Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 80 of 311
Found at i:25103379 original size:17 final size:17
Alignment explanation
Indices: 25103357--25103392 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25103347 TTAATTTAAT
25103357 TTCACTTGATTTAGATA
1 TTCACTTGATTTAGATA
25103374 TTCACTTGATTTAGATA
1 TTCACTTGATTTAGATA
25103391 TT
1 TT
25103393 TCACCAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (17 bp):
TTCACTTGATTTAGATA
Found at i:25105127 original size:94 final size:94
Alignment explanation
Indices: 25104966--25105154 Score: 324
Period size: 94 Copynumber: 2.0 Consensus size: 94
25104956 GGATAAATTT
* *
25104966 ATAGGAAGATAATGACATAAGTTATTATAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
1 ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
*
25105031 GATTAATTAATAGGAAGATTAATTTATAG
66 GATTAATTAATAGAAAGATTAATTTATAG
*
25105060 ATAGGAAGATAATGACACAAGTTATTACAGTCTAACTGAAACTTTAGATGAAACCATAAAATTGA
1 ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
* *
25105125 GATTAATTTATCGAAAGATTAATTTATAG
66 GATTAATTAATAGAAAGATTAATTTATAG
25105154 A
1 A
25105155 AGATAATTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.31
Consensus pattern (94 bp):
ATAGGAAGATAATGACACAAGTTATTACAGTCTAAATGAAACTTTAGATGAAACCATAAAATTGA
GATTAATTAATAGAAAGATTAATTTATAG
Found at i:25105611 original size:16 final size:16
Alignment explanation
Indices: 25105592--25105635 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
25105582 CTAATTATAA
*
25105592 CTCTACTCCATTACAG
1 CTCTATTCCATTACAG
*
25105608 CTCTATTCCATTATAG
1 CTCTATTCCATTACAG
*
25105624 CCCTATTCCATT
1 CTCTATTCCATT
25105636 CCCCCCAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:25110292 original size:13 final size:13
Alignment explanation
Indices: 25110274--25110299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25110264 GGTGTGTGGG
25110274 ACAACACGGGCAT
1 ACAACACGGGCAT
25110287 ACAACACGGGCAT
1 ACAACACGGGCAT
25110300 GTGGGTTCTG
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:0.38, C:0.31, G:0.23, T:0.08
Consensus pattern (13 bp):
ACAACACGGGCAT
Found at i:25113108 original size:15 final size:15
Alignment explanation
Indices: 25113076--25113104 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25113066 ATTTTTTGTG
25113076 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
25113091 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
25113105 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:25129760 original size:84 final size:84
Alignment explanation
Indices: 25129619--25129786 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
25129609 TGTTTTGATA
25129619 CTCAGATAATAAGTGAGTTGGTTAATATATTGTAACATCATGAAATGGGGCCTAGTCGAAATGGT
1 CTCAGATAATAAGTGAGTTGGTTAATATATTGTAACATCATGAAATGGGGCCTAGTCGAAATGGT
*
25129684 GGTTTCGGGACCATAAATC
66 GGTTTCGGGACCACAAATC
* *
25129703 CTCAGATAATAAGTGAGTTGGTTGATATATTGTAACATCATGAAATGGGGCCTAGTCGGAATGGT
1 CTCAGATAATAAGTGAGTTGGTTAATATATTGTAACATCATGAAATGGGGCCTAGTCGAAATGGT
25129768 GGTTTCGGGACCACAAATC
66 GGTTTCGGGACCACAAATC
25129787 TGATGTTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (84 bp):
CTCAGATAATAAGTGAGTTGGTTAATATATTGTAACATCATGAAATGGGGCCTAGTCGAAATGGT
GGTTTCGGGACCACAAATC
Found at i:25131225 original size:54 final size:54
Alignment explanation
Indices: 25131167--25131349 Score: 276
Period size: 54 Copynumber: 3.4 Consensus size: 54
25131157 CATTGTAAAA
* * *
25131167 GATTTAGCCTGGAATGGTAATCCCGATAATACTCCTTGAATTTATGCTATGAGG
1 GATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAGG
* *
25131221 GATTTAGCCTGGAATGGTAATCTCGACAATACTCCTTAAATTTATGTTATGAAG
1 GATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAGG
* *
25131275 GATTTAGCATGGAATGGTAATCCCGACAATACTCATTAAATTTATGTTATGAGG
1 GATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAGG
* * *
25131329 GATTTAACCTAGATTGGTAAT
1 GATTTAGCCTGGAATGGTAAT
25131350 TCTGCTGTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (54 bp):
GATTTAGCCTGGAATGGTAATCCCGACAATACTCCTTAAATTTATGTTATGAGG
Found at i:25133396 original size:48 final size:49
Alignment explanation
Indices: 25133295--25133516 Score: 201
Period size: 48 Copynumber: 4.7 Consensus size: 49
25133285 TTATTTGTGT
* * * *
25133295 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAT-ATTATAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATGAGATGA
25133341 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CTATGA-GACGA-GA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-TGATGA-GATGA
* * * * * ***
25133389 GCTAGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATTTCCATG-
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGA-TGAGATGA
* * *
25133438 GTCAGTGTAAGACCATGTTTGGGACATGGCAT-TGACTTGATG-GATGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATGAGATGA
* *
25133485 GCCAGTGTAAGACCATATCTGGGACATGGCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCAT
25133517 TGGCATTATT
Statistics
Matches: 142, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
46 15 0.11
47 45 0.32
48 49 0.35
49 32 0.23
50 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATGAGATGA
Found at i:25142577 original size:17 final size:16
Alignment explanation
Indices: 25142555--25142594 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
25142545 ATTATATTTG
*
25142555 AATTTAATGTAATTTAT
1 AATTTAATGTAATAT-T
*
25142572 AATTTAATTTAATATT
1 AATTTAATGTAATATT
25142588 AATTTAA
1 AATTTAA
25142595 CTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTAATGTAATATT
Found at i:25142580 original size:22 final size:23
Alignment explanation
Indices: 25142546--25142593 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
25142536 TAAAATATTA
25142546 TTATATTTGAATTTAAT-GTAAT
1 TTATATTTGAATTTAATAGTAAT
*
25142568 TTATAATTT-AATTTAATATTAAT
1 TTAT-ATTTGAATTTAATAGTAAT
25142591 TTA
1 TTA
25142594 ACTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATATTTGAATTTAATAGTAAT
Found at i:25142583 original size:90 final size:90
Alignment explanation
Indices: 25142389--25142568 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 90
25142379 TAGATTTATT
* * **
25142389 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACTTTACAATGATTAATTCTAG
1 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAATTAATAATAG
*
25142454 TTATGATTATTCGAATTTATGGTTA
66 TTATGATTATTCGAATTTATGGTAA
*
25142479 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACATTAATTTAA-AATA
1 TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAA-TTAATAATA
* *
25142543 -TTATTA-TATTTGAATTTAAT-GTAA
65 GTTATGATTATTCGAATTT-ATGGTAA
25142567 TT
1 TT
25142569 TATAATTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 15 0.19
89 7 0.09
90 54 0.68
91 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (90 bp):
TTAGTCTAAATTTAAATATATTATGGTTATTAGTCTGGATCATACCTTACAATAATTAATAATAG
TTATGATTATTCGAATTTATGGTAA
Found at i:25143284 original size:9 final size:9
Alignment explanation
Indices: 25143246--25143376 Score: 74
Period size: 9 Copynumber: 14.4 Consensus size: 9
25143236 AAACTTTTAG
25143246 AAAAATTATT
1 AAAAATTA-T
* *
25143256 AAAAACATAA
1 AAAAA-TTAT
*
25143266 AAAAACTAT
1 AAAAATTAT
25143275 AAAAATTAT
1 AAAAATTAT
* *
25143284 --AATTTTT
1 AAAAATTAT
*
25143291 AAAAATGAT
1 AAAAATTAT
*
25143300 TAAAATTAT
1 AAAAATTAT
*
25143309 AATAAA-TAA
1 AA-AAATTAT
25143318 AAAAATTA-
1 AAAAATTAT
*
25143326 AAAAATAAT
1 AAAAATTAT
*
25143335 TAAAATTAGTT
1 AAAAATTA--T
25143346 AAAAA-TAT
1 AAAAATTAT
*
25143354 GAAATATTAT
1 -AAAAATTAT
25143364 AAAAATTAT
1 AAAAATTAT
25143373 AAAA
1 AAAA
25143377 GGGAAATTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
7 5 0.05
8 11 0.12
9 50 0.55
10 18 0.20
11 7 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:25143329 original size:25 final size:25
Alignment explanation
Indices: 25143246--25143329 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
25143236 AAACTTTTAG
*
25143246 AAAAATTATTAAAAACATAAAAAAACTAT
1 AAAAATTA-TAATAA-ATAAAAAAA-T-T
*** *
25143275 AAAAATTATAATTTTTAAAAATGATT
1 AAAAATTATAATAAATAAAAA-AATT
25143301 -AAAATTATAATAAATAAAAAAATT
1 AAAAATTATAATAAATAAAAAAATT
25143325 AAAAA
1 AAAAA
25143330 ATAATTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
24 3 0.07
25 21 0.48
26 1 0.02
27 7 0.16
28 4 0.09
29 8 0.18
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (25 bp):
AAAAATTATAATAAATAAAAAAATT
Found at i:25143904 original size:9 final size:9
Alignment explanation
Indices: 25143885--25143952 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
25143875 AAAAAGTTTT
25143885 AAATT-TAA
1 AAATTATAA
25143893 AAATTATAAA
1 AAATTAT-AA
25143903 AATATTATAA
1 AA-ATTATAA
*
25143913 AAATGATAA
1 AAATTATAA
* *
25143922 AAAATAGAA
1 AAATTATAA
25143931 AAATTATTAA
1 AAATTA-TAA
*
25143941 ATATTATAA
1 AAATTATAA
25143950 AAA
1 AAA
25143953 ATTAAAAGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 5 0.10
9 23 0.48
10 15 0.31
11 5 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAATTATAA
Found at i:25143904 original size:10 final size:10
Alignment explanation
Indices: 25143891--25143956 Score: 66
Period size: 10 Copynumber: 6.8 Consensus size: 10
25143881 TTTTAAATTT
25143891 AAAAATTATA
1 AAAAATTATA
25143901 AAAATATTAT-
1 AAAA-ATTATA
*
25143911 AAAAATGATA
1 AAAAATTATA
*
25143921 AAAAA-TA-G
1 AAAAATTATA
*
25143929 AAAAATTATT
1 AAAAATTATA
*
25143939 AAATATTATA
1 AAAAATTATA
25143949 AAAAATTA
1 AAAAATTA
25143957 AAAGTACTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
8 5 0.11
9 7 0.16
10 28 0.62
11 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:25143932 original size:28 final size:28
Alignment explanation
Indices: 25143901--25143954 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
25143891 AAAAATTATA
25143901 AAAATATTA-TAAAAATGATAAAAAATAG
1 AAAA-ATTATTAAAAATGATAAAAAATAG
* *
25143929 AAAAATTATTAAATATTATAAAAAAT
1 AAAAATTATTAAAAATGATAAAAAAT
25143955 TAAAAGTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAAATTATTAAAAATGATAAAAAATAG
Found at i:25149213 original size:61 final size:60
Alignment explanation
Indices: 25149066--25149220 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 60
25149056 TAACCCTTGT
* *
25149066 TCTATCAATTT-GATCCTAAATATAAAAAAAATTAAAAATTTAGCCCTCAATGTTTACAAAA
1 TCTATCAATTTAG-TCCTAAATCT-AAAAAAATTAAAAATTTAGCCCTCAATATTTACAAAA
* * * * *
25149127 --TATCATTTTAGTTCTAATTCTAAAAAATTTAATAAATTTTA-CCCTCAATATTTATAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAAAAATTAA-AAA-TTTAGCCCTCAATATTTACAAAA
*
25149186 TCTATCAATTTAGTCCTAACTCT--AAAAATTAAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAAAAATTAAAAA
25149221 AAAATCATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
58 13 0.17
59 42 0.54
60 5 0.06
61 18 0.23
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.37
Consensus pattern (60 bp):
TCTATCAATTTAGTCCTAAATCTAAAAAAATTAAAAATTTAGCCCTCAATATTTACAAAA
Found at i:25152881 original size:2 final size:2
Alignment explanation
Indices: 25152876--25152906 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25152866 AAAAAAGAAA
25152876 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25152907 ACATATCGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25163046 original size:13 final size:13
Alignment explanation
Indices: 25163028--25163070 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
25163018 ACCTTAGCTT
25163028 TTTCTCCTTTTTC
1 TTTCTCCTTTTTC
25163041 TTTCT-CTTTTTC
1 TTTCTCCTTTTTC
* *
25163053 CTTCTCTTTTTTTC
1 TTTCTC-CTTTTTC
25163067 TTTC
1 TTTC
25163071 GTTTTACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTCCTTTTTC
Found at i:25163051 original size:12 final size:12
Alignment explanation
Indices: 25163028--25163063 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
25163018 ACCTTAGCTT
25163028 TTTCTCCTTTTTC
1 TTTCT-CTTTTTC
25163041 TTTCTCTTTTTC
1 TTTCTCTTTTTC
*
25163053 CTTCTCTTTTT
1 TTTCTCTTTTT
25163064 TTCTTTCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:25163144 original size:5 final size:5
Alignment explanation
Indices: 25163134--25163223 Score: 180
Period size: 5 Copynumber: 18.0 Consensus size: 5
25163124 GTTTATTATT
25163134 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
25163184 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
25163224 AGTATTACAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 85 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:25166257 original size:86 final size:84
Alignment explanation
Indices: 25166100--25166262 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 84
25166090 CATAATCAAG
* * * * * *
25166100 TACAATGTCGAAGTACCAGCATGGTCTTACATGTAATTTAATATCGATGCCTTTGTCCCAGACAG
1 TACAATGCCGAAGTACCAGCATGGTCTTACACGTAATTCAATATCGAGGCCTGTGTCCCAGACAC
25166165 GGTCTTACACGAAATCAGA
66 GGTCTTACACGAAATCAGA
* *
25166184 TACAATGCCGAAGTCCCAGACATGGTCTTATACGTAAATCTCAAT-TCGAGGCCTGTGTCCCAGA
1 TACAATGCCGAAGTACCAG-CATGGTCTTACACGT-AAT-TCAATATCGAGGCCTGTGTCCCAGA
25166248 CACGGTCTTACACGA
63 CACGGTCTTACACGA
25166263 TGTTACAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 17 0.25
85 13 0.19
86 34 0.50
87 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (84 bp):
TACAATGCCGAAGTACCAGCATGGTCTTACACGTAATTCAATATCGAGGCCTGTGTCCCAGACAC
GGTCTTACACGAAATCAGA
Found at i:25172452 original size:21 final size:20
Alignment explanation
Indices: 25172428--25172466 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
25172418 ATGTTTTTTG
*
25172428 ATGTTTTATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
25172449 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
25172467 ACAAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:25177688 original size:47 final size:49
Alignment explanation
Indices: 25177538--25177711 Score: 175
Period size: 47 Copynumber: 3.7 Consensus size: 49
25177528 AAAATCGAGT
* ** * *
25177538 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-TGACACATCTATGTTG
** * *
25177588 CCGATGCCATGTCATAGAC-TGGTCTTGCACTGTGAC-C-TCTATATGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGTGACACATCTATGT-TG
25177635 CCGATGCCATGTCCCAGACATGGTCTTACACT-TGACACATCT-TGTTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGTGACACATCTATGTTG
*
25177682 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
25177712 AGCTTACATC
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
45 13 0.12
46 15 0.14
47 32 0.30
48 15 0.14
49 14 0.13
50 16 0.15
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGTGACACATCTATGTTG
Found at i:25177854 original size:46 final size:46
Alignment explanation
Indices: 25177538--25177851 Score: 191
Period size: 46 Copynumber: 6.7 Consensus size: 46
25177528 AAAATCGAGT
* *
25177538 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCT--CATA-ATGTG
** * *
25177588 CCGATGCCATGTCATAGAC-TGGTCTTGCACTGTGAC-CTC-TATATGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACT-AG-CTCTCATA-ATGTG
* * * **
25177635 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-ACACATCTTGTTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATG-TG
* * *
25177682 CTGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-G-TG
* * *
25177728 CCGATG-CATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT-
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTG
* * * *
25177775 -CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTAG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGT-G
*
25177822 CCAATG-CATGTCCCAGACATGTCTTACACT
1 CCGATGCCATGTCCCAGACATGTCTTACACT
25177852 GGCACACAAA
Statistics
Matches: 211, Mismatches: 34, Indels: 42
0.74 0.12 0.15
Matches are distributed among these distances:
45 17 0.08
46 69 0.33
47 60 0.28
48 32 0.15
49 12 0.06
50 20 0.09
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:25179580 original size:22 final size:21
Alignment explanation
Indices: 25179531--25179580 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25179521 ATGGCCTAAG
**
25179531 CACGGGCATGTCCTAGGGTCA
1 CACGGGCATGTCCTAGGACCA
* *
25179552 CATGGGCATGTCCCTTGGACCA
1 CACGGGCATGT-CCTAGGACCA
25179574 CACGGGC
1 CACGGGC
25179581 GTGTGAGCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (21 bp):
CACGGGCATGTCCTAGGACCA
Found at i:25189528 original size:14 final size:14
Alignment explanation
Indices: 25189509--25189535 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25189499 CAAAATCAAT
25189509 AAAATTTTCTTATC
1 AAAATTTTCTTATC
25189523 AAAATTTTCTTAT
1 AAAATTTTCTTAT
25189536 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:25191546 original size:53 final size:53
Alignment explanation
Indices: 25191483--25191642 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 53
25191473 GGCACTGAAG
* *
25191483 AAGACCATATCATGTAAGACTGTAATTGGAGGGTTATGGCATCATATGGAAAA
1 AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
* * * * * *
25191536 AAGATCATATCATATAGGACCGTAACTGGTGGGTTATGACATCATAT-GACAAT
1 AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGA-AAA
* *
25191589 AAGACCATAT-AGTGTAAGATTGTAACTGGTGGGTTATAGCATCATATGGAAAA
1 AAGACCATATCA-TGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
25191642 A
1 A
25191643 TTTAAGGAAG
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
52 3 0.03
53 83 0.94
54 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
Found at i:25191988 original size:28 final size:28
Alignment explanation
Indices: 25191928--25191995 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
25191918 TAGTGGATGT
25191928 AAAGGAAAGCCTTCATGGAAAAACTCTG
1 AAAGGAAAGCCTTCATGGAAAAACTCTG
25191956 -AAGGAAAGCCTTCGA-GGAAAAACTCTG
1 AAAGGAAAGCCTTC-ATGGAAAAACTCTG
25191983 AAAGGAAAGCCTT
1 AAAGGAAAGCCTT
25191996 TTTGGTGAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.16
Consensus pattern (28 bp):
AAAGGAAAGCCTTCATGGAAAAACTCTG
Found at i:25192092 original size:61 final size:61
Alignment explanation
Indices: 25191956--25192235 Score: 192
Period size: 61 Copynumber: 4.6 Consensus size: 61
25191946 AAAAACTCTG
* * * * * * **
25191956 AAGGAAAGCCTTCGAGGAAAAACTCTGAA-AGGAAAGCCTTTTTGGTGAGTATTGAACATA
1 AAGGAATGCCTTTGTGGAAAAACTCTTAACAGGAAAGCCTTTGTGGTGAGTACTGAATGTA
* * * * *
25192016 AAAGATTGGCC-TTGTGGCAAAACTCTTAACAGGAATGCCTTTGTGGTGAGTACTAAATGTA
1 AAGGAAT-GCCTTTGTGGAAAAACTCTTAACAGGAAAGCCTTTGTGGTGAGTACTGAATGTA
* * * * *
25192077 AAGGAATGCCTTTGTGGAAAAACT-TTGGATAGGAAAACCTTTTTGGTGAGTACTTAATGTA
1 AAGGAATGCCTTTGTGGAAAAACTCTT-AACAGGAAAGCCTTTGTGGTGAGTACTGAATGTA
* * * * * * * *
25192138 AATGG-ATGCCGTTGTGAAAAAAAGT-TTGGATAGGAAAGCATTTGTGGTGAGTATTGTATGTA
1 AA-GGAATGCCTTTGTG-GAAAAACTCTT-AACAGGAAAGCCTTTGTGGTGAGTACTGAATGTA
* ** * * *
25192200 AAAGAACACCTTTGTGGCAAAACTCTAAACAAGAAA
1 AAGGAATGCCTTTGTGGAAAAACTCTTAACAGGAAA
25192236 AGCTATAACA
Statistics
Matches: 170, Mismatches: 42, Indels: 15
0.75 0.19 0.07
Matches are distributed among these distances:
60 23 0.14
61 97 0.57
62 50 0.29
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (61 bp):
AAGGAATGCCTTTGTGGAAAAACTCTTAACAGGAAAGCCTTTGTGGTGAGTACTGAATGTA
Found at i:25196324 original size:43 final size:43
Alignment explanation
Indices: 25196269--25196485 Score: 276
Period size: 43 Copynumber: 5.0 Consensus size: 43
25196259 ATATCGTACA
* * * * ** *
25196269 ATGCCAATGTCCCAGACGTGGCCTTACATGTAACCTTATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
25196312 ATGCC-ACTGTCCCAGACAGGGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACAT-GTAATCACATATCG
* *
25196355 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
*
25196398 ATGCCAACGTCCCAGACCTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
**
25196441 ATGCCAACGTCCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
25196484 AT
1 AT
25196486 ATCACATATA
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
42 2 0.01
43 148 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:25197637 original size:54 final size:54
Alignment explanation
Indices: 25197579--25197789 Score: 134
Period size: 54 Copynumber: 3.9 Consensus size: 54
25197569 TACTGAAATG
** *
25197579 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * **** * * *
25197633 CCCTCGACTTACAAAATTACCGTTTTACTCTCGATTTACAGAATTATCGTTTTA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * * * ***** * **
25197687 CCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * * * * * * *
25197741 CCCTCGATTTAAAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCA
25197790 AAATACCCTC
Statistics
Matches: 127, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
Found at i:25197759 original size:81 final size:81
Alignment explanation
Indices: 25197604--25197759 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
25197594 ATTACCAAAG
*
25197604 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACTCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
* *
25197669 TACAGAATTATCGTTT
66 TAAAAAATTATCGTTT
** * * * *
25197685 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
25197750 TAAAAAATTA
66 TAAAAAATTA
25197760 CTAAAATACC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
TAAAAAATTATCGTTT
Found at i:25197761 original size:27 final size:27
Alignment explanation
Indices: 25197604--25197761 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
25197594 ATTACCAAAG
* **
25197604 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
25197631 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
25197658 TACTCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
25197685 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
25197712 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
25197739 TACCCTCGATTTAAAAAATTACT
1 TACCCTCGATTTACAGAATTACT
25197762 AAAATACCCT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 113 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:25197770 original size:81 final size:81
Alignment explanation
Indices: 25197591--25197789 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 81
25197581 CTCAAATTGT
* *
25197591 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
* *
25197656 TTTACTCTCGATTTAC
66 TTTACCCTCGATTTAA
* ** ** * * * *
25197672 AGAATTATCGT--TTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACT
1 AAAATTA-C-TAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACC
25197735 GTTTTACCCTCGATTTAA
64 GTTTTACCCTCGATTTAA
* * * *
25197753 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCA
25197790 AAATACCCTC
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 90 0.97
82 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
TTTACCCTCGATTTAA
Found at i:25197845 original size:26 final size:27
Alignment explanation
Indices: 25197753--25198068 Score: 210
Period size: 27 Copynumber: 11.7 Consensus size: 27
25197743 CTCGATTTAA
* * **
25197753 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
25197780 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
25197807 AAAATTACCAAAAT-GCCCTGGTCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
25197833 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
25197860 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
25197887 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** * **
25197914 GAAATTACTGAAATA-CCTTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
** **
25197941 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
25197968 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCCTG-GTTTGT
* ** **
25197996 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCCTGGTTTGT
* *
25198024 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
25198051 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
25198069 TTGTAGGATG
Statistics
Matches: 230, Mismatches: 50, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
26 24 0.10
27 177 0.77
28 11 0.05
29 18 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:25197952 original size:81 final size:81
Alignment explanation
Indices: 25197753--25197961 Score: 235
Period size: 80 Copynumber: 2.6 Consensus size: 81
25197743 CTCGATTTAA
* ** ** *
25197753 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
25197817 AAATGCCCTGGTCTGT
66 AAATACCCTGGTCTGT
* ** **
25197833 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
25197897 AAATACCACTGGTTTGT
66 AAATACC-CTGGTCTGT
* * *
25197914 GAAATTACTGAAATA-CCTTCAATTTGTAAAATTACCAAAATACCCCTA
1 AAAATTACTAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTA
25197962 ATTTACAAAG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 60 0.54
81 51 0.46
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAATACCCTGGTCTGT
Found at i:25198123 original size:27 final size:27
Alignment explanation
Indices: 25198102--25198193 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
25198092 ACCCCTATTA
*
25198102 GGTAAAGTGACTGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
25198129 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
*
25198156 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAGTGACCGTAA-AGCCCCTGTAG
*
25198183 GGTAAAATGAC
1 GGTAAAGTGAC
25198194 GAATATGCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 60 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:25199039 original size:25 final size:25
Alignment explanation
Indices: 25199001--25199070 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
25198991 AGGAGGTGCT
* *
25199001 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
25199026 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
25199051 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25199071 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:25199083 original size:24 final size:24
Alignment explanation
Indices: 25199000--25199095 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
25198990 GAGGAGGTGC
*
25199000 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
25199025 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
25199049 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
25199073 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
25199096 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:25199094 original size:50 final size:50
Alignment explanation
Indices: 25199001--25199095 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
25198991 AGGAGGTGCT
**
25199001 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
25199051 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
25199096 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:25199277 original size:42 final size:42
Alignment explanation
Indices: 25199218--25199351 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
25199208 TAGTCTCCCC
25199218 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
25199260 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
* ** *
25199302 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
25199344 AAATGGGC
1 AAATGGGC
25199352 CTAAGGGCCA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
Found at i:25203367 original size:16 final size:16
Alignment explanation
Indices: 25203348--25203379 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25203338 AATTGTTTTA
25203348 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
25203364 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
25203380 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:25203644 original size:50 final size:50
Alignment explanation
Indices: 25203583--25204022 Score: 485
Period size: 50 Copynumber: 8.8 Consensus size: 50
25203573 AAGCTCTCTA
* * *
25203583 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* * * *
25203633 GTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACTTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* ** * *
25203683 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG
* * *
25203734 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* * * * *
25203784 GAACACGTAGTAGCCTGTACTTAGTACTACACACGTGACTTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* * ** * *
25203834 ATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTAA-CGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG
* * * **
25203885 GTGCGCATAGTAG-CTGCACTTAGTACTACACATATGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* *
25203934 GTACACGTAGTAGCTTGCACTTAGTACTACACATACG-G-CCTATCAATTTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACAC--ACGTGACCTATCAATCTG
*
25203984 GTACACGCAGTAGCCTGCACTTAGTACTACACACGTGAC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
25204023 TCATAATGGA
Statistics
Matches: 320, Mismatches: 59, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
48 6 0.02
49 18 0.06
50 241 0.75
51 52 0.16
52 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
Found at i:25203862 original size:151 final size:151
Alignment explanation
Indices: 25203583--25204021 Score: 704
Period size: 151 Copynumber: 2.9 Consensus size: 151
25203573 AAGCTCTCTA
* *
25203583 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCC
*
25203648 TGCACTTAGTACTACATACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
25203713 ACACGTGATCGAAGTTAACGG
131 ACACGTGATCGAAGTTAACGG
*
25203734 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGAACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCC
* *
25203799 TGTACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGTACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
25203864 ACACGTGATCGAAGTTAACGG
131 ACACGTGATCGAAGTTAACGG
* * *
25203885 GTGCGCATAGTAG-CTGCACTTAGTACTACACATATGACCTATCAATCTGGTACACGTAGTAGCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCC
* * * * * *
25203949 TGCACTTAGTACTACACATACG-G-CCTATCAATTTGGTACACGCAGTAGCCTGCACTTAGTACT
66 TGCACTTAGTACTACAC--ACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
25204012 ACACACGTGA
129 ACACACGTGA
25204022 CTCATAATGG
Statistics
Matches: 268, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
150 107 0.40
151 158 0.59
152 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATCGAAGTTAACGG
Found at i:25224170 original size:49 final size:49
Alignment explanation
Indices: 25224109--25224234 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
25224099 CATCAAGTCT
* * *
25224109 ATGCCATATCCCAGACAGGTCTTACACTGACTTTCATATAACGAG-GTTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAACG-GTGTCG
* * *
25224158 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAACGGTGTCG
*
25224207 ATGCCATGTCCCAGATAGGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
25224235 AGCTCTTGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAACGGTGTCG
Found at i:25232815 original size:20 final size:20
Alignment explanation
Indices: 25232790--25232827 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25232780 CCTTGCAACT
25232790 TACCATAATCTTTCACAAAA
1 TACCATAATCTTTCACAAAA
*
25232810 TACCATAGTCTTTCACAA
1 TACCATAATCTTTCACAA
25232828 CTTAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (20 bp):
TACCATAATCTTTCACAAAA
Found at i:25232961 original size:42 final size:41
Alignment explanation
Indices: 25232914--25233026 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
25232904 CACCATACCA
*** *
25232914 ATGCCATATTCCAGATATGGTCTTACA-TGGGATCTCATAACG
1 ATGCCATA-TCCAGATATGGTCTTACACAAAG-CCTCATAACG
* * *
25232956 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGCCTCATATCG
1 ATGCC-ATA-TCCAGATATGGTCTTACACAAAGCCTCATAACG
25232999 ATGCCATATCTCAGATATGGTCTTACAC
1 ATGCCATATC-CAGATATGGTCTTACAC
25233027 GTAATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.55
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCAGATATGGTCTTACACAAAGCCTCATAACG
Found at i:25234538 original size:30 final size:30
Alignment explanation
Indices: 25234479--25234538 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
25234469 TTTTACGAGC
* *
25234479 TTAGGGGCAAAAGTGTAAATATGTGAAAGT
1 TTAGGGGCAAAAGTATAAATATGTCAAAGT
* * *
25234509 TTAGGGGCAAAATTATAATTTTGTCAAAGT
1 TTAGGGGCAAAAGTATAAATATGTCAAAGT
25234539 ATGATTTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAGTATAAATATGTCAAAGT
Found at i:25235018 original size:42 final size:42
Alignment explanation
Indices: 25234949--25235029 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
25234939 TGGCGTTGAT
* * **
25234949 ATGAGATTTCGTGTAAGACCACGTCTGGGACATGGCATCGAA
1 ATGAGATTTCGTATAAAACCAAATCTGGGACATGGCATCGAA
* * *
25234991 ATGAGATTTTGTATAAAACCAAATCTGGGATATGTCATC
1 ATGAGATTTCGTATAAAACCAAATCTGGGACATGGCATC
25235030 AATGTGAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
ATGAGATTTCGTATAAAACCAAATCTGGGACATGGCATCGAA
Found at i:25239105 original size:17 final size:17
Alignment explanation
Indices: 25239083--25239119 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25239073 GGTTTAACGA
25239083 ATGCTCCTGCAATTTTC
1 ATGCTCCTGCAATTTTC
**
25239100 ATGCTCCTGCGGTTTTC
1 ATGCTCCTGCAATTTTC
25239117 ATG
1 ATG
25239120 GATTTAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (17 bp):
ATGCTCCTGCAATTTTC
Found at i:25244035 original size:48 final size:48
Alignment explanation
Indices: 25243971--25244426 Score: 547
Period size: 48 Copynumber: 9.5 Consensus size: 48
25243961 CATGTCTTAG
* * * *
25243971 ACATTGTCTTACACTGGCTCTCATATCAATACCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* * * * * *
25244019 ACATGGTCTTAGACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* ** **
25244067 ACATGGTCTTACACTAGCTCTCATATCAATGTTGATGCCATGTTTGAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* * * * **
25244115 ACATGGTCTTACACTGGCTCACATATCAAGGCTGATGCCATGTCCCTG
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* * * *
25244163 ACATAGTCTTACACTAGCTCTCATATCAATGCCAATTCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* * * * *
25244211 ACATGGTGTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* *
25244259 ACATGGTCTTACACTAGCTCTCATATCAGTGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
* * *
25244307 ACATGGTCTTACACT-GCTCACATATCGAGGCCGATGCCATG-TCCTAG
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCC-AA
* *
25244354 ACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
*
25244402 ACATGGTCTTACACTGGCTCACATA
1 ACATGGTCTTACACTAGCTCACATA
25244427 ACCCTAGTAC
Statistics
Matches: 339, Mismatches: 66, Indels: 6
0.82 0.16 0.01
Matches are distributed among these distances:
46 3 0.01
47 38 0.11
48 295 0.87
49 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTTCCAA
Found at i:25244124 original size:96 final size:96
Alignment explanation
Indices: 25243960--25244426 Score: 720
Period size: 96 Copynumber: 4.9 Consensus size: 96
25243950 GTTGTAGATA
** * * *
25243960 CCATGTCTTAGACATTGTCTTACACTGGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
*
25244025 TCTTAGACTGGCTCACATATCGAGGCCGATG
66 TCTTACACTGGCTCACATATCGAGGCCGATG
** **
25244056 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTTGATGCCATGTTTGAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
* *
25244121 TCTTACACTGGCTCACATATCAAGGCTGATG
66 TCTTACACTGGCTCACATATCGAGGCCGATG
* * * *
25244152 CCATGTCCCTGACATAGTCTTACACTAGCTCTCATATCAATGCCAATTCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
* * *
25244217 TGTTACACTAGCTCACATATCGAGGCTGATG
66 TCTTACACTGGCTCACATATCGAGGCCGATG
* *
25244248 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAGTGCCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
25244313 TCTTACACT-GCTCACATATCGAGGCCGATG
66 TCTTACACTGGCTCACATATCGAGGCCGATG
* *
25244343 CCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
25244408 TCTTACACTGGCTCACATA
66 TCTTACACTGGCTCACATA
25244427 ACCCTAGTAC
Statistics
Matches: 335, Mismatches: 35, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
95 90 0.27
96 245 0.73
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGG
TCTTACACTGGCTCACATATCGAGGCCGATG
Found at i:25244223 original size:144 final size:143
Alignment explanation
Indices: 25243971--25244426 Score: 619
Period size: 144 Copynumber: 3.2 Consensus size: 143
25243961 CATGTCTTAG
* * ** *
25243971 ACATTGTCTTACACTGGCTCTCATATCAATACCGATGCCATGTTCCAAACATGGTCTTAGACTGG
1 ACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACT-G
* *
25244036 CTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTTG
65 CTCACATATCGAGGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTG
**
25244101 ATGCCATGTTTGAA
130 ATGCCATGTTCCAA
* * ** *
25244115 ACATGGTCTTACACTGGCTCACATATCAAGGCTGATGCCATGTCCCTGACATAGTCTTACACTAG
1 ACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACT-G
* * * * * * * * * *
25244180 CTCTCATATCAATGCCAATTCCATGTTCCAAACATGGTGTTACACTAGCTCACATATCGAGGCTG
65 CTCACATATCGAGGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTG
*
25244245 ATGCCATGTCCCAA
130 ATGCCATGTTCCAA
* *
25244259 ACATGGTCTTACACTAGCTCTCATATC-AGTGCCGATGCCATGTTCCAAACATGGTCTTACACTG
1 ACATGGTCTTACACTGGCTCACATATCAAG-GCCGATGCCATGTTCCAAACATGGTCTTACACTG
25244323 CTCACATATCGAGGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATCAATGCT
65 CTCACATATCGAGGCCGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCTCATATCAATGCT
25244387 GATGCCATGTTCCAA
129 GATGCCATGTTCCAA
25244402 ACATGGTCTTACACTGGCTCACATA
1 ACATGGTCTTACACTGGCTCACATA
25244427 ACCCTAGTAC
Statistics
Matches: 264, Mismatches: 46, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
142 3 0.01
143 90 0.34
144 171 0.65
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (143 bp):
ACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGC
TCACATATCGAGGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGA
TGCCATGTTCCAA
Found at i:25249086 original size:39 final size:40
Alignment explanation
Indices: 25249043--25249125 Score: 116
Period size: 42 Copynumber: 2.1 Consensus size: 40
25249033 AGCATGGGCC
*
25249043 AAAATTAAAAGAAAA-AA-TAATTAAAACCAAGCAAAAGAA
1 AAAATTAAAAGAAAATAATTAAATAAAACCAAGCAAAA-AA
*
25249082 AAAATTAAAAGAAAATTAATTAAATAAAACCAGGCAAAAAA
1 AAAATTAAAAGAAAA-TAATTAAATAAAACCAAGCAAAAAA
25249123 AAA
1 AAA
25249126 TACTATGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 15 0.38
41 7 0.18
42 17 0.44
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (40 bp):
AAAATTAAAAGAAAATAATTAAATAAAACCAAGCAAAAAA
Found at i:25254566 original size:13 final size:13
Alignment explanation
Indices: 25254548--25254580 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
25254538 GGCACATGGG
25254548 CGTGTGACACGAC
1 CGTGTGACACGAC
25254561 CGTGTGACACGAC
1 CGTGTGACACGAC
*
25254574 AGTGTGA
1 CGTGTGA
25254581 TCCTACTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.18
Consensus pattern (13 bp):
CGTGTGACACGAC
Found at i:25269916 original size:27 final size:27
Alignment explanation
Indices: 25269886--25270035 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
25269876 ATATTGAGTC
* * *
25269886 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
25269913 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** ** *
25269940 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
25269967 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
25269994 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
25270021 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25270036 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
27 102 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:25270021 original size:81 final size:81
Alignment explanation
Indices: 25269886--25270034 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
25269876 ATATTGAGTC
* *
25269886 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
25269951 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** *
25269967 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
25270031 GTGC
65 GTGC
25270035 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:25278311 original size:16 final size:18
Alignment explanation
Indices: 25278281--25278313 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
25278271 GAAGTATCTC
25278281 TATTTGTTTTACCATGCA
1 TATTTGTTTTACCATGCA
25278299 TATTT-TTTT-CCATGC
1 TATTTGTTTTACCATGC
25278314 TATGGTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (18 bp):
TATTTGTTTTACCATGCA
Found at i:25282011 original size:42 final size:42
Alignment explanation
Indices: 25281964--25282066 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 42
25281954 TCGACGCCAG
* * * **
25281964 ATCCCAAATATGGTCTTATACGAAATCTCATTTCGATGCCAT
1 ATCCCAAATATGGTCTTACACGAAATCTCATATCAACACCAT
* * * *
25282006 GTCCCAGATGT-GTCTTACACGAAATCTCATATCAACATCAT
1 ATCCCAAATATGGTCTTACACGAAATCTCATATCAACACCAT
25282047 ATCCCAAATATGGTCTTACA
1 ATCCCAAATATGGTCTTACA
25282067 TGATAACATT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 32 0.67
42 16 0.33
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (42 bp):
ATCCCAAATATGGTCTTACACGAAATCTCATATCAACACCAT
Found at i:25284615 original size:45 final size:48
Alignment explanation
Indices: 25284500--25284628 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 48
25284490 GGGTAAACTA
*
25284500 CCGATGACATGTCCCAGACATGATCTTACACTAGCTCTCACATAACTGTG
1 CCGATGACATGTCCCAGACATGATCTTACACTAG--CACACATAACTGTG
* *
25284550 CCGATGCCATGTCCCAGACATGATCTTACACT-G-ACACAT-CCTGTAG
1 CCGATGACATGTCCCAGACATGATCTTACACTAGCACACATAACTGT-G
* *
25284596 CCGATG-CATGTCCTAGACATG-TCTTATACTAGC
1 CCGATGACATGTCCCAGACATGATCTTACACTAGC
25284629 TTACGCCCCG
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
44 8 0.11
45 19 0.27
46 12 0.17
49 1 0.01
50 31 0.44
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CCGATGACATGTCCCAGACATGATCTTACACTAGCACACATAACTGTG
Found at i:25284760 original size:140 final size:139
Alignment explanation
Indices: 25284507--25284769 Score: 327
Period size: 140 Copynumber: 1.9 Consensus size: 139
25284497 CTACCGATGA
*
25284507 CATGTCCCAGACATGATCTTACACTAGCTCTCACATAACTGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGATCTTACACTAGCTCTCACATAAC--TGCCGATGCCATGTCCCAAACATG
** * *
25284572 ATCTTACACTGACACATCCTGTAGCCGATGCATGTCCTAGACATGTCTTATACTAGCTTACGCCC
64 ATCTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGCCC
25284637 CGAGGCTAATG
129 CGAGGCTAATG
* **
25284648 CATGTCCCAGACATG-TCTTACACTAGCTCTCGTC-TCAA-TGCCGATGCCATGTTGCAAACATG
1 CATGTCCCAGACATGATCTTACACTAGCTCTC-ACAT-AACTGCCGATGCCATGTCCCAAACATG
* * * *
25284710 GTCTTACACTGTCTCTCATAATGT-GTTCGATGCATGTCCCAGACATGTCTTACACTAGCT
64 ATCTTACACTG--ACACATAATGTAG-CCGATGCATGTCCCAGACATGTCTTACACTAGCT
25284770 CACACAAATG
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
138 31 0.30
139 1 0.01
140 55 0.52
141 18 0.17
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (139 bp):
CATGTCCCAGACATGATCTTACACTAGCTCTCACATAACTGCCGATGCCATGTCCCAAACATGAT
CTTACACTGACACATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGCCCCG
AGGCTAATG
Found at i:25287022 original size:17 final size:17
Alignment explanation
Indices: 25287000--25287034 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25286990 TCTGAATAAG
25287000 CTCATTGTCCTCAGGTA
1 CTCATTGTCCTCAGGTA
25287017 CTCATTGTCCTCAGGTA
1 CTCATTGTCCTCAGGTA
25287034 C
1 C
25287035 ACAAACTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (17 bp):
CTCATTGTCCTCAGGTA
Found at i:25292115 original size:140 final size:140
Alignment explanation
Indices: 25291818--25292267 Score: 566
Period size: 140 Copynumber: 3.2 Consensus size: 140
25291808 GGTAAAGTGC
* * * * *
25291818 CGATGCCATGTCCTAGACATTGTCTTACACTGGC-TATCATCTTCGAGGCTGATGCCATATCCCA
1 CGATG-CATGTCCCAGACA-TGTCTTATACTGGCTTAT-GTC-CCGAGGCTGATG-CATGTCCCA
** ** * * *
25291882 GACATGGTCTTACACTAGCTCTCTCATAACCGTGCCAATGCCATATCCCAGACATGGCCTTACAC
61 GACAT-GTCTTACACTAGCTCT-T-ATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
* * * *
25291947 TGACACATC-T--CGTAGT
123 TGGCTC-TCATAATGTGGT
*
25291963 CGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCCGAGGCTAATGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCCGAGGCTGATGCATGTCCCAGACAT
*
25292028 GTCTTACACTAGCACTTATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
66 GTCTTACACTAGCTCTTATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
25292093 ATAATGTGGT
131 ATAATGTGGT
* *
25292103 CGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCCGAGGCTGATGCATGTCTCAAACAT
1 CGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCCGAGGCTGATGCATGTCCCAGACAT
** * *
25292168 GTCTTACACTAGCTCTCGTCTTAATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTC
66 GTCTTACACTAGCTCTTATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
25292233 ATAATGTGGT
131 ATAATGTGGT
*
25292243 CGATGCATGTCCAAGACATGTCTTA
1 CGATGCATGTCCCAGACATGTCTTA
25292268 CACAAGCTCA
Statistics
Matches: 274, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
137 2 0.01
138 38 0.14
139 1 0.00
140 175 0.64
141 13 0.05
142 10 0.04
143 15 0.05
144 15 0.05
145 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCCGAGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTTATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
ATAATGTGGT
Found at i:25292154 original size:94 final size:92
Alignment explanation
Indices: 25292011--25292184 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 92
25292001 CCCGAGGCTA
* * *
25292011 ATGCATGTCCCAGACATGTCTTACACTAGCACTTATCTCAATGCCGATGCCATGTCCCAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTTATCCCAAGGCCGATG-CATGTCCCAAACAT-
*
25292076 GTCTTACACTGGCTCTCATAATGTGGTCG
64 GTCTTACACTAGCTCTCATAATGTGGTCG
* * * * *
25292105 ATGCATGTCCCAGACATGTCTTATACT-G-GCTTATGTCCCGAGGCTGATGCATGTCTCAAACAT
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTTA--TCCCAAGGCCGATGCATGTCCCAAACAT
25292168 GTCTTACACTAGCTCTC
64 GTCTTACACTAGCTCTC
25292185 GTCTTAATGC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 20 0.29
93 13 0.19
94 36 0.52
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (92 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTTATCCCAAGGCCGATGCATGTCCCAAACATGT
CTTACACTAGCTCTCATAATGTGGTCG
Found at i:25292200 original size:46 final size:45
Alignment explanation
Indices: 25291815--25292276 Score: 213
Period size: 46 Copynumber: 9.8 Consensus size: 45
25291805 ATGGGTAAAG
* * * *
25291815 TGCCGATGCCATGTCCTAGACATTGTCTTACACTGGCTATCATCTTCGA
1 TGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTCATCAT--A
* * *
25291864 GGCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTC-TCATAA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCAT-A
* * * * *
25291911 CCGTGCCAATGCCATATCCCAGACATGGCCTTACACT-GACACATC-TCGTA
1 ---TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCATCATA
* * * **
25291961 -GTCGATGCATGTCCCAGACATGTCTTATACTGGCT-T-ATGTCCCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--T-CATA
* ** * *
25292006 GGCTAATGCATGTCCCAGACATGTCTTACACTAGCACTTATC-TCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAT--A
* * *
25292052 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCATA
* * * **
25292099 TGGTCGATGCATGTCCCAGACATGTCTTATACTGGCT-T-ATGTCCCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--T-CATA
* * * * * *
25292146 GGCTGATGCATGTCTCAAACATGTCTTACACTAGCTCTCGTCTTAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAT-A
* * * *
25292192 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCATA
* * *
25292239 TGGTCGATGCATGTCCAAGACATGTCTTACACAAGCTC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
25292277 ACACAAATGA
Statistics
Matches: 316, Mismatches: 68, Indels: 61
0.71 0.15 0.14
Matches are distributed among these distances:
42 1 0.00
44 11 0.03
45 19 0.06
46 104 0.33
47 58 0.18
48 50 0.16
49 35 0.11
50 33 0.10
51 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCATA
Found at i:25297734 original size:24 final size:24
Alignment explanation
Indices: 25297703--25297761 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
25297693 TTTATAGGAA
*
25297703 AAACTAAAAATGGTGAAAAAGACG
1 AAACTAAAAATGGTGAAAAAGAAG
*
25297727 AAACTAAAAAAGGTGAAAAAGAAG
1 AAACTAAAAATGGTGAAAAAGAAG
25297751 AAACTAAAAAT
1 AAACTAAAAAT
25297762 AACTTAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.64, C:0.07, G:0.17, T:0.12
Consensus pattern (24 bp):
AAACTAAAAATGGTGAAAAAGAAG
Found at i:25302287 original size:39 final size:40
Alignment explanation
Indices: 25302242--25302466 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
25302232 GCTCCTCGTT
* * * *
25302242 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
25302282 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
25302321 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
25302361 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * * *
25302401 CAAATGCCTTC-GGATCTTAGTCTGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25302442 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25302467 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
39 37 0.24
40 102 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25302335 original size:40 final size:38
Alignment explanation
Indices: 25302209--25302466 Score: 191
Period size: 40 Copynumber: 6.5 Consensus size: 38
25302199 AAATCACATA
* * *
25302209 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
25302248 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
25302287 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
25302327 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
25302367 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * * *
25302407 CCTTC-GGATCTTAGTCTGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
25302447 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
25302467 CAGCATTCAA
Statistics
Matches: 178, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 114 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:25309861 original size:39 final size:40
Alignment explanation
Indices: 25309816--25310040 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
25309806 GCTCCTCGTT
* * * *
25309816 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
25309856 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
25309895 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
25309935 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
25309975 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25310016 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25310041 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25310049 original size:41 final size:41
Alignment explanation
Indices: 25309972--25310049 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25309962 CTTGTATCTC
* * *
25309972 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25310013 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25310050 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25313176 original size:27 final size:30
Alignment explanation
Indices: 25313120--25313176 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 30
25313110 TTACATTTAC
*
25313120 TTTTCTGTTCCAGGCATCTTTTAATCAAAT
1 TTTTCTGTTCCAGGCATCTGTTAATCAAAT
25313150 TTTTCTGTT-CA-GCATC-GTTAATCAAAT
1 TTTTCTGTTCCAGGCATCTGTTAATCAAAT
25313177 CAACTCCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 5 0.19
29 2 0.08
30 9 0.35
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.46
Consensus pattern (30 bp):
TTTTCTGTTCCAGGCATCTGTTAATCAAAT
Found at i:25318540 original size:42 final size:42
Alignment explanation
Indices: 25318441--25318541 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 42
25318431 GTTTTAGTTA
* *
25318441 ACTCACCACAATGCCTTCGGGACTTAACCCGGGATTTAAATG
1 ACTCGCCACAAGGCCTTCGGGACTTAACCCGGGATTTAAATG
* *
25318483 ACTCGCCGA-ATGGCCTTCGGGAACTTAACCC-GGA-TTAAGT-
1 ACTCGCC-ACAAGGCCTTCGGG-ACTTAACCCGGGATTTAAATG
25318523 ATCTCGCACACAAGGCCTT
1 A-CTCGC-CACAAGGCCTT
25318542 GGGGGCCTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
40 1 0.02
41 11 0.22
42 27 0.55
43 10 0.20
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (42 bp):
ACTCGCCACAAGGCCTTCGGGACTTAACCCGGGATTTAAATG
Found at i:25327314 original size:40 final size:39
Alignment explanation
Indices: 25327247--25327382 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
25327237 TGGCCTTTTC
*
25327247 CGGGACTTAA-CCGGAATTAGTATCTCGCACAAAGGCCTT
1 CGGGACTTAACCCGGAATTAGTAACTCGCACAAA-GCCTT
* *
25327286 CGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTT
1 CGGGACTTAACCCGGAATTAGTAACTCGCACAAA-GCCTT
** * *
25327326 C-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAAGCCTT
1 CGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACAAAGCCTT
*
25327366 CGGGACTTAGCCCGGAA
1 CGGGACTTAACCCGGAA
25327383 GCATTCAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
39 15 0.19
40 53 0.66
41 12 0.15
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (39 bp):
CGGGACTTAACCCGGAATTAGTAACTCGCACAAAGCCTT
Found at i:25332101 original size:39 final size:40
Alignment explanation
Indices: 25332007--25332186 Score: 176
Period size: 39 Copynumber: 4.6 Consensus size: 40
25331997 TTGAATGCTG
* * * *
25332007 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATGA-T-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
** *
25332044 ATCCGGACTAAGAT-CCGAAGGTATTTG-GCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
25332084 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-AGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
25332123 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
25332163 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25332187 GAATGAGTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 23 0.19
39 62 0.53
40 33 0.28
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:25332142 original size:78 final size:79
Alignment explanation
Indices: 25332007--25332183 Score: 206
Period size: 78 Copynumber: 2.3 Consensus size: 79
25331997 TTGAATGCTG
* * *
25332007 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAATGATATATCCGGACTAAGATCCGAAGGTATTTG
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCTAATGATATATCCGGACTAAGATCCGAAGGCATTCG
*
25332071 -GCGAGTTATT-AAT
66 TGCGAGTT-TTAAAA
**
25332084 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC--A-GATACTAATTCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCTAATGATA-T-A-TCCGGACTAAGAT-CCGAAGGCA
25332145 TTCGTGCGAGTTTTAAAA
62 TTCGTGCGAGTTTTAAAA
25332163 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
25332184 ATTGAATGAG
Statistics
Matches: 87, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
75 4 0.05
76 2 0.02
77 21 0.24
78 30 0.34
79 30 0.34
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCTAATGATATATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTTTAAAA
Found at i:25332199 original size:79 final size:78
Alignment explanation
Indices: 25332007--25332223 Score: 198
Period size: 79 Copynumber: 2.8 Consensus size: 78
25331997 TTGAATGCTG
* * * * *
25332007 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-ATGA-TATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGC-AGAT-ACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
25332068 TTGGCGAGTTATTAAT
63 TCGGCGAGTTATTAAA
* * *
25332084 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCAGATACTA-ATTCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTC
25332148 GTGCGAGTT-TTAAAA
65 G-GCGAGTTATT-AAA
* *
25332163 TCCGGGTTAAGTCCCGAAGG-CATTGAATG-AGTTACTATAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCCATTG--TGCAGATACTATAACCGGGCTAAGTCCCGAAGGCA
25332224 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
77 23 0.19
78 38 0.32
79 55 0.46
80 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCAGATACTATAACCGGGCTAAGTCCCGAAGGCATTCG
GCGAGTTATTAAA
Found at i:25332207 original size:39 final size:38
Alignment explanation
Indices: 25332085--25332229 Score: 116
Period size: 39 Copynumber: 3.7 Consensus size: 38
25332075 GTTATTAATT
* * *
25332085 CCGGGTTAAGTCCCGAAGGCCTTTG--TGCAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAATG-AGTTACTAA-A
*** *
25332124 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAATGAGTTACT-AAA
25332163 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTA-AA
* *
25332203 CCGGGCTATGTCCCGAAGGCACTTGAA
1 CCGGGTTAAGTCCCGAAGGCA-TTGAA
25332230 CGAGGAGCTA
Statistics
Matches: 87, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 47 0.54
40 36 0.41
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTAAA
Found at i:25339014 original size:40 final size:40
Alignment explanation
Indices: 25338930--25339113 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
25338920 TTGAATGCTG
* * * *
25338930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
25338969 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
25339010 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
25339050 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
25339090 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25339114 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:25339067 original size:80 final size:81
Alignment explanation
Indices: 25338930--25339110 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
25338920 TTGAATGCTG
* * *
25338930 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
25338994 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
25339010 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
25339071 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
25339090 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
25339111 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:25339134 original size:39 final size:39
Alignment explanation
Indices: 25338998--25339160 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
25338988 GGTATTTGTG
* * * **
25338998 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
25339038 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
25339078 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
25339117 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
25339157 CGAG
1 CGAG
25339161 GAGCTAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:25345351 original size:75 final size:74
Alignment explanation
Indices: 25345263--25345413 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 74
25345253 TTAAGTCTCA
*
25345263 TAAGCTTTGGAAATTAATTGGTAATGTTTTGGGTCAAAATTGGTGATTTTGGGGGTGATTTTTAG
1 TAAGCTTTGGAAATTAATTGGTAATGTTTTGGGTCAAAATTGGTGACTTT-GGGGTGATTTTTAG
25345328 GTCCTGACAT
65 GTCCTGACAT
*
25345338 TAAGCTTTGGAAATTAATTGGTAATGTTTTGGGTCAAATTTGGTGACTTTGGGGTGATTTTTAGG
1 TAAGCTTTGGAAATTAATTGGTAATGTTTTGGGTCAAAATTGGTGACTTTGGGGTGATTTTTAGG
*
25345403 TCCTGGCAT
66 TCCTGACAT
25345412 TA
1 TA
25345414 GGGATGAGTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 25 0.34
75 48 0.66
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (74 bp):
TAAGCTTTGGAAATTAATTGGTAATGTTTTGGGTCAAAATTGGTGACTTTGGGGTGATTTTTAGG
TCCTGACAT
Found at i:25346888 original size:49 final size:49
Alignment explanation
Indices: 25346835--25347056 Score: 282
Period size: 49 Copynumber: 4.5 Consensus size: 49
25346825 TACGCATAGC
*
25346835 AGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAGT
* ** * * *
25346884 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACGTAGT
* * * * *
25346934 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGT
1 AGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACGTAGT
*
25346985 AGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAGT
**
25347034 AGCCCACACTTAGTACTACACAC
1 AGCCTGCACTTAGTACTACACAC
25347057 ATGACCTCAC
Statistics
Matches: 146, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 62 0.42
50 47 0.32
51 37 0.25
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
AGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGTAGT
Found at i:25346997 original size:101 final size:98
Alignment explanation
Indices: 25346835--25347056 Score: 282
Period size: 101 Copynumber: 2.2 Consensus size: 98
25346825 TACGCATAGC
* *
25346835 AGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTAC
1 AGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTAC
* * *
25346900 TACACACGTGACCTAACCATCTGATACATGTAGT
66 TACACACGCGACC-AACCATCCGATACACGTAGT
* * * *
25346934 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACTTAGT
* ** *
25346999 ACTACACATGCGACCAATTATCCGGTACACGTAGT
64 ACTACACACGCGACCAACCATCCGATACACGTAGT
**
25347034 AGCCCACACTTAGTACTACACAC
1 AGCCTGCACTTAGTACTACACAC
25347057 ATGACCTCAC
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
99 25 0.24
100 39 0.37
101 42 0.40
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (98 bp):
AGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTAC
TACACACGCGACCAACCATCCGATACACGTAGT
Found at i:25348606 original size:20 final size:20
Alignment explanation
Indices: 25348546--25348612 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 20
25348536 ATAAAGTTTG
25348546 GAATTTTT-ATAAA-TATTTT
1 GAATTTTTGA-AAATTATTTT
*
25348565 AAATTTTTGAAAATTATTTTT
1 GAATTTTTGAAAATTA-TTTT
25348586 GAATTTTTGAAAATTATTTT
1 GAATTTTTGAAAATTATTTT
25348606 G-ATTTTT
1 GAATTTTT
25348613 TTTTTGGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 16 0.37
20 8 0.19
21 19 0.44
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
GAATTTTTGAAAATTATTTT
Found at i:25356566 original size:14 final size:14
Alignment explanation
Indices: 25356549--25356588 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25356539 TTCTTTCTTT
25356549 TTCTATCAATTCTA
1 TTCTATCAATTCTA
*
25356563 TTCTCTCAATTCTA
1 TTCTATCAATTCTA
*
25356577 TTC-ATCTATTCT
1 TTCTATCAATTCT
25356589 CTCAATTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (14 bp):
TTCTATCAATTCTA
Found at i:25358205 original size:42 final size:43
Alignment explanation
Indices: 25358153--25358233 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
25358143 TTTTGATTTA
* *
25358153 CGTGTAAGACCATGTCTGGGACATTAGCATCG-TATATGTGTT
1 CGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGTGTT
* * *
25358195 CGTGTAAGACCCTATCTGGGATAGTGGCATCGATATATG
1 CGTGTAAGACCATATCTGGGACAGTAGCATCGATATATG
25358234 ATTACATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 27 0.82
43 6 0.18
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGTGTT
Found at i:25359877 original size:68 final size:66
Alignment explanation
Indices: 25359805--25359976 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
25359795 CATCATGTGT
* * * *
25359805 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
25359868 TGTAG
62 TGTAG
** * *
25359873 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
25359938 AG
65 AG
* * * *
25359940 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
25359977 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:25359910 original size:64 final size:64
Alignment explanation
Indices: 25359829--25360012 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
25359819 AGACATTATG
* * *
25359829 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
25359893 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
25359958 AA
63 AA
* * *
25359960 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
25360013 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:25371691 original size:29 final size:28
Alignment explanation
Indices: 25371647--25371736 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 28
25371637 TGAGCATGAC
* *
25371647 TATAAATGTGAATTGGGCTTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
25371676 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* *
25371705 TATAAATGTGATTGGGCCTAGTGGGCTA
1 TATAAATGTGATTGGGCCTAATGGGCCA
25371733 TATA
1 TATA
25371737 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.28, C:0.11, G:0.29, T:0.32
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:25372133 original size:38 final size:38
Alignment explanation
Indices: 25372082--25372157 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
25372072 TGTTGAATGT
25372082 AAGTTTTGTGGATGTGTCATGCATATCTGCTGCATACA
1 AAGTTTTGTGGATGTGTCATGCATATCTGCTGCATACA
25372120 AAGTTTTGTGGATGTGTCATGCATATCTGCTGCATACA
1 AAGTTTTGTGGATGTGTCATGCATATCTGCTGCATACA
25372158 TATGATATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (38 bp):
AAGTTTTGTGGATGTGTCATGCATATCTGCTGCATACA
Found at i:25375653 original size:80 final size:79
Alignment explanation
Indices: 25375453--25375815 Score: 338
Period size: 80 Copynumber: 4.5 Consensus size: 79
25375443 TTAGTTTACC
* ** * * **
25375453 AAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATATCC-TCGATTTGTAAAATTACTGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCATCGA-TTGTAAAATTACCAA
*
25375517 AATACCGTTGA-TTGTA
64 AATACC-TTAATTTGTA
** * * * * *
25375533 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATCGATTGTAAAATTACTAAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATCGATTGTAAAATTACCAAAA
*
25375598 TGCCTTCAATTTGTA
66 TACCTT-AATTTGTA
** * * * *
25375613 AAATTACCAAAATACCCTTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCATCGATTGTAAAATTACCAAA
** *
25375678 ATACCCTTGGTTTATA
65 ATA-CCTTAATTTGTA
* * *
25375694 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CATTGGTT-TACAAAGTTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATCGATTGTA-AAA-TTACCAA
* *
25375757 AATACCCCTAGTTTGTA
64 AATA-CCTTAATTTGTA
*
25375774 AAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATAC
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATAC
25375816 TCTTGTAGGG
Statistics
Matches: 235, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.02
79 30 0.13
80 134 0.57
81 63 0.27
82 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATCGATTGTAAAATTACCAAAA
TACCTTAATTTGTA
Found at i:25375732 original size:27 final size:27
Alignment explanation
Indices: 25375453--25375815 Score: 306
Period size: 27 Copynumber: 13.6 Consensus size: 27
25375443 TTAGTTTACC
* * *
25375453 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
25375480 AAATTACCCAAATA-TCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** * * *
25375507 AAATTACTGAAATA-CCGTTGATTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
25375533 AAATTACTGAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * * *
25375560 AAATTATCGAAATA-CCATCGATTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
25375586 AAATTACTAAAAT-GCCTTCAATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* **
25375613 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25375640 AAGTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25375667 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
25375694 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
25375721 AAATTACCAAAATA-CATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25375747 AAGTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
25375774 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
25375801 AAATTACCAAAATAC
1 AAATTACCAAAATAC
25375816 TCTTGTAGGG
Statistics
Matches: 269, Mismatches: 61, Indels: 12
0.79 0.18 0.04
Matches are distributed among these distances:
26 63 0.23
27 202 0.75
28 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:25375832 original size:27 final size:27
Alignment explanation
Indices: 25375775--25375944 Score: 171
Period size: 27 Copynumber: 6.3 Consensus size: 27
25375765 TAGTTTGTAA
* ** *
25375775 AATTACCAAAATACCATTGGT-TTGTAA
1 AATTACCAAAATACCCTT-GTAGGGTAG
*
25375802 AATTACCAAAATACTCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
25375829 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
25375856 AATCACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * * *
25375883 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * * * *
25375910 AATTACCGAGATAACCTTGTGGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
25375937 AATTACCA
1 AATTACCA
25375945 TTTTGCCCCT
Statistics
Matches: 118, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 2 0.02
27 116 0.98
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:25375833 original size:107 final size:107
Alignment explanation
Indices: 25375610--25375842 Score: 360
Period size: 107 Copynumber: 2.2 Consensus size: 107
25375600 CCTTCAATTT
*
25375610 GTAAAATTACCAAAATACCCTTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACC
1 GTAAAATTACCAAAATA-CATTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACC
* **
25375675 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTT
65 AAAATACCATTGGTTTATAAAATTACCAAAATACCCCTGGTGG
25375718 GTAAAATTACCAAAATACATTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 GTAAAATTACCAAAATACATTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACCA
* * *
25375783 AAATACCATTGGTTTGTAAAATTACCAAAATA-CTCTTGTAGG
66 AAATACCATTGGTTTATAAAATTACCAAAATACCCCTGGT-GG
* *
25375825 GTAGAATTACCGAAATAC
1 GTAAAATTACCAAAATAC
25375843 CCCTGTAGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
106 5 0.04
107 93 0.81
108 17 0.15
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (107 bp):
GTAAAATTACCAAAATACATTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTAAAATTACCA
AAATACCATTGGTTTATAAAATTACCAAAATACCCCTGGTGG
Found at i:25375843 original size:54 final size:54
Alignment explanation
Indices: 25375453--25375815 Score: 369
Period size: 53 Copynumber: 6.8 Consensus size: 54
25375443 TTAGTTTACC
* ** * * *
25375453 AAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATA-TCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAG-TTTGTA
** * * * ** *
25375507 AAATTACTGAAATACCGTT-GATTGTAAAATTACTGAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAG-TTTGTA
* * * * * * * * * *
25375560 AAATTATCGAAATA-CCATCGATTGTAAAATTACTAAAAT-GCCTTCAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTA
* *
25375613 AAATTACCAAAATACCCTTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
*
25375667 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * *
25375721 AAATTACCAAAATA-CATTGGTTTACAAAGTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* *
25375774 AAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATAC
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATAC
25375816 TCTTGTAGGG
Statistics
Matches: 262, Mismatches: 41, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.01
53 130 0.50
54 127 0.48
55 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:25375869 original size:81 final size:80
Alignment explanation
Indices: 25375610--25375944 Score: 216
Period size: 81 Copynumber: 4.2 Consensus size: 80
25375600 CCTTCAATTT
* ** * * ** *
25375610 GTAAAATTACCAAAATACCCTTGGTTTACAAAGTTACCAAAATACCCCTAGT-TTGTAAAATTAC
1 GTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA--CCTTGTAGGGTAGAATTAC
* * * **
25375674 CAAAATACCCTTGGTTT
64 CGAAATACCCCTAGTGG
* * * * ** *
25375691 ATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACATTG--GTTTACAAAGTTAC
1 GTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTTGTAGGGTA-GAA-TTAC
* **
25375754 CAAAATACCCCTAGTTT
64 CGAAATACCCCTAGTGG
* *
25375771 GTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATACTCTTGTAGGGTAGAATTACC
1 GTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATAC-CTTGTAGGGTAGAATTACC
25375836 GAAATACCCCT-GTAGG
65 GAAATACCCCTAGT-GG
* ** * * *
25375852 GTAGAATCACCAAAATACCCTT-GTAGGGTAGAAA-TATCGAAATACCCCTGTAGGGTAGAATTA
1 GTAAAATCACCAAAATACCCTTGGT-TTGTA-AAATTACCAAAATA-CCTTGTAGGGTAGAATTA
* * *
25375915 CCGAGATA-ACCTTGTGGG
63 CCGAAATACCCCTAGT-GG
*
25375933 GTAAAATTACCA
1 GTAAAATCACCA
25375945 TTTTGCCCCT
Statistics
Matches: 210, Mismatches: 34, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
78 3 0.01
79 6 0.03
80 68 0.32
81 124 0.59
82 6 0.03
83 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (80 bp):
GTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTTGTAGGGTAGAATTACCG
AAATACCCCTAGTGG
Found at i:25376182 original size:25 final size:25
Alignment explanation
Indices: 25376148--25376217 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
25376138 AGGAAGTGCT
*
25376148 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
25376173 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
25376198 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25376218 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:25376230 original size:24 final size:24
Alignment explanation
Indices: 25376147--25376230 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
25376137 GAGGAAGTGC
*
25376147 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
25376172 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
25376196 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
25376220 TAAAAGAGGCT
1 TAAAAG-GGCT
25376231 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:25376241 original size:50 final size:50
Alignment explanation
Indices: 25376148--25376242 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
25376138 AGGAAGTGCT
**
25376148 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
25376198 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
25376243 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:25378742 original size:21 final size:21
Alignment explanation
Indices: 25378700--25378743 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25378690 TTGGCCGAAT
*
25378700 ATCTATTATTCCCCTTTTCCA
1 ATCTATTATTCCCCTTTGCCA
*
25378721 ATCTATT-TTCCTCTTTGGCCA
1 ATCTATTATTCCCCTTT-GCCA
25378742 AT
1 AT
25378744 TACTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.18, C:0.30, G:0.05, T:0.48
Consensus pattern (21 bp):
ATCTATTATTCCCCTTTGCCA
Found at i:25380225 original size:46 final size:46
Alignment explanation
Indices: 25380140--25380258 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
25380130 CACCCCTAAG
* * * * * *
25380140 TGAACTCGGAATCAACTCAACAAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
* *
25380186 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
25380232 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
25380259 GGATGCTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
Found at i:25383886 original size:39 final size:39
Alignment explanation
Indices: 25383682--25383904 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
25383672 TTGAATGCTG
* * * * * *
25383682 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
25383722 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
25383762 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
25383802 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
25383842 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
25383881 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25383905 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:25383924 original size:79 final size:80
Alignment explanation
Indices: 25383757--25383939 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
25383747 GTGCGAGATA
* * *
25383757 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
25383822 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
25383837 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
25383901 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
25383916 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
25383940 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:25386442 original size:31 final size:31
Alignment explanation
Indices: 25386407--25386468 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25386397 AAATAAATAT
25386407 GGAAAGGGTTTTTCAACGATATCATATTTTG
1 GGAAAGGGTTTTTCAACGATATCATATTTTG
25386438 GGAAAGGGTTTTTCAACGATATCATATTTTG
1 GGAAAGGGTTTTTCAACGATATCATATTTTG
25386469 CAAAAAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (31 bp):
GGAAAGGGTTTTTCAACGATATCATATTTTG
Found at i:25388899 original size:24 final size:24
Alignment explanation
Indices: 25388870--25388918 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25388860 AATCATACAT
25388870 AAAGTTATATCAACTTCTTTATAA
1 AAAGTTATATCAACTTCTTTATAA
25388894 AAAGTTATATCAACTTCTTTATAA
1 AAAGTTATATCAACTTCTTTATAA
25388918 A
1 A
25388919 CACTTCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAGTTATATCAACTTCTTTATAA
Found at i:25401659 original size:20 final size:21
Alignment explanation
Indices: 25401615--25401659 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
25401605 AAAATCTGGT
*
25401615 ATTGATTGGCCAAACCTGGAAA
1 ATTGATTGGCCAAACAT-GAAA
25401637 ATTGATTGGCCAAACAT-AAA
1 ATTGATTGGCCAAACATGAAA
25401657 ATT
1 ATT
25401660 CTGGAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
22 16 0.73
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
ATTGATTGGCCAAACATGAAA
Found at i:25402077 original size:47 final size:47
Alignment explanation
Indices: 25401910--25402383 Score: 798
Period size: 47 Copynumber: 10.1 Consensus size: 47
25401900 TATGAAATGA
25401910 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25401955 T-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
25402003 TGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATATG
25402051 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402097 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402144 TGATAAGGCCTAATGGCCGATGTGATGAA--TGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402189 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402236 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402283 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * * * *
25402330 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402377 TGATAAG
1 TGATAAG
25402384 TCCGAAGGGC
Statistics
Matches: 408, Mismatches: 12, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
44 37 0.09
45 46 0.11
46 17 0.04
47 260 0.64
48 12 0.03
49 36 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:25402227 original size:186 final size:186
Alignment explanation
Indices: 25401910--25402383 Score: 776
Period size: 186 Copynumber: 2.5 Consensus size: 186
25401900 TATGAAATGA
25401910 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--T-ATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
25401972 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGA
66 GATGTGATGAA--TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
25402037 AAGTGTAATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
127 AAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25402097 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
25402162 GATGTGATGAATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GATGTGATGAATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
25402227 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * *
25402283 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
25402348 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GATGTGAT-GA-ATGAAAGTGTATATATGTGATAAG
25402384 TCCGAAGGGC
Statistics
Matches: 272, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
185 11 0.04
186 156 0.57
187 47 0.17
188 30 0.11
189 1 0.00
190 27 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (186 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:25402556 original size:37 final size:35
Alignment explanation
Indices: 25402500--25402576 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
25402490 CCGAGCTCTA
* * * *
25402500 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGT--AGATTATGTCCGGGT
*
25402537 AAGACCCGATAACTTCGTGTAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTAGATTATGTCCGGGT
25402572 AAGAC
1 AAGAC
25402577 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 18 0.51
37 17 0.49
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (35 bp):
AAGACCCGATAACTACGTGTAGATTATGTCCGGGT
Found at i:25408733 original size:37 final size:39
Alignment explanation
Indices: 25408596--25408773 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 39
25408586 CTCATTCAAT
* * * *
25408596 GCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCAC-AAA
25408636 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
25408675 GGCCTTCGGGACTTAACCCGGAATTA-TATCTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
** *
25408714 -CCTTC-GGATCTTAGTCCGG-ATATAGTCA-CTTAGCACAAA
1 GCCTTCGGGA-CTTAACCCGGAAT-TAGT-ATC-TCGCACAAA
*
25408753 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
25408774 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
36 5 0.04
37 15 0.12
38 2 0.02
39 27 0.22
40 68 0.57
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
Found at i:25410770 original size:43 final size:43
Alignment explanation
Indices: 25410722--25410824 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
25410712 TTGGTTTTCA
25410722 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
25410765 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
25410808 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
25410825 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:25410843 original size:29 final size:29
Alignment explanation
Indices: 25410808--25410879 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
25410798 TGTGAGATTG
* *
25410808 GCACTAAGTGTGCGGGCTTGAAA-TGCATA
1 GCACTAAGTGTGCGAG-TTGAAAGTACATA
* *
25410837 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTGAAAGTACATA
25410866 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25410880 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAGTACATA
Found at i:25411292 original size:39 final size:40
Alignment explanation
Indices: 25411191--25411334 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
25411181 TCGAATGATG
* *
25411191 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
25411230 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
25411271 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
25411310 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
25411335 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
39 35 0.39
40 37 0.41
41 17 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25411353 original size:40 final size:40
Alignment explanation
Indices: 25411309--25411517 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
25411299 GAGTTACTAA
25411309 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
25411349 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
25411389 ATCCGGGCTAAGTTCCGAAGTA-CATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAG-AGCATTCATGCTAGTGATGT
* ** * * * * *
25411429 ATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
25411469 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAGTGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGT
*
25411510 ATTCGGGC
1 ATCCGGGC
25411518 CTTCGTGCCT
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 135 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:25415047 original size:47 final size:47
Alignment explanation
Indices: 25414978--25415500 Score: 935
Period size: 47 Copynumber: 11.1 Consensus size: 47
25414968 ATATGAATGA
25414978 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415025 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415072 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415119 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415166 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
25415215 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415261 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415308 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415354 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415401 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * * * *
25415447 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
25415494 TGATAAG
1 TGATAAG
25415501 TCCCGAAGGG
Statistics
Matches: 461, Mismatches: 10, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
46 97 0.21
47 318 0.69
48 34 0.07
49 12 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:25415329 original size:93 final size:94
Alignment explanation
Indices: 25414978--25415500 Score: 935
Period size: 93 Copynumber: 5.6 Consensus size: 94
25414968 ATATGAATGA
25414978 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
25415043 GATGTGATGAATGTGAAAGTGTATATATG
66 GATGTGATGAATGTGAAAGTGTATATATG
25415072 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
25415137 GATGTGATGAATGTGAAAGTGTATATATG
66 GATGTGATGAATGTGAAAGTGTATATATG
25415166 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
25415230 CCGATGTGATGAATGTGAAAGTGTATATATG
64 CCGATGTGATGAATGTGAAAGTGTATATATG
25415261 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
25415325 GATGTGATGAATGTGAAAGTGTATATATG
66 GATGTGATGAATGTGAAAGTGTATATATG
25415354 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
25415419 GATGTGATGAATGTG-AAGTGTATATATG
66 GATGTGATGAATGTGAAAGTGTATATATG
* * * * * * * *
25415447 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25415501 TCCCGAAGGG
Statistics
Matches: 418, Mismatches: 8, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
93 164 0.39
94 161 0.39
95 81 0.19
96 12 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATG
Found at i:25415673 original size:36 final size:37
Alignment explanation
Indices: 25415619--25415695 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25415609 CCGAGCTCTA
* *
25415619 AAGA-CCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25415654 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25415691 AAGAC
1 AAGAC
25415696 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 4 0.11
36 15 0.41
37 18 0.49
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25421529 original size:43 final size:43
Alignment explanation
Indices: 25421477--25421560 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
25421467 AAATTGATTA
25421477 ACAACGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
1 ACAACGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
* * * * *
25421520 ACAATGCCAATGTCCTAGACATGGTTTTACATGTAATCACA
1 ACAACGCCAATGTCCCAGACATGATCTTACACGTAATCACA
25421561 TCTCGATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
ACAACGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
Found at i:25424886 original size:35 final size:35
Alignment explanation
Indices: 25424857--25424926 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
25424847 ATACATCACA
*
25424857 AAACAT-ATTTCATAACTACTAGTCTATACATGCC
1 AAACATCAATTCATAACTACTAGTCTATACATGCC
* *
25424891 ATACTTCAATTCATAACTACTAGTCTATACATGCC
1 AAACATCAATTCATAACTACTAGTCTATACATGCC
25424926 A
1 A
25424927 TACTTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (35 bp):
AAACATCAATTCATAACTACTAGTCTATACATGCC
Done.