAGTG
1 CTTTTG-AAAAGT-CTTTTTAAAAAGTG
14123045 CTTTTGAAAAGT
1 CTTTTGAAAAGT
14123057 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 3 0.10
26 20 0.65
27 8 0.26
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (26 bp):
CTTTTGAAAAGTCTTTTTAAAAAGTG
Found at i:14123056 original size:13 final size:13
Alignment explanation
Indices: 14122993--14123056 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
14122983 TTTGGCAATA
14122993 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
14123006 TTTTTAAAAAGTG
1 CTTTTGAAAAGTG
* *
14123019 C-TGTGAAAAAGTA
1 CTTTTG-AAAAGTG
* *
14123032 CTTTTTAGAAGTG
1 CTTTTGAAAAGTG
14123045 CTTTTGAAAAGT
1 CTTTTGAAAAGT
14123057 TTGGTTTAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
12 2 0.05
13 33 0.89
14 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:14127066 original size:14 final size:14
Alignment explanation
Indices: 14127047--14127074 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14127037 CATTATCTCA
14127047 ATCTACATTATCAT
1 ATCTACATTATCAT
14127061 ATCTACATTATCAT
1 ATCTACATTATCAT
14127075 TGACTCTGAA
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:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
ATCTACATTATCAT
Found at i:14130795 original size:19 final size:18
Alignment explanation
Indices: 14130771--14130811 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
14130761 AAGAACAGCT
14130771 ATTTTGTTAATTAGTTAAC
1 ATTTTGTTAATTAGTT-AC
*
14130790 ATTTTGTTACTTAGTTAC
1 ATTTTGTTAATTAGTTAC
14130808 ATTT
1 ATTT
14130812 AACTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTTGTTAATTAGTTAC
Found at i:14132237 original size:16 final size:17
Alignment explanation
Indices: 14132216--14132250 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14132206 ATATTTCAAG
*
14132216 ATAAATTATTAAAA-AA
1 ATAAATTAATAAAATAA
14132232 ATAAATTAATAAAATAA
1 ATAAATTAATAAAATAA
14132249 AT
1 AT
14132251 TTCATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATTAATAAAATAA
Found at i:14133238 original size:20 final size:20
Alignment explanation
Indices: 14133201--14133244 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14133191 ATGTGGTGGA
*
14133201 TGATTCATATATCGAAAAGT
1 TGATTCATATATCGAAAAAT
*
14133221 TGATTCCATATAT-TAAAAAT
1 TGATT-CATATATCGAAAAAT
14133241 TGAT
1 TGAT
14133245 GAATGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TGATTCATATATCGAAAAAT
Done.