Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 72 of 85
Found at i:24906559 original size:125 final size:126
Alignment explanation
Indices: 24906376--24906628 Score: 499
Period size: 125 Copynumber: 2.0 Consensus size: 126
24906366 AAATTTTATT
24906376 ATTTTGAATGTACGAATGAAATGTAACTTATCATTCACTAAATTAATATACTGTAGAATTTAAAA
1 ATTTTGAATGTACGAATGAAATGTAACTTATCATTCACTAAATTAATATACTGTAGAATTTAAAA
24906441 GGGTTAAAAGTGAAATTCTACATTTTAGTTATAGATGGGTTTTATTTGAACTTTTAATCCA
66 GGGTTAAAAGTGAAATTCTACATTTTAGTTATAGATGGGTTTTATTTGAACTTTTAATCCA
24906502 ATTTTGAATGTA-GAATGAAATGTAACTTATCATTCACTAAATTAATATACTGTAGAATTTAAAA
1 ATTTTGAATGTACGAATGAAATGTAACTTATCATTCACTAAATTAATATACTGTAGAATTTAAAA
24906566 GGGTTAAAAGTGAAATTCTACATTTTAGTTATAGATGGGTTTTATTTGAACTTTTAATCCA
66 GGGTTAAAAGTGAAATTCTACATTTTAGTTATAGATGGGTTTTATTTGAACTTTTAATCCA
24906627 AT
1 AT
24906629 ATCAAGTTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 115 0.91
126 12 0.09
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (126 bp):
ATTTTGAATGTACGAATGAAATGTAACTTATCATTCACTAAATTAATATACTGTAGAATTTAAAA
GGGTTAAAAGTGAAATTCTACATTTTAGTTATAGATGGGTTTTATTTGAACTTTTAATCCA
Found at i:24911092 original size:2 final size:2
Alignment explanation
Indices: 24911087--24911117 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24911077 AAAAACACAC
24911087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24911118 CTCATTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24913047 original size:71 final size:72
Alignment explanation
Indices: 24912924--24913083 Score: 277
Period size: 71 Copynumber: 2.2 Consensus size: 72
24912914 AGTTAGACCT
*
24912924 GAATATGGGATATAATCCCTATAGACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAA
1 GAATTTGGGATATAATCCCTATAGACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAA
24912989 GTCTCTC
66 GTCTCTC
* *
24912996 GAATTTGGGATATAATCCCTATATAC-TTTTTGTTTTGGTTAAAATGTGTTATTAGTCCTTGTAA
1 GAATTTGGGATATAATCCCTATAGACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAA
24913060 GTCTCTC
66 GTCTCTC
*
24913067 GAATTTGAGATATAATC
1 GAATTTGGGATATAATC
24913084 TCTGTACTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 60 0.71
72 24 0.29
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (72 bp):
GAATTTGGGATATAATCCCTATAGACTTTTTTATTTTGGTTAAAATGTGTTATTAGTCCTTGTAA
GTCTCTC
Found at i:24915811 original size:22 final size:22
Alignment explanation
Indices: 24915761--24915811 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24915751 ACAATATAAT
* * *
24915761 AACAATATAATATCGAAATGAC
1 AACAAAATAATAACAAAATGAC
*
24915783 AATAAAATAATAACAAAATGAC
1 AACAAAATAATAACAAAATGAC
*
24915805 AGCAAAA
1 AACAAAA
24915812 AAAAAGTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.12, G:0.08, T:0.18
Consensus pattern (22 bp):
AACAAAATAATAACAAAATGAC
Found at i:24924395 original size:34 final size:31
Alignment explanation
Indices: 24924328--24924387 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
24924318 AATTCAACAA
24924328 TGTAAAATAATTAAAAAATTAATTAAATATT
1 TGTAAAATAATTAAAAAATTAATTAAATATT
*
24924359 TGTAAAATAATT-AAAGATTAATT-AATATT
1 TGTAAAATAATTAAAAAATTAATTAAATATT
24924388 AGATTTGTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (31 bp):
TGTAAAATAATTAAAAAATTAATTAAATATT
Found at i:24939558 original size:18 final size:17
Alignment explanation
Indices: 24939535--24939577 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24939525 AATAGTTACA
24939535 TTTAAA-ATTATTAATAAT
1 TTTAAATATT-TT-ATAAT
*
24939553 TTTAAATATTTTATTAT
1 TTTAAATATTTTATAAT
24939570 TTTAAATA
1 TTTAAATA
24939578 ATAAATTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATATTTTATAAT
Found at i:24942835 original size:20 final size:21
Alignment explanation
Indices: 24942810--24942856 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
24942800 TAAAATTTTG
24942810 ATTAATTAAAG-TAAAACAT-A
1 ATTAATT-AAGCTAAAACATAA
*
24942830 ATTAATTAAGCTAAAATATAA
1 ATTAATTAAGCTAAAACATAA
24942851 ATTAAT
1 ATTAAT
24942857 CCAAGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
ATTAATTAAGCTAAAACATAA
Found at i:24944972 original size:21 final size:21
Alignment explanation
Indices: 24944943--24944987 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24944933 ATTGGGTGAA
*
24944943 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAACTTCTAT
* * *
24944964 TCAGTTCTTATGAACTTCTGT
1 TCAGCTCTTACGAACTTCTAT
24944985 TCA
1 TCA
24944988 ACTTTGAGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAACTTCTAT
Found at i:24949512 original size:18 final size:17
Alignment explanation
Indices: 24949479--24949533 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
24949469 GCCTGTAGAA
24949479 AAAATAGGAGGGTTTGGAT
1 AAAATA-GA-GGTTTGGAT
24949498 AAAATACGAGGTTT-GA-
1 AAAATA-GAGGTTTGGAT
24949514 AAAAT--AGGTTTGGAT
1 AAAATAGAGGTTTGGAT
24949529 AAAAT
1 AAAAT
24949534 TTAAAACCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 5 0.15
16 5 0.15
17 2 0.06
18 5 0.15
19 8 0.24
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (17 bp):
AAAATAGAGGTTTGGAT
Found at i:24955942 original size:3 final size:3
Alignment explanation
Indices: 24955934--24955973 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
24955924 TAGTTTACCC
24955934 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24955974 AGATTTTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24957297 original size:28 final size:29
Alignment explanation
Indices: 24957266--24957321 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
24957256 TCAAGTAACC
*
24957266 AATT-AAAAAAACT-CAGGTACCAAATTAT
1 AATTAAAAAAAACTAC-GATACCAAATTAT
24957294 AATTAAAAAAAACTACGATACCAAATTA
1 AATTAAAAAAAACTACGATACCAAATTA
24957322 AACAAGCGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 20 0.80
30 1 0.04
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.23
Consensus pattern (29 bp):
AATTAAAAAAAACTACGATACCAAATTAT
Found at i:24959657 original size:11 final size:11
Alignment explanation
Indices: 24959641--24959665 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24959631 TTACATTAAT
24959641 ATACATGGTTA
1 ATACATGGTTA
24959652 ATACATGGTTA
1 ATACATGGTTA
24959663 ATA
1 ATA
24959666 TTAAATGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
ATACATGGTTA
Found at i:24960327 original size:13 final size:13
Alignment explanation
Indices: 24960297--24960327 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24960287 AATAAATTGA
*
24960297 AAAAGATTATATT
1 AAAATATTATATT
24960310 AAAATATTATATT
1 AAAATATTATATT
24960323 AAAAT
1 AAAAT
24960328 GGTTATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAAATATTATATT
Found at i:24960487 original size:31 final size:29
Alignment explanation
Indices: 24960452--24960512 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
24960442 TTGCAGTGTG
24960452 AAAATGAAACAAAATTAAAGTTTGATGTATA
1 AAAATG-AACAAAATTAAAG-TTGATGTATA
* *
24960483 AAAATGCACCAAATTAAAGTTGATGTATA
1 AAAATGAACAAAATTAAAGTTGATGTATA
24960512 A
1 A
24960513 CATTGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (29 bp):
AAAATGAACAAAATTAAAGTTGATGTATA
Found at i:24964899 original size:26 final size:26
Alignment explanation
Indices: 24964870--24964922 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24964860 AATATAAATA
24964870 ATATAAAATGTGAAATTTAATTTAAT
1 ATATAAAATGTGAAATTTAATTTAAT
24964896 ATATAAAATGTGAAATTTAATTTAAT
1 ATATAAAATGTGAAATTTAATTTAAT
24964922 A
1 A
24964923 ATATTAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
ATATAAAATGTGAAATTTAATTTAAT
Found at i:24965175 original size:30 final size:31
Alignment explanation
Indices: 24965121--24965178 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
24965111 AGGTGGGATG
*
24965121 GGAAGGGAATAAAAGTTTTAGGGGAAAAGTA
1 GGAAGGGAATAAAAATTTTAGGGGAAAAGTA
* *
24965152 GGAA-GGAGTAAAAATTTTGGGGGAAAA
1 GGAAGGGAATAAAAATTTTAGGGGAAAA
24965179 TAAAAGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.19
Consensus pattern (31 bp):
GGAAGGGAATAAAAATTTTAGGGGAAAAGTA
Found at i:24965444 original size:9 final size:9
Alignment explanation
Indices: 24965430--24965457 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
24965420 TATAGTTTGA
24965430 TATTCGAAT
1 TATTCGAAT
24965439 TATTCGAAT
1 TATTCGAAT
24965448 TATTCGAAT
1 TATTCGAAT
24965457 T
1 T
24965458 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24967223 original size:77 final size:78
Alignment explanation
Indices: 24967116--24967270 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 78
24967106 TAGTGTATTT
24967116 GATGTATTATATTTTTTAAAATTTATTTTTATATAAAAATAATTTAAAAAATTATTACGATCAGG
1 GATGTATTATATTTTTTAAAATTTATTTTTATATAAAAATAATTTAAAAAATTATTACGATCAGG
24967181 TTCGAGTTTTGCA
66 TTCGAGTTTTGCA
24967194 GATGTATTAT-TTTTTTAAAATTTATTTTTATATAAAAATAATTTAAAAAATTATTACGATCAGG
1 GATGTATTATATTTTTTAAAATTTATTTTTATATAAAAATAATTTAAAAAATTATTACGATCAGG
24967258 TTCGAGTTTTGCA
66 TTCGAGTTTTGCA
24967271 TTGTTAATAT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 67 0.87
78 10 0.13
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (78 bp):
GATGTATTATATTTTTTAAAATTTATTTTTATATAAAAATAATTTAAAAAATTATTACGATCAGG
TTCGAGTTTTGCA
Found at i:24970060 original size:21 final size:23
Alignment explanation
Indices: 24970036--24970080 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24970026 AGCTCATTTT
24970036 TTATGTT-TTTA-ATATATCATA
1 TTATGTTATTTATATATATCATA
*
24970057 TTATGTTATTTATATATATTATA
1 TTATGTTATTTATATATATCATA
24970080 T
1 T
24970081 AATTTATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TTATGTTATTTATATATATCATA
Found at i:24970077 original size:18 final size:19
Alignment explanation
Indices: 24970048--24970088 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
24970038 ATGTTTTTAA
* *
24970048 TATATCATATTATGTTATT
1 TATATCATATTATATAATT
24970067 TATAT-ATATTATATAATT
1 TATATCATATTATATAATT
24970085 TATA
1 TATA
24970089 GCACATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TATATCATATTATATAATT
Found at i:24974537 original size:19 final size:19
Alignment explanation
Indices: 24974512--24974563 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
24974502 TTTAATTTAG
24974512 TTTTAACTTGATTGAAA-A
1 TTTTAACTTGATTGAAACA
**
24974530 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTTGATTGAAA-CA
24974551 TTTTAACTTGATT
1 TTTTAACTTGATT
24974564 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (19 bp):
TTTTAACTTGATTGAAACA
Found at i:24975474 original size:3 final size:3
Alignment explanation
Indices: 24975468--24975521 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
24975458 CCACCTCAGG
24975468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24975516 TAT TAT
1 TAT TAT
24975522 GGTAAACTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24977511 original size:259 final size:260
Alignment explanation
Indices: 24977040--24977564 Score: 1034
Period size: 259 Copynumber: 2.0 Consensus size: 260
24977030 TTTTATAAAA
24977040 ATATTAATTATAGAAATAATTAAAAAGAGATCAAGGGGAGTTCTCATTCATCAATCAAGCAAAAT
1 ATATTAATTATAGAAATAATTAAAAAGAGATCAAGGGGAGTTCTCATTCATCAATCAAGCAAAAT
24977105 CATCCAAAATCAATTTATAATATCGTGAGAAAATTTCATTTCCTTAAATGATATAAAATACCATT
66 CATCCAAAATCAATTTATAATATCGTGAGAAAATTTCATTTCCTTAAATGATATAAAATACCATT
24977170 TAAAGAATAAATATATTGCTCAAAAATATTAATTTCTTAAATTGGACCACTCTCTTTTTGCATAT
131 TAAAGAATAAATATATTGCTCAAAAATATTAATTTCTTAAATTGGACCACTCTCTTTTTGCATAT
24977235 ATAACATCTTTTGTACCAAAACAAAACCAAATAAAATAATTGAAAAATTTAGAAAAAAAATGATT
196 ATAACATCTTTTGTACCAAAACAAAACCAAATAAAATAATTGAAAAATTTAGAAAAAAAATGATT
24977300 ATATTAATTAT-GAAATAATTAAAAAGAGATCAAGGGGAGTTCTCATTCATCAATCAAGCAAAAT
1 ATATTAATTATAGAAATAATTAAAAAGAGATCAAGGGGAGTTCTCATTCATCAATCAAGCAAAAT
24977364 CATCCAAAATCAATTTATAATATCGTGAGAAAATTTCATTTCCTTAAATGATATAAAATACCATT
66 CATCCAAAATCAATTTATAATATCGTGAGAAAATTTCATTTCCTTAAATGATATAAAATACCATT
24977429 TAAAGAATAAATATATTGCTCAAAAATATTAATTTCTTAAATTGGACCACTCTCTTTTTGCATAT
131 TAAAGAATAAATATATTGCTCAAAAATATTAATTTCTTAAATTGGACCACTCTCTTTTTGCATAT
24977494 ATAACATCTTTTGTACCAAAACAAAACCAAATAAAATAATTGAAAAATTTAGAAAAAAAATGATT
196 ATAACATCTTTTGTACCAAAACAAAACCAAATAAAATAATTGAAAAATTTAGAAAAAAAATGATT
*
24977559 AAATTA
1 ATATTA
24977565 TTCTCCCTAT
Statistics
Matches: 264, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
259 253 0.96
260 11 0.04
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (260 bp):
ATATTAATTATAGAAATAATTAAAAAGAGATCAAGGGGAGTTCTCATTCATCAATCAAGCAAAAT
CATCCAAAATCAATTTATAATATCGTGAGAAAATTTCATTTCCTTAAATGATATAAAATACCATT
TAAAGAATAAATATATTGCTCAAAAATATTAATTTCTTAAATTGGACCACTCTCTTTTTGCATAT
ATAACATCTTTTGTACCAAAACAAAACCAAATAAAATAATTGAAAAATTTAGAAAAAAAATGATT
Found at i:24979052 original size:30 final size:31
Alignment explanation
Indices: 24978996--24979053 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
24978986 TTTAGCTATT
*
24978996 ATATTGCTATTATTTTGTTGTTATTGTTTCG
1 ATATTGCTATCATTTTGTTGTTATTGTTTCG
24979027 ATATTG-TATCATTCTTGTT-TTATTGTT
1 ATATTGCTATCATT-TTGTTGTTATTGTT
24979054 AAATTTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (31 bp):
ATATTGCTATCATTTTGTTGTTATTGTTTCG
Found at i:24979295 original size:71 final size:72
Alignment explanation
Indices: 24979192--24979335 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 72
24979182 TTTTATATAT
24979192 TATATTTTTAATTTTGTTTTCATATAATAATCTAAAAAAATTAAATGAGCGGGCCAGGTTTAGCA
1 TATATTTTTAATTTTGTTTTCATATAATAATCTAAAAAAATTAAATGAGCGGGCCAGGTTTAGCA
24979257 TTTTTAA
66 TTTTTAA
24979264 TATATTTTT-ATTTTGTTTTCATATAATAATCTAAAAAAATTAAATGAGCGGGCCAGGTTTAGCA
1 TATATTTTTAATTTTGTTTTCATATAATAATCTAAAAAAATTAAATGAGCGGGCCAGGTTTAGCA
24979328 TTTTTAA
66 TTTTTAA
24979335 T
1 T
24979336 CTGGATCAGG
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 63 0.88
72 9 0.12
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (72 bp):
TATATTTTTAATTTTGTTTTCATATAATAATCTAAAAAAATTAAATGAGCGGGCCAGGTTTAGCA
TTTTTAA
Found at i:24984081 original size:28 final size:28
Alignment explanation
Indices: 24984041--24984111 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
24984031 ACTTAAACCT
* * * *
24984041 ATTTTATAGATTTAATATAATTACTTTG
1 ATTTAATAGATTTAATAGAACTAATTTG
* *
24984069 ATTTAATAAATTTAATCGAACTAATTTG
1 ATTTAATAGATTTAATAGAACTAATTTG
24984097 ATTTAATAGATTTAA
1 ATTTAATAGATTTAA
24984112 AAATCAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTTAATAGATTTAATAGAACTAATTTG
Found at i:24993226 original size:18 final size:18
Alignment explanation
Indices: 24993203--24993239 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24993193 TCTCTTCTGC
*
24993203 TTCTTTCTTTGATTTTTT
1 TTCTTTCTTTCATTTTTT
*
24993221 TTCTTTTTTTCATTTTTT
1 TTCTTTCTTTCATTTTTT
24993239 T
1 T
24993240 AACGTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (18 bp):
TTCTTTCTTTCATTTTTT
Found at i:24994916 original size:11 final size:11
Alignment explanation
Indices: 24994900--24994929 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
24994890 TTTTATTTTT
24994900 TATTTTTAAAA
1 TATTTTTAAAA
24994911 TATTTTTAAAA
1 TATTTTTAAAA
24994922 TACTTTTT
1 TA-TTTTT
24994930 TATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:24994964 original size:26 final size:26
Alignment explanation
Indices: 24994911--24994966 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
24994901 ATTTTTAAAA
* *
24994911 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATACTTTTTTAGTGTT
* *
24994937 TATTTTTAAAATATTTTTTTGGTGTT
1 TATTTTTAAAATACTTTTTTAGTGTT
24994963 TATT
1 TATT
24994967 AAAAATGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (26 bp):
TATTTTTAAAATACTTTTTTAGTGTT
Found at i:25003531 original size:72 final size:73
Alignment explanation
Indices: 25003414--25003558 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 73
25003404 GAACTTGAAG
25003414 CACGTGAATCAAACTCTAAAGTCTTAAGTACTTGTGTACTTATGGCACGGACAGTTTGATAAAAT
1 CACGTGAATCAAACTCTAAAGTCTTAAGTACTTGTGTACTTATGGCACGGACAGTTTGATAAAAT
25003479 TTAAGAGT
66 TTAAGAGT
* * * *
25003487 CACGTGAATCGAACTCTGAAGTC-TAAGTACTTGTGTACTTATGGCATGGACTGTTTGATAAAAT
1 CACGTGAATCAAACTCTAAAGTCTTAAGTACTTGTGTACTTATGGCACGGACAGTTTGATAAAAT
25003551 TTAAGAGT
66 TTAAGAGT
25003559 TATTTTCTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
72 47 0.69
73 21 0.31
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (73 bp):
CACGTGAATCAAACTCTAAAGTCTTAAGTACTTGTGTACTTATGGCACGGACAGTTTGATAAAAT
TTAAGAGT
Found at i:25011715 original size:3 final size:3
Alignment explanation
Indices: 25011707--25011742 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
25011697 CAAATTGCTC
25011707 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25011743 AGAAGTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25013038 original size:41 final size:39
Alignment explanation
Indices: 25012993--25013082 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
25012983 TAAAAAGTAT
** *
25012993 TTATATTAAAAAACACTTCCACAAATATAATAAATATTTTA
1 TTATATTAAAAAACAC--AAACAAATATAATAAATATTTCA
* *
25013034 TTATATTAAAAAATACAAATAAATATAATAAATATTTCA
1 TTATATTAAAAAACACAAACAAATATAATAAATATTTCA
*
25013073 TTGTATTAAA
1 TTATATTAAA
25013083 TATTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.65
41 15 0.35
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (39 bp):
TTATATTAAAAAACACAAACAAATATAATAAATATTTCA
Found at i:25018904 original size:31 final size:32
Alignment explanation
Indices: 25018847--25018906 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
25018837 CATCATTTCA
*
25018847 ACTCTTTTTCAAAAGGTTGATGGTCAAATCCG
1 ACTCTTTTTCAAAAAGTTGATGGTCAAATCCG
25018879 ACTCTTTTT-AAAAAGTTGA-GTGTCAAAT
1 ACTCTTTTTCAAAAAGTTGATG-GTCAAAT
25018907 TTAGCTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 1 0.04
31 16 0.62
32 9 0.35
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (32 bp):
ACTCTTTTTCAAAAAGTTGATGGTCAAATCCG
Found at i:25023884 original size:58 final size:60
Alignment explanation
Indices: 25023802--25023922 Score: 165
Period size: 59 Copynumber: 2.0 Consensus size: 60
25023792 TTCACACCCA
25023802 AATCAGAGTAATATAAGTACTCTTGTTTGATCATG-TTTTTCTTCGAAATTTATTAATTG
1 AATCAGAGTAATATAAGTACTCTTGTTTGATCATGTTTTTTCTTCGAAATTTATTAATTG
* ** * * * *
25023861 AATC-GAGTAATATAGGTGTTCTTGTTTGATTATGTTTTTTTTTCGGAATTTATTGATTG
1 AATCAGAGTAATATAAGTACTCTTGTTTGATCATGTTTTTTCTTCGAAATTTATTAATTG
25023920 AAT
1 AAT
25023923 TGGTTTTGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 26 0.48
59 28 0.52
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (60 bp):
AATCAGAGTAATATAAGTACTCTTGTTTGATCATGTTTTTTCTTCGAAATTTATTAATTG
Found at i:25042527 original size:10 final size:10
Alignment explanation
Indices: 25042512--25042540 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
25042502 ATTATAAGTC
25042512 TTTTAACTTT
1 TTTTAACTTT
25042522 TTTTAACTTT
1 TTTTAACTTT
25042532 TTTTAACTT
1 TTTTAACTT
25042541 GTAACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAACTTT
Found at i:25050875 original size:60 final size:60
Alignment explanation
Indices: 25050811--25050958 Score: 215
Period size: 60 Copynumber: 2.5 Consensus size: 60
25050801 TAGCTAGGTA
* * * * * *
25050811 ACCATATTGTAACTTTTCATATTTAGATGATCAAAAAGGAAATTTACTGATAGTTGGGTG
1 ACCATTTTGTAACTTTTCATATTTAGATGACCAAAAAAGAAATGTACTAATAGTTGAGTG
* *
25050871 ACCATTTTGTAACTTTTCATATTTGGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTG
1 ACCATTTTGTAACTTTTCATATTTAGATGACCAAAAAAGAAATGTACTAATAGTTGAGTG
*
25050931 ACCATTTTGTAACTTTTCATAATTAGAT
1 ACCATTTTGTAACTTTTCATATTTAGAT
25050959 AACTGAAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (60 bp):
ACCATTTTGTAACTTTTCATATTTAGATGACCAAAAAAGAAATGTACTAATAGTTGAGTG
Found at i:25051097 original size:2 final size:2
Alignment explanation
Indices: 25051092--25051126 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25051082 CCTTCAATCA
25051092 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
25051127 AAAAGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25061413 original size:157 final size:158
Alignment explanation
Indices: 25061170--25061489 Score: 579
Period size: 157 Copynumber: 2.0 Consensus size: 158
25061160 GTATGTTGAG
25061170 TCTTACGGTATGTAACTAGGGTTGGTAAACTTGTTACTTGAGTAATTTTAGGTACTTTCGGTACT
1 TCTTACGGTATGTAACTAGGGTTGGTAAACTTGTTACTTGAGTAATTTTAGGTACTTTCGGTACT
*
25061235 CGAGTCTTATGTTTTTTCTTTTTAATCTACCTATTGCAAATTTTCCCTTAGCTCGGTTTGATTTG
66 CGAGTCTTATGTTTTTTCTTTTTAATCTACCTATTGCAAATTTTCCCTTAGCTCGGTATGATTTG
* *
25061300 TGTTTAGTTGATCTCTTTGTGATAAGAT
131 TGTTTAATTGATCCCTTTGTGATAAGAT
25061328 TCTTACGGTATGTAACTA-GGTTGGTAAACTTGTTACTTGAGTAATTTTAGGTACTTTCGGTACT
1 TCTTACGGTATGTAACTAGGGTTGGTAAACTTGTTACTTGAGTAATTTTAGGTACTTTCGGTACT
* *
25061392 TGAGTCTTATGTTTTTTCTTTTTAATCTACCTATTGCAAATTTTTCCTTAGCTCGGTATGATTTG
66 CGAGTCTTATGTTTTTTCTTTTTAATCTACCTATTGCAAATTTTCCCTTAGCTCGGTATGATTTG
25061457 TGTTTAATTGATCCCTTTGTGATAAGAT
131 TGTTTAATTGATCCCTTTGTGATAAGAT
*
25061485 CCTTA
1 TCTTA
25061490 TAGTGATTGC
Statistics
Matches: 156, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
157 138 0.88
158 18 0.12
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (158 bp):
TCTTACGGTATGTAACTAGGGTTGGTAAACTTGTTACTTGAGTAATTTTAGGTACTTTCGGTACT
CGAGTCTTATGTTTTTTCTTTTTAATCTACCTATTGCAAATTTTCCCTTAGCTCGGTATGATTTG
TGTTTAATTGATCCCTTTGTGATAAGAT
Found at i:25064441 original size:9 final size:9
Alignment explanation
Indices: 25064427--25064472 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
25064417 TTTGGTTAAA
25064427 AATTACCCG
1 AATTACCCG
25064436 AATTACCCG
1 AATTACCCG
*
25064445 -ATTAACCG
1 AATTACCCG
*
25064453 AATTAACCG
1 AATTACCCG
25064462 AATTACCCG
1 AATTACCCG
25064471 AA
1 AA
25064473 AATTACCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:25064453 original size:17 final size:18
Alignment explanation
Indices: 25064427--25064472 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
25064417 TTTGGTTAAA
*
25064427 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
25064445 -ATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
25064462 AATTACCCGAA
1 AATTACCCGAA
25064473 AATTACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:25067362 original size:9 final size:9
Alignment explanation
Indices: 25067344--25067373 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25067334 TTTGGTAAAA
25067344 AATTAACCG
1 AATTAACCG
*
25067353 AATTACCCG
1 AATTAACCG
25067362 AATTAACCG
1 AATTAACCG
25067371 AAT
1 AAT
25067374 AACAACACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:25069059 original size:30 final size:30
Alignment explanation
Indices: 25069025--25069090 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
25069015 TAAATATTTA
25069025 TTTTTTATT-TTTTAAATATTTTTAAAATAC
1 TTTTTT-TTATTTTAAATATTTTTAAAATAC
***
25069055 TTTTTTTTATTTTTGTTATTTTTAAAATAC
1 TTTTTTTTATTTTAAATATTTTTAAAATAC
*
25069085 ATTTTT
1 TTTTTT
25069091 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTTTTTTATTTTAAATATTTTTAAAATAC
Found at i:25073501 original size:88 final size:86
Alignment explanation
Indices: 25072951--25074255 Score: 1221
Period size: 85 Copynumber: 15.1 Consensus size: 86
25072941 ATAAAGAAGC
* * * * *
25072951 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * **
25073014 CAGTGGAGCTAGATAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * * *
25073036 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * **
25073099 CAGTGGAGCTAGATAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * * *
25073121 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * **
25073184 CAGTGGAGCTAGATAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * * *
25073206 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * **
25073269 CAGTGGAGCTAGATAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * *
25073291 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTTG-
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
**
25073354 CAGTGGAGCTGGTTAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * *
25073376 AGGTCATGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
*
25073441 TGATGGAGCTGGTTAAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* ** * * *
25073464 GGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * **
25073527 CAGTGGAGCTAGATAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * *
25073549 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTTG-
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
**
25073612 CAGTGGAGCTGGTTAAAGA-AGC
65 CA-TGGAGCTGGTTAAAGACAAA
* * * * *
25073634 AGGTCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAGATCCTTACTTCTCTCGGTTGT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AACCTTGCCTCTCTCGGTTGT
* *
25073699 GATGGAGCTGGTTGAAGACAAA
65 CATGGAGCTGGTTAAAGACAAA
* * *
25073721 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* *
25073786 TGATGGAGCTGGTTGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* * *
25073809 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAATCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* * *
25073874 TGATGGAGTTGGTTGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* * * * * *
25073897 AGATCTTGCATTCCTACATTGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* *
25073962 TGATGGAGCTGGTTGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* * * *
25073985 AGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* * * **
25074050 TGATGGAGCAGATCGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* * * * *
25074073 AGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTTCCTCTCTCGGTTC
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* *
25074138 TAATGGAGCTGGTTGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
* * *
25074161 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGATTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* *
25074226 TGATGGAGCTGGTTGAAGACAAA
64 TCATGGAGCTGGTTAAAGACAAA
25074249 AGATCTT
1 AGATCTT
25074256 NNNNNNNNNT
Statistics
Matches: 1119, Mismatches: 86, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
85 492 0.44
86 60 0.05
87 76 0.07
88 488 0.44
89 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (86 bp):
AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTCTCGGTTGTC
ATGGAGCTGGTTAAAGACAAA
Found at i:25073516 original size:42 final size:42
Alignment explanation
Indices: 25073468--25073603 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 42
25073458 GACAAAGGAT
25073468 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
* * * * *
25073510 CTTGCCTTCAT-TGGTT-ACAGTGGAGCTAGAT-AAAGAAGC-AGAT
1 CTTGCCTTCCTGT-GTTAACAGCGAAGC-AGATCGAA-AA-CAAG-C
* **
25073553 CTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
25073595 CTTGCCTTC
1 CTTGCCTTC
25073604 ATTGGTTGCA
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
41 11 0.15
42 30 0.42
43 20 0.28
44 10 0.14
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
Found at i:25073893 original size:176 final size:174
Alignment explanation
Indices: 25072951--25074255 Score: 1233
Period size: 176 Copynumber: 7.5 Consensus size: 174
25072941 ATAAAGAAGC
* * * * *
25072951 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * * * ** * * *
25073014 CAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-
65 GA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * ** * * * **
25073076 ACAAGCCTTGCCT-TCATTGGTT-ACAGTGGAGCTAGATAAAGA-AGC
129 ACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAAA
* * * * *
25073121 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * * * ** * * *
25073184 CAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-
65 GA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * ** * * * **
25073246 ACAAGCCTTGCCT-TCATTGGTT-ACAGTGGAGCTAGATAAAGA-AGC
129 ACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAAA
* * * *
25073291 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTTG-
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * ** * * * *
25073354 CAGTGGAGCTGGTTAAAGA-AGCAGGTCATGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGAC
65 GA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
*
25073418 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAA
129 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
* ** * * *
25073464 GGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-TCATTGGTT-A
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTC-TCGGTTGT
* * * * ** * * *
25073527 CAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-
65 GA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * * * **
25073589 ACAAGCCTTGCCT-TCATTGGTTG-CAGTGGAGCTGGTTAAAGA-AGC
129 ACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAAA
* * * * *
25073634 AGGTCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAGATCCTTACTTCTCTCGGTTGT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AACCTTGCCTCTCTCGGTTGT
*
25073699 GATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACA
65 GATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACA
*
25073764 CAAATCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
130 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
* * *
25073809 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAATCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* * * * * *
25073874 TGATGGAGTTGGTTGAAGACAAAAGATCTTGCATTCCTACATTGATAGCGAAACAGGTCGAAGAC
64 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
25073939 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
129 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
* * * *
25073985 AGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
* * * * *
25074050 TGATGGAGCAGATCGAAGACAAAAGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
64 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * *
25074115 ACAAACCTTTCCTCTCTCGGTTCTAATGGAGCTGGTTGAAGACAAA
129 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
* * *
25074161 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGATTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
25074226 TGATGGAGCTGGTTGAAGACAAAAGATCTT
64 TGATGGAGCTGGTTGAAGACAAAAGATCTT
25074256 NNNNNNNNNT
Statistics
Matches: 1016, Mismatches: 99, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
170 328 0.32
171 60 0.06
172 71 0.07
173 117 0.12
174 32 0.03
175 40 0.04
176 365 0.36
177 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (174 bp):
AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCTCTCGGTTGTG
ATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAC
AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
Found at i:25073978 original size:264 final size:264
Alignment explanation
Indices: 25072951--25074255 Score: 1186
Period size: 264 Copynumber: 5.0 Consensus size: 264
25072941 ATAAAGAAGC
* * * * * *
25072951 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
** * * * ** * * *
25073013 -ACAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-
65 GTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG
* * * ** * * * * ** *
25073075 A-ACAAGCCTTGCCT-TCATTGGTTACAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTG
129 ACACAAACCTTGTCTCTC-TCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTG
* * * * ** * *
25073137 AATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT-ACAGTGGAGCTAGAT
193 CATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTT
* **
25073198 AAAGA-AGC
256 GAAGACAAA
* * * * * *
25073206 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
** * * * ** * * *
25073268 -ACAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-
65 GTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG
* * * * * * ** * *
25073330 A-ACAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGGTCATGCCTTCCTG
129 ACACAAACCTTGTCTCTC-TCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTG
* * *
25073392 CATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAA
193 CATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGA
25073457 AGACAAA
258 AGACAAA
* ** * * * *
25073464 GGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
** * * * ** * * *
25073526 -ACAGTGGAGCTAGATAAAGA-AGCAGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-
65 GTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG
* * * * * * ** *
25073588 A-ACAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGGTCTTGCCTTCCTG
129 ACACAAACCTTGTCTCTC-TCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTG
* * * * *
25073650 CATTAACAGTGAAGCAGATCGAA-A-ACAGATCCTTACTTCTCTCGGTTGTGATGGAGCTGGTTG
193 CATTGACAGCGAAGCAGATCGAAGACACA-AACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTG
25073713 AAGACAAA
257 AAGACAAA
*
25073721 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
25073786 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * * * *
25073851 ACAAATCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAAAGATCTTGCATTCCTACAT
131 ACAAACCTTGTCTCTCTCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* * *
25073916 TGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
196 TGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
25073981 CAAA
261 CAAA
* *
25073985 AGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
25074050 TGATGGAGCAGATCGAAGACAAAAGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
*
25074115 ACAAACCTT-TCCTCTCTCGGTTCTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
131 ACAAACCTTGT-CTCTCTCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
* *
25074179 TTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGATTGTGATGGAGCTGGTTGAAG
195 TTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAG
25074244 ACAAA
260 ACAAA
25074249 AGATCTT
1 AGATCTT
25074256 NNNNNNNNNT
Statistics
Matches: 948, Mismatches: 84, Indels: 27
0.90 0.08 0.03
Matches are distributed among these distances:
255 201 0.21
256 4 0.00
257 105 0.11
258 209 0.22
259 29 0.03
260 40 0.04
261 1 0.00
262 30 0.03
263 35 0.04
264 291 0.31
265 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (264 bp):
AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
ACAAACCTTGTCTCTCTCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
TGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
CAAA
Found at i:25074617 original size:51 final size:51
Alignment explanation
Indices: 25074553--25074783 Score: 165
Period size: 43 Copynumber: 4.8 Consensus size: 51
25074543 AGATCGTATT
* *
25074553 AGATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATCGAAAATGAC
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* * * * *
25074604 AGATTTTACCTCCCTGTGATT-ACAGTGGAGTACATTGAAG--C--CAAT---
1 AGATTCTACCTCCCTG-G-TTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
*
25074649 A-ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* * * * *
25074699 AGATTTTACCTCCCTGTGATT-ACAGTGGAGTACATTGAAG--C--CAAT---
1 AGATTCTACCTCCCTG-G-TTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* *
25074744 A-ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGAT
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
25074784 TCTAGATTCT
Statistics
Matches: 139, Mismatches: 25, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
42 4 0.03
43 33 0.24
44 24 0.17
45 3 0.02
47 3 0.02
48 6 0.04
50 3 0.02
51 26 0.19
52 33 0.24
53 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (51 bp):
AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
Found at i:25074666 original size:95 final size:95
Alignment explanation
Indices: 25074555--25074783 Score: 440
Period size: 95 Copynumber: 2.4 Consensus size: 95
25074545 ATCGTATTAG
*
25074555 ATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
25074620 TGATTACAGTGGAGTACATTGAAGCCAATA
66 TGATTACAGTGGAGTACATTGAAGCCAATA
25074650 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
25074715 TGATTACAGTGGAGTACATTGAAGCCAATA
66 TGATTACAGTGGAGTACATTGAAGCCAATA
*
25074745 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGAT
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
25074784 TCTAGATTCT
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 132 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (95 bp):
ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
TGATTACAGTGGAGTACATTGAAGCCAATA
Found at i:25076419 original size:16 final size:16
Alignment explanation
Indices: 25076398--25076433 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25076388 ATACCTTTTT
*
25076398 TATATATGTATATCTA
1 TATATATGTATATATA
25076414 TATATATGTATATATA
1 TATATATGTATATATA
25076430 TATA
1 TATA
25076434 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:25080836 original size:20 final size:21
Alignment explanation
Indices: 25080811--25080849 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25080801 TTTTTTTATA
*
25080811 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25080831 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25080850 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25080887 original size:19 final size:20
Alignment explanation
Indices: 25080840--25081499 Score: 109
Period size: 19 Copynumber: 32.5 Consensus size: 20
25080830 CATATTTTCC
25080840 ATAATATATTAACAATATTTT
1 ATAATAT-TTAACAATATTTT
*
25080861 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25080879 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25080901 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25080921 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25080940 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25080963 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25080981 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25081003 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25081023 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25081042 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25081065 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25081083 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25081105 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25081125 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25081144 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25081167 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25081185 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25081207 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25081227 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25081246 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25081269 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25081287 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25081309 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25081329 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25081348 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25081371 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
* ** * *
25081389 TTAATATTTTTCTATAACTTCT
1 ATAATATTTAACAAT-A-TTTT
* * *
25081411 AAAAT-TTTTATAATATTTTT
1 ATAATATTTAACAATA-TTTT
25081431 CATAATTATTT--C-ATATTTT
1 -ATAA-TATTTAACAATATTTT
25081450 CCATAATATATTAACAATATTTT
1 --ATAATAT-TTAACAATATTTT
*
25081473 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
*
25081491 TTAATATTT
1 ATAATATTT
25081500 TTCTATAACT
Statistics
Matches: 468, Mismatches: 98, Indels: 148
0.66 0.14 0.21
Matches are distributed among these distances:
18 49 0.10
19 131 0.28
20 98 0.21
21 82 0.18
22 48 0.10
23 60 0.13
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATATTTAACAATATTTT
Found at i:25080922 original size:102 final size:102
Alignment explanation
Indices: 25080782--25081531 Score: 1473
Period size: 102 Copynumber: 7.3 Consensus size: 102
25080772 TTTTAAAATT
* *
25080782 TTTTTCTATAAGTTCTAAATTTTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATAT
1 TTTTTCTATAACTTCTAAA-ATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATAT
25080847 ATTAACAATATTTTATAAATTTAATAATTTTTTTAATA
65 ATTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25080885 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25080950 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25080987 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25081052 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25081089 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25081154 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25081191 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25081256 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25081293 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25081358 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25081395 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
25081460 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
66 TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
25081497 TTTTTCTATAACTTCTAAAATTTTTATAATATTTT
1 TTTTTCTATAACTTCTAAAATTTTTATAATATTTT
25081532 CATTTTTCTT
Statistics
Matches: 645, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
102 627 0.97
103 18 0.03
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (102 bp):
TTTTTCTATAACTTCTAAAATTTTTATAATATTTTTCATAATTATTTCATATTTTCCATAATATA
TTAACAATATTTTATAAATTTAATAATTTTTTTAATA
Found at i:25080938 original size:20 final size:21
Alignment explanation
Indices: 25080913--25080951 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25080903 AATTTTTATA
*
25080913 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25080933 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25080952 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081040 original size:20 final size:21
Alignment explanation
Indices: 25081015--25081053 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25081005 AATTTTTATA
*
25081015 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25081035 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25081054 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081142 original size:20 final size:21
Alignment explanation
Indices: 25081117--25081155 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25081107 AATTTTTATA
*
25081117 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25081137 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25081156 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081244 original size:20 final size:21
Alignment explanation
Indices: 25081219--25081257 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25081209 AATTTTTATA
*
25081219 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25081239 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25081258 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081346 original size:20 final size:21
Alignment explanation
Indices: 25081321--25081359 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25081311 AATTTTTATA
*
25081321 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25081341 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25081360 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081448 original size:20 final size:21
Alignment explanation
Indices: 25081423--25081461 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25081413 AATTTTTATA
*
25081423 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
25081443 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
25081462 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:25081549 original size:30 final size:33
Alignment explanation
Indices: 25081479--25081552 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 33
25081469 TTTTATAAAT
*
25081479 TTAATAATTTTTTTAATATTTTTCTATAACTTC
1 TTAATAATTTTTATAATATTTTTCTATAACTTC
**
25081512 -TAA-AATTTTTATAATA-TTTTC-AT-TTTTC
1 TTAATAATTTTTATAATATTTTTCTATAACTTC
25081540 TTAATAATTTTTA
1 TTAATAATTTTTA
25081553 AATGCTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.08
29 5 0.14
30 13 0.36
31 12 0.33
32 3 0.08
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (33 bp):
TTAATAATTTTTATAATATTTTTCTATAACTTC
Found at i:25090310 original size:29 final size:28
Alignment explanation
Indices: 25090244--25090307 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
25090234 AATTTCCCAG
25090244 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAATAATTAA
* * **
25090272 AAAATCGGCCCATTTCGGTAATTTTTTAA
1 AAAAT-GGCCCATTCCGGTAAATAATTAA
25090301 AAAATGG
1 AAAATGG
25090308 GCCTTTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATTAA
Found at i:25092934 original size:4 final size:4
Alignment explanation
Indices: 25092892--25092927 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
25092882 AATTGTATGG
*
25092892 AAAT AATAT AAAT AGAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
25092928 AATAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:25093043 original size:16 final size:18
Alignment explanation
Indices: 25093010--25093043 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
25093000 ATTAATAAAC
25093010 AAATGAAAGAACTAAAAA
1 AAATGAAAGAACTAAAAA
25093028 AAAT-AAAGAA-TAAAAA
1 AAATGAAAGAACTAAAAA
25093044 GGTATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (18 bp):
AAATGAAAGAACTAAAAA
Found at i:25093360 original size:20 final size:20
Alignment explanation
Indices: 25093335--25093419 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
25093325 ACTTACGAAC
25093335 ATAAAATATATATATAAATT
1 ATAAAATATATATATAAATT
* *
25093355 ATAAAATATGTAT-TAAAATC
1 ATAAAATATATATAT-AAATT
** * * *
25093375 AT-ATGTACATATGTAAGTT
1 ATAAAATATATATATAAATT
* *
25093394 ATAAAATAAATATACAAATT
1 ATAAAATATATATATAAATT
25093414 ATAAAA
1 ATAAAA
25093420 ATAATGGTTG
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
19 12 0.25
20 36 0.75
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAAAATATATATATAAATT
Found at i:25095110 original size:15 final size:15
Alignment explanation
Indices: 25095090--25095126 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
25095080 AGACACTGCT
25095090 AGAAGCACAAAATCG
1 AGAAGCACAAAATCG
*
25095105 AGAAGCATAAAATCG
1 AGAAGCACAAAATCG
25095120 AGAAGCA
1 AGAAGCA
25095127 ATTTTGAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.16, G:0.22, T:0.08
Consensus pattern (15 bp):
AGAAGCACAAAATCG
Found at i:25101732 original size:15 final size:16
Alignment explanation
Indices: 25101714--25101743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25101704 ATTTGATCAT
25101714 TTTTTA-TTTAATAAG
1 TTTTTATTTTAATAAG
25101729 TTTTTATTTTAATAA
1 TTTTTATTTTAATAA
25101744 ATTAATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTTATTTTAATAAG
Found at i:25101788 original size:7 final size:7
Alignment explanation
Indices: 25101776--25101800 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25101766 ATAGGCATTA
25101776 TATTAAT
1 TATTAAT
25101783 TATTAAT
1 TATTAAT
25101790 TATTAAT
1 TATTAAT
25101797 TATT
1 TATT
25101801 GTTAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTAAT
Found at i:25103927 original size:43 final size:43
Alignment explanation
Indices: 25103849--25104005 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
25103839 TGTCCCAGAC
* ** * *
25103849 ATGGTCTTACATGAAAGTCTCGTATCGATGTCAATAGCCCAACT
1 ATGGTCTTACACGAAA-TCTCAAATCGATGCCAATAGCCCAGCT
*
25103893 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
25103936 ATGGTCTTACACGAAATCTCAAATCGATGCTAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
25103979 ATGGTCTTACACG-AATCTCAAATCGAT
1 ATGGTCTTACACGAAATCTCAAATCGAT
25104006 ATTGGAACAT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 14 0.13
43 76 0.72
44 15 0.14
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:25105444 original size:17 final size:17
Alignment explanation
Indices: 25105424--25105475 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
25105414 AAATGCTCAT
25105424 GAAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAGAAAA
* *
25105441 GAAAGAAGAAAAGAAAA
1 GAAAAAAAAAAAGAAAA
* *
25105458 GAAAAGAAATAA-AAAA
1 GAAAAAAAAAAAGAAAA
25105474 GA
1 GA
25105476 GAAGAGCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
GAAAAAAAAAAAGAAAA
Found at i:25105457 original size:22 final size:21
Alignment explanation
Indices: 25105424--25105480 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
25105414 AAATGCTCAT
*
25105424 GAAAAAAAAAAAGAAAAGAAA
1 GAAAAAAGAAAAGAAAAGAAA
25105445 GAAGAAAAGAAAAGAAAAGAAA
1 GAA-AAAAGAAAAGAAAAGAAA
* *
25105467 TAAAAAAGAGAAGA
1 GAAAAAAGAAAAGA
25105481 GCATATGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
GAAAAAAGAAAAGAAAAGAAA
Found at i:25113289 original size:23 final size:23
Alignment explanation
Indices: 25113242--25113295 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
25113232 GCTGAAAATA
25113242 AAAACCCT--AGAAAAGGAAGAG
1 AAAACCCTAAAGAAAAGGAAGAG
*
25113263 AAAACTCCTAAAGAAAATGAA-AG
1 AAAAC-CCTAAAGAAAAGGAAGAG
25113286 AAAACCCTAA
1 AAAACCCTAA
25113296 GCTAAACGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 8 0.28
23 7 0.24
24 9 0.31
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAACCCTAAAGAAAAGGAAGAG
Found at i:25117829 original size:52 final size:51
Alignment explanation
Indices: 25117710--25117839 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
25117700 ACAAATACCC
* * *
25117710 AGTGGCCTACACATAATACCACCCTTGTAGCCAAAGCTACCTTTTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTTTTCACAA
*
25117761 AGTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTACCTTT-TTCACAA
**
25117813 AGTGGCCTTCTTATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
25117840 AGTCACTAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 38 0.54
52 32 0.45
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTTTTCACAA
Found at i:25124740 original size:43 final size:44
Alignment explanation
Indices: 25124681--25124765 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
25124671 TGTTATAATT
25124681 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
* * *
25124725 ATAT-CGATGCTAATGTCCCAGACTTGGTCTTACTCGAAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
25124766 ATACCTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
Found at i:25124935 original size:2 final size:2
Alignment explanation
Indices: 25124901--25124926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25124891 ATTTGAAAAC
25124901 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25124927 TTGTATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25129607 original size:21 final size:22
Alignment explanation
Indices: 25129567--25129607 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25129557 AAAAAACAAA
* *
25129567 AAGTAAATTGAAATAAAAAATG
1 AAGTAAACTGAAACAAAAAATG
25129589 AAGTAAACT-AAACAAAAAA
1 AAGTAAACTGAAACAAAAAA
25129608 GTATTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (22 bp):
AAGTAAACTGAAACAAAAAATG
Found at i:25137344 original size:24 final size:24
Alignment explanation
Indices: 25137237--25137413 Score: 80
Period size: 24 Copynumber: 7.5 Consensus size: 24
25137227 TTAATATATA
* * *
25137237 ATATACTATTACTTTAAA-TCATC
1 ATATATTATTATTTTAAACTTATC
*
25137260 AT-TAGTATTA-TTTAAACTTATC
1 ATATATTATTATTTTAAACTTATC
* * * * *
25137282 ATACATTA-TAGCTTGAAATTTATT
1 ATATATTATTA-TTTTAAACTTATC
*
25137306 ATATACTA-TAGTTTTAAACTTATC
1 ATATATTATTA-TTTTAAACTTATC
* * *
25137330 ATATATTATTATTTT-AGCTGCATT
1 ATATATTATTATTTTAAACT-TATC
* *
25137354 ATGTATTCA-TATTTTTAAAGTTATC
1 ATATATT-ATTA-TTTTAAACTTATC
* * * *
25137379 ATATGTTATTATTTCAAAATTATT
1 ATATATTATTATTTTAAACTTATC
*
25137403 ATGTATTATTA
1 ATATATTATTA
25137414 CTTAAAGATA
Statistics
Matches: 115, Mismatches: 29, Indels: 19
0.71 0.18 0.12
Matches are distributed among these distances:
21 6 0.05
22 15 0.13
23 8 0.07
24 68 0.59
25 16 0.14
26 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.50
Consensus pattern (24 bp):
ATATATTATTATTTTAAACTTATC
Found at i:25139324 original size:10 final size:10
Alignment explanation
Indices: 25139309--25139333 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25139299 CTTAGGCTGA
25139309 AAAATAAATC
1 AAAATAAATC
25139319 AAAATAAATC
1 AAAATAAATC
25139329 AAAAT
1 AAAAT
25139334 TTTTGCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:25139954 original size:16 final size:17
Alignment explanation
Indices: 25139935--25139966 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25139925 TCTTCTCTTC
25139935 TTCTTT-TCTTTTTTTA
1 TTCTTTCTCTTTTTTTA
25139951 TTCTTTCTCTTTTTTT
1 TTCTTTCTCTTTTTTT
25139967 TTTCATGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTTTCTCTTTTTTTA
Found at i:25147534 original size:23 final size:22
Alignment explanation
Indices: 25147487--25147532 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
25147477 AAATATTAGT
25147487 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
25147510 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
25147531 TA
1 TA
25147533 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:25149132 original size:128 final size:128
Alignment explanation
Indices: 25148946--25149188 Score: 312
Period size: 128 Copynumber: 1.9 Consensus size: 128
25148936 TGACGCGATT
* * * * *
25148946 TGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCGCTACAACTTTAGGG
1 TGCTCTACTGCAATTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAGG
* * *
25149011 AGATAGGATTTGTTTA-TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
66 AGATAGGA-TT-ATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
** * * *
25149075 TGCTCT-CTGCAACTTT-AGAGAGATAAGATCCAAGGTTTTAATTCGCTCCACTGCAACTTCAAG
1 TGCTCTACTGCAA-TTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAG
25149138 GAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
65 GAGATAGGATTATCA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
25149189 AATTTGCCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
126 2 0.02
127 2 0.02
128 85 0.87
129 9 0.09
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (128 bp):
TGCTCTACTGCAATTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAGG
AGATAGGATTATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
Found at i:25149394 original size:44 final size:44
Alignment explanation
Indices: 25149027--25149407 Score: 168
Period size: 44 Copynumber: 8.8 Consensus size: 44
25149017 GATTTGTTTA
* * * ***
25149027 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * * * * * *
25149071 -GT--TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCCA-AGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGC
* * *
25149111 TTTAAT-TCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGC
1 TTTAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* *
25149155 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAATT-T-GCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * * * ***
25149197 ATCTTCAGTCTAC-CTCACTGCAACTTCA-GAAGGATAAGACTTGTTTAC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGC
* * * *
25149245 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG---ACCAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
*** * * *
25149285 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAG-TTCCA-AGG-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--ATCGGC
* * * *
25149327 TTTCAATCCGCTCTACTGTAACTTCAGGGAGATAGGATTATCGGC
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* *
25149372 TTTAATCTGCTCCACTGCAACTTGAGTGAGATAAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
25149408 CTAGATGTGA
Statistics
Matches: 247, Mismatches: 62, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
40 43 0.17
41 14 0.06
42 3 0.01
43 16 0.06
44 132 0.53
45 35 0.14
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
Found at i:25149403 original size:128 final size:127
Alignment explanation
Indices: 25149249--25149492 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 127
25149239 GTTTACTTAG
* *
25149249 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
* * *
25149314 ATAAGTTCCAAGGTTTCAATCCGC-TCTACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATCCAAGGTTTCAATCCGCTTCGA-TCT-ACTTCAGGGAGATAGGATTATCGGCTTTAA
* * * *
25149377 TCTGCTCCACTGCAACTTGAGTGAGATAAGACTAGATGTGACCTGCTCTCTGCAACTTCAGAGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
* * **
25149442 ATAAGATCTAAGGTTTTAATTTGCTTCGATCTACTTCAGGGAGATAGGATT
66 ATAAGATCCAAGGTTTCAATCCGCTTCGATCTACTTCAGGGAGATAGGATT
25149493 GGGGTCATTG
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
127 19 0.19
128 80 0.78
129 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (127 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
ATAAGATCCAAGGTTTCAATCCGCTTCGATCTACTTCAGGGAGATAGGATTATCGGCTTTAA
Found at i:25149603 original size:88 final size:88
Alignment explanation
Indices: 25149502--25149899 Score: 645
Period size: 88 Copynumber: 4.5 Consensus size: 88
25149492 TGGGGTCATT
* * *
25149502 GATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
**
25149567 AAAGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
25149590 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTA-TTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
*
25149654 AGGGAGGCAAGGCGGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
25149677 GATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
25149742 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
25149765 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGCTCCACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
*
25149830 AGGGAGACAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
25149853 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTTATTTTTA
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGC-TATTTTTA
25149900 CTAATCTATT
Statistics
Matches: 289, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
87 79 0.27
88 202 0.70
89 8 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
AGGGAGGCAAGGCTGGTGTCTTC
Found at i:25149742 original size:175 final size:176
Alignment explanation
Indices: 25149502--25149891 Score: 638
Period size: 175 Copynumber: 2.2 Consensus size: 176
25149492 TGGGGTCATT
* * * * *
25149502 GATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
25149567 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTA-T
66 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATT
* *
25149631 TTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCGGGTGTCTTC
131 TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCGGGTGTCTTC
* *
25149677 GATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
** *
25149742 AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
66 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATT
* * *
25149807 TTTAACTTGCTCCACTGCAACCCAGGGAGACAAGGCTGGTGTCTTC
131 TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCGGGTGTCTTC
25149853 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
25149892 TATTTTTACT
Statistics
Matches: 198, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
175 118 0.60
176 80 0.40
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (176 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATT
TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCGGGTGTCTTC
Found at i:25161769 original size:24 final size:20
Alignment explanation
Indices: 25161742--25161797 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 20
25161732 GCAAAGTATC
25161742 AAATAAATAAAAATATGAAAACA
1 AAATAAATAAAAA-AT-AAAA-A
*
25161765 TAAATCAATAAAAAATAAAAA
1 -AAATAAATAAAAAATAAAAA
*
25161786 AAATAAAGAAAA
1 AAATAAATAAAA
25161798 GAGAGTGCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 4 0.14
23 2 0.07
24 12 0.41
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAATAAAAA
Found at i:25162166 original size:23 final size:22
Alignment explanation
Indices: 25162119--25162164 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
25162109 AAATATTAGT
25162119 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
25162142 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
25162163 TA
1 TA
25162165 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:25166286 original size:20 final size:19
Alignment explanation
Indices: 25166253--25166296 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
25166243 TGAAACAAAC
*
25166253 ACCCAACCAAACCAGAACTA
1 ACCCAACCAAACCA-AACCA
**
25166273 ACCCAACCCGACCAAACCA
1 ACCCAACCAAACCAAACCA
25166292 ACCCA
1 ACCCA
25166297 CCCTATCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.45, C:0.48, G:0.05, T:0.02
Consensus pattern (19 bp):
ACCCAACCAAACCAAACCA
Found at i:25170197 original size:8 final size:9
Alignment explanation
Indices: 25170174--25170205 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
25170164 AATAGTGATT
25170174 AATTTTTAC
1 AATTTTTAC
25170183 AATTTTTAC
1 AATTTTTAC
25170192 AATTTTTAC
1 AATTTTTAC
25170201 AATTT
1 AATTT
25170206 AATTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTTAC
Found at i:25172941 original size:16 final size:17
Alignment explanation
Indices: 25172909--25172944 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25172899 TAAAAAATTA
*
25172909 TTATGCATTTCATTTTT
1 TTATACATTTCATTTTT
25172926 TTATACATTT-ATTTTT
1 TTATACATTTCATTTTT
25172942 TTA
1 TTA
25172945 ATATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATACATTTCATTTTT
Found at i:25179606 original size:17 final size:17
Alignment explanation
Indices: 25179580--25179612 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25179570 TCCCATATTT
*
25179580 TGATAGCCATATCTTTC
1 TGATACCCATATCTTTC
25179597 TGATACCCATATCTTT
1 TGATACCCATATCTTT
25179613 GACTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:25192037 original size:17 final size:17
Alignment explanation
Indices: 25192015--25192049 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25192005 CTACGAAGTA
25192015 CTTCTCCACAAAATTAC
1 CTTCTCCACAAAATTAC
25192032 CTTCTCCACAAAATTAC
1 CTTCTCCACAAAATTAC
25192049 C
1 C
25192050 ATTCGTATCT
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:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (17 bp):
CTTCTCCACAAAATTAC
Found at i:25197619 original size:50 final size:50
Alignment explanation
Indices: 25197517--25197637 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
25197507 GATAAAAACC
*
25197517 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGAT
* * *
25197567 GAGAGGTCCCCTGTAAGACCATGTCTGGGATATGGCATGGGCAAC-GATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGC-ACTGAGAT
** *
25197617 GAGAACTCCAATGTAAGACCA
1 GAGAGGTCCCATGTAAGACCA
25197638 ATTTTGGGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 60 0.97
51 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGAT
Found at i:25201293 original size:50 final size:50
Alignment explanation
Indices: 25201238--25201343 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
25201228 CATTGAGATT
* * * *
25201238 ATGAGAGGTGCCATGTAATACCATGTCTAGGACATGGCGTTGG-CACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGC-ATGGACACCGAG
* *
25201288 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAG
25201338 ATGAGA
1 ATGAGA
25201344 ACTCTGATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 3 0.06
50 46 0.94
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAG
Found at i:25201356 original size:50 final size:50
Alignment explanation
Indices: 25201248--25201361 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
25201238 ATGAGAGGTG
* * **
25201248 CCATGTAATACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTAGGACATGGCGATGGCACCGAGATGAGAACTC
** *
25201298 CCCCGTAAGACCATGTCTAGGACATGGC-ATGGACACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTAGGACATGGCGATGG-CACCGAGATGAGAACTC
**
25201348 TGATGTAAGACCAT
1 CCATGTAAGACCAT
25201362 ATCTGGGATA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.06
50 49 0.94
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTAGGACATGGCGATGGCACCGAGATGAGAACTC
Found at i:25205303 original size:24 final size:24
Alignment explanation
Indices: 25205271--25205324 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
25205261 GCCTTTGTAA
25205271 TTTCTCATTAATGGATCAAATCCT
1 TTTCTCATTAATGGATCAAATCCT
25205295 TTTCTCATTAATGGATCAAATCCT
1 TTTCTCATTAATGGATCAAATCCT
25205319 TGTTCT
1 T-TTCT
25205325 TGGTTGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (24 bp):
TTTCTCATTAATGGATCAAATCCT
Found at i:25208509 original size:5 final size:5
Alignment explanation
Indices: 25208501--25208533 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
25208491 ATTTCTTGTT
*
25208501 TTTCA TTTCA TTTCA TTTCA TTT-A TTTCC TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
25208534 TTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCA
Found at i:25211855 original size:138 final size:138
Alignment explanation
Indices: 25211599--25212129 Score: 721
Period size: 138 Copynumber: 3.9 Consensus size: 138
25211589 AAAAATGAAT
*
25211599 TATATTCTTTCCAAAAGAATATTAATTTTCATG-CATTTTATATTTTGACTTAACA-TAATTAAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTC-TTTTATATTTTGAC-TAAAATTAATTAAT
* * * * *
25211662 ATAACTATTTATATTAATAAATTCAGTAAAATATATACCATTAATACTTTGTATGAATCAAATTA
64 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
25211727 ATATATTAAA
129 ATATATTAAA
*
25211737 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
* * * * *
25211802 TA-TCGTTTATAATAATAAAGTCGGTAAAATATATAAAATTAATATTTTTTATGAATCAAATTCA
66 AACT-GTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
25211866 TATATTAAC
130 TATATTAAA
* * * *
25211875 TATATTCTTTCCAACAA-AATATTAATTTTCATATCCTTTATATTTTGACAAAAAATAATTAATA
1 TATATTCTTTCCAA-AAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATA
* * * * * *
25211939 TAATTGTTTATAGTAATAAATTCGGTAAAGTATATACAGTTAATATTTGGTATGAATCAAACTCA
65 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
25212004 TATATTAAT
130 TATATTAAA
* * * *
25212013 TATATTTTTTCCAAAAGAATATTAATTTTCATCTCTTTTATATTTTAAC-CAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
* *
25212077 AACTGTTTATATTCATAAATTCGGTAAAATATATACAATTAATATTTTTTATG
66 AACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATG
25212130 TGTTCTCTAT
Statistics
Matches: 346, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
137 65 0.19
138 277 0.80
139 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
AACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATTAAA
Found at i:25220184 original size:51 final size:50
Alignment explanation
Indices: 25220102--25220385 Score: 193
Period size: 51 Copynumber: 5.6 Consensus size: 50
25220092 GATAAACACG
** *
25220102 TGTGTAGTACTGTGTGAAGGCGACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * *
25220153 TGTCTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGTTTTGAG-CACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATATG-GTCACA
* ** * * *
25220204 TGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * * * *
25220255 TGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTG-TATC-GATAA-ATATGGTCACA
* * * * *
25220306 TATGTAGTACTATGTGAAGGCTACTACGTG-AGTTG-TAAA-ACTTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTA-TCGATAAATA--TGGTCACA
*
25220356 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTG
25220386 AACTGTAAAA
Statistics
Matches: 178, Mismatches: 43, Indels: 25
0.72 0.17 0.10
Matches are distributed among these distances:
50 42 0.24
51 132 0.74
52 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:25220347 original size:102 final size:102
Alignment explanation
Indices: 25220098--25220381 Score: 323
Period size: 102 Copynumber: 2.8 Consensus size: 102
25220088 TATCGATAAA
* *
25220098 CACGTGTGTAGTACTGTGTGAAGGCGACTACGTGTATCG-ATAAA-TAATGGTCACATGTCTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGTA-AAACT-ATGGTCACATGTGTAGT
* *
25220161 ACTAAGTGAAGGCTACTATGTGTATCGAGAAGTTTTGAG
64 ACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
* * * *
25220200 CACGTGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGT-AAACTATGGTTACATGTGTGGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATC-GTAAAACTATGGTCACATGTGTAGTA
25220264 CTAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTTG-G
65 CTAAGTGAAGGCTACTATGTG-TACCGAG-AAGCTTTGAG
* * * * *
25220301 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGTTGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGTAAAACTATGGTCACATGTGTAGT
*
25220364 ACTATGTGAAGGCTACTA
64 ACTAAGTGAAGGCTACTA
25220382 CGTGAACTGT
Statistics
Matches: 156, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
101 35 0.22
102 119 0.76
103 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGTAAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
Found at i:25220368 original size:50 final size:50
Alignment explanation
Indices: 25220261--25220397 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 50
25220251 TACATGTGTG
* * * * * *
25220261 GTACTAAGTGAAGGCTACTATG-GATACCGGAAAGCTTTGGTCACGTATGTA
1 GTACTATGTGAAGGCTACTACGTGA-ACTGTAAAAC-TTGATCACGTATGTA
** *
25220312 GTACTATGTGAAGGCTACTACGTGAGTTGTAAAACTTGATCACGTGTGTA
1 GTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGATCACGTATGTA
25220362 GTACTATGTGAAGGCTACTACGTGAACTGTAAAACT
1 GTACTATGTGAAGGCTACTACGTGAACTGTAAAACT
25220398 GATAGATTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 47 0.64
51 25 0.34
52 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
GTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGATCACGTATGTA
Found at i:25228305 original size:23 final size:23
Alignment explanation
Indices: 25228275--25228321 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25228265 ACTTTATGTA
25228275 ATATTAATCAGCTCAGGAATTGG
1 ATATTAATCAGCTCAGGAATTGG
*
25228298 ATATTAATCAGCTCGGGAATTGG
1 ATATTAATCAGCTCAGGAATTGG
25228321 A
1 A
25228322 CGGAGTCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (23 bp):
ATATTAATCAGCTCAGGAATTGG
Found at i:25237570 original size:138 final size:138
Alignment explanation
Indices: 25237322--25237885 Score: 821
Period size: 138 Copynumber: 4.1 Consensus size: 138
25237312 TAGATAAAAG
* * *
25237322 AATTATATTATTTCCAAAAGAATATTAATGTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
25237387 TATAATTATTTATATTAATAAATTTCG-TAAAATATATACAATTAATATTTTTTATGAATTAAAT
66 TATAACTATTTATAGTAATAAA-TTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
25237451 TCATATATT
130 TCATATATT
25237460 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGA-TCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACT-GAAATTAATTA
* *
25237524 ATATAACTATTTATAGTACTAAATTCGATAAAATATATACGATTAATATTTTGTATGAATCAAAT
65 ATATAACTATTTATAGTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
25237589 TCATATATT
130 TCATATATT
* * * *
25237598 AACTATATT-TTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTCACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * * *
25237662 TATAAGTGTTTATATTAATAAATTCGGTAAAATATATA-AATTACTATTTTGTATGAATCAAATT
66 TATAACTATTTATAGTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
25237726 CAGATATT
131 CATATATT
* * * * *
25237734 AATTATATTCTTTCTAAAATAATATTAATTTTCATGTATTTTATAGTTTGACTGGAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
25237799 CATCACTGTTTATAGTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATAGTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
25237864 CATATACT
131 CATATATT
25237872 AATTATATTCTTTC
1 AATTATATTCTTTC
25237886 TTCTCTATTT
Statistics
Matches: 382, Mismatches: 39, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
136 39 0.10
137 166 0.43
138 177 0.46
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAACTATTTATAGTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:25237823 original size:274 final size:276
Alignment explanation
Indices: 25237325--25237885 Score: 853
Period size: 274 Copynumber: 2.0 Consensus size: 276
25237315 ATAAAAGAAT
* *
25237325 TATATTATTTCCAAAAGAATATTAATGTTCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
1 TATATTATTTCCAAAAGAATATTAATGTTCATGTCATTTATATTTTCACCGAAATTAATTAATAT
* * * *
25237390 AATTATTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTTTATGAATTAAATTCAT
66 AAGTATTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAG
* *
25237455 ATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGATCGAAATTA
131 ATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATAGTTTGATCGAAATTA
* * * *
25237520 ATTAATATAACTATTTATAGTACTAAATTCGATAAAATATATACGATTAATATTTTGTATGAATC
196 ATTAACATAACTATTTATAGTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATC
*
25237585 AAATTCATATATTAAC
261 AAATTCATATACTAAC
*
25237601 TATATT-TTTCCAAAAGAATATTAAT-TTCCATGTCATTTATATTTTCACTGAAATTAATTAATA
1 TATATTATTTCCAAAAGAATATTAATGTT-CATGTCATTTATATTTTCACCGAAATTAATTAATA
* *
25237664 TAAGTGTTTATATTAATAAA-TTCGGTAAAATATATA-AATTACTATTTTGTATGAATCAAATTC
65 TAAGTATTTATATTAATAAATTTC-GTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
* * *
25237727 AGATATTAATTATATTCTTTCTAAAATAATATTAATTTTCATGTATTTTATAGTTTGA-CTGGAA
129 AGATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATAGTTTGATC-GAAA
* *
25237791 TTAATTAACATCACTGTTTATAGTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGA
193 TTAATTAACATAACTATTTATAGTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGA
*
25237856 ATCAAATTCATATACTAAT
258 ATCAAATTCATATACTAAC
*
25237875 TATATTCTTTC
1 TATATTATTTC
25237886 TTCTCTATTT
Statistics
Matches: 259, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
273 1 0.00
274 167 0.64
275 85 0.33
276 6 0.02
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (276 bp):
TATATTATTTCCAAAAGAATATTAATGTTCATGTCATTTATATTTTCACCGAAATTAATTAATAT
AAGTATTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAG
ATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATAGTTTGATCGAAATTA
ATTAACATAACTATTTATAGTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATC
AAATTCATATACTAAC
Found at i:25253872 original size:14 final size:15
Alignment explanation
Indices: 25253853--25253884 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25253843 GTGGTTATAG
25253853 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
25253867 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
25253882 TTA
1 TTA
25253885 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:25254199 original size:21 final size:21
Alignment explanation
Indices: 25254160--25254199 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25254150 AATTTAAACA
*
25254160 TTAAAAAATGTTAAGATTATT
1 TTAAAAAATGTGAAGATTATT
* *
25254181 TTAATAAATGTGAATATTA
1 TTAAAAAATGTGAAGATTA
25254200 AACGAGTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TTAAAAAATGTGAAGATTATT
Found at i:25260232 original size:26 final size:26
Alignment explanation
Indices: 25260196--25260247 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25260186 AAAACAAGAA
*
25260196 TGAACCCGTAACAAAGGTTAAGGACC
1 TGAACCAGTAACAAAGGTTAAGGACC
*
25260222 TGAACCAGTAACAAATGTTAAGGACC
1 TGAACCAGTAACAAAGGTTAAGGACC
25260248 CGATTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (26 bp):
TGAACCAGTAACAAAGGTTAAGGACC
Found at i:25289311 original size:24 final size:24
Alignment explanation
Indices: 25289264--25289312 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25289254 TACATTAATA
* *
25289264 AGAGTTTGACTAGGAAAAATAATC
1 AGAGTTTAACTAGGAAAAAAAATC
25289288 AGAGTTTAACTA-GAAGAAAAAATC
1 AGAGTTTAACTAGGAA-AAAAAATC
25289312 A
1 A
25289313 AGAAAATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.22
Consensus pattern (24 bp):
AGAGTTTAACTAGGAAAAAAAATC
Found at i:25290308 original size:86 final size:86
Alignment explanation
Indices: 25290201--25290375 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 86
25290191 ATAATAACAA
25290201 ATTGAAGATTTTTATAAAATTATAATCATAATACTAATTAGAAAATTAGTTAAAATTAATAACAA
1 ATTGAAGATTTTTATAAAATTATAATCATAATACTAATTAGAAAATTAGTTAAAATTAATAACAA
25290266 CATACAAATAGAAAGTGAAGC
66 CATACAAATAGAAAGTGAAGC
*
25290287 ATTGAAGATTTTTATAAAATTATAATCATAATACTAATTAGAAAATTAGTTAAAATTAATAATAA
1 ATTGAAGATTTTTATAAAATTATAATCATAATACTAATTAGAAAATTAGTTAAAATTAATAACAA
25290352 CATACAAATAGAAAGTGAAGC
66 CATACAAATAGAAAGTGAAGC
25290373 ATT
1 ATT
25290376 CATATTAGAC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (86 bp):
ATTGAAGATTTTTATAAAATTATAATCATAATACTAATTAGAAAATTAGTTAAAATTAATAACAA
CATACAAATAGAAAGTGAAGC
Found at i:25290537 original size:16 final size:18
Alignment explanation
Indices: 25290516--25290554 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
25290506 TAGCTCAAAC
*
25290516 TATAAAAACT-TTATT-A
1 TATAAAAAATATTATTGA
25290532 TATAAAAAATATTATTGA
1 TATAAAAAATATTATTGA
25290550 TATAA
1 TATAA
25290555 TTTTNNNNNN
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAAAAAATATTATTGA
Found at i:25290905 original size:24 final size:24
Alignment explanation
Indices: 25290866--25290912 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25290856 TTCTAATAAG
* *
25290866 TAATAACCTCCCTTTGTTGAATGC
1 TAATAACCTCCATTTGTCGAATGC
*
25290890 TAATAACTTCCATTTGTCGAATG
1 TAATAACCTCCATTTGTCGAATG
25290913 TTATTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (24 bp):
TAATAACCTCCATTTGTCGAATGC
Found at i:25292230 original size:56 final size:56
Alignment explanation
Indices: 25292144--25292258 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
25292134 AACTCTATTT
25292144 TGATTTGCTAAATTTCAGATTCTAAGGCCACCAAAGTCTGTTGGCTTACAACGATC
1 TGATTTGCTAAATTTCAGATTCTAAGGCCACCAAAGTCTGTTGGCTTACAACGATC
25292200 TGATTTGCTAAATTTCAGATTCTAAGGCCACCAAAGTCTGTTGGCTTACAACGATC
1 TGATTTGCTAAATTTCAGATTCTAAGGCCACCAAAGTCTGTTGGCTTACAACGATC
25292256 TGA
1 TGA
25292259 CCAATTCAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (56 bp):
TGATTTGCTAAATTTCAGATTCTAAGGCCACCAAAGTCTGTTGGCTTACAACGATC
Found at i:25296461 original size:25 final size:25
Alignment explanation
Indices: 25296433--25296481 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25296423 ATATAGTTTT
*
25296433 TATATTAT-TTATAAATGTTATAATA
1 TATATTATATTAT-AATATTATAATA
25296458 TATATTATATTATAATATTATAAT
1 TATATTATATTATAATATTATAAT
25296482 TAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATATTATATTATAATATTATAATA
Found at i:25296941 original size:41 final size:41
Alignment explanation
Indices: 25296878--25296976 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
25296868 ATATGATTTT
* * * *
25296878 AGCACTAAATGTGAG-AATTAAATGATGAGGTTGAATAACA
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACA
* *
25296918 AGCACTAAGTGTGCGAAATTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACA
*
25296959 GGCACTAAGTGTGCGAAA
1 AGCACTAAGTGTGCGAAA
25296977 CTGAGATTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 13 0.25
41 38 0.75
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACA
Found at i:25300062 original size:44 final size:43
Alignment explanation
Indices: 25299962--25300063 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 43
25299952 GTTAGTTCAT
* * **
25299962 TTAAATATGATTCATATGAATTTGACATGGATAACCATTATAC
1 TTAAACATGATTCATAGGAATTAAACATGGATAACCATTATAC
* * * *
25300005 TTGAGCATAATTCATAGGCAATTAAACATGGATAGCCATTATAC
1 TTAAACATGATTCATAGG-AATTAAACATGGATAACCATTATAC
25300049 TTAAACATGATTCAT
1 TTAAACATGATTCAT
25300064 TTGGATTTGT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
43 13 0.28
44 34 0.72
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (43 bp):
TTAAACATGATTCATAGGAATTAAACATGGATAACCATTATAC
Found at i:25310106 original size:22 final size:21
Alignment explanation
Indices: 25310078--25310135 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
25310068 ATGCAATCGC
* *
25310078 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCATAG
25310099 AAGATATGATTTTGTAATCATAG
1 -AGATATGA-TTTGTAATCATAG
*
25310122 AGATTTGATTTGTA
1 AGATATGATTTGTA
25310136 GATACCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 15 0.47
23 11 0.34
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCATAG
Found at i:25320487 original size:20 final size:20
Alignment explanation
Indices: 25320464--25320503 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25320454 ATGTATGTAT
25320464 ATATAAATA-AGTTGTAAAAA
1 ATATAAATACA-TTGTAAAAA
*
25320484 ATATATATACATTGTAAAAA
1 ATATAAATACATTGTAAAAA
25320504 TGTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (20 bp):
ATATAAATACATTGTAAAAA
Found at i:25320509 original size:21 final size:20
Alignment explanation
Indices: 25320475--25320513 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25320465 TATAAATAAG
25320475 TTGTAAAAAATATATATACA
1 TTGTAAAAAATATATATACA
*
25320495 TTGTAAAAATGTATATATA
1 TTGTAAAAA-ATATATATA
25320514 ATCAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TTGTAAAAAATATATATACA
Found at i:25320564 original size:3 final size:3
Alignment explanation
Indices: 25320550--25320640 Score: 62
Period size: 3 Copynumber: 30.3 Consensus size: 3
25320540 GAATGAGTAG
* * *
25320550 ATA ATT ATA ATA ATA ATA ATA ATA A-A GTA AGTA AGTA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA
* * * * *
25320596 A-A TATA ATA CTA ATA ATA GTA ATA GTA GTA GTA ATA AT- ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25320640 A
1 A
25320641 ATAGAAGGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.06
3 60 0.83
4 8 0.11
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25321159 original size:9 final size:8
Alignment explanation
Indices: 25321120--25321155 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
25321110 ATGCAGCCGC
25321120 AAAAAATA
1 AAAAAATA
25321128 AAAAAATA
1 AAAAAATA
25321136 AAAAAATA
1 AAAAAATA
25321144 AAAGAAATA
1 AAA-AAATA
25321153 AAA
1 AAA
25321156 GAAAGAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:25321443 original size:2 final size:2
Alignment explanation
Indices: 25321438--25321470 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25321428 ATATTCTTAT
25321438 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
25321471 TATATATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25322320 original size:41 final size:41
Alignment explanation
Indices: 25322266--25322366 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
25322256 GTTCCACTGT
* * *
25322266 AACTTCGGGGAGATAAGGTTTGATATGATCTACTCTACTA-C
1 AACTTCAGAGAGATAAGATTTGATATGATCTACTCTAC-AGC
* *
25322307 AACTTCAGAGAGATAAGATTTGATATGATCTGCTCTACAGT
1 AACTTCAGAGAGATAAGATTTGATATGATCTACTCTACAGC
25322348 AACTTCAGAGAGATAAGAT
1 AACTTCAGAGAGATAAGAT
25322367 CTGTGGCTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 53 0.98
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (41 bp):
AACTTCAGAGAGATAAGATTTGATATGATCTACTCTACAGC
Done.