Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 83 of 770
Found at i:24396980 original size:2 final size:2
Alignment explanation
Indices: 24396973--24397002 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24396963 ATGGAGAATG
24396973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24397003 GAAATGGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24398569 original size:46 final size:46
Alignment explanation
Indices: 24398418--24398962 Score: 777
Period size: 46 Copynumber: 11.8 Consensus size: 46
24398408 TGATGTCATA
* * * * *
24398418 GTATCTTTCAACTATGGTTTTACTCGCTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
24398464 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
24398511 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398557 GTATCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398603 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *** *
24398649 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
24398696 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
24398742 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398788 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398834 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398880 GTATCTTTCAGCCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
24398926 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
24398963 AGAGCACACT
Statistics
Matches: 452, Mismatches: 44, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
46 372 0.82
47 80 0.18
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:24398735 original size:185 final size:185
Alignment explanation
Indices: 24398418--24398961 Score: 885
Period size: 185 Copynumber: 2.9 Consensus size: 185
24398408 TGATGTCATA
* * * * * *
24398418 GTATCTTTCAACTATGGTTTTACTCGCTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
*
24398482 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
65 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
* *
24398547 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATG
130 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
24398603 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
24398668 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
24398733 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
* *
24398788 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*** * * *
24398853 TTATTCA-TTTCATATCACGTTGCCATGGTATCTTTCAGCCATGGTCTTACACATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
** *
24398917 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCA
131 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
24398962 GAGAGCACAC
Statistics
Matches: 338, Mismatches: 20, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
184 97 0.29
185 241 0.71
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
Found at i:24401389 original size:30 final size:28
Alignment explanation
Indices: 24401355--24401411 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
24401345 GCACTTCCAT
24401355 ACGGGTGAT-CCACACGCCCGTGTGTGACAC
1 ACGGGT-ATACCACACG-CC-TGTGTGACAC
*
24401385 ACGGGTATACCGCACGCCTGTGTGACA
1 ACGGGTATACCACACGCCTGTGTGACA
24401412 TGGCCATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 4 0.16
30 12 0.48
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.18
Consensus pattern (28 bp):
ACGGGTATACCACACGCCTGTGTGACAC
Found at i:24412885 original size:1 final size:1
Alignment explanation
Indices: 24412881--24412907 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
24412871 TTGACTCCTG
24412881 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
24412908 GGTTATGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24419125 original size:30 final size:31
Alignment explanation
Indices: 24419091--24419150 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
24419081 TAATAACTAG
24419091 TGACTTAAAT-AAAACTTTTAAATAATTTAA
1 TGACTTAAATGAAAACTTTTAAATAATTTAA
*
24419121 TGACTTAAATGAAAATTTTTAAATAATTTA
1 TGACTTAAATGAAAACTTTTAAATAATTTA
24419151 GTGATCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTAAATAATTTAA
Found at i:24419162 original size:31 final size:31
Alignment explanation
Indices: 24419091--24419169 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
24419081 TAATAACTAG
*
24419091 TGACTTAAAT-AAAACTTTTAAATAATTTAA
1 TGACTAAAATGAAAACTTTTAAATAATTTAA
* * *
24419121 TGACTTAAATGAAAATTTTTAAATAATTTAG
1 TGACTAAAATGAAAACTTTTAAATAATTTAA
*
24419152 TGA-TCAAAATGTAAACTT
1 TGACT-AAAATGAAAACTT
24419170 AATAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.26
31 31 0.74
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTAAAATGAAAACTTTTAAATAATTTAA
Found at i:24421165 original size:37 final size:37
Alignment explanation
Indices: 24421115--24421189 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
24421105 AAATTAGACT
24421115 CGGGTTAGTTTTGATTTGAAACTGTACAAGTCGAAGG
1 CGGGTTAGTTTTGATTTGAAACTGTACAAGTCGAAGG
*
24421152 CGGGTTAGTTTTGATTTGAAAGTGTACAAGTCGAAGG
1 CGGGTTAGTTTTGATTTGAAACTGTACAAGTCGAAGG
24421189 C
1 C
24421190 TAGAAGTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.32
Consensus pattern (37 bp):
CGGGTTAGTTTTGATTTGAAACTGTACAAGTCGAAGG
Found at i:24421939 original size:21 final size:21
Alignment explanation
Indices: 24421915--24421983 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
24421905 TATAATGATT
24421915 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
24421936 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
24421956 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
24421976 ATTATTAT
1 ATTATTAT
24421984 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:24421942 original size:27 final size:29
Alignment explanation
Indices: 24421893--24421949 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
24421883 ATTTTATTTA
*
24421893 GGTTTTATATACTATAATGATTATTATTAT
1 GGTTTTATATA-TATAATGATTATAATTAT
*
24421923 GGTTTTATAT-TA-AATTATTATAATTAT
1 GGTTTTATATATATAATGATTATAATTAT
24421950 TAATTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.52
28 2 0.08
30 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (29 bp):
GGTTTTATATATATAATGATTATAATTAT
Found at i:24421996 original size:15 final size:14
Alignment explanation
Indices: 24421970--24422000 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
24421960 TATGGTTTTA
24421970 TATTAGATTATTAT
1 TATTAGATTATTAT
24421984 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
24421999 TA
1 TA
24422001 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:24427768 original size:21 final size:21
Alignment explanation
Indices: 24427743--24427811 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
24427733 TATAATGATT
24427743 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
24427764 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
24427784 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
24427804 ATTATTAT
1 ATTATTAT
24427812 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:24429885 original size:2 final size:2
Alignment explanation
Indices: 24429878--24429902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24429868 GAAATTTAAA
24429878 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24429903 AATTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24431430 original size:16 final size:16
Alignment explanation
Indices: 24431394--24431432 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24431384 ATTAAGATTG
*
24431394 TATGCAAGCTATATTA
1 TATGCAAGCTATATCA
* *
24431410 CATGCGAGCTATATCA
1 TATGCAAGCTATATCA
24431426 TATGCAA
1 TATGCAA
24431433 ACCATGATAT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (16 bp):
TATGCAAGCTATATCA
Found at i:24435278 original size:2 final size:2
Alignment explanation
Indices: 24435271--24435303 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24435261 ATCAAATCAA
24435271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24435304 AAGTTGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24440234 original size:20 final size:22
Alignment explanation
Indices: 24440191--24440240 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
24440181 ATTCTACTTT
*
24440191 TTTC-ATAAAAATTACATTTAA
1 TTTCAATAAAAATTACATATAA
24440212 TTTCAATAAAAATTA-A-ATAA
1 TTTCAATAAAAATTACATATAA
*
24440232 TTTAAATAA
1 TTTCAATAA
24440241 TATTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTCAATAAAAATTACATATAA
Found at i:24442297 original size:27 final size:26
Alignment explanation
Indices: 24442260--24442374 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
24442250 AGCATGGCTT
* *
24442260 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
24442286 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
24442314 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
24442341 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
24442368 CCAGAAC
1 CCAGAAC
24442375 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:24442319 original size:54 final size:54
Alignment explanation
Indices: 24442260--24442374 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
24442250 AGCATGGCTT
* *
24442260 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
24442314 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
24442368 CCAGAAC
1 CCAGAAC
24442375 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:24444014 original size:26 final size:26
Alignment explanation
Indices: 24443978--24444087 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24443968 CATGAAATTC
24443978 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24444004 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24444030 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
24444056 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24444082 TTATCA
1 TTATCA
24444088 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24448061 original size:27 final size:25
Alignment explanation
Indices: 24448024--24448136 Score: 120
Period size: 27 Copynumber: 4.3 Consensus size: 25
24448014 AGCATGGCTG
*
24448024 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTG-CAGAGCCA
24448050 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GT-GCAGAGCCA
24448078 CCAGAACAGATATATG-GCAGAGCCA
1 CCAGAACAGATA-ATGTGCAGAGCCA
* * *
24448103 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGT-GCAGAGCCA
24448130 CCAGAAC
1 CCAGAAC
24448137 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
25 23 0.30
26 5 0.07
27 31 0.41
28 16 0.21
29 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGCAGAGCCA
Found at i:24448129 original size:52 final size:54
Alignment explanation
Indices: 24448024--24448136 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 54
24448014 AGCATGGCTG
*
24448024 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
24448078 CCAGAACAGATATATG-G-CAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
24448130 CCAGAAC
1 CCAGAAC
24448137 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
52 25 0.46
53 13 0.24
54 13 0.24
55 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:24449774 original size:26 final size:26
Alignment explanation
Indices: 24449738--24449847 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24449728 CATGAAATTC
24449738 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24449764 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24449790 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
24449816 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24449842 TTATCA
1 TTATCA
24449848 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24462461 original size:25 final size:25
Alignment explanation
Indices: 24462400--24462462 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
24462390 GTACATGTAT
* *
24462400 GCTCATACGAGCTACGAATCAGTAT
1 GCTCATACGAGCTACAAATCAGTAA
* * *
24462425 GCTC-TCATGAGCTATAAATCGGTAA
1 GCTCAT-ACGAGCTACAAATCAGTAA
24462450 GCTCATACGAGCT
1 GCTCATACGAGCT
24462463 GAGAATCGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTACAAATCAGTAA
Found at i:24468455 original size:25 final size:25
Alignment explanation
Indices: 24468427--24468477 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24468417 AAAATCTGGT
24468427 TACTTATTGCAAAGTTCAAAAGCGA
1 TACTTATTGCAAAGTTCAAAAGCGA
*
24468452 TACTTATTGCAAAGTTCGAAAGCGA
1 TACTTATTGCAAAGTTCAAAAGCGA
24468477 T
1 T
24468478 CACCACGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (25 bp):
TACTTATTGCAAAGTTCAAAAGCGA
Found at i:24468725 original size:31 final size:31
Alignment explanation
Indices: 24468679--24468753 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
24468669 ACAGTTACTA
* *
24468679 GGCCGAAGCCATTTCATAAATCATACCACTG
1 GGCCGAAGCCTTTTCATAAATCATACAACTG
*
24468710 GGCTGAAGCCTTTTCATAAATCATACAACTG
1 GGCCGAAGCCTTTTCATAAATCATACAACTG
*
24468741 GGCCAAAGCCTTT
1 GGCCGAAGCCTTT
24468754 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATACAACTG
Found at i:24468963 original size:11 final size:11
Alignment explanation
Indices: 24468944--24468996 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
24468934 GTATATCATA
24468944 GCATATCATGT
1 GCATATCATGT
* *
24468955 GCATCTCAT-A
1 GCATATCATGT
24468965 GCATATCATGT
1 GCATATCATGT
*
24468976 GCATACCATGT
1 GCATATCATGT
24468987 -CATATCATGT
1 GCATATCATGT
24468997 ATAACAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (11 bp):
GCATATCATGT
Found at i:24468963 original size:21 final size:22
Alignment explanation
Indices: 24468939--24468996 Score: 86
Period size: 21 Copynumber: 2.7 Consensus size: 22
24468929 AATGAGTATA
24468939 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
24468960 TCATAGCATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
24468982 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
24468997 ATAACAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:24469063 original size:27 final size:27
Alignment explanation
Indices: 24469033--24469084 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24469023 ATAATTAAAC
* * *
24469033 CCTAAGGGGTATAATGGTCATTTTTTT
1 CCTAAGGGGCAAAATAGTCATTTTTTT
*
24469060 CCTAGGGGGCAAAATAGTCATTTTT
1 CCTAAGGGGCAAAATAGTCATTTTT
24469085 CATATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (27 bp):
CCTAAGGGGCAAAATAGTCATTTTTTT
Found at i:24470889 original size:19 final size:20
Alignment explanation
Indices: 24470865--24470902 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24470855 CACAACCAAA
*
24470865 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
24470884 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
24470903 AAAAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:24482098 original size:36 final size:36
Alignment explanation
Indices: 24482051--24482122 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24482041 CCTTGAAATG
24482051 GAAAATTCCCTTCACTATCCACTTCAAATCCTCTTT
1 GAAAATTCCCTTCACTATCCACTTCAAATCCTCTTT
24482087 GAAAATTCCCTTCACTATCCACTTCAAATCCTCTTT
1 GAAAATTCCCTTCACTATCCACTTCAAATCCTCTTT
24482123 CTCTCCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (36 bp):
GAAAATTCCCTTCACTATCCACTTCAAATCCTCTTT
Found at i:24486745 original size:24 final size:24
Alignment explanation
Indices: 24486712--24486759 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24486702 TTGGATATAG
*
24486712 AACAATCATATAGTGATATATGGT
1 AACAACCATATAGTGATATATGGT
24486736 AACAACCATATAGTGATATATGGT
1 AACAACCATATAGTGATATATGGT
24486760 GCGCCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (24 bp):
AACAACCATATAGTGATATATGGT
Found at i:24487478 original size:2 final size:2
Alignment explanation
Indices: 24487473--24487506 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24487463 ATTCACCAAT
*
24487473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24487507 AACTTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:24490798 original size:25 final size:25
Alignment explanation
Indices: 24490770--24490821 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
24490760 AAAGGGTGAT
24490770 ATAGTTAACTTAATAATAAGTAGAA
1 ATAGTTAACTTAATAATAAGTAGAA
* *
24490795 ATAGTTACCTTAATAATAAGTGGAA
1 ATAGTTAACTTAATAATAAGTAGAA
24490820 AT
1 AT
24490822 TTTGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (25 bp):
ATAGTTAACTTAATAATAAGTAGAA
Found at i:24492065 original size:41 final size:42
Alignment explanation
Indices: 24492006--24492153 Score: 167
Period size: 41 Copynumber: 3.5 Consensus size: 42
24491996 AGTGGCGTTT
*
24492006 TTTTCTAAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
1 TTTTCT-ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
* * *
24492049 TTTTCTA-AAACGCCGCTAAAGACCATGACTTTTAGTGGCAC
1 TTTTCTACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
* * * *
24492090 TTTTTTCACAAACGCCGCTATAGAACA-GACCTTTAGCGACGC
1 TTTTCT-ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
24492132 TTTTC-ACATAAACGCCGCTAAA
1 TTTTCTAC--AAACGCCGCTAAA
24492154 AATATAACCT
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.02
41 36 0.40
42 29 0.33
43 22 0.25
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (42 bp):
TTTTCTACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
Found at i:24492492 original size:13 final size:13
Alignment explanation
Indices: 24492474--24492499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24492464 CCTGTTTCCA
24492474 TAACACAAAATTC
1 TAACACAAAATTC
24492487 TAACACAAAATTC
1 TAACACAAAATTC
24492500 AAGTTTCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
TAACACAAAATTC
Found at i:24497153 original size:41 final size:42
Alignment explanation
Indices: 24497108--24497193 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
24497098 AAAATAATAG
* *
24497108 TTTTTTGTGGCGTTTTTGT-AAAAACGCCACTATAGTTCAAT
1 TTTTTTGTGGCATTTTTCTCAAAAACGCCACTATAGTTCAAT
* * * *
24497149 TTTTTTGTGGCATTTTTCTCAAAAACGTCATTATTGTTTAAT
1 TTTTTTGTGGCATTTTTCTCAAAAACGCCACTATAGTTCAAT
24497191 TTT
1 TTT
24497194 GATTTTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 17 0.45
42 21 0.55
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (42 bp):
TTTTTTGTGGCATTTTTCTCAAAAACGCCACTATAGTTCAAT
Found at i:24497340 original size:8 final size:7
Alignment explanation
Indices: 24497329--24497391 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
24497319 ATATTAAATA
24497329 TTAAGTTT
1 TTAA-TTT
24497337 TTAAGTTTT
1 TTAA--TTT
*
24497346 TTATTTT
1 TTAATTT
*
24497353 TTATTTT
1 TTAATTT
24497360 TTAATTT
1 TTAATTT
24497367 TTAATTT
1 TTAATTT
*
24497374 TTAAATT
1 TTAATTT
* *
24497381 TAAAATT
1 TTAATTT
24497388 TTAA
1 TTAA
24497392 AAAATAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
7 38 0.79
8 4 0.08
9 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (7 bp):
TTAATTT
Found at i:24497352 original size:15 final size:15
Alignment explanation
Indices: 24497329--24497381 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
24497319 ATATTAAATA
24497329 TTAAGTTTTTAAGTTTT
1 TTAA-TTTTTAA-TTTT
*
24497346 TT-ATTTTTTATTTT
1 TTAATTTTTAATTTT
24497360 TTAATTTTTAATTTT
1 TTAATTTTTAATTTT
*
24497375 TAAATTT
1 TTAATTT
24497382 AAAATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 6 0.19
15 23 0.72
16 1 0.03
17 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (15 bp):
TTAATTTTTAATTTT
Found at i:24497479 original size:29 final size:29
Alignment explanation
Indices: 24497424--24497480 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
24497414 TTTCTATTGG
*
24497424 ATAAATATAAATATTTATATATGCAATAT
1 ATAAATATAAATATGTATATATGCAATAT
24497453 ATAAATATAAAATGATGT-TATAT-CAATA
1 ATAAATAT-AAAT-ATGTATATATGCAATA
24497481 ATTGTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 13 0.52
30 9 0.36
31 3 0.12
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
ATAAATATAAATATGTATATATGCAATAT
Found at i:24497688 original size:15 final size:15
Alignment explanation
Indices: 24497656--24497697 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
24497646 TTATCTCTTA
24497656 CATAA-CCATAAA-T
1 CATAATCCATAAACT
*
24497669 CATAATCCCTAAACT
1 CATAATCCATAAACT
24497684 CATAATCCATAAAC
1 CATAATCCATAAAC
24497698 CTTAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.24
Consensus pattern (15 bp):
CATAATCCATAAACT
Found at i:24497734 original size:7 final size:7
Alignment explanation
Indices: 24497722--24497747 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24497712 CCATACATTT
24497722 TAAACCC
1 TAAACCC
24497729 TAAACCC
1 TAAACCC
24497736 TAAACCC
1 TAAACCC
24497743 TAAAC
1 TAAAC
24497748 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:24497857 original size:7 final size:7
Alignment explanation
Indices: 24497845--24497966 Score: 86
Period size: 7 Copynumber: 17.1 Consensus size: 7
24497835 ACTAACTAAT
24497845 CTAAACC
1 CTAAACC
24497852 CTAAACTC
1 CTAAAC-C
*
24497860 CTAATCC
1 CTAAACC
24497867 CTAAACC
1 CTAAACC
*
24497874 TTAAACC
1 CTAAACC
*
24497881 CTAAAAC
1 CTAAACC
*
24497888 ATAAACC
1 CTAAACC
24497895 CTAAACC
1 CTAAACC
*
24497902 ATAAACCC
1 CTAAA-CC
*
24497910 CT-CACC
1 CTAAACC
* *
24497916 TTTAACCC
1 -CTAAACC
*
24497924 CTAACCC
1 CTAAACC
*
24497931 CTAACCC
1 CTAAACC
*
24497938 CTAACCC
1 CTAAACC
24497945 CT-AACAC
1 CTAAAC-C
24497952 CTAAACC
1 CTAAACC
*
24497959 TTAAACC
1 CTAAACC
24497966 C
1 C
24497967 CAACCCTTAA
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
6 4 0.04
7 73 0.80
8 14 0.15
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:24498486 original size:40 final size:41
Alignment explanation
Indices: 24498414--24498583 Score: 121
Period size: 39 Copynumber: 4.4 Consensus size: 41
24498404 TTGAAAAATT
* * * * *
24498414 CTTTTGCGGCGTTTTTTGAAAAA-CGCCACTAAAGATCAAG
1 CTTTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAGCTCAAG
*
24498454 CATTAGCGGCATTTTTT-AAAAAGCGCCGCTAAAG-----G
1 CTTTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAGCTCAAG
** *
24498489 --TTACGCGGTGTTTTTTAAAAAAGCGCCGCTAATA-CTCAAT
1 CTTTA-GCGGCATTTTTTAAAAAAGCGCCGCTAA-AGCTCAAG
* * *
24498529 CTTTAGCGGC-GTTTTT-AAAAAGCGCCGCTAATGCTCAAA
1 CTTTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAGCTCAAG
*
24498568 CTTTAGTGGCATTTTT
1 CTTTAGCGGCATTTTT
24498584 CATTCAAACG
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
33 3 0.03
34 10 0.10
35 16 0.15
36 1 0.01
39 34 0.33
40 33 0.32
41 4 0.04
42 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAGCTCAAG
Found at i:24498510 original size:74 final size:74
Alignment explanation
Indices: 24498419--24498559 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 74
24498409 AAATTCTTTT
* *
24498419 GCGGCGTTTTTTGAAAAA-CGCCACTAA-AGATCAAGCATTAGCGGCATTTTTTAAAAAGCGCCG
1 GCGGCGTTTTTTAAAAAAGCGCCACTAATA-ATCAAGCATTAGCGGC-GTTTTTAAAAAGCGCCG
24498482 CTAAAGGTTAC
64 CTAAAGGTTAC
* * * * *
24498493 GCGGTGTTTTTTAAAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCGCCGCT
1 GCGGCGTTTTTTAAAAAAGCGCCACTAATAATCAAGCATTAGCGGCGTTTTTAAAAAGCGCCGCT
24498558 AA
66 AA
24498560 TGCTCAAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 36 0.62
75 21 0.36
76 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (74 bp):
GCGGCGTTTTTTAAAAAAGCGCCACTAATAATCAAGCATTAGCGGCGTTTTTAAAAAGCGCCGCT
AAAGGTTAC
Found at i:24498555 original size:39 final size:40
Alignment explanation
Indices: 24498500--24498583 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
24498490 TACGCGGTGT
* *
24498500 TTTTTAAAAAAGCGCCGCTAATACTCAATCTTTAGCGGCG
1 TTTTTAAAAAAGCGCCGCTAATACTCAAACTTTAGCGGCA
* *
24498540 TTTTT-AAAAAGCGCCGCTAATGCTCAAACTTTAGTGGCA
1 TTTTTAAAAAAGCGCCGCTAATACTCAAACTTTAGCGGCA
24498579 TTTTT
1 TTTTT
24498584 CATTCAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 35 0.88
40 5 0.12
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (40 bp):
TTTTTAAAAAAGCGCCGCTAATACTCAAACTTTAGCGGCA
Found at i:24501057 original size:18 final size:18
Alignment explanation
Indices: 24501034--24501070 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24501024 TAGCACATTA
24501034 TGATGTTGTTTGAGGATG
1 TGATGTTGTTTGAGGATG
24501052 TGATGTTGTTTGAGGATG
1 TGATGTTGTTTGAGGATG
24501070 T
1 T
24501071 TTTTAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (18 bp):
TGATGTTGTTTGAGGATG
Found at i:24501259 original size:13 final size:14
Alignment explanation
Indices: 24501232--24501260 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24501222 CTCAAAAATT
24501232 GGTTAGTAGAATCG
1 GGTTAGTAGAATCG
24501246 GGTTAGTA-AATCG
1 GGTTAGTAGAATCG
24501259 GG
1 GG
24501261 AGTTAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (14 bp):
GGTTAGTAGAATCG
Found at i:24509809 original size:33 final size:32
Alignment explanation
Indices: 24509747--24509810 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 32
24509737 TTTGAGGTAC
* *
24509747 CTTTGAATGGCATATTGGTTAGTTGTATTAGGA
1 CTTTGAAGGGCATATTGGTTAG-TATATTAGGA
24509780 CTTTGAAAGGGCATATTGGTGTA-TATATTAG
1 CTTTG-AAGGGCATATTGGT-TAGTATATTAG
24509811 TAATGTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 12 0.44
34 13 0.48
35 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (32 bp):
CTTTGAAGGGCATATTGGTTAGTATATTAGGA
Found at i:24510094 original size:13 final size:13
Alignment explanation
Indices: 24510078--24510109 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
24510068 CACAAGGGCC
24510078 TGTGACATGGTCG
1 TGTGACATGGTCG
24510091 TGTGACATGGTCG
1 TGTGACATGGTCG
24510104 TGTGAC
1 TGTGAC
24510110 CTTACTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.38, T:0.31
Consensus pattern (13 bp):
TGTGACATGGTCG
Found at i:24513427 original size:226 final size:226
Alignment explanation
Indices: 24513033--24513454 Score: 754
Period size: 226 Copynumber: 1.9 Consensus size: 226
24513023 GATGCACATC
*
24513033 CTACACACCATATCGGGTATCAAATACCCATTAATCCCTACACACCGCATAATGACTGTATGTCA
1 CTACACACCATATCGGGTATCAAATACCCATCAATCCCTACACACCGCATAATGACTGTATGTCA
* * * *
24513098 CATTTCATGATAATTGAAGACTAGTTGCCAGATCAAGAAGTAATAAATCTCCAGAATTAGATTTA
66 CATTTCATGATAATTGAAGACCAGTTGCCAGATCAAGAAGCAATAAATCACCAGAATCAGATTTA
*
24513163 TATGTGGCTTATCCATCAGAATTGGCAGATAATTAATCTACTCACACTTCCTCCTTTATCACAAT
131 TATGTGGCTTATCCACCAGAATTGGCAGATAATTAATCTACTCACACTTCCTCCTTTATCACAAT
24513228 CTCATCCGCTACACACCATCTCCATCTATCA
196 CTCATCCGCTACACACCATCTCCATCTATCA
24513259 CTACACACCATATCGGGTATCAAATACCCATCAATCCCTACACACCGCATAATGACTGTATGTCA
1 CTACACACCATATCGGGTATCAAATACCCATCAATCCCTACACACCGCATAATGACTGTATGTCA
*
24513324 CATTTCATGATAATTGAAGACCAGTTGCCAGATCAGGAAGCAATAAATCACCAGAATCAGATTTA
66 CATTTCATGATAATTGAAGACCAGTTGCCAGATCAAGAAGCAATAAATCACCAGAATCAGATTTA
* **
24513389 TATGTGGCTTATCCACCAGAATTGGCAGATAATTAATCTATTCACACTTCCTGTTTTATCACAAT
131 TATGTGGCTTATCCACCAGAATTGGCAGATAATTAATCTACTCACACTTCCTCCTTTATCACAAT
24513454 C
196 C
24513455 CCAACCTAAT
Statistics
Matches: 186, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
226 186 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (226 bp):
CTACACACCATATCGGGTATCAAATACCCATCAATCCCTACACACCGCATAATGACTGTATGTCA
CATTTCATGATAATTGAAGACCAGTTGCCAGATCAAGAAGCAATAAATCACCAGAATCAGATTTA
TATGTGGCTTATCCACCAGAATTGGCAGATAATTAATCTACTCACACTTCCTCCTTTATCACAAT
CTCATCCGCTACACACCATCTCCATCTATCA
Found at i:24514126 original size:46 final size:46
Alignment explanation
Indices: 24514056--24514146 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
24514046 GGGTTTTTGT
*
24514056 TACACACTCGATATGGATTCGACGTAATGATAATACTCTAAAATGG
1 TACACACTCGATATGGATTCGACGTAACGATAATACTCTAAAATGG
* *
24514102 TACACACTTGATATGGATTTGACGTAACGATAATACTCTAAAATG
1 TACACACTCGATATGGATTCGACGTAACGATAATACTCTAAAATG
24514147 ACATACTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (46 bp):
TACACACTCGATATGGATTCGACGTAACGATAATACTCTAAAATGG
Found at i:24517969 original size:19 final size:18
Alignment explanation
Indices: 24517939--24517975 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
24517929 AGGCAACCCA
24517939 ATTTTATCTTTATTTTCT
1 ATTTTATCTTTATTTTCT
24517957 ATTTTATTCTTTATTTTCT
1 ATTTTA-TCTTTATTTTCT
24517976 TGCATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATCTTTATTTTCT
Found at i:24520998 original size:9 final size:8
Alignment explanation
Indices: 24520969--24521007 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
24520959 AATGATAGGC
24520969 AAAAAGAA
1 AAAAAGAA
*
24520977 AAGAAAGTA
1 AA-AAAGAA
24520986 AAAAAGAA
1 AAAAAGAA
24520994 GAAAAAGAA
1 -AAAAAGAA
24521003 AAAAA
1 AAAAA
24521008 ACAGTAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:24521007 original size:17 final size:17
Alignment explanation
Indices: 24520969--24521007 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24520959 AATGATAGGC
*
24520969 AAAAAGAAAAGAAAGTA
1 AAAAAGAAAAGAAAGAA
24520986 AAAAAGAAGAA-AAAGAA
1 AAAAAGAA-AAGAAAGAA
24521003 AAAAA
1 AAAAA
24521008 ACAGTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAGAA
Found at i:24527496 original size:2 final size:2
Alignment explanation
Indices: 24527489--24527515 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24527479 AAACCTTTAA
24527489 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24527516 AAAGGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24528325 original size:22 final size:21
Alignment explanation
Indices: 24528294--24528339 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
24528284 ATTTCTATCT
24528294 TTACTTTTATCATTAACATTA
1 TTACTTTTATCATTAACATTA
* **
24528315 TTACTATTTATTATTATTATTA
1 TTACT-TTTATCATTAACATTA
24528337 TTA
1 TTA
24528340 TATACACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
TTACTTTTATCATTAACATTA
Found at i:24528450 original size:3 final size:3
Alignment explanation
Indices: 24528442--24528581 Score: 96
Period size: 3 Copynumber: 47.7 Consensus size: 3
24528432 TTTATAATAC
* * * * *
24528442 TAT TAT TAT AAT CTCAT T-T TAT TAT TAT CAT TCT TAT TAA TA- CAT
1 TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
24528487 TAT TAT TAT T-T TAC CA- TAT TAT TAT T-T TAT ATAT TAT TAC TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *
24528530 TAT TAA CA- TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
24528574 TAT TAT TA
1 TAT TAT TA
24528582 GTACTAGTAT
Statistics
Matches: 107, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
2 11 0.10
3 88 0.82
4 6 0.06
5 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:24528685 original size:2 final size:2
Alignment explanation
Indices: 24528678--24528720 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
24528668 ATCATTTCTA
* * *
24528678 AT AT AT AT AT AT AT AT AT AT AT CGT AT AT GT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
24528721 CATGTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24528706 original size:23 final size:23
Alignment explanation
Indices: 24528679--24528729 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
24528669 TCATTTCTAA
24528679 TATATATATATATATATAT-ATCG
1 TATATATATATATATATATCAT-G
* *
24528702 TATATGTTTATATATATATCATG
1 TATATATATATATATATATCATG
24528725 TATAT
1 TATAT
24528730 TTTTTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (23 bp):
TATATATATATATATATATCATG
Found at i:24528840 original size:21 final size:20
Alignment explanation
Indices: 24528808--24528848 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24528798 ATTATTATTG
* *
24528808 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
24528828 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
24528849 TTATGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:24528970 original size:26 final size:25
Alignment explanation
Indices: 24528922--24528977 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
24528912 TATTTAATAC
* * *
24528922 TATATTATGTATACATTTTTTTTATA
1 TATATTACGTATACATATCTTTT-TA
*
24528948 TATATTACGTATATATATCTTTTTA
1 TATATTACGTATACATATCTTTTTA
24528973 -ATATT
1 TATATT
24528978 GTATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 5 0.19
25 2 0.08
26 19 0.73
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTACGTATACATATCTTTTTA
Found at i:24529016 original size:25 final size:25
Alignment explanation
Indices: 24528981--24529112 Score: 116
Period size: 25 Copynumber: 5.5 Consensus size: 25
24528971 TAATATTGTA
24528981 TTTT-ATA-TATATTATGTATATAT
1 TTTTAATACTATATTATGTATATAT
*
24529004 TTTGAATACTATATTA--TAT-T-T
1 TTTTAATACTATATTATGTATATAT
* *
24529025 TTTTACATATTATCTTATGTATATA-
1 TTTTA-ATACTATATTATGTATATAT
* *
24529050 TTTTAATAACTATATTATATATGTAT
1 TTTTAAT-ACTATATTATGTATATAT
** * *
24529076 TTTTAACGCCATATTATGTACATAT
1 TTTTAATACTATATTATGTATATAT
24529101 TTTTAATACTAT
1 TTTTAATACTAT
24529113 GCATACACAT
Statistics
Matches: 83, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
21 5 0.06
22 10 0.12
23 6 0.07
24 8 0.10
25 48 0.58
26 6 0.07
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTTAATACTATATTATGTATATAT
Found at i:24529244 original size:18 final size:20
Alignment explanation
Indices: 24529215--24529260 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24529205 CTGTTTTCAA
* *
24529215 TATATATTGTA-TATATTTT
1 TATATATAGTATTATATGTT
24529234 TA-ATATAGTATTATATGTT
1 TATATATAGTATTATATGTT
24529253 TATATATA
1 TATATATA
24529261 TGTTCCCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.30
19 11 0.48
20 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TATATATAGTATTATATGTT
Found at i:24529493 original size:8 final size:8
Alignment explanation
Indices: 24529480--24529510 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
24529470 TTTCTTTTAC
24529480 TTTTATTT
1 TTTTATTT
24529488 TTTTATTT
1 TTTTATTT
24529496 TTTTATTT
1 TTTTATTT
24529504 TATTTAT
1 T-TTTAT
24529511 CTAGAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:24537232 original size:13 final size:13
Alignment explanation
Indices: 24537199--24537253 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
24537189 TAGCCTAACC
24537199 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
24537212 TAAA-AATAAAAA
1 TAAATAATAAAAA
* *
24537224 TAAATAATAGAAC
1 TAAATAATAAAAA
*
24537237 TAAATAAAACAAAA
1 TAAATAATA-AAAA
24537251 TAA
1 TAA
24537254 TATCTTCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 18 0.53
14 5 0.15
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:24537577 original size:23 final size:24
Alignment explanation
Indices: 24537542--24537586 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
24537532 TTATTCAACA
24537542 GAAAAACAAG-TTTA-TGTTTTCT
1 GAAAAACAAGTTTTAGTGTTTTCT
*
24537564 GAAACAACATGTTTTAGTGTTTT
1 GAAA-AACAAGTTTTAGTGTTTT
24537587 TAAGCTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 5 0.26
24 4 0.21
25 6 0.32
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (24 bp):
GAAAAACAAGTTTTAGTGTTTTCT
Found at i:24543548 original size:10 final size:10
Alignment explanation
Indices: 24543533--24543567 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
24543523 TGAAAATTAG
24543533 AAAAGAAAGA
1 AAAAGAAAGA
24543543 AAAAGAAA-A
1 AAAAGAAAGA
24543552 AGAAAGAAAGA
1 A-AAAGAAAGA
24543563 AAAAG
1 AAAAG
24543568 CAAGGAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 19 0.83
11 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:24544865 original size:2 final size:2
Alignment explanation
Indices: 24544858--24544891 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24544848 AATGCCTTTA
24544858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24544892 GTACTTGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24545067 original size:122 final size:122
Alignment explanation
Indices: 24544935--24545161 Score: 436
Period size: 122 Copynumber: 1.9 Consensus size: 122
24544925 AAAGAATGAA
24544935 AAAAAATTGTATCATTGATTTGAAACATAAGTGCATAATATTTCTTGTTGCATTCTCACATTTTG
1 AAAAAATTGTATCATTGATTTGAAACATAAGTGCATAATATTTCTTGTTGCATTCTCACATTTTG
* *
24545000 ATTACTTATATTAAGTTAGATTGTTCGGATTATAGAAATAATGCTGAGTTATAATGG
66 ATTACTTATATTAAGTTAAATTGTTCAGATTATAGAAATAATGCTGAGTTATAATGG
24545057 AAAAAATTGTATCATTGATTTGAAACATAAGTGCATAATATTTCTTGTTGCATTCTCACATTTTG
1 AAAAAATTGTATCATTGATTTGAAACATAAGTGCATAATATTTCTTGTTGCATTCTCACATTTTG
24545122 ATTACTTATATTAAGTTAAATTGTTCAGATTATAGAAATA
66 ATTACTTATATTAAGTTAAATTGTTCAGATTATAGAAATA
24545162 CCATTGAGTT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 103 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (122 bp):
AAAAAATTGTATCATTGATTTGAAACATAAGTGCATAATATTTCTTGTTGCATTCTCACATTTTG
ATTACTTATATTAAGTTAAATTGTTCAGATTATAGAAATAATGCTGAGTTATAATGG
Found at i:24545830 original size:42 final size:42
Alignment explanation
Indices: 24545784--24545866 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
24545774 AGTTAGTAAG
*
24545784 TTACACGGGCTGAGAAACGGCTGTGTGTCTCAAGTCAGTGAA
1 TTACACGGGCTAAGAAACGGCTGTGTGTCTCAAGTCAGTGAA
* * *
24545826 TTACATGGGCTAAGACATGGCTGTGTGTCTCAAGTCAGTGA
1 TTACACGGGCTAAGAAACGGCTGTGTGTCTCAAGTCAGTGA
24545867 GTTATAAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (42 bp):
TTACACGGGCTAAGAAACGGCTGTGTGTCTCAAGTCAGTGAA
Found at i:24550625 original size:6 final size:6
Alignment explanation
Indices: 24550614--24550652 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
24550604 ATATGCTTAC
24550614 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
24550653 AGCCAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:24551569 original size:45 final size:46
Alignment explanation
Indices: 24551500--24551617 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 46
24551490 TCAGAGGGTG
* * * * *
24551500 CCATGGTGTCTTTCAAATATGGTCTTATTTATTCT-CGACTTGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTCTCCGACGTGATA
* * * * *
24551545 TCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCGTGTTA
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTCTCCGACGTGATA
24551591 CCATAGTGTCTTTCAACTATGGTCTTA
1 CCATAGTGTCTTTCAACTATGGTCTTA
24551618 CTCGTTTGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
45 29 0.48
46 31 0.52
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.44
Consensus pattern (46 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTCTCCGACGTGATA
Found at i:24551653 original size:45 final size:45
Alignment explanation
Indices: 24551598--24551754 Score: 208
Period size: 45 Copynumber: 3.5 Consensus size: 45
24551588 TTACCATAGT
* * * *
24551598 GTCTTTCAACTATGGTCTTACTCGTTTGATTCGTTATGCCATAAT
1 GTCTTTCAACTATGGTCTTACTCGATCGAATCGTTATGCCATAAC
* **
24551643 GTCTGTCAACTATGGTCTTACTCGATCGAATCG-TATGTTATAAC
1 GTCTTTCAACTATGGTCTTACTCGATCGAATCGTTATGCCATAAC
* * * *
24551687 ATCTTTCAATTATGGTCTTACTCGATGGAATCGTGATGCCATAAC
1 GTCTTTCAACTATGGTCTTACTCGATCGAATCGTTATGCCATAAC
24551732 GTCTTTCAACTATGGTCTTACTC
1 GTCTTTCAACTATGGTCTTACTC
24551755 ATTTCTGGAA
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 37 0.39
45 58 0.61
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTACTCGATCGAATCGTTATGCCATAAC
Found at i:24551781 original size:45 final size:45
Alignment explanation
Indices: 24551732--24551849 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
24551722 ATGCCATAAC
* * *
24551732 GTCTTTCAACTATGGTCTTACTCATTTCTGGAATGGTGTTATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGAATAGTGTCATAGT
* * *
24551777 GTCTTTCAACTATGGTCTTATTTATTTCTGGTATAGTGTCATAGT
1 GTCTTTCAACTATGGTCTTAATCATTTCTGGAATAGTGTCATAGT
* *
24551822 GTTTTTCAACTATGGTTTTAATCATTTC
1 GTCTTTCAACTATGGTCTTAATCATTTC
24551850 CTTCAAGCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.48
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTAATCATTTCTGGAATAGTGTCATAGT
Found at i:24556133 original size:14 final size:14
Alignment explanation
Indices: 24556114--24556141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24556104 TGACTAGCTA
24556114 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
24556128 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
24556142 GGGTTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
CTTTTTCTTTTTTT
Found at i:24556655 original size:2 final size:2
Alignment explanation
Indices: 24556648--24556687 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
24556638 AAGTTGATAA
24556648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24556688 GAGTTTTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24557191 original size:34 final size:34
Alignment explanation
Indices: 24557119--24557191 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
24557109 CATAGTACTT
* **
24557119 TTAATTAGTGAAAATCATTGTATTGTATTACATG
1 TTAATTAGTGAAAATCATTGTATTGGATTACAAA
*
24557153 TTAATTAGTGAAAATC-TTTTAATTGGAGTTA-AAA
1 TTAATTAGTGAAAATCATTGT-ATTGGA-TTACAAA
24557187 TTAAT
1 TTAAT
24557192 GTTATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 3 0.09
34 27 0.82
35 3 0.09
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (34 bp):
TTAATTAGTGAAAATCATTGTATTGGATTACAAA
Found at i:24558221 original size:62 final size:62
Alignment explanation
Indices: 24558124--24558248 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
24558114 CTCGAAAGAA
24558124 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
1 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
24558186 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
1 TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
24558248 T
1 T
24558249 CAGCACAGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (62 bp):
TAAACTGCTCCCAAACTTCTTGTGCCTTACAACAATCCCGAAGCACGCGAGTGGTGGATTCT
Found at i:24566070 original size:14 final size:15
Alignment explanation
Indices: 24566048--24566081 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
24566038 TTAAATTATA
*
24566048 TAAAATATGAAAA-T
1 TAAATTATGAAAAGT
24566062 TAAATTATGAAAAGT
1 TAAATTATGAAAAGT
24566077 TAAAT
1 TAAAT
24566082 CACAAGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
TAAATTATGAAAAGT
Found at i:24570453 original size:20 final size:20
Alignment explanation
Indices: 24570428--24570466 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24570418 TAAATATGGT
24570428 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
24570448 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
24570467 GGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:24570547 original size:23 final size:22
Alignment explanation
Indices: 24570516--24570607 Score: 130
Period size: 22 Copynumber: 4.0 Consensus size: 22
24570506 GGAGGAAGTG
24570516 AAAAAGGGCTTATGCCCCAGTT
1 AAAAAGGGCTTATGCCCCAGTT
24570538 ACAAAAGGGCTTATGCCCCAGTT
1 A-AAAAGGGCTTATGCCCCAGTT
*
24570561 ATAAAGGGCTTATGCCCCAGTT
1 AAAAAGGGCTTATGCCCCAGTT
* *
24570583 ATTGAAAGGGCTTTTGCCCCAGTT
1 A--AAAAGGGCTTATGCCCCAGTT
24570607 A
1 A
24570608 TTAAAAGAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
22 22 0.34
23 22 0.34
24 20 0.31
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (22 bp):
AAAAAGGGCTTATGCCCCAGTT
Found at i:24570569 original size:22 final size:23
Alignment explanation
Indices: 24570518--24570612 Score: 147
Period size: 23 Copynumber: 4.1 Consensus size: 23
24570508 AGGAAGTGAA
**
24570518 AAAGGGCTTATGCCCCAGTTACA
1 AAAGGGCTTATGCCCCAGTTATT
24570541 AAAGGGCTTATGCCCCAGTTA-T
1 AAAGGGCTTATGCCCCAGTTATT
24570563 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
24570586 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
24570610 AAA
1 AAA
24570613 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.31
23 25 0.37
24 22 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:24570582 original size:45 final size:46
Alignment explanation
Indices: 24570518--24570608 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
24570508 AGGAAGTGAA
24570518 AAAGGGCTTATGCCCCAGTTA-CAAAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
** *
24570563 AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
24570609 TAAAAGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:24570608 original size:24 final size:23
Alignment explanation
Indices: 24570517--24570634 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 23
24570507 GAGGAAGTGA
*
24570517 AAAAGGGCTTATGCCCCAGTTAC
1 AAAAGGGCTTATGCCCCAGTTAT
24570540 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
24570563 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
24570586 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
24570610 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24570634 A
1 A
24570635 TGATAAAGCA
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
22 21 0.24
23 23 0.27
24 32 0.37
25 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:24570860 original size:31 final size:31
Alignment explanation
Indices: 24570825--24570919 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
24570815 CGTTTACAGT
24570825 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24570856 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
24570887 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24570918 AA
1 AA
24570920 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24579456 original size:86 final size:88
Alignment explanation
Indices: 24579357--24579536 Score: 337
Period size: 87 Copynumber: 2.1 Consensus size: 88
24579347 TAATAGAATA
24579357 ATAATAACCATGTAAGTGAT-AAAATAATAATGGTAATAATATTTAAAAATATATGTACATGAAT
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAAATATATGTACATGAAT
*
24579421 AATAGT-AAAGGTATGTATATAT
66 AATAATAAAAGGTATGTATATAT
24579443 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAAATATATGTACATGAAT
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAAATATATGTACATGAAT
24579508 AATAATAAAAGGTATGTATATAT
66 AATAATAAAAGGTATGTATATAT
24579531 ATAATA
1 ATAATA
24579537 GTAATAATGG
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
86 20 0.22
87 49 0.54
88 22 0.24
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (88 bp):
ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAAATATATGTACATGAAT
AATAATAAAAGGTATGTATATAT
Found at i:24579560 original size:3 final size:3
Alignment explanation
Indices: 24579531--24579691 Score: 85
Period size: 3 Copynumber: 53.3 Consensus size: 3
24579521 ATGTATATAT
* * * * * * * * *
24579531 ATA ATA GTA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
24579578 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * *
24579624 ATA ATG AGG ATA AAA ATA ATA ACA ATA ATA TATCA AGCA ACAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A A-TA A-TA ATA ATA
* *
24579673 ATG ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
24579692 AGAAATGGGA
Statistics
Matches: 115, Mismatches: 37, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
2 4 0.03
3 103 0.90
4 7 0.06
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:24581897 original size:47 final size:47
Alignment explanation
Indices: 24581788--24581898 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
24581778 CCGGGATAAG
*
24581788 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
24581835 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
24581882 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
24581899 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:24589146 original size:47 final size:47
Alignment explanation
Indices: 24589037--24589147 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
24589027 CCGGGATAAG
*
24589037 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
24589084 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
24589131 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
24589148 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:24590980 original size:86 final size:86
Alignment explanation
Indices: 24590889--24591094 Score: 358
Period size: 86 Copynumber: 2.4 Consensus size: 86
24590879 ATCTGTAAAC
** *
24590889 TCAACCTGTTACCCTACTGCTTCTGGGTTTAAGGTTCCTCGTCTTCGGTCTACTCCACTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTACTCCACTACTGCT
*
24590954 TAGGGAGATAAGATCTGCAAT
66 TAGGGAGATAAGATCTACAAT
* *
24590975 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTACTCCACTACTGCT
24591040 TAGGGAGATAAGATCTACAAT
66 TAGGGAGATAAGATCTACAAT
24591061 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
24591095 CTTGTAAATT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 114 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (86 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTACTCCACTACTGCT
TAGGGAGATAAGATCTACAAT
Found at i:24591128 original size:43 final size:44
Alignment explanation
Indices: 24591066--24591272 Score: 147
Period size: 43 Copynumber: 4.8 Consensus size: 44
24591056 ACAATTCAAC
* *
24591066 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTTAGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTTGTAAATTTAGCT
* *** * * * *
24591110 -TGTTACCCTACTGCTTAGGGGGATAAAGCCCATCACTTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTTGTAAATTTAGCT
* * * * * * *
24591153 CTATTTCCCTACTACTTAGGGGATT-AAGATCTG-CAATTT-GGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCT-TGTAAATTTAGCT
* * * *
24591195 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTTATGAACA-TCAGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-AGCTTGT-AA-ATTTAGCT
24591241 -TGTTACCCTACTGCTTAGGGGGTTAAAGCTTG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTTG
24591273 GTGGTTTGAA
Statistics
Matches: 121, Mismatches: 34, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
42 23 0.19
43 43 0.36
44 25 0.21
45 27 0.22
46 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCTTGTAAATTTAGCT
Found at i:24591129 original size:129 final size:131
Alignment explanation
Indices: 24590981--24591269 Score: 329
Period size: 129 Copynumber: 2.2 Consensus size: 131
24590971 CAATTCAACC
* * ** * * *
24590981 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTC-GTCTTCGATCT-GCTCCACTACTGCTTAGG
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACT-TTCGATCTAGCTCC-CTACTACTTAGG
*
24591044 GAGA-TAAGATCTACAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGT-AA-ATT
64 G-GATTAAGATCTACAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGAGCTTATGAACA-T
*
24591105 TAGCT
127 CAGCT
* * **
24591110 TGTTACCCTACTGCTTAGGGGGATAAAGCCCATCACTTTTGATCTATTTCCCTACTACTTAGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACTTTCGATCTAGCTCCCTACTACTTAGGGG
* **** *
24591175 ATTAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGATCTTATGAACATCAGC
66 ATTAAGATCTACAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGAGCTTATGAACATCAGC
24591240 T
131 T
24591241 TGTTACCCTACTGCTTAGGGGGTTAAAGC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGC
24591270 TTGGTGGTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
128 2 0.01
129 88 0.66
130 8 0.06
131 35 0.26
132 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (131 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACTTTCGATCTAGCTCCCTACTACTTAGGGG
ATTAAGATCTACAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGAGCTTATGAACATCAGC
T
Found at i:24591213 original size:42 final size:42
Alignment explanation
Indices: 24590946--24591226 Score: 171
Period size: 42 Copynumber: 6.6 Consensus size: 42
24590936 GTCTACTCCA
* *
24590946 CTACTGCTTAGGGAGA-TAAGATCTGCAATTCAACCTGTTACC
1 CTACTGCTTAGGG-GATTAAGATCTGCAATTTAATCTGTTACC
* * * * * *
24590988 CTACTGCTTAGGGGTTTAAGGTTCTTC-GTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGGATTAA-GATCTGCAAT-TT-AATCTGTTACC
* * *
24591031 ACTACTGCTTAGGGAGA-TAAGATCTACAATTCAACCTGTTACC
1 -CTACTGCTTAGGG-GATTAAGATCTGCAATTTAATCTGTTACC
* * * *
24591074 CTACTGCTTAGGGGTTTAAG-GCTTGTAAATTT-AGCTTGTTACC
1 CTACTGCTTAGGGGATTAAGATC-TG-CAATTTAATC-TGTTACC
* ** * * * *
24591117 CTACTGCTTAGGGGGATAAAGCCCAT-CACTTTTGATCTATTTCC
1 CTACTGCTTA-GGGGATTAAGATC-TGCA-ATTTAATCTGTTACC
* **
24591161 CTACTACTTAGGGGATTAAGATCTGCAATTTGGTCTGTTACC
1 CTACTGCTTAGGGGATTAAGATCTGCAATTTAATCTGTTACC
*
24591203 CTACTGCTTAGGGGTTTAAGATCT
1 CTACTGCTTAGGGGATTAAGATCT
24591227 TATGAACATC
Statistics
Matches: 181, Mismatches: 41, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
41 3 0.02
42 76 0.42
43 50 0.28
44 47 0.26
45 5 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (42 bp):
CTACTGCTTAGGGGATTAAGATCTGCAATTTAATCTGTTACC
Found at i:24603633 original size:87 final size:87
Alignment explanation
Indices: 24603528--24603707 Score: 342
Period size: 87 Copynumber: 2.1 Consensus size: 87
24603518 TAATAGAATA
24603528 ATAATAACCATGTAAGTGATAAAAATAATAATAGTAATAATATTTAAAATATATGTACATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATAGTAATAATATTTAAAATATATGTACATGAATA
*
24603593 ATAGTAAAAGGTATGTATATAT
66 ATAATAAAAGGTATGTATATAT
*
24603615 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATAGTAATAATATTTAAAATATATGTACATGAATA
24603680 ATAATAAAAGGTATGTATATAT
66 ATAATAAAAGGTATGTATATAT
24603702 ATAATA
1 ATAATA
24603708 GTAATAATGG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.33
Consensus pattern (87 bp):
ATAATAACCATGTAAGTGATAAAAATAATAATAGTAATAATATTTAAAATATATGTACATGAATA
ATAATAAAAGGTATGTATATAT
Found at i:24603731 original size:3 final size:3
Alignment explanation
Indices: 24603702--24603869 Score: 88
Period size: 3 Copynumber: 55.3 Consensus size: 3
24603692 ATGTATATAT
* * * * * * * * *
24603702 ATA ATA GTA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
24603749 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ACA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * *
24603796 ATA ATA ATA ATG AGG ATA AAA ATA ATA ACA ATA ATA TATCA AGCA ACAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A A-TA A-TA
* *
24603845 ATA ATA ATG ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
24603870 AGAAATGGGA
Statistics
Matches: 121, Mismatches: 39, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
2 2 0.02
3 111 0.92
4 7 0.06
5 1 0.01
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:24606487 original size:69 final size:69
Alignment explanation
Indices: 24606376--24606514 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
24606366 GTTGTATTGG
*
24606376 GCAGATATGTTCAGCAAGTTCAAAGACAATGAAGGAAACTTTAAGAAGTCCTTAACAAGTGATAT
1 GCAGACATGTTCAGCAAGTTCAAAGACAATGAAGGAAACTTTAAGAAGTCCTTAACAAGTGATAT
24606441 GGAA
66 GGAA
*
24606445 GCAGACATGTTCAGCAAGTTCAAAGACAATGAAGGAAACTTTAAGAAGTCCTTAACAAGTGTTAT
1 GCAGACATGTTCAGCAAGTTCAAAGACAATGAAGGAAACTTTAAGAAGTCCTTAACAAGTGATAT
24606510 GGAA
66 GGAA
24606514 G
1 G
24606515 GCTTGCTAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (69 bp):
GCAGACATGTTCAGCAAGTTCAAAGACAATGAAGGAAACTTTAAGAAGTCCTTAACAAGTGATAT
GGAA
Found at i:24616795 original size:13 final size:13
Alignment explanation
Indices: 24616777--24616874 Score: 113
Period size: 13 Copynumber: 8.2 Consensus size: 13
24616767 AGTGGTTAAG
24616777 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
24616790 GTGGTTTAGTGGG
1 GTGGTTTAGTGGA
24616803 GTGG-TTA--GG-
1 GTGGTTTAGTGGA
24616812 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
24616825 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
*
24616838 ATGGTTTAGTGGA
1 GTGGTTTAGTGGA
24616851 GTGG--T--TGGA
1 GTGGTTTAGTGGA
24616860 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
24616873 GT
1 GT
24616875 AAAGATATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
9 12 0.17
10 5 0.07
11 2 0.03
12 5 0.07
13 48 0.67
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:24616808 original size:35 final size:35
Alignment explanation
Indices: 24616762--24616874 Score: 138
Period size: 35 Copynumber: 3.2 Consensus size: 35
24616752 TTTGTAGGCA
24616762 AGTGGAGTGGTTAAGGTGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGGTTAAGGTGGTTTAGTGGAGTGGTTT
* *
24616797 AGTGGGGTGGTTAGGGTGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGGTTAAGGTGGTTTAGTGGAGTGGTTT
* * * ** *
24616832 AGTGTAATGGTTTA-GTGGAGTGGTTGGAGTGGTTT
1 AGTGGAGTGGTTAAGGTGGTTTAG-TGGAGTGGTTT
24616867 AGTGGAGT
1 AGTGGAGT
24616875 AAAGATATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 6 0.09
35 59 0.91
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (35 bp):
AGTGGAGTGGTTAAGGTGGTTTAGTGGAGTGGTTT
Found at i:24616835 original size:48 final size:48
Alignment explanation
Indices: 24616777--24616874 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 48
24616767 AGTGGTTAAG
* *
24616777 GTGGTTTAGTGGAGTGGTTTAGTGGGGTGGTTAGG-GTGGTTTAGTGGA
1 GTGGTTTAGTGGAATGGTTTAGTGGAGTGGTT-GGAGTGGTTTAGTGGA
*
24616825 GTGGTTTAGTGTAATGGTTTAGTGGAGTGGTTGGAGTGGTTTAGTGGA
1 GTGGTTTAGTGGAATGGTTTAGTGGAGTGGTTGGAGTGGTTTAGTGGA
24616873 GT
1 GT
24616875 AAAGATATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (48 bp):
GTGGTTTAGTGGAATGGTTTAGTGGAGTGGTTGGAGTGGTTTAGTGGA
Found at i:24617233 original size:45 final size:45
Alignment explanation
Indices: 24617165--24617276 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
24617155 GGAAGGCGAT
*
24617165 ATCTGCTATCTTTGATCTACTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTACTCCCCGTCTAATACAAAGACGCCAA
* * *
24617210 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTACTCCCCGTCTAATACAAAGACGCCAA
* *
24617255 ATTTGCT-TCTTCAATCTACTCC
1 ATCTGCTATCTTCGATCTACTCC
24617277 TTGCAAACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 13 0.22
45 46 0.78
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTCCCCGTCTAATACAAAGACGCCAA
Found at i:24617453 original size:87 final size:87
Alignment explanation
Indices: 24617216--24617440 Score: 378
Period size: 87 Copynumber: 2.6 Consensus size: 87
24617206 CCAAATCTGT
* * * *
24617216 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTTGCTTCTTCAATCTACTCCTTGC
1 TATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCAATCTACTCCTTGC
24617281 AAACTCATGACTGTCACCTTGA
66 AAACTCATGACTGTCACCTTGA
24617303 TATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCAATCTACTCCTTGC
1 TATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCAATCTACTCCTTGC
**
24617368 AAACTCATGACTGTCATGTTGA
66 AAACTCATGACTGTCACCTTGA
* *
24617390 TATCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCTGCTTCTTC
1 TATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTC
24617441 GATTTGTTCC
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (87 bp):
TATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCAATCTACTCCTTGC
AAACTCATGACTGTCACCTTGA
Found at i:24617806 original size:206 final size:206
Alignment explanation
Indices: 24617437--24618400 Score: 1644
Period size: 206 Copynumber: 4.7 Consensus size: 206
24617427 AAATCTGCTT
* * * *
24617437 CTTCGATTTGTTC-CTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGCAAGCA
1 CTTCGACTTGTTCTC-TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCA
*
24617501 CGAGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCT
65 CGCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCT
*
24617566 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAAAT
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAAT
24617631 GGAGATGCCAGA
195 GGAGATGCCAGA
* * * *
24617643 CTTTGACTTGTTCTCTGACAATATAGAGAGGCCAAATCATCTTAGACTTGCTTTAGCATAAGCAC
1 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
24617708 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
24617773 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAAATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
24617838 GAGATGCCAGA
196 GAGATGCCAGA
* *
24617849 CTTTGACTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
1 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * * * *
24617914 ACGAAAGCCAAATCAGCTATGTCTTCGATTGGCTCCTTGAAAGCGCAAGAATGCCAAATCATCTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
24617979 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
*
24618044 GAGATACCAGA
196 GAGATGCCAGA
*
24618055 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAT
1 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* ** *
24618120 GCGAATGCCAAATCAGCTATGTCTTCGATTTGCTTATTGTAAGCACAAGGATGCCAAATCATTTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
24618185 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
24618250 GAGATGCCAGA
196 GAGATGCCAGA
* *
24618261 CTTCGACTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGTAC
1 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * *
24618326 ACGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
24618391 GGATC-TGCTT
131 GGATCTTGCTT
24618401 TAACTAGATC
Statistics
Matches: 712, Mismatches: 45, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
205 5 0.01
206 706 0.99
207 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCAAAATG
GAGATGCCAGA
Found at i:24621899 original size:30 final size:30
Alignment explanation
Indices: 24621863--24621925 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
24621853 TTGTCCGCTT
24621863 CCTTTTGATATTGTGATGCTAACTTCTTAG
1 CCTTTTGATATTGTGATGCTAACTTCTTAG
24621893 CCTTTTGATATTGTGATGCTAACTTCTTAG
1 CCTTTTGATATTGTGATGCTAACTTCTTAG
24621923 CCT
1 CCT
24621926 CGAGTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (30 bp):
CCTTTTGATATTGTGATGCTAACTTCTTAG
Found at i:24632723 original size:7 final size:7
Alignment explanation
Indices: 24632713--24632826 Score: 70
Period size: 7 Copynumber: 16.0 Consensus size: 7
24632703 ATATTTAATT
24632713 TAAACCC
1 TAAACCC
24632720 TAAACCTC
1 TAAACC-C
*
24632728 TTAACCCC
1 -TAAACCC
*
24632736 T-ATCCC
1 TAAACCC
24632742 ATAAACCC
1 -TAAACCC
24632750 TAAACCC
1 TAAACCC
*
24632757 TTAACCC
1 TAAACCC
*
24632764 CAAACCC
1 TAAACCC
* *
24632771 TTACACCT
1 -TAAACCC
*
24632779 TAAA-CT
1 TAAACCC
*
24632785 TCAACCC
1 TAAACCC
*
24632792 TAACCCC
1 TAAACCC
24632799 TAAACCC
1 TAAACCC
* *
24632806 TAAATCA
1 TAAACCC
*
24632813 TAATCCC
1 TAAACCC
24632820 TAAACCC
1 TAAACCC
24632827 ATTATTCATC
Statistics
Matches: 80, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
6 9 0.11
7 56 0.70
8 10 0.12
9 5 0.06
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:24632782 original size:29 final size:30
Alignment explanation
Indices: 24632713--24632809 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 30
24632703 ATATTTAATT
* *
24632713 TAAACCCTAAACCTCTTAACCCCTATCCCA
1 TAAACCCTAAACCTCTTAACCCCAAACCCA
*
24632743 TAAACCCTAAACC-CTTAACCCCAAACCCT
1 TAAACCCTAAACCTCTTAACCCCAAACCCA
* * * * *
24632772 TACACCTTAAA-CT-TCAA-CCCTAACCCC
1 TAAACCCTAAACCTCTTAACCCCAAACCCA
24632799 TAAACCCTAAA
1 TAAACCCTAAA
24632810 TCATAATCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 17 0.30
28 4 0.07
29 22 0.39
30 13 0.23
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (30 bp):
TAAACCCTAAACCTCTTAACCCCAAACCCA
Found at i:24632905 original size:46 final size:46
Alignment explanation
Indices: 24632853--24632946 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
24632843 CTTCAAATAC
*
24632853 TAGTTAACTCTTAAACCTGAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTGAAACCCTAAACCATATATCTTAAACCA
*
24632899 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTGAAACCCTAAACCATATATCTTAAACCA
24632945 TA
1 TA
24632947 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTGAAACCCTAAACCATATATCTTAAACCA
Found at i:24632961 original size:14 final size:14
Alignment explanation
Indices: 24632862--24632961 Score: 67
Period size: 14 Copynumber: 6.9 Consensus size: 14
24632852 CTAGTTAACT
24632862 CTTAAACC-TGAAAC
1 CTTAAACCAT-AAAC
* * *
24632876 CCTAAACCATATAT
1 CTTAAACCATAAAC
24632890 CTTAAACCATAGTTAAC
1 CTTAAACCATA---AAC
* *
24632907 TCATAAACCTTAAAC
1 -CTTAAACCATAAAC
* * *
24632922 CCTAAACCATATAT
1 CTTAAACCATAAAC
24632936 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
24632950 CTTAAACTATAA
1 CTTAAACCATAA
24632962 TGATAATTAA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
14 51 0.78
15 4 0.06
17 1 0.02
18 9 0.14
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:24633318 original size:40 final size:41
Alignment explanation
Indices: 24633119--24633326 Score: 312
Period size: 41 Copynumber: 5.1 Consensus size: 41
24633109 GTTATATGAC
*
24633119 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAAAGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
24633160 TTTTATCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
24633201 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
24633242 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
24633282 TTTTAGTGGCGTTTTACCAAAAACGCCGC-AATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA-TGCTCTG-GT
24633324 TTT
1 TTT
24633327 ACAATTTTTG
Statistics
Matches: 151, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 33 0.22
41 112 0.74
42 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:24637062 original size:20 final size:21
Alignment explanation
Indices: 24637028--24637081 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
24637018 TGATGATATT
*
24637028 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
24637049 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
24637069 TTTTATTATTTTA
1 TTATATTATTTTA
24637082 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:24639287 original size:46 final size:46
Alignment explanation
Indices: 24639235--24639406 Score: 247
Period size: 46 Copynumber: 3.7 Consensus size: 46
24639225 AGTGTGCTCT
*
24639235 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
24639281 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
24639327 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 TTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
24639373 ATGACA-GAAAATGAGTAAGACCATAGTTAAAAGA
1 TTGATATG-AAATGAGTAAGACCATGGTTGAAAGA
24639407 CACTATGCCA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 114 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (46 bp):
TTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:24641135 original size:7 final size:7
Alignment explanation
Indices: 24641125--24641149 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24641115 TAAAAATAAA
24641125 TATTATT
1 TATTATT
24641132 TATTATT
1 TATTATT
24641139 TATTATT
1 TATTATT
24641146 TATT
1 TATT
24641150 TTGTATTTGC
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:0.00, T:0.72
Consensus pattern (7 bp):
TATTATT
Found at i:24641833 original size:17 final size:19
Alignment explanation
Indices: 24641811--24641884 Score: 86
Period size: 19 Copynumber: 4.2 Consensus size: 19
24641801 ATGGAAATAT
24641811 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
24641828 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
24641847 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
24641864 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
24641882 AAT
1 AAT
24641885 ATGATATGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
17 22 0.42
18 5 0.10
19 25 0.48
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:24641843 original size:19 final size:19
Alignment explanation
Indices: 24641819--24641884 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
24641809 ATAATCTTCA
24641819 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24641838 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24641857 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24641874 ATGAT-TGCAAT
1 ATGATATGCAAT
24641885 ATGATATGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.36
18 4 0.09
19 25 0.56
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:24641851 original size:36 final size:35
Alignment explanation
Indices: 24641811--24641909 Score: 106
Period size: 36 Copynumber: 3.0 Consensus size: 35
24641801 ATGGAAATAT
24641811 AATCTTCAATGATATGCAATCTTAGATATGATATGC
1 AATCTT-AATGATATGCAATCTTAGATATGATATGC
*
24641847 AATCTTAGAT-ATGATACAATCTTAGATATGAT-TGC
1 AATCTTA-ATGAT-ATGCAATCTTAGATATGATATGC
24641882 AA---T-ATGATATGCAATCTTAGA-A-GATATG
1 AATCTTAATGATATGCAATCTTAGATATGATATG
24641910 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
28 3 0.05
29 3 0.05
30 14 0.25
31 2 0.04
32 1 0.02
35 8 0.14
36 26 0.46
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (35 bp):
AATCTTAATGATATGCAATCTTAGATATGATATGC
Found at i:24641911 original size:22 final size:23
Alignment explanation
Indices: 24641883--24641925 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24641873 TATGATTGCA
24641883 ATATGA-TATGCAATCTTAGAAG
1 ATATGATTATGCAATCTTAGAAG
* *
24641905 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGCAATCTTAGA
24641926 GATTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (23 bp):
ATATGATTATGCAATCTTAGAAG
Found at i:24642217 original size:17 final size:17
Alignment explanation
Indices: 24642193--24642227 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24642183 TGTTTCCCTG
*
24642193 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
24642211 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
24642228 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:24650600 original size:76 final size:78
Alignment explanation
Indices: 24650426--24650716 Score: 423
Period size: 77 Copynumber: 3.8 Consensus size: 78
24650416 CGAAGAAACA
* * * *
24650426 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACAT-GCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATTGAA
24650490 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
24650503 GATTTGGCATATCTGTATTAGAC-GGGAGCAGATCGAAAACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATTGAA
*
24650567 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* *
24650580 G-TTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATT-A
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAAACATAGCAGATCT-GACCTTCATTGA
24650642 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
24650656 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAA-ACATAGCAGATCTGACCTTCAT
24650717 GTGTTTACAT
Statistics
Matches: 191, Mismatches: 17, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
76 53 0.28
77 137 0.72
78 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:24650812 original size:45 final size:46
Alignment explanation
Indices: 24650656--24650929 Score: 271
Period size: 45 Copynumber: 6.1 Consensus size: 46
24650646 GATCCAAGAT
*
24650656 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCA-AAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAG--ATAACA
* * * * * * * *
24650703 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATC-CAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAGAAGATAACA
*
24650748 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG-AGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * *
24650793 GATTTGGCATCTCTATATTAGACGGGGAGCAGAT-TGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* *
24650837 GATTTGGCGTCTCTGTATTAGACGGGGAACAGATC-GAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * *
24650882 GATTTGGCGTCTCTGTATTAGACTGGGAGCAGATCA-AAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
24650927 GAT
1 GAT
24650930 ATCGCCTTCC
Statistics
Matches: 187, Mismatches: 28, Indels: 26
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 44 0.24
45 111 0.59
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (46 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
Found at i:24650878 original size:89 final size:90
Alignment explanation
Indices: 24650730--24650929 Score: 280
Period size: 89 Copynumber: 2.2 Consensus size: 90
24650720 TTTACATCGA
* *
24650730 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAACAAATCAGAGATAACAG
24650794 ATTTGGCATCTCTATATTAGACGGGG
65 ATTTGGCATCTCTATATTAGACGGGG
** * *
24650820 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATC-GAAGATAACAG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAACAAATCAG-AGATAACAG
* * *
24650883 ATTTGGCGTCTCTGTATTAGACTGGG
65 ATTTGGCATCTCTATATTAGACGGGG
24650909 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
24650930 ATCGCCTTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
88 1 0.01
89 77 0.79
90 19 0.20
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAACAAATCAGAGATAACAGA
TTTGGCATCTCTATATTAGACGGGG
Found at i:24651306 original size:19 final size:19
Alignment explanation
Indices: 24651282--24651374 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
24651272 ATAATCTTCA
24651282 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24651301 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
**
24651320 ATGATATATAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24651339 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24651357 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
24651375 AGATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
18 16 0.23
19 53 0.77
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Done.