Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 51 of 208
Found at i:14304801 original size:20 final size:20
Alignment explanation
Indices: 14304778--14304843 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
14304768 GTATAGACAA
14304778 AGGCACAATTATGCAATCAG
1 AGGCACAATTATGCAATCAG
*
14304798 AGGCACCAA--AGTGCAAACAG
1 AGGCA-CAATTA-TGCAATCAG
* *
14304818 AGGCACAATTGTGTAATCAG
1 AGGCACAATTATGCAATCAG
14304838 AGGCAC
1 AGGCAC
14304844 CGAAGTGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.11
20 31 0.82
21 3 0.08
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (20 bp):
AGGCACAATTATGCAATCAG
Found at i:14304850 original size:40 final size:40
Alignment explanation
Indices: 14304755--14304853 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
14304745 AGATGCATAA
** *
14304755 CAGAGGCACCGAAGTATAGACAAAGGCACAATTATGCAAT
1 CAGAGGCACCGAAGTGCAAACAAAGGCACAATTATGCAAT
* * * *
14304795 CAGAGGCACCAAAGTGCAAACAGAGGCACAATTGTGTAAT
1 CAGAGGCACCGAAGTGCAAACAAAGGCACAATTATGCAAT
14304835 CAGAGGCACCGAAGTGCAA
1 CAGAGGCACCGAAGTGCAA
14304854 TCTCGTACAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.13
Consensus pattern (40 bp):
CAGAGGCACCGAAGTGCAAACAAAGGCACAATTATGCAAT
Found at i:14304855 original size:20 final size:19
Alignment explanation
Indices: 14304789--14304855 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
14304779 GGCACAATTA
14304789 TGCAATCAGAGGCACCAAAG
1 TGCAATCAGAGGCACC-AAG
*
14304809 TGCAAACAGAGGCA-CAATTG
1 TGCAATCAGAGGCACCAA--G
*
14304829 TGTAATCAGAGGCACCGAAG
1 TGCAATCAGAGGCACC-AAG
14304849 TGCAATC
1 TGCAATC
14304856 TCGTACAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 33 0.85
21 1 0.03
22 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (19 bp):
TGCAATCAGAGGCACCAAG
Found at i:14315730 original size:27 final size:27
Alignment explanation
Indices: 14315688--14315740 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14315678 AATCATTAGG
* *
14315688 GGGTAACTCACTAGAAGAGGAAGATTC
1 GGGTAACTCACCAGAAAAGGAAGATTC
14315715 GGGTAACTCACCAGAAAAGGAAGATT
1 GGGTAACTCACCAGAAAAGGAAGATT
14315741 ATTTGCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (27 bp):
GGGTAACTCACCAGAAAAGGAAGATTC
Found at i:14321578 original size:20 final size:19
Alignment explanation
Indices: 14321551--14321592 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
14321541 CTTTCAAAAT
14321551 TTTCTTACTTT-CATATGCA
1 TTTCTTACTTTCCAT-TGCA
14321570 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
14321590 TTT
1 TTT
14321593 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:14349929 original size:12 final size:12
Alignment explanation
Indices: 14349912--14349936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14349902 TTAGTTATAA
14349912 GGCAATCTTTGT
1 GGCAATCTTTGT
14349924 GGCAATCTTTGT
1 GGCAATCTTTGT
14349936 G
1 G
14349937 AAATGGAAGC
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:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCAATCTTTGT
Found at i:14349951 original size:29 final size:29
Alignment explanation
Indices: 14349937--14350099 Score: 218
Period size: 29 Copynumber: 5.6 Consensus size: 29
14349927 AATCTTTGTG
*
14349937 AAATGGAAGCCTTTGGGGTGATCTCTATT
1 AAATGGAAGCCTTTGTGGTGATCTCTATT
* * * *
14349966 AAATTGAAGACTTTGTGGTGATCTTTGTT
1 AAATGGAAGCCTTTGTGGTGATCTCTATT
***
14349995 AAATGGAAGCCTTTGTAACGATCTCTATT
1 AAATGGAAGCCTTTGTGGTGATCTCTATT
**
14350024 AAATGGAAGCCTTTGTAATGATCTCTATT
1 AAATGGAAGCCTTTGTGGTGATCTCTATT
* *
14350053 AAATGGAAGCCTTTATGGTGATCTCTGTT
1 AAATGGAAGCCTTTGTGGTGATCTCTATT
14350082 AAATGGAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGG
14350100 CAATCACTGT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 116 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (29 bp):
AAATGGAAGCCTTTGTGGTGATCTCTATT
Found at i:14350109 original size:29 final size:29
Alignment explanation
Indices: 14349918--14350130 Score: 212
Period size: 29 Copynumber: 7.4 Consensus size: 29
14349908 ATAAGGCAAT
* * *
14349918 CTTTGTGGCAATCTTTGTGAAATGGAAGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
* * * * *
14349947 CTTTGGGGTGATCTCTATTAAATTGAAGA
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
* *
14349976 CTTTGTGGTGATCTTTGTTAAATGGAAGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
** *
14350005 CTTTGTAACGATCTCTATTAAATGGAAGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
*** *
14350034 CTTTGTAATGATCTCTATTAAATGGAAGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
* *
14350063 CTTTATGGTGATCTCTGTTAAATGGAAGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
* * *
14350092 CTTTGTGGCAATCACTGTTAAA-GGATGC
1 CTTTGTGGCGATCTCTGTTAAATGGAAGC
*
14350120 CTTCGTGGCGA
1 CTTTGTGGCGA
14350131 GACTACGAAA
Statistics
Matches: 154, Mismatches: 30, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 14 0.09
29 140 0.91
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (29 bp):
CTTTGTGGCGATCTCTGTTAAATGGAAGC
Found at i:14350113 original size:87 final size:87
Alignment explanation
Indices: 14349918--14350122 Score: 268
Period size: 87 Copynumber: 2.4 Consensus size: 87
14349908 ATAAGGCAAT
* * ** * *
14349918 CTTTGTGGCAATCTTTGTGAAATGGAAGCCTTTGGGGTGATCTCTATTAAATTGAAGACTTTGTG
1 CTTTGTGGCAATCTCTGTTAAATGGAAGCCTTTGGAATGATCTCTATTAAATGGAAGACTTTATG
*
14349983 GTGATCTTTGTTAAATGGAAGC
66 GTGATCTCTGTTAAATGGAAGC
** * * * *
14350005 CTTTGTAACGATCTCTATTAAATGGAAGCCTTTGTAATGATCTCTATTAAATGGAAGCCTTTATG
1 CTTTGTGGCAATCTCTGTTAAATGGAAGCCTTTGGAATGATCTCTATTAAATGGAAGACTTTATG
14350070 GTGATCTCTGTTAAATGGAAGC
66 GTGATCTCTGTTAAATGGAAGC
* *
14350092 CTTTGTGGCAATCACTGTTAAA-GGATGCCTT
1 CTTTGTGGCAATCTCTGTTAAATGGAAGCCTT
14350123 CGTGGCGAGA
Statistics
Matches: 99, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 8 0.08
87 91 0.92
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (87 bp):
CTTTGTGGCAATCTCTGTTAAATGGAAGCCTTTGGAATGATCTCTATTAAATGGAAGACTTTATG
GTGATCTCTGTTAAATGGAAGC
Found at i:14354524 original size:22 final size:22
Alignment explanation
Indices: 14354496--14354607 Score: 92
Period size: 22 Copynumber: 5.4 Consensus size: 22
14354486 CCTAGTAGGG
14354496 TTAGTGCCGGTGTTATTCAGGC
1 TTAGTGCCGGTGTTATTCAGGC
* * *
14354518 TTAGTGCTGGTGGTATTCAAGC
1 TTAGTGCCGGTGTTATTCAGGC
* *
14354540 TTAGTGCC-----TA-GCAGGA
1 TTAGTGCCGGTGTTATTCAGGC
* * *
14354556 TTGGTGCCAGTGATATTCAGGC
1 TTAGTGCCGGTGTTATTCAGGC
*
14354578 TTAGTGCCGGTTTTATTCAGGC
1 TTAGTGCCGGTGTTATTCAGGC
*
14354600 TGAGTGCC
1 TTAGTGCC
14354608 TAGTAGGATT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
16 10 0.14
17 2 0.03
21 2 0.03
22 55 0.80
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.34
Consensus pattern (22 bp):
TTAGTGCCGGTGTTATTCAGGC
Found at i:14354640 original size:60 final size:60
Alignment explanation
Indices: 14354466--14354644 Score: 223
Period size: 60 Copynumber: 3.0 Consensus size: 60
14354456 TACTCAAAGA
* * *
14354466 GGTGTTATTTAGGCTTAGTGCCTAGTAGGGTTAGTGCCGGTGTTATTCAGGCTTAGTGCT
1 GGTGTTATTCAGGCTTAGTGCCTAGTAGGATTAGTGCCGGTGTTATTCAGGCTTAGTGCC
* * * * * *
14354526 GGTGGTATTCAAGCTTAGTGCCTAGCAGGATTGGTGCCAGTGATATTCAGGCTTAGTGCC
1 GGTGTTATTCAGGCTTAGTGCCTAGTAGGATTAGTGCCGGTGTTATTCAGGCTTAGTGCC
* * * * * *
14354586 GGTTTTATTCAGGCTGAGTGCCTAGTAGGATTAGTACTGGTGTTATCCAAGCTTAGTGC
1 GGTGTTATTCAGGCTTAGTGCCTAGTAGGATTAGTGCCGGTGTTATTCAGGCTTAGTGC
14354645 TTAGCAGGCT
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 98 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (60 bp):
GGTGTTATTCAGGCTTAGTGCCTAGTAGGATTAGTGCCGGTGTTATTCAGGCTTAGTGCC
Found at i:14360978 original size:50 final size:50
Alignment explanation
Indices: 14360834--14361117 Score: 268
Period size: 50 Copynumber: 5.6 Consensus size: 50
14360824 CAATCTCGTA
* * * *
14360834 TAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAGGTCCCA-TG
* *
14360882 TAAGACCATGTTTGGGACATGGCATTGGCATTATTGAAATTATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACTG--A-TATGAGAGGTCCCATG
* *
14360938 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAGGTCCCATG
** * * **
14360988 TAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAGGTCCCATG
* * * ** **
14361038 TAAGACTATGTCTGGGACATCGCATGGGCACCAATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAGGTCCCATG
* * *
14361088 TAAGACCATATCTGAGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
14361118 GTACAGGAAA
Statistics
Matches: 198, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
48 26 0.13
50 124 0.63
51 5 0.03
53 4 0.02
54 6 0.03
55 1 0.01
56 29 0.15
57 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAGGTCCCATG
Found at i:14361391 original size:16 final size:16
Alignment explanation
Indices: 14361367--14361398 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14361357 ATGAGTTATT
14361367 CAAGCAAGAAAGTAAA
1 CAAGCAAGAAAGTAAA
*
14361383 CAAGTAAGAAAGTAAA
1 CAAGCAAGAAAGTAAA
14361399 TAAAGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.19, T:0.09
Consensus pattern (16 bp):
CAAGCAAGAAAGTAAA
Found at i:14362096 original size:25 final size:25
Alignment explanation
Indices: 14362068--14362115 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
14362058 GGAGTTTAGC
14362068 GTGCTCTCTGATTATTAGCACATCG
1 GTGCTCTCTGATTATTAGCACATCG
14362093 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
14362116 TTATGTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCG
Found at i:14377623 original size:49 final size:49
Alignment explanation
Indices: 14377434--14377623 Score: 200
Period size: 49 Copynumber: 3.9 Consensus size: 49
14377424 CTAAACACCA
* * * * * * *
14377434 TTTGTGGACAAGCCACCACTAATTTGTAGATAATCTGCCACTGATAATAC
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGA-AACAT
* * ** * * *
14377484 TTTGTGGACAAGCCACCACAGATATGCAGATGTATTACCACAGAAACAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
* * *
14377533 TTTATGGACAAGCCACCACTGACATGCAAATATACTGCCACTGAAACAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
* *
14377582 TTTGTGGACAAGCCACCACTGATTTGCAAATAAACTTCCACT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACT
14377624 TACTTCCTCC
Statistics
Matches: 115, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
49 81 0.70
50 34 0.30
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTGAAACAT
Found at i:14379660 original size:27 final size:27
Alignment explanation
Indices: 14379618--14379701 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
14379608 TTGATATCTA
* *
14379618 GACCAAAATACACCCATAGGGTAAAAT
1 GACCAAAAAACCCCCATAGGGTAAAAT
* * * *
14379645 GGCTAAAAAACCCCCATTGGATAAAAT
1 GACCAAAAAACCCCCATAGGGTAAAAT
* * * *
14379672 AACCGAAATACCCGCATAGGGTAAAAT
1 GACCAAAAAACCCCCATAGGGTAAAAT
14379699 GAC
1 GAC
14379702 TGTTATACCC
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (27 bp):
GACCAAAAAACCCCCATAGGGTAAAAT
Found at i:14380202 original size:33 final size:35
Alignment explanation
Indices: 14380158--14380229 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
14380148 ACTGCTGGAT
** * *
14380158 TGATATCTATTACTGTTA-TGGGCCAAGGCCCCAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCAAC
14380192 TGATA-CTATTACTGAAATTGGGCAAAGGCCCAAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCAAC
14380226 TGAT
1 TGAT
14380230 TACTGGCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (35 bp):
TGATATCTATTACTGAAATTGGGCAAAGGCCCAAC
Found at i:14386523 original size:19 final size:19
Alignment explanation
Indices: 14386483--14386527 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14386473 GAAGTCTAAA
**
14386483 AAAACAGTCCAAAATGTTC
1 AAAACAGTCCAAAATGACC
14386502 AAAACAGTCCAACAAT-ACC
1 AAAACAGTCCAA-AATGACC
14386521 AAAACAG
1 AAAACAG
14386528 AACAAACTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.53, C:0.24, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAACAGTCCAAAATGACC
Found at i:14392787 original size:138 final size:138
Alignment explanation
Indices: 14392539--14392960 Score: 632
Period size: 138 Copynumber: 3.1 Consensus size: 138
14392529 TACAAAAAGG
* * * *
14392539 AATTATATTCTTTCC-AAATGAAAAATAA-TTTCAATGTCTTTTATATTTTGATCAAAATTACTT
1 AATTATATTATTTCCAAAAT-AAAATTAATTTTC-ATGTCTTTTATATTTTGAACAAAATTAATT
* * *
14392602 AATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTAAA
64 AATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
*
14392667 TTCATAAATT
129 TTCATATATT
* *
14392677 AATTACATTATTTCCAAAATAAAATTAATTTTCATGTCTTTTATATTTTGAACGAAATTAATTAA
1 AATTATATTATTTCCAAAATAAAATTAATTTTCATGTCTTTTATATTTTGAACAAAATTAATTAA
*
14392742 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
14392807 CATATATT
131 CATATATT
* * * * * * *
14392815 CATTATATTTTTTCCAAAAGAATATTAATTTCCATTTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAATAAAATTAATTTTCATGTCTTTTATATTTTGAACAAAATTAATTAA
* *
14392880 TATAACAGTTTATATTAATAAATTCGTTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
14392945 CATATATT
131 CATATATT
14392953 AATTATAT
1 AATTATAT
14392961 CTATGTTCTC
Statistics
Matches: 258, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
138 250 0.97
139 8 0.03
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTATATTATTTCCAAAATAAAATTAATTTTCATGTCTTTTATATTTTGAACAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:14396665 original size:17 final size:17
Alignment explanation
Indices: 14396640--14396672 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14396630 AAAAGCCAAA
*
14396640 GGAGGAAACATAAAAAG
1 GGAGAAAACATAAAAAG
14396657 GGAGAAAACATAAAAA
1 GGAGAAAACATAAAAA
14396673 AATGGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.06, G:0.24, T:0.06
Consensus pattern (17 bp):
GGAGAAAACATAAAAAG
Found at i:14397370 original size:16 final size:16
Alignment explanation
Indices: 14397349--14397379 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14397339 GACGTAAAAA
*
14397349 TATTTATTTTTTATTT
1 TATTTATTTATTATTT
14397365 TATTTATTTATTATT
1 TATTTATTTATTATT
14397380 ACTTTAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTATTTATTATTT
Found at i:14398474 original size:39 final size:39
Alignment explanation
Indices: 14398426--14398686 Score: 281
Period size: 39 Copynumber: 6.7 Consensus size: 39
14398416 TATCCTGATT
* *
14398426 GCACGTACGTGCCCCTATTGTACTTCGGTACTCCTAATC
1 GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
* * *
14398465 GCATATACGTGCCCCTGTCGTACTTCGGTACTCCTGATC
1 GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
* * * *
14398504 GCACATACGTTCCCCTGTTGTACTCCGGT-GTCCCTGATC
1 GCACATACGTGCCCCTGTTGTACTTCGGTACT-CCTAATC
* * **
14398543 CCACATACGTGCCCCTGTAGTACTTCAATACTCCTAATC
1 GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
** * * * *
14398582 ATACATATGTGCCCCTGTTCTACTTCGGTACCCCTAATT
1 GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
* * * * * *
14398621 TCACATACGTGCCCTTATTGTACTTTGGTACTCTTGATC
1 GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
14398660 GCACATACGTGCCCCTGTTGTACTTCG
1 GCACATACGTGCCCCTGTTGTACTTCG
14398687 ATACCTCTGA
Statistics
Matches: 178, Mismatches: 42, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
38 1 0.01
39 176 0.99
40 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.33
Consensus pattern (39 bp):
GCACATACGTGCCCCTGTTGTACTTCGGTACTCCTAATC
Found at i:14398708 original size:39 final size:38
Alignment explanation
Indices: 14398420--14398711 Score: 253
Period size: 39 Copynumber: 7.5 Consensus size: 38
14398410 TAATTATATC
* * *
14398420 CTGATTGCACGTACGTGCCCCTATTGTACTTCGGTACT
1 CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTACT
* * *
14398458 CCTAATCGCATATACGTGCCCCTGTCGTACTTCGGTACT
1 -CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTACT
* * * *
14398497 CCTGATCGCACATACGTTCCCCTGTTGTACTCCGGTGTCC
1 -CTGATCGCACATACGTGCCCCTGTTGTACTTCGGT-ACT
* * **
14398537 CTGATCCCACATACGTGCCCCTGTAGTACTTCAATACT
1 CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTACT
* ** * * *
14398575 CCTAATCATACATATGTGCCCCTGTTCTACTTCGGTACCC
1 -CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTA-CT
* ** * * *
14398615 CTAATTTCACATACGTGCCCTTATTGTACTTTGGTACT
1 CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTACT
*
14398653 CTTGATCGCACATACGTGCCCCTGTTGTACTTCGATACCT
1 C-TGATCGCACATACGTGCCCCTGTTGTACTTCGGTA-CT
*
14398693 CTGA-CTGCACTTACGTGCC
1 CTGATC-GCACATACGTGCC
14398712 TTGTTTACAT
Statistics
Matches: 200, Mismatches: 47, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
38 4 0.02
39 191 0.95
40 5 0.03
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.33
Consensus pattern (38 bp):
CTGATCGCACATACGTGCCCCTGTTGTACTTCGGTACT
Found at i:14398711 original size:117 final size:116
Alignment explanation
Indices: 14398419--14398711 Score: 290
Period size: 117 Copynumber: 2.5 Consensus size: 116
14398409 ATAATTATAT
* * * *
14398419 CCTGATTGCACGTACGTGCCCCTATTGTACTTCGGTACTCCTAATCGCA-TATACGTGCCCCTGT
1 CCTGATCGCACATACGTGCCCCTGTTGTACTTCGATACTCCTAAT-GCACT-TACGTGCCCCTGT
* * * * *
14398483 CGTACTTCGGTACTCCTGATCGCACATACGTTCCCCTGTTGTACTCCGGTGTC
64 CGTACTTCGGTACCCCTAATCGCACATACGTGCCCCTATTGTACTCCGGTCTC
* * * * *
14398536 CCTGATCCCACATACGTGCCCCTGTAGTACTTCAATACTCCTAAT-CATACATATGTGCCCCTGT
1 CCTGATCGCACATACGTGCCCCTGTTGTACTTCGATACTCCTAATGC--ACTTACGTGCCCCTG-
** * **
14398600 TC-TACTTCGGTACCCCTAATTTCACATACGTGCCCTTATTGTACTTTGGTACT-
63 TCGTACTTCGGTACCCCTAATCGCACATACGTGCCCCTATTGTACTCCGGT-CTC
* *
14398653 CTTGATCGCACATACGTGCCCCTGTTGTACTTCGATAC-CTCTGACTGCACTTACGTGCC
1 CCTGATCGCACATACGTGCCCCTGTTGTACTTCGATACTC-CT-AATGCACTTACGTGCC
14398712 TTGTTTACAT
Statistics
Matches: 142, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
115 1 0.01
116 1 0.01
117 134 0.94
118 5 0.04
119 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (116 bp):
CCTGATCGCACATACGTGCCCCTGTTGTACTTCGATACTCCTAATGCACTTACGTGCCCCTGTCG
TACTTCGGTACCCCTAATCGCACATACGTGCCCCTATTGTACTCCGGTCTC
Found at i:14422931 original size:13 final size:13
Alignment explanation
Indices: 14422913--14422937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14422903 TAAAAGAGTT
14422913 ATTAATTAAAAAG
1 ATTAATTAAAAAG
14422926 ATTAATTAAAAA
1 ATTAATTAAAAA
14422938 ACTTGAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:14432668 original size:22 final size:22
Alignment explanation
Indices: 14432640--14432698 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
14432630 TGATAAAGGT
**
14432640 GATATCGTGATACCCGGAAGAG
1 GATATCGTGATACCAAGAAGAG
*
14432662 GATATCGTGACACCAAGAAGAG
1 GATATCGTGATACCAAGAAGAG
*
14432684 GATATCGCGATACCA
1 GATATCGTGATACCA
14432699 CTGAAGGGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (22 bp):
GATATCGTGATACCAAGAAGAG
Found at i:14433332 original size:85 final size:86
Alignment explanation
Indices: 14433178--14433346 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 86
14433168 AGATAAAAAC
* * * * * * *
14433178 ATTTGTAATTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAATAAATTGTC-GTT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
*
14433242 GGGTTTGTGGACGAGCCACAT
66 GGTTTTGTGGACGAGCCACAT
* *
14433263 ATTTGTAGTTACTATCACTTGTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCACT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATT-GCAGATTAAACAAACTGCCACT
*
14433327 AGGTTTTGTGGATGAGCCAC
65 AGGTTTTGTGGACGAGCCAC
14433347 CACTTGTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
84 2 0.03
85 51 0.72
86 18 0.25
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (86 bp):
ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
GGTTTTGTGGACGAGCCACAT
Found at i:14437743 original size:7 final size:7
Alignment explanation
Indices: 14437733--14437757 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14437723 ATTCGATTGA
14437733 TATTTAG
1 TATTTAG
14437740 TATTTAG
1 TATTTAG
14437747 TATTTAG
1 TATTTAG
14437754 TATT
1 TATT
14437758 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:14438123 original size:18 final size:17
Alignment explanation
Indices: 14438097--14438130 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14438087 TCGGGAACCA
*
14438097 ATCATCGTTCCGGAATT
1 ATCATCGTTCCAGAATT
14438114 ATCATGCGTTCCAGAAT
1 ATCAT-CGTTCCAGAAT
14438131 ACATGCCATG
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:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (17 bp):
ATCATCGTTCCAGAATT
Found at i:14438948 original size:35 final size:35
Alignment explanation
Indices: 14438909--14439019 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
14438899 TTTGAGTTAT
14438909 TTTGATATTATTTGATATAATAAAATAGAAGTTTA
1 TTTGATATTATTTGATATAATAAAATAGAAGTTTA
* * *** * *
14438944 TTTGATGTAATAAAATA-AAAAAAATTTCG-AG-TTA
1 TTTGATATTATTTGATATAATAAAA--TAGAAGTTTA
*
14438978 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 -TTTGATATTATTTGATATAATAAAATAGAAGTTTA
14439014 TTTGAT
1 TTTGAT
14439020 GTAATACAAA
Statistics
Matches: 55, Mismatches: 15, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
34 11 0.20
35 33 0.60
36 11 0.20
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (35 bp):
TTTGATATTATTTGATATAATAAAATAGAAGTTTA
Found at i:14438954 original size:25 final size:25
Alignment explanation
Indices: 14438916--14439025 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
14438906 TATTTTGATA
*
14438916 TTATTTGATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
**
14438941 TTATTTGATGTAATAAAATA-AAAA
1 TTATTTGATGTAATAAAATAGAAGT
** ** *
14438965 AAATTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
14438985 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
14439011 TTATTTGATGTAATA
1 TTATTTGATGTAATA
14439026 CAAACCCTAA
Statistics
Matches: 62, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
20 2 0.03
21 9 0.15
22 1 0.02
23 1 0.02
24 11 0.18
25 37 0.60
26 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:14438992 original size:70 final size:69
Alignment explanation
Indices: 14438872--14439025 Score: 272
Period size: 70 Copynumber: 2.2 Consensus size: 69
14438862 TATTTTGATA
* *
14438872 TTATTTTATGTAAAAAAATAAAAAAAATTTGAGTTATTTTGATATTATTTGATATAATAAAATAG
1 TTATTTGATGTAATAAAATAAAAAAAATTTGAGTTATTTTGATATTATTTGATATAATAAAATAG
14438937 AAGT
66 AAGT
*
14438941 TTATTTGATGTAATAAAATAAAAAAAATTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAAAAAAAATTT-GAGTTATTTTGATATTATTTGATATAATAAAATA
14439006 GAAGT
65 GAAGT
14439011 TTATTTGATGTAATA
1 TTATTTGATGTAATA
14439026 CAAACCCTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 28 0.35
70 53 0.65
ACGTcount: A:0.45, C:0.01, G:0.12, T:0.43
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATAAAAAAAATTTGAGTTATTTTGATATTATTTGATATAATAAAATAG
AAGT
Found at i:14439087 original size:29 final size:29
Alignment explanation
Indices: 14439044--14439584 Score: 599
Period size: 29 Copynumber: 19.4 Consensus size: 29
14439034 AACCTAATTT
*
14439044 AACCCTAAATCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
14439074 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
14439103 AATCCTAACCCTAACCTAATTTAACTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
14439132 AACCCTAACCCCTAACCTAAATTAACTAAA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
*
14439162 AACCCTAACCCCTAACCTAATTTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
14439192 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
14439221 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
14439250 CACCCTAACCCCTAACCTAATTTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
14439280 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
14439309 AACTCTAACCCCTTAACTTAA---AATT--A
1 AACCCTAA-CCC-TAACCTAATTTAATTAAA
*
14439335 AA----AACCCTAACCTAATTTAACTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
14439360 AACCCTAA--C---CC-AATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
14439383 AACCCTAACCCTAACCTAAGTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
14439412 AACCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
14439434 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
14439463 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
14439492 AACCCTAAACACTTAACTTAA---AATT--A
1 AACCCT-AAC-CCTAACCTAATTTAATTAAA
*
14439518 AA----AACCCTAACCTAATTGAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
14439542 AACCCTTAACCCTAACCTAATTTAATTAAA
1 AACCC-TAACCCTAACCTAATTTAATTAAA
14439572 AACCCTAAACCCT
1 AACCCT-AACCCT
14439585 TAACTTAAAA
Statistics
Matches: 442, Mismatches: 28, Indels: 82
0.80 0.05 0.15
Matches are distributed among these distances:
20 15 0.03
21 11 0.02
22 14 0.03
23 26 0.06
24 5 0.01
25 6 0.01
26 8 0.02
27 1 0.00
28 10 0.02
29 218 0.49
30 113 0.26
31 15 0.03
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:14439111 original size:23 final size:23
Alignment explanation
Indices: 14439031--14439112 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 23
14439021 TAATACAAAC
****
14439031 CCTAACCTAATTTAACCCTAAAT
1 CCTAACCTAATTTAATTAAAAAT
14439054 CCTAACCTAATTTAATTAAAAACCCT
1 CCTAACCTAATTTAATTAAAAA---T
14439080 AACCCTAACCTAATTTAATTAAAAAT
1 ---CCTAACCTAATTTAATTAAAAAT
14439106 CCTAACC
1 CCTAACC
14439113 CTAACCTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
23 25 0.51
26 2 0.04
29 22 0.45
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAT
Found at i:14439346 original size:51 final size:51
Alignment explanation
Indices: 14439271--14439613 Score: 293
Period size: 51 Copynumber: 6.6 Consensus size: 51
14439261 CTAACCTAAT
* * *
14439271 TTAA-TTACAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCC
1 TTAACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCC
*** * * *
14439321 TTAACTTAAAATTAAAAACCCTAACCTAATTTAACTAAAAACCCTAACCCAAT
1 TTAACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCC--C
* * *
14439374 TTAA-TTAAAAACCCTAACCCTAACCTAAGTTAATTAAAAACCCTAAACCC
1 TTAACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCC
* *
14439424 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 TTAACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCC---C
* * * * **
14439478 CTAATTTAATTAA--A-AACCCTAAACACTTAACTTAAAATTAAAAACCCTAACCTAA
1 TTAACTTAA-AAACCATAACCCT-AAC-C-TAA-TT-TAATTAAAAACCCTAACC-CC
* * *
14439533 TTGAA-TTAAAACCCTTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TT-AACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCC
* * *
14439584 TTAACTTAAAAACCCTAACCTTAACGTAAT
1 TTAACTTAAAAACCATAACCCTAACCTAAT
14439614 GTTAGATTTG
Statistics
Matches: 233, Mismatches: 41, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
50 10 0.04
51 102 0.44
52 58 0.25
53 9 0.04
54 13 0.06
55 11 0.05
56 7 0.03
57 23 0.10
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (51 bp):
TTAACTTAAAAACCATAACCCTAACCTAATTTAATTAAAAACCCTAACCCC
Found at i:14439354 original size:80 final size:79
Alignment explanation
Indices: 14439171--14439579 Score: 396
Period size: 80 Copynumber: 5.1 Consensus size: 79
14439161 AAACCCTAAC
14439171 CCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 CCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
14439236 CTAATTTAATTAAACACCCTAA
66 CTAA--TAATT-AA-A----AA
*
14439258 CCCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCCTT
1 -CCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCC-T
*
14439323 AACTTAA-AATTAAAAA
63 AACCTAATAATTAAAAA
* *
14439339 CCCTAACCTAATTTAACT--AAA----AACCCTAACCCAATTTAATTAAAAACCCTAACCCTAAC
1 CCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
14439398 CTAAGTTAATTAAAAA
66 CTAA--TAATTAAAAA
* * *
14439414 CCCTAAACC---CTTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTA
1 CCCT-AACCTAATTTAA-TTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
14439476 ACCTAATTTAATTAAAAA
64 ACCTAA--TAATTAAAAA
* * **** *
14439494 CCCTAAAC--ACTTAACTTA-AAATTAAAAACCCTAACCTAATTGAATT-AAAACCCTTAACCCT
1 CCCTAACCTAATTTAA-TTACAAA-CCCTAACCCTAACCTAATTTAATTAAAAACCC-TAACCCT
14439555 AACCTAATTTAATTAAAAA
63 AACCTAA--TAATTAAAAA
14439574 CCCTAA
1 CCCTAA
14439580 ACCCTTAACT
Statistics
Matches: 287, Mismatches: 18, Indels: 40
0.83 0.05 0.12
Matches are distributed among these distances:
72 7 0.02
73 7 0.02
74 30 0.10
75 13 0.05
76 7 0.02
78 3 0.01
79 13 0.05
80 131 0.46
81 2 0.01
85 1 0.00
86 2 0.01
87 4 0.01
88 57 0.20
89 3 0.01
90 7 0.02
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (79 bp):
CCCTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
CTAATAATTAAAAA
Found at i:14439435 original size:22 final size:20
Alignment explanation
Indices: 14439403--14439448 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
14439393 CTAACCTAAG
14439403 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
14439424 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
14439444 TTAAC
1 TTAAC
14439449 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:14439595 original size:22 final size:20
Alignment explanation
Indices: 14439563--14439608 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
14439553 CTAACCTAAT
14439563 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
14439584 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
14439604 TTAAC
1 TTAAC
14439609 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:14439814 original size:116 final size:116
Alignment explanation
Indices: 14439610--14439830 Score: 397
Period size: 116 Copynumber: 1.9 Consensus size: 116
14439600 AACCTTAACG
14439610 TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
*
14439675 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACAATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * *
14439726 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
*
14439791 ATTTTCCTAACAATTAATACAATTTTTTGACTTAATAATT
66 ATTTTACTAACAATTAATACAATTTTTTGACTTAATAATT
14439831 NNNNNNNNNN
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACAATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:14443299 original size:126 final size:124
Alignment explanation
Indices: 14442973--14443323 Score: 537
Period size: 126 Copynumber: 2.8 Consensus size: 124
14442963 CCCAAACATG
**
14442973 CTACTGTAGCAAAAGTGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAA-GCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
14443038 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC--AAAAAAATTATTTCTTACATGAC
65 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
14443096 CTACTGTAGCAAAAGCTCG-CTGACGAAGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCACGTC-CACGAAG-CGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
14443160 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCTTGAC
64 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
*
14443222 CTACTGTAGCAAAAGCACGTCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCACGTCCACGA-AGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* **
14443287 AAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
65 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
14443324 CTCGAAATTA
Statistics
Matches: 209, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
122 2 0.01
123 92 0.44
125 5 0.02
126 107 0.51
127 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCACGTCCACGAAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:14447878 original size:30 final size:31
Alignment explanation
Indices: 14447839--14447897 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
14447829 GGAGGTGGGA
*
14447839 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
14447870 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAA
14447898 CTAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:14448125 original size:9 final size:9
Alignment explanation
Indices: 14448111--14448165 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
14448101 TATAGTTTGA
14448111 TATTCGAAT
1 TATTCGAAT
14448120 TATTCGAAT
1 TATTCGAAT
*
14448129 TATTCGAGT
1 TATTCGAAT
14448138 TATTCGAAT
1 TATTCGAAT
*
14448147 TATTCGAGT
1 TATTCGAAT
*
14448156 TATTCAAAT
1 TATTCGAAT
14448165 T
1 T
14448166 CGAAAACTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14448134 original size:18 final size:18
Alignment explanation
Indices: 14448111--14448165 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
14448101 TATAGTTTGA
*
14448111 TATTCGAATTATTCGAAT
1 TATTCGAGTTATTCGAAT
14448129 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
*
14448147 TATTCGAGTTATTCAAAT
1 TATTCGAGTTATTCGAAT
14448165 T
1 T
14448166 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:14466987 original size:21 final size:21
Alignment explanation
Indices: 14466963--14467030 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
14466953 ATTTGCAGCA
14466963 TTAATTATAAAAAATAATATT
1 TTAATTATAAAAAATAATATT
* * *
14466984 TTAA-TAAAAATAAATAAAATAA
1 TTAATTATAAA-AAATAATAT-T
* *
14467006 TAAATT-TTAAAAATAATATT
1 TTAATTATAAAAAATAATATT
14467026 TTAAT
1 TTAAT
14467031 GTAAAATGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
20 9 0.26
21 20 0.57
22 5 0.14
23 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATTATAAAAAATAATATT
Found at i:14467000 original size:28 final size:28
Alignment explanation
Indices: 14466969--14467023 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14466959 AGCATTAATT
14466969 ATAAAA-AATAATATTTTAATAAA-AATAA
1 ATAAAATAATAA-ATTTTAA-AAATAATAA
14466997 ATAAAATAATAAATTTTAAAAATAATA
1 ATAAAATAATAAATTTTAAAAATAATA
14467024 TTTTAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 17 0.68
29 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAAAATAATAAATTTTAAAAATAATAA
Found at i:14468888 original size:3 final size:3
Alignment explanation
Indices: 14468882--14468910 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14468872 CTAGTTTCTT
14468882 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
14468911 GGTAACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:14470051 original size:24 final size:24
Alignment explanation
Indices: 14470019--14470064 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
14470009 ATGACAGTAA
14470019 AACTTAATGTTTGATTCAAATGTC
1 AACTTAATGTTTGATTCAAATGTC
*
14470043 AACTTAATGTTTGGTTCAAATG
1 AACTTAATGTTTGATTCAAATG
14470065 GTTGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (24 bp):
AACTTAATGTTTGATTCAAATGTC
Found at i:14474259 original size:30 final size:30
Alignment explanation
Indices: 14474225--14474290 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
14474215 GGCCAATATA
14474225 ACGAGACTGTAGTCTGTTAAGACAGTAAAC
1 ACGAGACTGTAGTCTGTTAAGACAGTAAAC
14474255 ACGAGACTGTAGTCTGTTAAGACAGTAAAC
1 ACGAGACTGTAGTCTGTTAAGACAGTAAAC
14474285 ACGAGA
1 ACGAGA
14474291 AAAGGCCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (30 bp):
ACGAGACTGTAGTCTGTTAAGACAGTAAAC
Found at i:14474633 original size:76 final size:76
Alignment explanation
Indices: 14474490--14474738 Score: 293
Period size: 76 Copynumber: 3.3 Consensus size: 76
14474480 AACCAAACCT
* * * * * * *
14474490 AGCCTTTGTGGTGAGTTATCTGAAAGGCCTATGTGGCGTAGTATTCGAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGTGAATTATCTAAAAGGCCTATGTGGCGTATTATTCAAAAAACCATAGTAGCAAA
14474555 GTTATCTAGGA
66 GTTATCTAGGA
* * * **
14474566 AGCCCTTGTGGTGAATTCTCTAAAAGGCCTATGTGGTGTATTATTCAAAAAACCATATTAGTGAA
1 AGCCCTTGTGGTGAATTATCTAAAAGGCCTATGTGGCGTATTATTCAAAAAACCATAGTAGCAAA
14474631 GTTATCTAGGA
66 GTTATCTAGGA
** * * * *
14474642 AGCCCTTGTGGCAAATTATCTAAAAGGCTTATGTGGCATATTATTCAAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGTGAATTATCTAAAAGGCCTATGTGGCGTATTATTCAAAAAACCATAGTAGCAAA
14474707 GTTATCTTA-GA
66 GTTATC-TAGGA
* * *
14474718 AGCTCTTGTGGCGAGTTATCT
1 AGCCCTTGTGGTGAATTATCT
14474739 GGAAAGTCTG
Statistics
Matches: 146, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
76 144 0.99
77 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (76 bp):
AGCCCTTGTGGTGAATTATCTAAAAGGCCTATGTGGCGTATTATTCAAAAAACCATAGTAGCAAA
GTTATCTAGGA
Found at i:14474676 original size:25 final size:25
Alignment explanation
Indices: 14474648--14474713 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
14474638 AGGAAGCCCT
**
14474648 TGTGGCAAATTATCTAAAAGGCTTA
1 TGTGGCAAATTATCTAAAAACCTTA
* *
14474673 TGTGGCATATTATTCAAAAAACCTTA
1 TGTGGCAAATTA-TCTAAAAACCTTA
14474699 -GTGGCAAAGTTATCT
1 TGTGGCAAA-TTATCT
14474714 TAGAAGCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TGTGGCAAATTATCTAAAAACCTTA
Found at i:14476059 original size:59 final size:58
Alignment explanation
Indices: 14475972--14476114 Score: 144
Period size: 59 Copynumber: 2.4 Consensus size: 58
14475962 GTCTAAACTT
* * * * * * * * *
14475972 TTTTTTTGTCCAACTTAGGCCCTAAACTTGACAATTGTTTCAATATTGGGGCCTGAAC
1 TTTTTTTGTCCAAGTTAAGCCTTGAACTTGACAAATGTTCCAACATTGGGACCTCAAC
* * *
14476030 TTTTTTTGGTCCAAGTTAAGCCTTGAACTTGGCAAATGTTCCCACATTGGGACTTCAAC
1 TTTTTTT-GTCCAAGTTAAGCCTTGAACTTGACAAATGTTCCAACATTGGGACCTCAAC
*
14476089 TTTTTTTATCCAAGTT-AGTCCTTGAA
1 TTTTTTTGTCCAAGTTAAG-CCTTGAA
14476115 AACCCTAAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 2 0.03
58 22 0.31
59 46 0.66
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (58 bp):
TTTTTTTGTCCAAGTTAAGCCTTGAACTTGACAAATGTTCCAACATTGGGACCTCAAC
Found at i:14476276 original size:90 final size:90
Alignment explanation
Indices: 14476121--14476303 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 90
14476111 TGAAAACCCT
* * * * *
14476121 AAAGTTCAAGCCTTAATGTGGAAACAATTGTCAAGTTTAGGCCCCAATGTGGGAACAATTACCAA
1 AAAGTTCAAGCCTCAATATGGAAACAATTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCAA
* *
14476186 GTTCAAGGCCTAATTTGGACAAAAA
66 GTTCAAGACCTAACTTGGACAAAAA
* * * * *
14476211 AAAGTTCAAGTCTCAATATGGGAAA-AGTTGCCAAGTCTAGGTCCCATTGTGGAAACAATTGCCA
1 AAAGTTCAAGCCTCAATAT-GGAAACAATTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCA
* *
14476275 AGTTTATGACCTAACTTGGACAAAAA
65 AGTTCAAGACCTAACTTGGACAAAAA
14476301 AAA
1 AAA
14476304 AATTAGACCC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 73 0.94
91 5 0.06
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (90 bp):
AAAGTTCAAGCCTCAATATGGAAACAATTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCAA
GTTCAAGACCTAACTTGGACAAAAA
Found at i:14476325 original size:90 final size:90
Alignment explanation
Indices: 14476125--14476331 Score: 204
Period size: 90 Copynumber: 2.3 Consensus size: 90
14476115 AACCCTAAAG
** * * * *
14476125 TTCAAGCCTTAATG-TGGAAACAATTGTCAAGTTTAGGCCCCAATGTGGGAACAATTACCAAGTT
1 TTCAAGCCCCAATGTTGGAAA-AGTTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCAAGTT
* * *
14476189 CAAGGCCTAATTTGGACAAAAAAAAG
65 CAAGACCTAACTTGGACAAAAAAAAA
* * * * * * * *
14476215 TTCAAGTCTCAATATGGGAAAAGTTGCCAAGTCTAGGTCCCATTGTGGAAACAATTGCCAAGTTT
1 TTCAAGCCCCAATGTTGGAAAAGTTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCAAGTTC
*
14476280 ATGACCTAACTTGGACAAAAAAAAAA
66 AAGACCTAACTTGGAC-AAAAAAAAA
14476306 TT--AGACCCCAATGTTGGAAAAGTTGC
1 TTCAAG-CCCCAATGTTGGAAAAGTTGC
14476332 TAAATTTAGG
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
89 2 0.02
90 77 0.82
91 15 0.16
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (90 bp):
TTCAAGCCCCAATGTTGGAAAAGTTGCCAAGTCTAGGCCCCAATGTGGAAACAATTACCAAGTTC
AAGACCTAACTTGGACAAAAAAAAA
Found at i:14476439 original size:3 final size:3
Alignment explanation
Indices: 14476431--14476455 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14476421 GAGCCTAACA
14476431 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14476456 GACTCCCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14479670 original size:21 final size:21
Alignment explanation
Indices: 14479649--14479841 Score: 131
Period size: 21 Copynumber: 9.2 Consensus size: 21
14479639 CTTTCCGTTT
* * *
14479649 AGCTCTTACGAGCTTCTATTT
1 AGCTCTTATGAGCTTCTGTTC
* * * *
14479670 AACTCATATGAGTTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
14479691 AAG-TCTT-TCGAGCTTCTATTC
1 -AGCTCTTAT-GAGCTTCTGTTC
* *
14479712 AACTCTTATGAGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
14479733 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* * *
14479754 AACTCATATGAG-TTTTCGTTC
1 AGCTCTTATGAGCTTCT-GTTC
* *
14479775 AGCTCTTACGAGCTTCTATTC
1 AGCTCTTATGAGCTTCTGTTC
* * * * *
14479796 AACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* *
14479817 AGCTCTCATGAACTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
14479838 AGCT
1 AGCT
14479842 TTCGAGCTTT
Statistics
Matches: 125, Mismatches: 41, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
20 5 0.04
21 115 0.92
22 5 0.04
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:14479687 original size:42 final size:42
Alignment explanation
Indices: 14479640--14479822 Score: 224
Period size: 42 Copynumber: 4.4 Consensus size: 42
14479630 CGTGTTTTAC
* *
14479640 TTTCCGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* *
14479682 TTTCCGTTCAAG-TCTTTCGAGCTTCTATTCAACTCTTATGAG
1 TTTCCGTTC-AGCTCTTACGAGCTTCTATTCAACTCATATGAG
* * * *
14479724 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* * * *
14479766 TTTTCGTTCAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* *
14479808 TTTCTGTTTAGCTCT
1 TTTCCGTTCAGCTCT
14479823 CATGAACTTC
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
41 2 0.02
42 114 0.97
43 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
Found at i:14479755 original size:84 final size:84
Alignment explanation
Indices: 14479640--14479836 Score: 288
Period size: 84 Copynumber: 2.3 Consensus size: 84
14479630 CGTGTTTTAC
* * * *
14479640 TTTCCGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAAG-TCTTTCGAGC
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTC-AGCTCTTACGAGC
*
14479704 TTCTATTCAACTCTTATGAG
65 TTCTATTCAACCCTTATGAG
* *
14479724 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTACGAGCT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCT
*
14479789 TCTATTCAACCCTTATGGG
66 TCTATTCAACCCTTATGAG
* *
14479808 TTTCTGTTTAGCTCTCATGAACTTCTGTT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTT
14479837 CAGCTTTCGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
83 2 0.02
84 99 0.98
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.44
Consensus pattern (84 bp):
TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCT
TCTATTCAACCCTTATGAG
Found at i:14483451 original size:20 final size:20
Alignment explanation
Indices: 14483409--14483458 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14483399 TACATATTAT
* * * *
14483409 CACTGTTAATGATTTGACTC
1 CACTGTTCATGACTTAACCC
14483429 CACTGTTCATGACTTAACCC
1 CACTGTTCATGACTTAACCC
*
14483449 CACTATTCAT
1 CACTGTTCAT
14483459 AGGGCTGACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (20 bp):
CACTGTTCATGACTTAACCC
Found at i:14486522 original size:16 final size:17
Alignment explanation
Indices: 14486491--14486523 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14486481 ACTTTCCACA
*
14486491 AACTTAAGCAAAGTTTT
1 AACTTAAACAAAGTTTT
14486508 AACTTAAAC-AAGTTTT
1 AACTTAAACAAAGTTTT
14486524 GGATACTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
AACTTAAACAAAGTTTT
Found at i:14488309 original size:104 final size:103
Alignment explanation
Indices: 14488043--14488414 Score: 455
Period size: 105 Copynumber: 3.6 Consensus size: 103
14488033 TAACCGTTAT
* * *
14488043 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCATCGGGGG
1 CGGTGGATACCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* * * * ** * *
14488108 AATCAGCACATCGTTGAACACTC-GGA-ATGTT-AACCGTTA
66 AATCAGCACATAG--CAACCCCCTTTACAT-TTCAA-AGATA
* *
14488147 TCGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 -CGGTGGATACCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* *
14488212 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAAATA
65 GAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
*
14488251 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATACCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
14488316 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
65 GAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATA
* * **
14488356 TGGTGGAT-CACGCACCTAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGATAC-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
14488415 TTTATATACA
Statistics
Matches: 239, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
103 32 0.13
104 90 0.38
105 117 0.49
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.19
Consensus pattern (103 bp):
CGGTGGATACCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
Found at i:14495412 original size:104 final size:103
Alignment explanation
Indices: 14495146--14495400 Score: 395
Period size: 104 Copynumber: 2.5 Consensus size: 103
14495136 TAACCGTTAT
* *
14495146 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
14495211 AATCAGCATATAGCAACCCCCTTTTCATTTCAAAAATA
66 AATCAGCACATAGCAACCCCCTTTACATTTCAAAAATA
14495249 CGGTGGAT-ATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
1 CGGTGGATCA-CGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGG
**
14495313 GGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
64 GGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAAATA
* * *
14495354 TGGTGGATCACGCACCTAACACCACCAATGAATCGGGGAATCAGCAC
1 CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
14495401 ACAGTAACCC
Statistics
Matches: 139, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
103 27 0.19
104 75 0.54
105 36 0.26
106 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTACATTTCAAAAATA
Found at i:14496274 original size:70 final size:69
Alignment explanation
Indices: 14496158--14496477 Score: 316
Period size: 70 Copynumber: 4.7 Consensus size: 69
14496148 ACAACAATTG
* * *
14496158 GGAGCCTTAGCCCTCTCTAACTA-TTTAGAGGTTGTGGTATTAAACCTGCGAGCCCTAAGATCAT
1 GGAGCCTTAGCTCTCGCTAACTATTTTAGA-GTTGTGGTATTGAACCTGCGAGCCCTAAGATCAT
14496222 ATCTA
65 ATCTA
* * * *
14496227 GGAGCCTTAGGTCTCGCTAACTATTTTAGAGTCTGTGGTATTGAACCTGCAAGCCCTACGATCAC
1 GGAGCCTTAGCTCTCGCTAACTATTTTAGAGT-TGTGGTATTGAACCTGCGAGCCCTAAGATCAT
*
14496292 AGCTTA
65 ATC-TA
* * * * * *
14496298 -AAGACTTAGCTCTCACTAACTA-TTTAGA-----GGTACTGAACTTGTGAGCCCTAAGATCATA
1 GGAGCCTTAGCTCTCGCTAACTATTTTAGAGTTGTGGTATTGAACCTGCGAGCCCTAAGATCATA
* **
14496356 ACGG
66 TCTA
* * * * *
14496360 GGAGCCTTAGCTCTCGTTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATTAT
1 GGAGCCTTAGCTCTCGCTAACTATTTTAGA-GTTGTGGTATTGAACCTGCGAGCCCTAAGATCAT
*
14496425 AGT-TG
65 A-TCTA
14496430 GGAGCCTTAGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAACCT
1 GGAGCCTTAGCTCTCGCTAACTATTTTAGA-GTTGTGGTATTGAACCT
14496478 CGAACCTTAG
Statistics
Matches: 204, Mismatches: 35, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
63 43 0.21
64 6 0.03
69 28 0.14
70 125 0.61
71 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (69 bp):
GGAGCCTTAGCTCTCGCTAACTATTTTAGAGTTGTGGTATTGAACCTGCGAGCCCTAAGATCATA
TCTA
Found at i:14496439 original size:133 final size:134
Alignment explanation
Indices: 14496207--14496462 Score: 345
Period size: 133 Copynumber: 1.9 Consensus size: 134
14496197 TTAAACCTGC
* * * * *
14496207 GAGCCCTAAGATCATATCTAGGAGCCTTAGGTCTCGCTAACTATTTTAGAGTCTGTGGTATTGAA
1 GAGCCCTAAGATCATAACGAGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAA
*
14496272 CCTGCAAGCCCTACGATCACAGCTTAAAGACTTAGCTCTCACTAACTA-TTTAGAGGTACTGAAC
66 CCTGCAAGCCCTAAGATCACAGCTTAAAGACTTAGCTCTCACTAACTATTTTAGAGGTACTGAAC
14496336 TTGT
131 TTGT
* *
14496340 GAGCCCTAAGATCATAACGGGGAGCCTTAGCTCTCGTTAACTATTTTAGAGGCTGCGGTATTGAA
1 GAGCCCTAAGATCATAACGAGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAA
* * * * ** * *
14496405 CCTGCGAGCCTTAAGATTATAG-TTGGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGT
66 CCTGCAAGCCCTAAGATCACAGCTT-AAAGACTTAGCTCTCACTAACTATTTTAGAGGT
14496463 TGTGGTATTG
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
132 2 0.02
133 94 0.90
134 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (134 bp):
GAGCCCTAAGATCATAACGAGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAA
CCTGCAAGCCCTAAGATCACAGCTTAAAGACTTAGCTCTCACTAACTATTTTAGAGGTACTGAAC
TTGT
Found at i:14496527 original size:50 final size:49
Alignment explanation
Indices: 14496434--14496537 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
14496424 TAGTTGGGAG
* *
14496434 CCTTAGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAACCT-CGAA
1 CCTTAGCTCTCGCTAACTATTTTAGAGGCTGTGGTATTAAACCTGCGAA
* * *
14496482 CCTTAGCTCTCTCTAACTATGTTTTGAGGGCTGCT-GTATTAAACCTGCGAG
1 CCTTAGCTCTCGCTAACTAT-TTTAGA-GGCTG-TGGTATTAAACCTGCGAA
14496533 CCTTA
1 CCTTA
14496538 AGATCACAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
48 19 0.40
49 5 0.11
50 14 0.30
51 9 0.19
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (49 bp):
CCTTAGCTCTCGCTAACTATTTTAGAGGCTGTGGTATTAAACCTGCGAA
Found at i:14496577 original size:120 final size:118
Alignment explanation
Indices: 14496364--14496581 Score: 285
Period size: 120 Copynumber: 1.8 Consensus size: 118
14496354 TAACGGGGAG
* * * **
14496364 CCTTAGCTCTCGTTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATTATAGTT
1 CCTTAGCTCTCGTTAACTATTTTAGAGGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACT
* * * *
14496429 GGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAACCTCGAA
66 AGGAACCTTAGCTCCCACTAACTATTTTAGAGGTTGTGGTATTGAACCTCGAA
* *
14496482 CCTTAGCTCTC-TCTAACTATGTTTTGAGGGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACA
1 CCTTAGCTCTCGT-TAACTAT-TTTAGA-GGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACA
* *
14496546 ACTAGGAACCTTAGCTCCCACTAATTGTTTTAGAGG
63 ACTAGGAACCTTAGCTCCCACTAACTATTTTAGAGG
14496582 CTGTTATATT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
117 1 0.01
118 18 0.21
119 5 0.06
120 60 0.71
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (118 bp):
CCTTAGCTCTCGTTAACTATTTTAGAGGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACT
AGGAACCTTAGCTCCCACTAACTATTTTAGAGGTTGTGGTATTGAACCTCGAA
Found at i:14496662 original size:70 final size:71
Alignment explanation
Indices: 14496482--14496787 Score: 222
Period size: 70 Copynumber: 4.3 Consensus size: 71
14496472 GAACCTCGAA
* ** *
14496482 CCTTAGCTCTCTCTAACTATGTTTT-GAGGGCT-GCTGTATT-AAACCTGCGAGCCTTAAGATCA
1 CCTTAGCTCTCTCTAACTAT-TTTTAGA-GGCTAG-AGTATTGAAA-CTATGAACCTTAAGATCA
* * * *
14496544 CAACTAGGAA
62 TAGCTGGGAG
* * *
14496554 CCTTAGCTCCCACTAA-T-TGTTTTAGAGGCT-GTTA-TATTGAATCTATGAACCTTAAGATCAT
1 CCTTAGCTCTCTCTAACTAT-TTTTAGAGGCTAG--AGTATTGAAACTATGAACCTTAAGATCAT
*
14496615 AGTTGGGAG
63 AGCTGGGAG
* * * * * * * * *
14496624 CTTTAGCTCTCTCTAGCTATTTTTAG-GGCTACG-GTATTGAACCTGTGAGCCCTAAGATAACAA
1 CCTTAGCTCTCTCTAACTATTTTTAGAGGCTA-GAGTATTGAAACTATGAACCTTAAGATCATAG
14496687 CTGGGAG
65 CTGGGAG
* * *
14496694 CCTTAGCTCTCACTAACT-GTTTTAGAGGCTAGAGTATT-AAAC-CTGCAAGCCTTAAGATCATA
1 CCTTAGCTCTCTCTAACTATTTTTAGAGGCTAGAGTATTGAAACTATG-AA-CCTTAAGATCATA
14496756 GCTGGGAG
64 GCTGGGAG
14496764 CCTTAGCTCTCTCTAACTATTTTT
1 CCTTAGCTCTCTCTAACTATTTTT
14496788 TTAGGGGAGG
Statistics
Matches: 183, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
68 2 0.01
69 11 0.06
70 138 0.75
71 16 0.09
72 16 0.09
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (71 bp):
CCTTAGCTCTCTCTAACTATTTTTAGAGGCTAGAGTATTGAAACTATGAACCTTAAGATCATAGC
TGGGAG
Found at i:14496747 original size:140 final size:140
Alignment explanation
Indices: 14496482--14496787 Score: 395
Period size: 140 Copynumber: 2.2 Consensus size: 140
14496472 GAACCTCGAA
* * * *
14496482 CCTTAGCTCTCTCTAACTATGTTTTGAGGGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACAA
1 CCTTAGCTCTCTCTAACTAT-TTTTGAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAA
* *
14496547 CTAGGAACCTTAGCTCCCACTAATTGTTTTAGAGGCTGTTATATTGAATCTATGAACCTTAAGAT
65 CTAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCTG-TATATTGAAACTATGAACCTTAAGAT
*
14496612 CATAGTTGGGAG
129 CATAGCTGGGAG
* * * *
14496624 CTTTAGCTCTCTCTAGCTATTTTT-AGGGCTACGGTATTGAACCTGTGAGCCCTAAGATAACAAC
1 CCTTAGCTCTCTCTAACTATTTTTGAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAAC
* * * *
14496688 TGGGAGCCTTAGCTCTCACTAACTGTTTTAGAGGCTAG-AGTATT-AAAC-CTGCAAGCCTTAAG
66 TAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCT-GTA-TATTGAAACTATG-AA-CCTTAAG
14496750 ATCATAGCTGGGAG
127 ATCATAGCTGGGAG
14496764 CCTTAGCTCTCTCTAACTATTTTT
1 CCTTAGCTCTCTCTAACTATTTTT
14496788 TTAGGGGAGG
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
138 2 0.01
139 6 0.04
140 112 0.78
141 5 0.03
142 18 0.13
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (140 bp):
CCTTAGCTCTCTCTAACTATTTTTGAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAAC
TAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCTGTATATTGAAACTATGAACCTTAAGATCA
TAGCTGGGAG
Found at i:14503629 original size:24 final size:24
Alignment explanation
Indices: 14503601--14503666 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
14503591 GAGTTTCTTT
* *
14503601 TATTATTATTTTAAGTTTTA-TATG
1 TATTATTATTTGAA-ATTTACTATG
14503625 TATTATTATTTGAAATTTACTATG
1 TATTATTATTTGAAATTTACTATG
*
14503649 TATTACTATTT-AAATTTA
1 TATTATTATTTGAAATTTA
14503667 ACATAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (24 bp):
TATTATTATTTGAAATTTACTATG
Found at i:14506149 original size:40 final size:40
Alignment explanation
Indices: 14506093--14506172 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
14506083 TCATAGGACA
*
14506093 GACACTCTGAATAGGCCTCGAGCATGTTGGACATGTGTAT
1 GACACTCTGAACAGGCCTCGAGCATGTTGGACATGTGTAT
*
14506133 GACACTCTGAGCAGGCCTCGAGCATGTTGGACATGTGTAT
1 GACACTCTGAACAGGCCTCGAGCATGTTGGACATGTGTAT
14506173 CGTTTCAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GACACTCTGAACAGGCCTCGAGCATGTTGGACATGTGTAT
Found at i:14516219 original size:17 final size:18
Alignment explanation
Indices: 14516187--14516227 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14516177 TCACACGGGC
* *
14516187 TGGGCCAATTTGGGCGTG
1 TGGGCCAATATGGGCGTA
14516205 TGGGCC-ATATGGGCGTA
1 TGGGCCAATATGGGCGTA
14516222 TGGGCC
1 TGGGCC
14516228 CATACGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.12, C:0.20, G:0.44, T:0.24
Consensus pattern (18 bp):
TGGGCCAATATGGGCGTA
Found at i:14518591 original size:45 final size:44
Alignment explanation
Indices: 14518542--14518704 Score: 184
Period size: 45 Copynumber: 3.6 Consensus size: 44
14518532 AATTAAAAAT
* * **
14518542 ACCATAGTTGAAAGATACTATGGCACTAAATCGGCAAT-GTGTAAG
1 ACCATAGTTGAAAGATATTATGGCACTAAATC--TAATAGAATAAG
* ** *
14518587 ACCATAATTGAAAGATATTATGGCTTTAAATCTAATACAAATAAG
1 ACCATAGTTGAAAGATATTATGGCACTAAATCTAATA-GAATAAG
* **
14518632 ACCATATTTGAAAGATATTATGGCTTTAAATCTAATACGAATAAG
1 ACCATAGTTGAAAGATATTATGGCACTAAATCTAATA-GAATAAG
14518677 ACCATAGTTGAAAGATATTATGGCACTA
1 ACCATAGTTGAAAGATATTATGGCACTA
14518705 CTTCGGGAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 3 0.03
45 100 0.97
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (44 bp):
ACCATAGTTGAAAGATATTATGGCACTAAATCTAATAGAATAAG
Found at i:14530521 original size:58 final size:58
Alignment explanation
Indices: 14530454--14530570 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
14530444 TAAATGAACC
**
14530454 TAATCAACCATTTCTTCAGATTTATTATATCATGTCATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTCTTCAGATTTATTATATCACATCATCAATCAATGAAAATGTGGCA
*
14530512 TAATCAACCATTTGTTCAGATTTATTATATCACATCATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTCTTCAGATTTATTATATCACATCATCAATCAATGAAAATGTGGCA
14530570 T
1 T
14530571 TATTAACGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (58 bp):
TAATCAACCATTTCTTCAGATTTATTATATCACATCATCAATCAATGAAAATGTGGCA
Found at i:14532483 original size:69 final size:69
Alignment explanation
Indices: 14532372--14532502 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
14532362 ATAGTACCTC
* * * *
14532372 CATTTCTTTGAGCCCCTCGCCGCTTTTCTGGAAACCCTGGAGGAGCTTTAACTTCACTCTCCCGT
1 CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
14532437 CCAT
66 CCAT
* *
14532441 CATTTCTTTCA-CTCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGGTTCAACTTCAGTCTCC
1 CATTTCTTTCAGC-CCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCC
14532503 TGACCACCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.17, C:0.35, G:0.18, T:0.31
Consensus pattern (69 bp):
CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
CCAT
Found at i:14533672 original size:19 final size:18
Alignment explanation
Indices: 14533637--14533676 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
14533627 TTTATTATTA
14533637 ATATTTTAATATATAAACT
1 ATATTTTAATATATAAA-T
14533656 ATATTTTAA-ATATTAAAT
1 ATATTTTAATATA-TAAAT
14533674 ATA
1 ATA
14533677 ATCAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTTAATATATAAAT
Found at i:14534418 original size:15 final size:15
Alignment explanation
Indices: 14534400--14534447 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
14534390 TAAGAGAGGG
14534400 AAAAAGAACAAATAA
1 AAAAAGAACAAATAA
*
14534415 AAAAAGGACAAA-AA
1 AAAAAGAACAAATAA
*
14534429 AAATTAGAA-AAATAA
1 AAA-AAGAACAAATAA
14534444 AAAA
1 AAAA
14534448 TAAGAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAGAACAAATAA
Found at i:14534455 original size:15 final size:15
Alignment explanation
Indices: 14534409--14534464 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
14534399 GAAAAAGAAC
*
14534409 AAATAAAAAA-AGGA
1 AAATAAAAAATAAGA
* *
14534423 CAA-AAAAAATTAGAA
1 AAATAAAAAATAAG-A
14534438 AAATAAAAAATAAGA
1 AAATAAAAAATAAGA
14534453 AAATAAATAAAT
1 AAATAAA-AAAT
14534465 GTATCATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 6 0.18
14 3 0.09
15 11 0.33
16 13 0.39
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
AAATAAAAAATAAGA
Found at i:14544720 original size:21 final size:21
Alignment explanation
Indices: 14544680--14544743 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
14544670 GGCGTGACAC
*
14544680 GCAG-CCTGTGTTGACCCATA
1 GCAGACCTGTGTTGAGCCATA
*
14544700 GCA-ACCTTGTGTTGAGTCATA
1 GCAGACC-TGTGTTGAGCCATA
* *
14544721 GTAGTCCTGTGTTGAGCCATA
1 GCAGACCTGTGTTGAGCCATA
14544742 GC
1 GC
14544744 CTGAATGTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.14
21 28 0.80
22 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (21 bp):
GCAGACCTGTGTTGAGCCATA
Found at i:14546457 original size:6 final size:6
Alignment explanation
Indices: 14546443--14546475 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
14546433 GAGATTTACA
14546443 CATACAT CATAAT CATAAT CATAAT CATAAT CA
1 CATA-AT CATAAT CATAAT CATAAT CATAAT CA
14546476 CATCAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (6 bp):
CATAAT
Found at i:14547705 original size:3 final size:3
Alignment explanation
Indices: 14547697--14547737 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
14547687 TAATATTTTC
** *
14547697 ATT ATT ATT ATT ACA ATT ATT ATT AGT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14547738 ATATCAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:14561348 original size:18 final size:17
Alignment explanation
Indices: 14561312--14561359 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
14561302 TTTATTTTTC
*
14561312 TTATTTATTTCTTTTTCA
1 TTATTTATTT-TTTCTCA
14561330 TTATTTATTTTTATCTCA
1 TTATTTATTTTT-TCTCA
*
14561348 TCAATTTATTTT
1 T-TATTTATTTT
14561360 ATGGTTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTATTTTTTCTCA
Found at i:14564423 original size:31 final size:31
Alignment explanation
Indices: 14564388--14564450 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14564378 AATCCCATGG
14564388 TGAGACACAACCCCTGTAAACCCAAGAATGT
1 TGAGACACAACCCCTGTAAACCCAAGAATGT
14564419 TGAGACACAACCCCTGTAAACCCAAGAATGT
1 TGAGACACAACCCCTGTAAACCCAAGAATGT
14564450 T
1 T
14564451 TAATTCTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.17
Consensus pattern (31 bp):
TGAGACACAACCCCTGTAAACCCAAGAATGT
Found at i:14572309 original size:28 final size:28
Alignment explanation
Indices: 14572245--14572311 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
14572235 GCCTTATTCA
14572245 ATAACAGT-ACATTGTGGGCCTTAGCCC
1 ATAACAGTAACATTGTGGGCCTTAGCCC
* *
14572272 A-ATATAGTAACGA-TGTGGGCCTTGGCCC
1 ATA-ACAGTAAC-ATTGTGGGCCTTAGCCC
14572300 ATAACAGTAACA
1 ATAACAGTAACA
14572312 GATATCAGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.03
27 6 0.18
28 24 0.73
29 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (28 bp):
ATAACAGTAACATTGTGGGCCTTAGCCC
Found at i:14572375 original size:29 final size:31
Alignment explanation
Indices: 14572322--14572388 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
14572312 GATATCAGTC
*
14572322 ATGCAGTGAACAGTATGTAATATCATTAATCA
1 ATGCAGTGAACAGTA-GCAATATCATTAATCA
14572354 ATGCAGT-AACAGTA-CAATATCATTAATCA
1 ATGCAGTGAACAGTAGCAATATCATTAATCA
*
14572383 GTGCAG
1 ATGCAG
14572389 ATATGCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
31 7 0.21
32 7 0.21
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (31 bp):
ATGCAGTGAACAGTAGCAATATCATTAATCA
Found at i:14572837 original size:27 final size:27
Alignment explanation
Indices: 14572782--14572980 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
14572772 GGGTATAATA
* * *
14572782 GTCATTTTACGCTA-CGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
14572808 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
14572835 GTCATTCTACCCTATCGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
14572862 GTCATTCTACCCTATCGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
14572889 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
14572916 ATTATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
14572943 ATTATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
14572970 GTCATTTTACC
1 GTCATTTTACC
14572981 TATTTTGAGG
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
26 13 0.08
27 142 0.92
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:14572900 original size:81 final size:81
Alignment explanation
Indices: 14572782--14572980 Score: 285
Period size: 81 Copynumber: 2.5 Consensus size: 81
14572772 GGGTATAATA
* *
14572782 GTCATTTTACGCTA-CGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACC
1 GTCATTTTACCCTATCGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACC
14572846 CTATCGG-GGTATTTCG
66 CTAT-GGAGGTATTTCG
* * * *
14572862 GTCATTCTACCCTATCGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGATTATTTTACC
1 GTCATTTTACCCTATCGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACC
14572927 CTATGGAGGTATTTCG
66 CTATGGAGGTATTTCG
* * * *
14572943 ATTATTTTACCCTATGGGGGTATTTTAGTCATTTTACC
1 GTCATTTTACCCTATCGGGGTATTTTGGTCATTTTACC
14572981 TATTTTGAGG
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 14 0.13
81 91 0.87
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTATCGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACC
CTATGGAGGTATTTCG
Found at i:14575103 original size:33 final size:33
Alignment explanation
Indices: 14575061--14575142 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
14575051 GGCCCATATG
* *
14575061 CCCGTGTGGCCTCACCCACCCAAATTCACCTTA
1 CCCGTGTGGCCCCACACACCCAAATTCACCTTA
* * *
14575094 CCCGTGTGGCCCCACACGCCCAAATTGACCTTG
1 CCCGTGTGGCCCCACACACCCAAATTCACCTTA
* *
14575127 CTCGTGT-GACCCACAC
1 CCCGTGTGGCCCCACAC
14575143 GGCCTTGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 8 0.19
33 34 0.81
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.20
Consensus pattern (33 bp):
CCCGTGTGGCCCCACACACCCAAATTCACCTTA
Found at i:14578949 original size:29 final size:29
Alignment explanation
Indices: 14578916--14578973 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
14578906 TCGTCGCGAA
14578916 GCAAAGAAACTACACCCTTCAGATTCTGC
1 GCAAAGAAACTACACCCTTCAGATTCTGC
*
14578945 GCAAAGAAACTACACCCTTCAGTTTCTGC
1 GCAAAGAAACTACACCCTTCAGATTCTGC
14578974 TTAGGTGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (29 bp):
GCAAAGAAACTACACCCTTCAGATTCTGC
Found at i:14583254 original size:57 final size:57
Alignment explanation
Indices: 14583170--14583345 Score: 271
Period size: 57 Copynumber: 3.1 Consensus size: 57
14583160 AATTTTCAGA
* *
14583170 TCATTTTCATTTTTGAGAAAACTACATTCATTTCCAAATGTTTTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACAACATTCATTTCCAAATGTTTTCATTTCTCCATTT
* * *
14583227 TCATTTTTATTTTGGAGTAAACCACATTCATTTCCAAATGTTTTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACAACATTCATTTCCAAATGTTTTCATTTCTCCATTT
* *
14583284 TCATTTTCATTTTGGAGAAAACAACAGTTCATTTCCAAATGTTTCCCATTTCTTCATTT
1 TCATTTTCATTTTGGAGAAAACAACA-TTCATTTCCAAATGTTT-TCATTTCTCCATTT
14583343 TCA
1 TCA
14583346 CTATTTCTAT
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
57 76 0.70
58 17 0.16
59 15 0.14
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.47
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACAACATTCATTTCCAAATGTTTTCATTTCTCCATTT
Found at i:14584475 original size:37 final size:37
Alignment explanation
Indices: 14584434--14584506 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
14584424 GTGTTGTGGC
* * *
14584434 GTGTTATTGGTTGGATTAGATCTTATGAGAGTTTGGT
1 GTGTTATCGATTGGATTAGATCTTATAAGAGTTTGGT
* *
14584471 GTGTTATCGATTGGATTAGCTCTTATAAGTGTTTGG
1 GTGTTATCGATTGGATTAGATCTTATAAGAGTTTGG
14584507 CACGTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.19, C:0.05, G:0.30, T:0.45
Consensus pattern (37 bp):
GTGTTATCGATTGGATTAGATCTTATAAGAGTTTGGT
Found at i:14584514 original size:37 final size:37
Alignment explanation
Indices: 14584444--14584514 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
14584434 GTGTTATTGG
* ***
14584444 TTGGATTAGATCTTATGAGAGTTTGGTGTGTTATCGA
1 TTGGATTAGATCTTATAAGAGTTTGGCACGTTATCGA
* *
14584481 TTGGATTAGCTCTTATAAGTGTTTGGCACGTTAT
1 TTGGATTAGATCTTATAAGAGTTTGGCACGTTAT
14584515 TAGGTGGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (37 bp):
TTGGATTAGATCTTATAAGAGTTTGGCACGTTATCGA
Found at i:14588881 original size:26 final size:27
Alignment explanation
Indices: 14588843--14588895 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
14588833 ACTATAGCAC
*
14588843 AAATCAGTTATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
*
14588870 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
14588896 TTATGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:14592947 original size:43 final size:43
Alignment explanation
Indices: 14592900--14592982 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
14592890 AGGGTAAATC
** * *
14592900 CAACAACCCAAGTTTATCTTCT-CTTTTTCTTAATTTCTTTATG
1 CAACAACCCAAGACTATCTTCTCCTCTTT-TTAAATTCTTTATG
*
14592943 CAACAACCCGAGACTATCTTCTCCTCTTTTTAAATTCTTT
1 CAACAACCCAAGACTATCTTCTCCTCTTTTTAAATTCTTT
14592983 TTTCAAGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.45
Consensus pattern (43 bp):
CAACAACCCAAGACTATCTTCTCCTCTTTTTAAATTCTTTATG
Found at i:14594239 original size:16 final size:16
Alignment explanation
Indices: 14594218--14594250 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14594208 TTTAGGGATC
14594218 AATTTACAAGTAAACT
1 AATTTACAAGTAAACT
14594234 AATTTACAAGTAAACT
1 AATTTACAAGTAAACT
14594250 A
1 A
14594251 TCTTAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (16 bp):
AATTTACAAGTAAACT
Found at i:14597563 original size:15 final size:15
Alignment explanation
Indices: 14597543--14597572 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14597533 TTTGTAAAAA
*
14597543 TTAAATATAACTAAG
1 TTAAATACAACTAAG
14597558 TTAAATACAACTAAG
1 TTAAATACAACTAAG
14597573 AAAACTAAGT
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:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
TTAAATACAACTAAG
Found at i:14598803 original size:42 final size:43
Alignment explanation
Indices: 14598756--14598843 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 43
14598746 AGGGTAAATC
*
14598756 CAACAACCCAAG-TATATCTTCTCCT-TTTTTAACTTCTTTTTT
1 CAACAACCCAAGAT-TATCTTCTCCTCTTTTTAAATTCTTTTTT
14598798 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
14598841 CAA
1 CAA
14598844 GGATAAAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.45
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:14603529 original size:21 final size:21
Alignment explanation
Indices: 14603505--14603551 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
14603495 TTTTTTATAA
14603505 ATTTATGATCATGGGAGCTTG
1 ATTTATGATCATGGGAGCTTG
14603526 ATTTATGATCATGGGAGCTTG
1 ATTTATGATCATGGGAGCTTG
14603547 ATTTA
1 ATTTA
14603552 GCTTGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (21 bp):
ATTTATGATCATGGGAGCTTG
Found at i:14607384 original size:3 final size:3
Alignment explanation
Indices: 14607376--14607410 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14607366 TCAGAAGCAG
*
14607376 AGA AGA AGA AGA ATA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
14607411 GCCTACTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:14608089 original size:103 final size:104
Alignment explanation
Indices: 14607982--14608206 Score: 260
Period size: 105 Copynumber: 2.2 Consensus size: 104
14607972 TTTAATCGTT
* * * * *
14607982 AGCTAGGAATGTAGGTCCGCTTA-T-TTTCAGAGTTGTGAGCTTAACTTAGCTAACTTAAATATC
1 AGCTAGGAACGTAGGTCCGC-AACTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
* *
14608045 TAGAGGCTGCAATTTTAAACTGGAAAGCC-TTTATAATATC
65 TAGAGGCTGCAATTTTAAA-TCGAAAACCTTTTATAATATC
* **
14608085 AGCTAGGAGCGTAGGTTTGCAAGCTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
1 AGCTAGGAACGTAGGTCCGCAA-CTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
** *
14608150 TAGAGGCTGTGATTTTAAATCGAAAACCTTTTATAATATT
65 TAGAGGCTGCAATTTTAAATCGAAAACCTTTTATAATATC
*
14608190 AG-TTGGAAGCGTAGGTC
1 AGCTAGGAA-CGTAGGTC
14608207 TGTGAGCTAT
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
102 1 0.01
103 16 0.16
104 12 0.12
105 72 0.71
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (104 bp):
AGCTAGGAACGTAGGTCCGCAACTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCT
AGAGGCTGCAATTTTAAATCGAAAACCTTTTATAATATC
Found at i:14608133 original size:105 final size:105
Alignment explanation
Indices: 14608006--14608205 Score: 287
Period size: 105 Copynumber: 1.9 Consensus size: 105
14607996 GTCCGCTTAT
* * * *
14608006 TTTCAGAGTTGTGAGCTTAACTTAGCTAACTTAAATATCTAGAGGCTGCAATTTTAAACTGGAAA
1 TTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAA-TCGAAA
*
14608071 GCC-TTTATAATATCAGCTAGG-AGCGTAGGTTTGCAAGCTG
65 ACCTTTTATAATATCAG-TAGGAAGCGTAGGTTTGCAAGCTG
**
14608111 TTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGTGATTTTAAATCGAAAA
1 TTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAATCGAAAA
* *
14608176 CCTTTTATAATATTAGTTGGAAGCGTAGGT
66 CCTTTTATAATATCAGTAGGAAGCGTAGGT
14608206 CTGTGAGCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
104 10 0.12
105 74 0.88
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (105 bp):
TTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAATCGAAAA
CCTTTTATAATATCAGTAGGAAGCGTAGGTTTGCAAGCTG
Found at i:14608284 original size:69 final size:69
Alignment explanation
Indices: 14608194--14608996 Score: 530
Period size: 69 Copynumber: 11.6 Consensus size: 69
14608184 AATATTAGTT
* * * *
14608194 GGAAGCGTAGGTCTG-TGAGCTATTTTGGAGGCTACGATCTTAAACTGGCAAGCTTTTGTAATAT
1 GGAA-CGTAGGTCCGCT-AGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATAT
14608258 CAGCTG
64 CAGCTG
* * ** * **
14608264 GGAACGTAAGTCCGCTAGCTATGCTGGAGGCTGTGATCAT-AATTCGGTGAGCCTTTGTAATATC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACT-GGCAAGCCTTTGTAATATC
14608328 AGCTG
65 AGCTG
* * * * * * * *
14608333 GGAACATAGGTCC-ATGAGCGATGTTGAAGGCTACAATCATAAACTGGAAAACCTTTGTAATATT
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATC
*
14608397 AACTG
65 AGCTG
* * * * * ** *
14608402 GGAACGTAGGTCCACTAGATATGTTGGAGGCTGCAATCATAAACTAGTGAGCCTTTATAATATCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATCA
**
14608467 ATTG
66 GCTG
* *
14608471 GGAACGTAGGTCCG-TGAGC-A-GCTTCGGAGGCTACGATCATAAA-TCGACAAGCCTTTATAAT
1 GGAACGTAGGTCCGCT-AGCTATG-TT-GGAGGCTACGATCATAAACT-GGCAAGCCTTTGTAAT
*
14608532 ATCAACTG
62 ATCAGCTG
* * * * * * * * * *
14608540 GGAACTTAGGTCCGCTAGTTGTGTTAGAGGCTATGATCATAAACCGACCAGCTTTTATAATATCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATCA
** *
14608605 ATTA
66 GCTG
* * * * * ** * *
14608609 GGAACGTAGGTCCGCAAGTTGTGTTGGATGCTACAATCATAAACCAGCAAGCTTTTGTAATGTCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATCA
*
14608674 GCTA
66 GCTG
* * * * * * * *
14608678 GGAACATTGGTCCGCTAGCTGTGTTGGAGGTTGCGATCATAAA-TAGGCGAGCCTTTGGAATACC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACT-GGCAAGCCTTTGTAATATC
*
14608742 AGCTA
65 AGCTG
* * * * * * * * * *
14608747 GGAACGTAGGTTCGCTAGCTATGTTGGATGTTGCAATCATAAACTAGTACGCCTTTGTATTACCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATCA
*
14608812 GTTG
66 GCTG
* * * * * * *
14608816 GGAACATAGGTCCG-TGAGTTGTGTTAGAGGCTACGATCATAAACCGGTAAGCCTTTTTAATATC
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATC
*
14608880 AGCTA
65 AGCTG
* * * * * ** * * *
14608885 GGAACATAGGTATC-TTAGCTTTGTTGGAAGCTGTGATCATAAACCGTCGAGCCTTTGTAATATC
1 GGAACGTAGGT-CCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATC
**
14608949 AATTG
65 AGCTG
* * *
14608954 GGAACGTAGGTCCG-TGAGCTGTGTTGGAGGCTGCAATCATAAA
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTACGATCATAAA
14608997 TCAACAAGCC
Statistics
Matches: 576, Mismatches: 137, Indels: 41
0.76 0.18 0.05
Matches are distributed among these distances:
67 1 0.00
68 12 0.02
69 547 0.95
70 15 0.03
71 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (69 bp):
GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTACGATCATAAACTGGCAAGCCTTTGTAATATCA
GCTG
Found at i:14609469 original size:13 final size:13
Alignment explanation
Indices: 14609451--14609483 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
14609441 ACACTGTATA
14609451 TGTACAACTTCGT
1 TGTACAACTTCGT
14609464 TGTACAACTTCGT
1 TGTACAACTTCGT
14609477 TGTACAA
1 TGTACAA
14609484 GAATAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTACAACTTCGT
Found at i:14619695 original size:48 final size:48
Alignment explanation
Indices: 14619624--14619719 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
14619614 TTATACGATA
14619624 TATTTTTTGCATTTATGATATACAATGGTTTTTACCACATCGAACTTT
1 TATTTTTTGCATTTATGATATACAATGGTTTTTACCACATCGAACTTT
14619672 TATTTTTTGCATTTATGATATACAATGGTTTTTACCACATCGAACTTT
1 TATTTTTTGCATTTATGATATACAATGGTTTTTACCACATCGAACTTT
14619720 GCTCAGATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (48 bp):
TATTTTTTGCATTTATGATATACAATGGTTTTTACCACATCGAACTTT
Found at i:14621036 original size:48 final size:48
Alignment explanation
Indices: 14620983--14621079 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
14620973 GTGGTGTATT
* * **
14620983 TATGTTGCTTTAAGGACTGTTGTTTGGTGTATTAATTTAGCAGAAAAA
1 TATGTTACTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAA
*
14621031 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAA
1 TATGTTACTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAA
14621079 T
1 T
14621080 TCTTGTTTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (48 bp):
TATGTTACTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAA
Found at i:14621216 original size:91 final size:91
Alignment explanation
Indices: 14621031--14621219 Score: 240
Period size: 91 Copynumber: 2.1 Consensus size: 91
14621021 AGCAGAAAAA
*
14621031 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATTCTTGTTTAGTCGTCA
1 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAGTCGTCA
* ** *
14621096 ATTAATGTTGTCTAAGTGACTGTATT
66 ATAAATGAGGTCTAAGTGACTGTAAT
* * *
14621122 TATGTTGTTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAG-TAAATTGTTGTTTAGAT-GTC
1 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAG-TCGTC
* *
14621185 AATAAATGAGGTTTGAA-TGACTTTAAAT
65 AATAAATGAGGTCT-AAGTGACTGT-AAT
14621213 TATGTTA
1 TATGTTA
14621220 ATAATGGTCG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
90 32 0.38
91 52 0.62
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (91 bp):
TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAGTCGTCA
ATAAATGAGGTCTAAGTGACTGTAAT
Found at i:14622041 original size:43 final size:43
Alignment explanation
Indices: 14621987--14622150 Score: 240
Period size: 43 Copynumber: 3.8 Consensus size: 43
14621977 TTTTATAAAT
*
14621987 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
* * *
14622030 AAACGCAGCTATAGATCAGGATCTTTAGCGGCGCTTTTT-TAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
* * *
14622072 AAACGCCGCTATAGATCAATACCTTTAGCGGCGCTTATACTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
* *
14622115 AAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTT
14622151 CTCGCAAAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 35 0.33
43 72 0.67
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
Found at i:14622141 original size:85 final size:85
Alignment explanation
Indices: 14621987--14622150 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 85
14621977 TTTTATAAAT
* * * *
14621987 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCAACAAACGCAGCTATAGATCAGGAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTATACAACAAACGCAGCTATAGATCAAGAC
*
14622052 CTTTAGCGGCGCTTTTTTAC
66 CTTTAGCGACGCTTTTTTAC
* * * *
14622072 AAACGCCGCTATAGATCAATACCTTTAGCGGCGCTTATACTACAAACGCCGCTATAGCTCAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTATACAACAAACGCAGCTATAGATCAAGAC
14622137 CTTTAGCGACGCTT
66 CTTTAGCGACGCTT
14622151 CTCGCAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTATACAACAAACGCAGCTATAGATCAAGAC
CTTTAGCGACGCTTTTTTAC
Found at i:14625885 original size:9 final size:9
Alignment explanation
Indices: 14625858--14625919 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 9
14625848 TATATTCAAA
14625858 TTATAA-TT
1 TTATAATTT
*
14625866 TTAT-TTTT
1 TTATAATTT
14625874 TTATAATTT
1 TTATAATTT
*
14625883 TTACAATTT
1 TTATAATTT
*
14625892 TT-TACAATT
1 TTATA-ATTT
*
14625901 TTACAATTT
1 TTATAATTT
14625910 TTATAATTT
1 TTATAATTT
14625919 T
1 T
14625920 AAATTATTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 11 0.26
9 30 0.71
10 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:14625893 original size:10 final size:10
Alignment explanation
Indices: 14625870--14625911 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
14625860 ATAATTTTAT
*
14625870 TTTTTTATAA
1 TTTTTTACAA
14625880 -TTTTTACAA
1 TTTTTTACAA
14625889 TTTTTTACAA
1 TTTTTTACAA
14625899 --TTTTACAA
1 TTTTTTACAA
14625907 TTTTT
1 TTTTT
14625912 ATAATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 12 0.43
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:14626122 original size:89 final size:83
Alignment explanation
Indices: 14626016--14626222 Score: 223
Period size: 76 Copynumber: 2.5 Consensus size: 83
14626006 TATAAATAAC
* * *
14626016 TTATTTAATATATAAATTAAAAAGTACTAATTAATTCAAATCTTAAACC-CGAACCCGACCCCAA
1 TTATTTAATATAAAAATTAAAAA--AC--ACTAATT--AATC-TAAACCTCAAACCCGACCCCAA
14626080 ATCCCTAACCCCTAACCCCTAAACT
59 ATCCCTAACCCCTAACCCCTAAACT
*
14626105 TTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCGACCCCAAA----T-
1 TTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCTCAAACCCGACCCCAAATCCCTA
*
14626165 --CCCTAACCCCTAAATT
66 ACCCCTAACCCCTAAACT
* * *
14626181 TTATTTAATATATAACTTAAAAAATACTAATTAATCTAAACC
1 TTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACC
14626223 CTAAACCATA
Statistics
Matches: 109, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
76 54 0.50
79 1 0.01
82 6 0.06
83 18 0.17
85 6 0.06
87 2 0.02
89 22 0.20
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (83 bp):
TTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCTCAAACCCGACCCCAAATCCCTA
ACCCCTAACCCCTAAACT
Found at i:14626184 original size:76 final size:76
Alignment explanation
Indices: 14626089--14626229 Score: 237
Period size: 76 Copynumber: 1.9 Consensus size: 76
14626079 AATCCCTAAC
*
14626089 CCCTAACCCCTAAACTTTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCTTAAACC
1 CCCTAACCCCTAAACTTTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
14626154 CGACCCCAAAT
66 CGACCCCAAAT
* * * *
14626165 CCCTAACCCCTAAATTTTATTTAATATATAACTTAAAAAATACTAATTAATCTAAACCCTAAACC
1 CCCTAACCCCTAAACTTTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
14626230 ATAACCCGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (76 bp):
CCCTAACCCCTAAACTTTATTTAATATAAAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
CGACCCCAAAT
Found at i:14626255 original size:7 final size:7
Alignment explanation
Indices: 14626243--14626273 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14626233 ACCCGATCCC
14626243 TAACCCT
1 TAACCCT
14626250 TAACCCT
1 TAACCCT
*
14626257 TAACCCC
1 TAACCCT
14626264 TAACCCT
1 TAACCCT
14626271 TAA
1 TAA
14626274 TCTCTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (7 bp):
TAACCCT
Found at i:14626417 original size:14 final size:14
Alignment explanation
Indices: 14626383--14626434 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
14626373 CTTAACATCT
*
14626383 AACCCATAA-CCT-
1 AACCCCTAACCCTG
14626395 AACCCCTAACCCTG
1 AACCCCTAACCCTG
* *
14626409 AATCCCTAACCCTT
1 AACCCCTAACCCTG
14626423 AACCCCTAACCC
1 AACCCCTAACCC
14626435 CTAAACCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 23 0.68
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (14 bp):
AACCCCTAACCCTG
Found at i:14626435 original size:7 final size:7
Alignment explanation
Indices: 14626392--14626438 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
14626382 TAACCCATAA
14626392 CCTAACC
1 CCTAACC
14626399 CCTAA-C
1 CCTAACC
*
14626405 CCTGAATC
1 CCT-AACC
14626413 CCTAACC
1 CCTAACC
*
14626420 CTTAACC
1 CCTAACC
14626427 CCTAACC
1 CCTAACC
14626434 CCTAA
1 CCTAA
14626439 ACCTTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 4 0.11
7 27 0.77
8 4 0.11
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (7 bp):
CCTAACC
Found at i:14626436 original size:21 final size:21
Alignment explanation
Indices: 14626392--14626444 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14626382 TAACCCATAA
* * *
14626392 CCTAACCCCTAACCCTGAATC
1 CCTAACCCTTAACCCCGAACC
*
14626413 CCTAACCCTTAACCCCTAACC
1 CCTAACCCTTAACCCCGAACC
*
14626434 CCTAAACCTTA
1 CCTAACCCTTA
14626445 TTTAATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.47, G:0.02, T:0.21
Consensus pattern (21 bp):
CCTAACCCTTAACCCCGAACC
Found at i:14626556 original size:157 final size:158
Alignment explanation
Indices: 14626240--14626581 Score: 535
Period size: 157 Copynumber: 2.2 Consensus size: 158
14626230 ATAACCCGAT
* * * * *
14626240 CCCTAACCCTTAACCCTTAACCCCTAACCCTTAATCTCTAAACCTTATTTAATATATAATTAAAA
1 CCCTAACCCTTAACCCATAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAATTAAAA
* *
14626305 CACACTAATTAATCTAAATCCCTAAACTCTAACCTAACACCGATTTTATCAACCCTAAATCCCTA
66 CACACTAATTAATCTAAATCCCTAAACTCTAACCTAACACCGAATTTATAAACCCTAAATCCCTA
14626370 ACTCTTAACATCTAACCCATAACCTAAC
131 ACTCTTAACATCTAACCCATAACCTAAC
*
14626398 CCCTAACCCTGAATCCC-TAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAATTAAA
1 CCCTAACCCTTAA-CCCATAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAATTAAA
* * *
14626462 ATACACTAATTAATCTAAA-CCCTAAACTCTAACTTAACACCGAATTTCTAAACCCTAAATCCCT
65 ACACACTAATTAATCTAAATCCCTAAACTCTAACCTAACACCGAATTTATAAACCCTAAATCCCT
*
14626526 AACTCTTAACATCTAACCCCTAACCTAAC
130 AACTCTTAACATCTAACCCATAACCTAAC
* *
14626555 CCTTAACCCTTAACCCATAAACCTTAA
1 CCCTAACCCTTAACCCATAACCCTTAA
14626582 ATCACATTAA
Statistics
Matches: 168, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
156 3 0.02
157 89 0.53
158 73 0.43
159 3 0.02
ACGTcount: A:0.38, C:0.33, G:0.01, T:0.28
Consensus pattern (158 bp):
CCCTAACCCTTAACCCATAACCCTTAACCCCTAACCCCTAAACCTTATTTAATATATAATTAAAA
CACACTAATTAATCTAAATCCCTAAACTCTAACCTAACACCGAATTTATAAACCCTAAATCCCTA
ACTCTTAACATCTAACCCATAACCTAAC
Found at i:14626623 original size:14 final size:15
Alignment explanation
Indices: 14626604--14626636 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14626594 CTTAAACCAG
14626604 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14626618 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14626633 AATC
1 AATC
14626637 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:14627459 original size:147 final size:147
Alignment explanation
Indices: 14627143--14627853 Score: 1230
Period size: 147 Copynumber: 4.8 Consensus size: 147
14627133 AATCATTAAT
14627143 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
* *
14627208 TTTTATTTTTTTTATAAGTCGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTATTGCTT
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTT
14627273 ACCTTTAGCGGCGCTTC
131 ACCTTTAGCGGCGCTTC
*
14627290 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
* *
14627355 TTTTA-TTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTGTAGGAAACGCCGCTATTGCTT
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTT
14627419 ACCTTTAGCGGCGCTTC
131 ACCTTTAGCGGCGCTTC
* *
14627436 TTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAA--A
* * *
14627501 TTTTTTATTTTTTTTATAAATTGATTTATTTTTTGCGACATTTTTATAGGAAACGCCGCTATTGC
64 TTTTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGC
*
14627566 TTACCTTTAGCGGTGCTTC
129 TTACCTTTAGCGGCGCTTC
* **
14627585 TTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAAAA
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
14627650 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTT
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTT
14627715 ACCTTTAGC-G-GCTTC
131 ACCTTTAGCGGCGCTTC
*
14627730 TTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
* *
14627795 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACACCGCTA
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTA
14627854 AAGCCCTGGG
Statistics
Matches: 539, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
145 123 0.23
146 134 0.25
147 140 0.26
148 8 0.01
149 134 0.25
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (147 bp):
TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTT
ACCTTTAGCGGCGCTTC
Found at i:14627795 original size:295 final size:293
Alignment explanation
Indices: 14627143--14627853 Score: 1237
Period size: 295 Copynumber: 2.4 Consensus size: 293
14627133 AATCATTAAT
14627143 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
*
14627208 TTTTATTTTTTTTATAAGTCGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTATTGCTT
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTATTGCTT
*
14627273 ACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTT
131 ACCTTTAGCGGCGCTTCTTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTT
*** *
14627338 TTGCTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTGTAGGA
196 TTGCTATTCTAAAAAAATTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGA
14627403 AACGCCGCTATTGCTTACCTTTAGCGGCGCTTC
261 AACGCCGCTATTGCTTACCTTTAGCGGCGCTTC
* *
14627436 TTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAA--A
* * * *
14627501 TTTTTTATTTTTTTTATAAATTGATTTATTTTTTGCGACATTTTTATAGGAAACGCCGCTATTGC
64 TTTTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTATTGC
*
14627566 TTACCTTTAGCGGTGCTTCTTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCG
129 TTACCTTTAGCGGCGCTTCTTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCG
*
14627631 TTTTGCTATTCTAAAAAAATTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATA
194 TTTTGCTATTCTAAAAAAATTTTA-TTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATA
14627696 GGAAACGCCGCTATTGCTTACCTTTAGC-G-GCTTC
258 GGAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTC
*
14627730 TTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
1 TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
*
14627795 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACACCGCTA
66 TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTA
14627854 AAGCCCTGGG
Statistics
Matches: 393, Mismatches: 22, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
292 56 0.14
293 61 0.16
294 65 0.17
295 145 0.37
296 66 0.17
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (293 bp):
TTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATT
TTTTATTTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATATGAAACGCCGCTATTGCTT
ACCTTTAGCGGCGCTTCTTATAAAGCGCCACAAAATTTTTTCATTTTGAACAAAACGACGCCGTT
TTGCTATTCTAAAAAAATTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGA
AACGCCGCTATTGCTTACCTTTAGCGGCGCTTC
Found at i:14627966 original size:114 final size:115
Alignment explanation
Indices: 14627821--14628195 Score: 510
Period size: 114 Copynumber: 3.3 Consensus size: 115
14627811 AGTTGATTTA
* * * *
14627821 TTTTTTGCGGCGTTTTTAT-ATGAAACACCGCTAAAGCCCTGGGCATTAGCGGCGCTTTAC-CAA
1 TTTTTTGCGGCG-CTTTATCA-AAAACGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTTACTTAA
* *
14627884 AAACGCCGCTAAATCCCTGAAAGTTCAGAAAACGGCGTCGTTGGGCTTAGGT
64 AAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCATCGTTGGGCTTAGGT
* *
14627936 TTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTAGGCATTAGCGGCGC-ATACTTAAAA
1 TTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTTACTTAAAA
* *
14628000 ACGCCGCTAAATCCCCGAAAGCTT-AAAAAACAGCATCGTTGGGCTTAGGT
66 ACGCCGCTAAATCCCCGAAAG-TTCAGAAAACGGCATCGTTGGGCTTAGGT
** * * **
14628050 TTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAACCCTGAACATTAGCGGCGCTTT-CTTAAAA
1 TTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTTACTTAAAA
* *
14628114 ACGCCGCTAAATCCCCGAAGGCTCAGAAAACGGCATCGTTGGGCTTAGG-
66 ACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCATCGTTGGGCTTAGGT
*
14628163 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
1 TTTTTTGCGGCGCTTTATCAAAAACGCCGCTAA
14628196 TGCTTTTTTT
Statistics
Matches: 231, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
113 35 0.15
114 180 0.78
115 16 0.07
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (115 bp):
TTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGGGCATTAGCGGCGCTTTACTTAAAA
ACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCATCGTTGGGCTTAGGT
Found at i:14628280 original size:12 final size:12
Alignment explanation
Indices: 14628263--14628288 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14628253 TTTTTTATCC
14628263 AAACGCCGCTAA
1 AAACGCCGCTAA
14628275 AAACGCCGCTAA
1 AAACGCCGCTAA
14628287 AA
1 AA
14628289 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Done.