Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397277.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2.0, whole genome shotgun sequence
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: 2651878
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.33
Warning! 95949 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:2350707 original size:21 final size:21
Alignment explanation
Indices: 2350658--2350708 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2350648 AGTTGTTTAA
2350658 AACCATGATTCTCAAATTCTT
1 AACCATGATTCTCAAATTCTT
*
2350679 AACGATGATTCTCAAATTCTT
1 AACCATGATTCTCAAATTCTT
**
2350700 TTCCATGAT
1 AACCATGAT
2350709 GACTTCTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (21 bp):
AACCATGATTCTCAAATTCTT
Found at i:2353236 original size:30 final size:32
Alignment explanation
Indices: 2353170--2353237 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
2353160 AAGTATTCTT
*
2353170 GGTTATA-TCTCCATAGAAAAGGTAGATTTTGA
1 GGTTATACTCTCCATAGAAAAGGTAGA-TTAGA
2353202 --TTATACT-TCCATAGAAAAGGTAG-TTAGA
1 GGTTATACTCTCCATAGAAAAGGTAGATTAGA
2353230 GGTTATAC
1 GGTTATAC
2353238 CTTTAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.12
30 27 0.84
31 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (32 bp):
GGTTATACTCTCCATAGAAAAGGTAGATTAGA
Found at i:2364233 original size:20 final size:19
Alignment explanation
Indices: 2364195--2364243 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
2364185 GTGATAGGTA
*
2364195 AAAAGAATA-TTTTTAAAT
1 AAAATAATATTTTTTAAAT
2364213 AAAATAATATTTTTATAAAT
1 AAAATAATATTTTT-TAAAT
*
2364233 AAAATATTATT
1 AAAATAATATT
2364244 AAAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 8 0.30
19 4 0.15
20 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATAATATTTTTTAAAT
Found at i:2364238 original size:17 final size:17
Alignment explanation
Indices: 2364200--2364259 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
2364190 AGGTAAAAAG
2364200 AATATTTTTAAATAAA-AT
1 AATATTTTT--ATAAATAT
*
2364218 AATATTTTTATAAATAA
1 AATATTTTTATAAATAT
*
2364235 AATATTATTA-AAATATT
1 AATATTTTTATAAATA-T
2364252 AATATTTT
1 AATATTTT
2364260 ATTTATTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.28
17 17 0.47
18 9 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTTTTATAAATAT
Found at i:2365782 original size:15 final size:15
Alignment explanation
Indices: 2365762--2365793 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2365752 GTTATTTTCA
*
2365762 CTGCAATCATATTAC
1 CTGCAATCACATTAC
2365777 CTGCAATCACATTAC
1 CTGCAATCACATTAC
2365792 CT
1 CT
2365794 ATAATTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (15 bp):
CTGCAATCACATTAC
Found at i:2383882 original size:2 final size:2
Alignment explanation
Indices: 2383875--2383903 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2383865 GCTTCACCTC
2383875 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 A
2383904 ATTATTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2389555 original size:19 final size:16
Alignment explanation
Indices: 2389531--2389576 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 16
2389521 ACTCAATTTC
2389531 AAATAATTAATTAAACT
1 AAATAATTAATT-AACT
2389548 AAAAATAATTAATTAACT
1 --AAATAATTAATTAACT
2389566 AAATAATTAAT
1 AAATAATTAAT
2389577 GAAGAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATTAATTAACT
Found at i:2394115 original size:32 final size:32
Alignment explanation
Indices: 2394053--2394116 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2394043 AAAATTACCC
** *
2394053 CTAATGAAACTTTTTCATATTCAAGCGTCGTA
1 CTAATGAAACTTCCTCATATTCAAACGTCGTA
*
2394085 CTAATGAAACTTCCTCATATTCAAATGTCGTA
1 CTAATGAAACTTCCTCATATTCAAACGTCGTA
2394117 TTCTCTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (32 bp):
CTAATGAAACTTCCTCATATTCAAACGTCGTA
Found at i:2395369 original size:3 final size:3
Alignment explanation
Indices: 2395363--2395389 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2395353 TTCTTCTTTT
2395363 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2395390 CTTCACATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2405089 original size:16 final size:16
Alignment explanation
Indices: 2405064--2405094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2405054 TTAGACTCAA
2405064 AATTTACAAATTTTAT
1 AATTTACAAATTTTAT
*
2405080 AATTTTCAAATTTTA
1 AATTTACAAATTTTA
2405095 ATTTCAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTACAAATTTTAT
Found at i:2413900 original size:21 final size:22
Alignment explanation
Indices: 2413859--2413905 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2413849 GTGACTTAAT
*
2413859 CATTATGTGACTGATTTTTAGA
1 CATTATGTGACTGAGTTTTAGA
*
2413881 CATTATGTGACTG-GTTTTAGG
1 CATTATGTGACTGAGTTTTAGA
2413902 CATT
1 CATT
2413906 GCATAACTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (22 bp):
CATTATGTGACTGAGTTTTAGA
Found at i:2413943 original size:22 final size:22
Alignment explanation
Indices: 2413895--2413943 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2413885 ATGTGACTGG
* *
2413895 TTTTAGGCATTGCATAACTAGT
1 TTTTAGGCATTACATAACTAAT
* *
2413917 GTTTAGGCATTACATGACTAAT
1 TTTTAGGCATTACATAACTAAT
2413939 TTTTA
1 TTTTA
2413944 AGCAATGCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (22 bp):
TTTTAGGCATTACATAACTAAT
Found at i:2414016 original size:23 final size:23
Alignment explanation
Indices: 2413955--2414021 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
2413945 GCAATGCTTA
* * * *
2413955 AGTCACACAATGCTTTATTAACT
1 AGTCACGCAATACCTTACTAACT
2413978 AGTCACGCAATACCTTACTAACT
1 AGTCACGCAATACCTTACTAACT
* * *
2414001 AGTCATGTAATTCCTTACTAA
1 AGTCACGCAATACCTTACTAA
2414022 TAAGCCACGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (23 bp):
AGTCACGCAATACCTTACTAACT
Found at i:2414033 original size:23 final size:23
Alignment explanation
Indices: 2413973--2414040 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
2413963 AATGCTTTAT
* *
2413973 TAACTAGTCACGCAATACCTTAC
1 TAACTAGCCACGTAATACCTTAC
* * *
2413996 TAACTAGTCATGTAATTCCTTAC
1 TAACTAGCCACGTAATACCTTAC
*
2414019 TAA-TAAGCCACGTAATGCCTTA
1 TAACT-AGCCACGTAATACCTTA
2414041 TTCACAGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (23 bp):
TAACTAGCCACGTAATACCTTAC
Found at i:2414422 original size:60 final size:60
Alignment explanation
Indices: 2414358--2414470 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
2414348 TGCCAAAATA
* * *
2414358 CTCAAAGGTTTTTCTTCATATATCAAATATC-ACTCCAAAATGCTTAAAATGCTCAAAACG
1 CTCAAAGGTTTTTCTTCATATATCAAA-ACCTACCCCAAAATGCTCAAAATGCTCAAAACG
* *
2414418 CTCAAAGGTTTTTCTTTATGTATCAAAACCTACCCCAAAATGCTCAAAATGCT
1 CTCAAAGGTTTTTCTTCATATATCAAAACCTACCCCAAAATGCTCAAAATGCT
2414471 TAAATATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (60 bp):
CTCAAAGGTTTTTCTTCATATATCAAAACCTACCCCAAAATGCTCAAAATGCTCAAAACG
Found at i:2418105 original size:47 final size:47
Alignment explanation
Indices: 2418019--2418146 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 47
2418009 CCTTTATGTT
* * * * * * *
2418019 ATTAGTCTGGACTAGAATAAAGAATATTAAGAT-TTGTCTTTTATGCA
1 ATTAGTCTAGACCAAAATAAAGAATATT-GGGTGTCGTCTTTTATACA
* * * * *
2418066 ATTAGTTTGGATCAAAATAAAGAATATTGGGTGTCGTCTTTTCTACT
1 ATTAGTCTAGACCAAAATAAAGAATATTGGGTGTCGTCTTTTATACA
2418113 ATTAGTCTAGACCAAAATAAAGAATATTGGGTGT
1 ATTAGTCTAGACCAAAATAAAGAATATTGGGTGT
2418147 TTTGTCTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 2 0.03
47 65 0.97
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (47 bp):
ATTAGTCTAGACCAAAATAAAGAATATTGGGTGTCGTCTTTTATACA
Found at i:2440348 original size:32 final size:32
Alignment explanation
Indices: 2440306--2440376 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2440296 AAAATTTATT
*
2440306 GATACATCCCCAATGTGTCGATACGATGTATC
1 GATACATCCCCAATGTATCGATACGATGTATC
* *
2440338 GATACCTCCCCAATGTATCGATATGATGTATC
1 GATACATCCCCAATGTATCGATACGATGTATC
2440370 GATACAT
1 GATACAT
2440377 TCTTGGTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (32 bp):
GATACATCCCCAATGTATCGATACGATGTATC
Found at i:2443930 original size:30 final size:30
Alignment explanation
Indices: 2443894--2443950 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2443884 ATATGGTTTT
*
2443894 AATGGGATTA-TGATAACTACTCATTATTTG
1 AATGGGA-TAGTGATAACTACCCATTATTTG
*
2443924 AATGGGATAGTGATAATTACCCATTAT
1 AATGGGATAGTGATAACTACCCATTAT
2443951 CTTTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (30 bp):
AATGGGATAGTGATAACTACCCATTATTTG
Found at i:2444943 original size:46 final size:47
Alignment explanation
Indices: 2444776--2444948 Score: 147
Period size: 48 Copynumber: 3.6 Consensus size: 47
2444766 GTGGTTTGTC
* * * *
2444776 TTTTATACTATTAGTCTAGACCAGAAA-AAAAAAATATTGGGCTTTGCCT
1 TTTTATGCTATTAGTTTAGACCA-AAATAAAAAAATATTGGG-TTT-ACA
* * * *
2444825 TTTTATGCTATTAGTTT-GCACCAGAAT-AAACAATATTGGATTGAGCA
1 TTTTATGCTATTAGTTTAG-ACCAAAATAAAAAAATATTGGGTTTA-CA
* * *
2444872 TATTTATGTTATTAGTCTAGGCCAAAATAAAAAAATATTGGGTTTAC-
1 T-TTTATGCTATTAGTTTAGACCAAAATAAAAAAATATTGGGTTTACA
* *
2444919 TTTTATGCAATTTGTTTAGACCAAAATAAA
1 TTTTATGCTATTAGTTTAGACCAAAATAAA
2444949 TGGATATTGG
Statistics
Matches: 98, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
46 24 0.24
47 5 0.05
48 35 0.36
49 34 0.35
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (47 bp):
TTTTATGCTATTAGTTTAGACCAAAATAAAAAAATATTGGGTTTACA
Found at i:2457578 original size:50 final size:50
Alignment explanation
Indices: 2457521--2457620 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
2457511 GCTTTAGTGA
2457521 GTCAAACGGCATCACTAAAAATTCATAATGTCCATAACATGTGCAAAAAG
1 GTCAAACGGCATCACTAAAAATTCATAATGTCCATAACATGTGCAAAAAG
*
2457571 GTCAAACGGCATCACTAAGAATTCATAATGTCCATAACATGTGCAAAAAG
1 GTCAAACGGCATCACTAAAAATTCATAATGTCCATAACATGTGCAAAAAG
2457621 CTATCTTAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (50 bp):
GTCAAACGGCATCACTAAAAATTCATAATGTCCATAACATGTGCAAAAAG
Found at i:2466369 original size:49 final size:48
Alignment explanation
Indices: 2466311--2466441 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 48
2466301 ATCCACGAAT
* *
2466311 GAAGCATACATACTTCACATCATATCATTGTCTGGAA-TCATCTACAGATA
1 GAAG-ATACATAC-TCACATCATATCATTATC-CGAATTCATCTACAGATA
* *
2466361 GAAGATACATGCCTCACATCATATCATTATCCGAATTCATCTACGGATA
1 GAAGATACAT-ACTCACATCATATCATTATCCGAATTCATCTACAGATA
* *
2466410 GAA-AGTACATAACTCATATCATATCATCATCC
1 GAAGA-TACAT-ACTCACATCATATCATTATCC
2466442 AAAATCATTC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
48 4 0.06
49 61 0.87
50 5 0.07
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (48 bp):
GAAGATACATACTCACATCATATCATTATCCGAATTCATCTACAGATA
Found at i:2471119 original size:13 final size:13
Alignment explanation
Indices: 2471101--2471130 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2471091 TCATGAGATG
2471101 TGTATGATATGCA
1 TGTATGATATGCA
*
2471114 TGTATGCTATGCA
1 TGTATGATATGCA
2471127 TGTA
1 TGTA
2471131 AATTTTCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
TGTATGATATGCA
Found at i:2471370 original size:68 final size:68
Alignment explanation
Indices: 2471269--2471414 Score: 166
Period size: 68 Copynumber: 2.1 Consensus size: 68
2471259 TAATGTTGCC
* * * * * * * * * **
2471269 ATGTCTGTGATGTTGTTTCCACGTACTATATGAAATGAGAATGAGCACATGATGTATACTATTTT
1 ATGTATGTGATGTTGATACAACATACCATATGAAATAAAAATGAGCACATGATGGATACTAAGTT
*
2471334 GTA
66 GAA
* *
2471337 ATGTATGTGATGTTGATACAACATACCATATGAAATAAAAATGAGTATATGATGGATACTAAGTT
1 ATGTATGTGATGTTGATACAACATACCATATGAAATAAAAATGAGCACATGATGGATACTAAGTT
2471402 GAA
66 GAA
2471405 ATGTATGTGA
1 ATGTATGTGA
2471415 AGATGATTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (68 bp):
ATGTATGTGATGTTGATACAACATACCATATGAAATAAAAATGAGCACATGATGGATACTAAGTT
GAA
Found at i:2471380 original size:127 final size:127
Alignment explanation
Indices: 2471142--2471380 Score: 273
Period size: 127 Copynumber: 1.9 Consensus size: 127
2471132 ATTTTCCACA
* *
2471142 ATGTATGTGATGTTGTTGTCACATACTTTATGAGATAAGAATGAACACATAATATATACTATGTT
1 ATGTATGTGATGTTGTTGTCACATACTATATGAAATAAGAATGAACACATAATATATACTATGTT
* * * * * * * *
2471207 GCCATGTATGTAATGCTGTTTCCACACACTATATGAGATGACAATGAATGCATAATGTTGCC
66 GCAATGTATGTAATGCTGATACAACACACCATATGAAATAAAAATGAATGCATAATGTTGCC
* * * * * * *
2471269 ATGTCTGTGATGTTGTT-TCCACGTACTATATGAAATGAGAATGAGCACATGATGTATACTATTT
1 ATGTATGTGATGTTGTTGT-CACATACTATATGAAATAAGAATGAACACATAATATATACTATGT
* * * *
2471333 TGTAATGTATGTGATGTTGATACAACATACCATATGAAATAAAAATGA
65 TGCAATGTATGTAATGCTGATACAACACACCATATGAAATAAAAATGA
2471381 GTATATGATG
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
126 1 0.01
127 89 0.99
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (127 bp):
ATGTATGTGATGTTGTTGTCACATACTATATGAAATAAGAATGAACACATAATATATACTATGTT
GCAATGTATGTAATGCTGATACAACACACCATATGAAATAAAAATGAATGCATAATGTTGCC
Found at i:2492688 original size:32 final size:32
Alignment explanation
Indices: 2492647--2492714 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
2492637 TAGTTGACTA
* * *
2492647 AGAGGCTACTGCCAGAAACTGGGTTCAAAGAC
1 AGAGCCTACTGCCAAAAACTAGGTTCAAAGAC
* *
2492679 AGAGCCTACTGTCAAAAACTAGGTTCAAAGAT
1 AGAGCCTACTGCCAAAAACTAGGTTCAAAGAC
2492711 AGAG
1 AGAG
2492715 ATGACTAGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (32 bp):
AGAGCCTACTGCCAAAAACTAGGTTCAAAGAC
Found at i:2503463 original size:13 final size:15
Alignment explanation
Indices: 2503441--2503476 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2503431 TATAAGTATA
2503441 TAATATGTAAAT-TT
1 TAATATGTAAATGTT
2503455 TAATA-GTAAATGTT
1 TAATATGTAAATGTT
2503469 T-ATATGTA
1 TAATATGTA
2503477 TTACTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (15 bp):
TAATATGTAAATGTT
Found at i:2504340 original size:20 final size:19
Alignment explanation
Indices: 2504305--2504353 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
2504295 TAATATATTG
*
2504305 TTTATTAATTTCTAAATAAA
1 TTTATTACTTTCTAAA-AAA
* *
2504325 TTTATTACTTTGTAAAATA
1 TTTATTACTTTCTAAAAAA
*
2504344 TTAATTACTT
1 TTTATTACTT
2504354 ATTTATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTATTACTTTCTAAAAAA
Found at i:2505151 original size:939 final size:933
Alignment explanation
Indices: 2502846--2505568 Score: 3895
Period size: 939 Copynumber: 2.9 Consensus size: 933
2502836 TAGCGCCTCG
* * * * *
2502846 GCCTTGATTTCTTGGCTTCGCGGCGCTGGGTTTTTGCAGTAGCGATGCAGCGCCACTTTTCTAGC
1 GCCTTGATTTCTTGGCGTCGCGGCGCTGGGTTTTGGCAATAGCGCTGCAGCGCCACTTTTCCAGC
* * * * *
2502911 GCTACAACGTTGAGCTCTCGGGAAAATAATGCATTGATTCCTTTCACCAGGACTGAAGCCCTATT
66 GCTGCAACGTTGAGCTCTCGGGAAAATAATGTATTG-TTCCTTTCACTAGGGCTGAAGCCTTATT
* * * *
2502976 TTTAATATATTTGTTAACATTAAAGT-AAGGAAATTGCTTGTCAAGATGGTAAAAAGCCTTAGTT
130 TTTAATATATTTGTTAACATTAAA-TAAAGGAAATTACTTGTCAAGATGGT-AAAGGCCTTGGCT
* ** * * * *
2503040 ATTCTCCTTCCT-CCCTTGGGGTCGAATCACATTAGCCACAAAAT-TTATTTTTTT--TTATTTA
193 ATTCT-ATTTTTATCCTTGGGTTCGAATCACATTAGCGACAAAATCTTTTTTTTTTAATTATTTA
* * * * *
2503101 GATGGGCATTTAATCGGGTTCAGGAAATGGTTATCCAAAAAGTGATACTCGTACCCTACTCGAAA
257 GATGGGTATTTAATCAGGTTCAGGTAACGG-TATCCAAAAAGTGATACTCGTACCCTACCCGAAA
* * * * *
2503166 TCGATTCGGGTAGTGGTTTCACTACCTGAACCCGTTTAT-CATGTACCCTAACCCGGTATAACCA
321 CCGATTCGGGTAGTGGATTCACTACC-GAACCCATTTATCCA-GTACCCTAA-CCAGTATAACCG
*
2503230 AGTTGGGTAAT--C--G----C-------GGGTACCCGTTGACATCCCTATCCGGTTGTAATTTA
383 AGTCGGGTAATCGCGGGTACCCTATAATTGGGTACCCGTTGACATCCCTATCCGGTTGTAATTTA
* *
2503280 ATAAATGAATAATTGTTAATAGAAATAAAACTGTAATATATTTATATTAAACTAAAATCAATTCT
448 ATAAATGAATAATTGTTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTCT
2503345 TTTGTTATTTAATTATAATATATTGTTTATTAATTACTAACTAAATTTATTACTTTGTAAAATAT
513 TTTGTTATTTAATTATAATATATTGTTTATTAATTACTAACTAAATTTATTACTTTGTAAAATAT
* *
2503410 TAATTACTTATTTACAATAAATATAAGTATATAATATGTAAATTTTAATAGTAAATGTTTATATG
578 TAATTACTTATTTATAATAAATATAAGTATATAATATGTAAATTTTAATAGTATATGTTTATATG
* *
2503475 TATTAC---T-TATATACATATATACGAAATTAATGACAAATTTATAAATAAACATATTAACATA
643 TATTACTTATATATATATATATATACGAAATTAATGACAAATTTATAAATAAACAAATTAACATA
*
2503536 TAAGTTATTTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAAAAAGCAAAGGAAAACATATTT
708 TAAGTTATTTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAATAAGCAAAGGAAAACATATTT
*
2503601 ACGTTTTTAAATATTAAAAACTTCAGTATGTATATA-TTTCTTTTTATTAATATCTATTTTTTAT
773 ACGTTTTTAAATATTATAAACTTCAGTATGTATATATTTTC-TTTTATTAATATCTATTTTTTAT
**
2503665 AAACGATTAATAAAATTTATAAAAAAATTTTATAAATTTGTTGGCGTCGCGGTGGGTTTTTGCTA
837 AAA-GATTAATAAAATTTAT-AAAAAATTTTATAAATTTGTTGGCACCGCGGTGGGTTTTTGCTA
*
2503730 TAGTCCAAAGCTTTGGAAAATACCCAACGCCGCA
900 TAGTCCAAAGCTTTGGAAAATACCCAACACCGCA
* * * * * * *
2503764 GCCGTAATTTCTTGGCGCCGCGGCGTTGGGTTTTGGCAATAGCTCTGCAGCGTCACTTTTCCAAC
1 GCCTTGATTTCTTGGCGTCGCGGCGCTGGGTTTTGGCAATAGCGCTGCAGCGCCACTTTTCCAGC
* * * * * * *
2503829 ACTGCAGCGCTAAGCTTTCGGGAAAATAATGTATTGGTTCCTTTCACTAGGGTTGAAGCTTTATT
66 GCTGCAACGTTGAGCTCTCGGGAAAATAATGTATT-GTTCCTTTCACTAGGGCTGAAGCCTTATT
* *
2503894 TTTAATATATTTGTTAACATTAAATAAAGAAAATTACTTGCCAAGATGGTAAAGGCCTTGGCTAT
130 TTTAATATATTTGTTAACATTAAATAAAGGAAATTACTTGTCAAGATGGTAAAGGCCTTGGCTAT
* * ** *
2503959 TCTATTTTCATTCTTGGGTTTAAATCACATTAGCGACAAAATCTTTTTTTTTTAATTATTTATAT
195 TCTATTTTTATCCTTGGGTTCGAATCACATTAGCGACAAAATCTTTTTTTTTTAATTATTTAGAT
* * * * * *
2504024 GAGTATTTAAT-AGGGTTCAAGTAACGGGTATCCAAAAAGTGATACCCATACCCTATCCGAAACT
260 GGGTATTTAATCA-GGTTCAGGTAAC-GGTATCCAAAAAGTGATACTCGTACCCTACCCGAAACC
* * * *
2504088 GATTCGGGTAGTGGCTTCACTACCCGAACCCATTTATCAAGTACCATAACCCGATATAACCGAGT
323 GATTCGGGTAGTGGATTCACTA-CCGAACCCATTTATCCAGTACCCTAACCAG-TATAACCGAGT
* *
2504153 CGAGTAATCGCGGGTACCCTATAATTGGGTACCAGTTGACATCCCTATCCGGTTGTAATTTAATA
386 CGGGTAATCGCGGGTACCCTATAATTGGGTACCCGTTGACATCCCTATCCGGTTGTAATTTAATA
* *
2504218 AATGAATAATTATTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTTTTTT
451 AATGAATAATTGTTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTCTTTT
* *
2504283 GTTATTTAATTATAATATATTGTTTATTAATTTCTAAATAAATTTATTACTTTGTAAAATATTAA
516 GTTATTTAATTATAATATATTGTTTATTAATTACTAACTAAATTTATTACTTTGTAAAATATTAA
* * *
2504348 TTACTTATTTATAATAAATATAAGCATATAATATGTAAATTTTAATAGTATGTATTTATATGTAT
581 TTACTTATTTATAATAAATATAAGTATATAATATGTAAATTTTAATAGTATATGTTTATATGTAT
2504413 TACTTATATATATATATATATACGAAATTAATGACAAATTTATAAATAAACAAATTAACATATAA
646 TACTTATATATATATATATATACGAAATTAATGACAAATTTATAAATAAACAAATTAACATATAA
* * * * *
2504478 GTTATTTTTAATTCAATAAAGTTTTTAAAAATAT-AAAAAATAAGCAAAAGAAAACCTATTTACG
711 GTTATTTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAATAAGCAAAGGAAAACATATTTACG
*
2504542 TTTTTAAATATTATAAACTTCTGTATGTATATATTTTCTTTTATTAATATCTATTTTTTATAAGA
776 TTTTTAAATATTATAAACTTCAGTATGTATATATTTTCTTTTATTAATATCTATTTTTTATAA-A
*
2504607 GATTAATAAAATTTATAAAAAATTTTATTAATTTGTTGGCACCGCGGTGGGTTTTTGCTATAGTC
840 GATTAATAAAATTTATAAAAAATTTTATAAATTTGTTGGCACCGCGGTGGGTTTTTGCTATAGTC
* *
2504672 CAAAGCTTTGGAAAATACCCAGCACCGCT
905 CAAAGCTTTGGAAAATACCCAACACCGCA
* * * *
2504701 GCCTTGATTTCATGGCGTCGCGGTGCTGGGTTTTGGCAATAGCGCTGCAGCACCACTTTTCCAGT
1 GCCTTGATTTCTTGGCGTCGCGGCGCTGGGTTTTGGCAATAGCGCTGCAGCGCCACTTTTCCAGC
*
2504766 GCTGCAACGTTGAGCTCTCAGGAAAATAATGTATTAGTTCCTTTCACTAGGGCTGAAGCCTTATT
66 GCTGCAACGTTGAGCTCTCGGGAAAATAATGTATT-GTTCCTTTCACTAGGGCTGAAGCCTTATT
** ***
2504831 TTTAATATATTCATTAACATTAAATAAAGGAAATT-CTTTGTTTGGATGGTAAAGGCCTTGGCTA
130 TTTAATATATTTGTTAACATTAAATAAAGGAAATTAC-TTGTCAAGATGGTAAAGGCCTTGGCTA
* * *
2504895 TTCTTTTTTTATCCTTGGGTTCGAATCATATCAGCGACAAAATCTGTTTTGTTTTTAATTATTTA
194 TTCTATTTTTATCCTTGGGTTCGAATCACATTAGCGACAAAATCT-TTTT-TTTTTAATTATTTA
*
2504960 GATGGGTATTTAATCAGGTTTAGGTAACGAGTATCCAAAAAGTGATACTCGTACCCTACCCGAAA
257 GATGGGTATTTAATCAGGTTCAGGTAACG-GTATCCAAAAAGTGATACTCGTACCCTACCCGAAA
* * * **
2505025 CCAATTCGAGTAGTGAAACCACTACTCGAACCCATTTATCCAGTACCCTAACCAAGTATAACCGA
321 CCGATTCGGGTAGTGGATTCACTAC-CGAACCCATTTATCCAGTACCCTAACC-AGTATAACCGA
* **
2505090 GTCGGGTAATCGCGGGTACCCTATAATTGGGTACCCGTTGACATCTCTATCCGACTGTAATTTAA
384 GTCGGGTAATCGCGGGTACCCTATAATTGGGTACCCGTTGACATCCCTATCCGGTTGTAATTTAA
*
2505155 TAAATGAATAGTTGTTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTCTT
449 TAAATGAATAATTGTTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTCTT
*
2505220 TTGTTATTTAATTATAATATATTGCTTATTAATTACTAACTAAATTTATTACTTTGTAAAATATT
514 TTGTTATTTAATTATAATATATTGTTTATTAATTACTAACTAAATTTATTACTTTGTAAAATATT
*
2505285 AATTACTTATTTATAATAAATATAAGTATATACTATGTAAATTTTAATAGTATATGTTTATATGT
579 AATTACTTATTTATAATAAATATAAGTATATAATATGTAAATTTTAATAGTATATGTTTATATGT
*
2505350 ATTACTTATATATATATATATATACGAAATTCATGACAAATTTATAAATAAA-AATATTAACATA
644 ATTACTTATATATATATATATATACGAAATTAATGACAAATTTATAAATAAACAA-ATTAACATA
2505414 TAAGTTATTTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAATAAGCAAAGGAAAACATATTT
708 TAAGTTATTTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAATAAGCAAAGGAAAACATATTT
** * * *
2505479 ACGTTTTTAAATATTATAAACTTCAACATGCATATATTTACTTTTATTAATATCTATATTTTATA
773 ACGTTTTTAAATATTATAAACTTCAGTATGTATATATTTTCTTTTATTAATATCTATTTTTTAT-
2505544 AAAGATTAATAAAATTTATAAAAAA
837 AAAGATTAATAAAATTTATAAAAAA
2505569 AATTTTAAAA
Statistics
Matches: 1595, Mismatches: 168, Indels: 62
0.87 0.09 0.03
Matches are distributed among these distances:
916 2 0.00
917 42 0.03
918 158 0.10
919 4 0.00
920 113 0.07
921 5 0.00
922 1 0.00
924 1 0.00
928 1 0.00
935 225 0.14
936 1 0.00
937 275 0.17
938 108 0.07
939 549 0.34
940 108 0.07
941 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (933 bp):
GCCTTGATTTCTTGGCGTCGCGGCGCTGGGTTTTGGCAATAGCGCTGCAGCGCCACTTTTCCAGC
GCTGCAACGTTGAGCTCTCGGGAAAATAATGTATTGTTCCTTTCACTAGGGCTGAAGCCTTATTT
TTAATATATTTGTTAACATTAAATAAAGGAAATTACTTGTCAAGATGGTAAAGGCCTTGGCTATT
CTATTTTTATCCTTGGGTTCGAATCACATTAGCGACAAAATCTTTTTTTTTTAATTATTTAGATG
GGTATTTAATCAGGTTCAGGTAACGGTATCCAAAAAGTGATACTCGTACCCTACCCGAAACCGAT
TCGGGTAGTGGATTCACTACCGAACCCATTTATCCAGTACCCTAACCAGTATAACCGAGTCGGGT
AATCGCGGGTACCCTATAATTGGGTACCCGTTGACATCCCTATCCGGTTGTAATTTAATAAATGA
ATAATTGTTAATAAAAATAAAACTTTAATATATTTATATTAAACTAAAATCAATTCTTTTGTTAT
TTAATTATAATATATTGTTTATTAATTACTAACTAAATTTATTACTTTGTAAAATATTAATTACT
TATTTATAATAAATATAAGTATATAATATGTAAATTTTAATAGTATATGTTTATATGTATTACTT
ATATATATATATATATACGAAATTAATGACAAATTTATAAATAAACAAATTAACATATAAGTTAT
TTTTGATTCAATAAAGTTTTCAAAAATGTAAAAAAATAAGCAAAGGAAAACATATTTACGTTTTT
AAATATTATAAACTTCAGTATGTATATATTTTCTTTTATTAATATCTATTTTTTATAAAGATTAA
TAAAATTTATAAAAAATTTTATAAATTTGTTGGCACCGCGGTGGGTTTTTGCTATAGTCCAAAGC
TTTGGAAAATACCCAACACCGCA
Found at i:2508389 original size:2 final size:2
Alignment explanation
Indices: 2508382--2508467 Score: 73
Period size: 2 Copynumber: 43.0 Consensus size: 2
2508372 TTGTTCTATG
* * * * * * *
2508382 TA TA TA TA CA TA TA TA TA TG TA TA TG TG TA TG TG TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2508424 CA TA CA TA TA TA TA TA CA TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2508466 TA
1 TA
2508468 GTTGCAGCCT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2515284 original size:2 final size:2
Alignment explanation
Indices: 2515277--2515302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2515267 CTTTTTCCCT
2515277 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2515303 AAGTGATTTA
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):
TA
Found at i:2522997 original size:29 final size:29
Alignment explanation
Indices: 2522978--2523079 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
2522968 CTGTTCACAA
* *
2522978 ACAGCTTCTTCTCTTATACCTGTTCATGT
1 ACAGCTTCTTCTCTTATACCTATTCACGT
* *
2523007 ACAGCTTCTTCTCTTGTACCTATTTACGT
1 ACAGCTTCTTCTCTTATACCTATTCACGT
* * *
2523036 ACAGCTTCCTCTCTTGTACCTATTCACGC
1 ACAGCTTCTTCTCTTATACCTATTCACGT
2523065 ACAGC-TCTTCT-TTAT
1 ACAGCTTCTTCTCTTAT
2523080 TAGCTTCTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 3 0.05
28 5 0.08
29 56 0.88
ACGTcount: A:0.18, C:0.30, G:0.10, T:0.42
Consensus pattern (29 bp):
ACAGCTTCTTCTCTTATACCTATTCACGT
Found at i:2523026 original size:58 final size:57
Alignment explanation
Indices: 2522957--2523075 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 57
2522947 TTTTACCTTG
* * * * * *
2522957 TTCTTTTGTACCTGTTCACAAACAGCTTCTTCTCTTATACCTGTTCATGTACAGCTTC
1 TTCTCTTGTACCTATTCACAAACAGCTTCCTCTCTTATACCTATTCACGCACAGC-TC
* ** *
2523015 TTCTCTTGTACCTATTTACGTACAGCTTCCTCTCTTGTACCTATTCACGCACAGCTC
1 TTCTCTTGTACCTATTCACAAACAGCTTCCTCTCTTATACCTATTCACGCACAGCTC
2523072 TTCT
1 TTCT
2523076 TTATTAGCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 6 0.12
58 45 0.88
ACGTcount: A:0.18, C:0.30, G:0.10, T:0.42
Consensus pattern (57 bp):
TTCTCTTGTACCTATTCACAAACAGCTTCCTCTCTTATACCTATTCACGCACAGCTC
Found at i:2530252 original size:26 final size:27
Alignment explanation
Indices: 2530207--2530261 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
2530197 AAGGATGAAA
**
2530207 TAATCTCCTTCATGTCAAGTT-AGAGT
1 TAATCTCCTTCATGAAAAGTTGAGAGT
*
2530233 TAATCTCCTTGATGAAAAGTTGAGAGT
1 TAATCTCCTTCATGAAAAGTTGAGAGT
2530260 TA
1 TA
2530262 TCTTTTGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATCTCCTTCATGAAAAGTTGAGAGT
Found at i:2532053 original size:3 final size:3
Alignment explanation
Indices: 2532010--2532043 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2532000 ATTCTCCCTA
2532010 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2532044 AGAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2534086 original size:20 final size:20
Alignment explanation
Indices: 2534042--2534085 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2534032 TTTTTCAATT
2534042 AAAAATACATATAATAATAA
1 AAAAATACATATAATAATAA
*
2534062 TAAAATAACA-ATAA-AATAA
1 AAAAAT-ACATATAATAATAA
2534081 AAAAA
1 AAAAA
2534086 AGATGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 9 0.43
20 9 0.43
21 3 0.14
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAATACATATAATAATAA
Found at i:2534315 original size:24 final size:24
Alignment explanation
Indices: 2534264--2534317 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
2534254 ATTATAAACT
**
2534264 TAAAAAGGCTCGCGACATGTCATG
1 TAAAAAGGCTCGCGACATGTCACC
2534288 TAAAAAGGCTCGCGACACT-TCACC
1 TAAAAAGGCTCGCGACA-TGTCACC
2534312 TAAAAA
1 TAAAAA
2534318 AGAGGCTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (24 bp):
TAAAAAGGCTCGCGACATGTCACC
Found at i:2535941 original size:29 final size:29
Alignment explanation
Indices: 2535901--2535996 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
2535891 TTTTACCTTG
* **
2535901 TTCTCTTGTACCTGTTCACATACAGCTTC
1 TTCTCTTGTACCTATTCATGTACAGCTTC
* *
2535930 TTCTCTTATACCTATTCATGTACAGCTTT
1 TTCTCTTGTACCTATTCATGTACAGCTTC
*
2535959 TTCTCTTGTACCTATTTATGTACAGCTTC
1 TTCTCTTGTACCTATTCATGTACAGCTTC
*
2535988 CTCTCTTGT
1 TTCTCTTGT
2535997 GTCTGTTCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.17, C:0.27, G:0.09, T:0.47
Consensus pattern (29 bp):
TTCTCTTGTACCTATTCATGTACAGCTTC
Found at i:2542563 original size:15 final size:16
Alignment explanation
Indices: 2542538--2542570 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2542528 CCAGTGGATG
2542538 ATGCAATTTGCTTTTA
1 ATGCAATTTGCTTTTA
2542554 ATGC-ATTTGCTTTTA
1 ATGCAATTTGCTTTTA
2542569 AT
1 AT
2542571 TTAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (16 bp):
ATGCAATTTGCTTTTA
Found at i:2553520 original size:35 final size:35
Alignment explanation
Indices: 2553474--2553626 Score: 252
Period size: 35 Copynumber: 4.4 Consensus size: 35
2553464 TTGATCCCGG
*
2553474 GAAAAACCATTGTTGAAGGTTGTGGCTGAGCCTTT
1 GAAAAGCCATTGTTGAAGGTTGTGGCTGAGCCTTT
*
2553509 GAAAAGCCATTGTTGAAGGTTGTGGTTGAGCCTTT
1 GAAAAGCCATTGTTGAAGGTTGTGGCTGAGCCTTT
*
2553544 GAAAAACCATTGTTGAAGGTTGTGGCTGAGCCTTT
1 GAAAAGCCATTGTTGAAGGTTGTGGCTGAGCCTTT
* *
2553579 GAAAAGCCATTGTTGAAGGTTATGGCTGAGCCTAT
1 GAAAAGCCATTGTTGAAGGTTGTGGCTGAGCCTTT
*
2553614 GAAAAGCTATTGT
1 GAAAAGCCATTGT
2553627 AAAAGCTTGG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 110 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (35 bp):
GAAAAGCCATTGTTGAAGGTTGTGGCTGAGCCTTT
Found at i:2558198 original size:8 final size:8
Alignment explanation
Indices: 2558168--2558200 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2558158 TTATTTATCT
*
2558168 TTATTTTG
1 TTATTTTA
2558176 TTATTTTA
1 TTATTTTA
2558184 TTA-TTTA
1 TTATTTTA
2558191 TTATTTTA
1 TTATTTTA
2558199 TT
1 TT
2558201 CTCATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:2558483 original size:15 final size:15
Alignment explanation
Indices: 2558463--2558518 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
2558453 TTTACAATGC
*
2558463 AATGTGATTACAAGT
1 AATGTGATTGCAAGT
2558478 AATGTGATTGCAAGT
1 AATGTGATTGCAAGT
* *
2558493 AATGTAATTGCAAGC
1 AATGTGATTGCAAGT
2558508 AAT-TGATTGCA
1 AATGTGATTGCA
2558519 GAGAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 7 0.19
15 30 0.81
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (15 bp):
AATGTGATTGCAAGT
Found at i:2558701 original size:28 final size:28
Alignment explanation
Indices: 2558670--2558816 Score: 128
Period size: 26 Copynumber: 5.4 Consensus size: 28
2558660 ACAAGTTTAA
*
2558670 TATATTTATATTTTTTATTATTAATTTT
1 TATATATATATTTTTTATTATTAATTTT
* * *
2558698 TATATAATATCATCTCTTAATA-T-ATTTT
1 TATAT-ATAT-ATTTTTTATTATTAATTTT
* * *
2558726 TA-ATATCATATATTTTATT-TTCATTTA
1 TATATAT-ATATTTTTTATTATTAATTTT
* *
2558753 TATATATATATTATATA-T-TTAATTTT
1 TATATATATATTTTTTATTATTAATTTT
*
2558779 AATATATATATTTTTTATTATTAATTTT
1 TATATATATATTTTTTATTATTAATTTT
2558807 TATATA-ATAT
1 TATATATATAT
2558817 CATCTGATAA
Statistics
Matches: 94, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
26 31 0.33
27 22 0.23
28 29 0.31
29 4 0.04
30 8 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (28 bp):
TATATATATATTTTTTATTATTAATTTT
Found at i:2558770 original size:32 final size:32
Alignment explanation
Indices: 2558714--2558789 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
2558704 ATATCATCTC
* * *
2558714 TTAATATATTTTTA-ATATCATATATTTTATT
1 TTAATATATATATATATATCATATATTTAATT
* * *
2558745 TTCATTTATATATATATATTATATATTTAATT
1 TTAATATATATATATATATCATATATTTAATT
2558777 TTAATATATATAT
1 TTAATATATATAT
2558790 TTTTTATTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 10 0.28
32 26 0.72
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
TTAATATATATATATATATCATATATTTAATT
Found at i:2558802 original size:22 final size:22
Alignment explanation
Indices: 2558758--2558812 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
2558748 ATTTATATAT
2558758 ATATATTATATATTTAATTTTA
1 ATATATTATATATTTAATTTTA
* *
2558780 ATATA-TATATTTTTTATTATTA
1 ATATATTATATATTTAATT-TTA
*
2558802 AT-TTTTATATA
1 ATATATTATATA
2558813 ATATCATCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATTATATATTTAATTTTA
Found at i:2558808 original size:13 final size:14
Alignment explanation
Indices: 2558763--2558812 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
2558753 TATATATATA
2558763 TTATATATTTAATTT
1 TTATATA-TTAATTT
* *
2558778 TAATATATATATTTT
1 TTATATAT-TAATTT
2558793 TTAT-TATTAATTT
1 TTATATATTAATTT
2558806 TTATATA
1 TTATATA
2558813 ATATCATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 9 0.31
14 6 0.21
15 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATATATTAATTT
Found at i:2558853 original size:110 final size:111
Alignment explanation
Indices: 2558665--2558889 Score: 348
Period size: 109 Copynumber: 2.0 Consensus size: 111
2558655 AAAATACAAG
* *
2558665 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAATATATTTTTAAT
1 TTTAATATA-TTATATTTTTTATTATTAATTTTTATATAATATCATCTATAAATATATTTTTAAT
*
2558730 ATCATATATTTTATTTTCATTTA-TA-TATATATATTATATATTTAAT
65 ATCATATATTTTATTCTCATTTATTATTATA-ATATTATATATTTAAT
2558776 TTTAATATA-TATATTTTTTATTATTAATTTTTATATAATATCATCTGATAAATATATTTTTAAT
1 TTTAATATATTATATTTTTTATTATTAATTTTTATATAATATCATCT-ATAAATATATTTTTAAT
* * *
2558840 GTCATATATTTTATTCTCATTTATTATTATAATTTTATATATTTTAT
65 ATCATATATTTTATTCTCATTTATTATTATAATATTATATATTTAAT
2558887 TTT
1 TTT
2558890 TATTTTTTAA
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
109 37 0.35
110 36 0.34
111 28 0.27
112 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (111 bp):
TTTAATATATTATATTTTTTATTATTAATTTTTATATAATATCATCTATAAATATATTTTTAATA
TCATATATTTTATTCTCATTTATTATTATAATATTATATATTTAAT
Found at i:2558879 original size:109 final size:110
Alignment explanation
Indices: 2558665--2558889 Score: 346
Period size: 110 Copynumber: 2.0 Consensus size: 110
2558655 AAAATACAAG
* *
2558665 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATCTCTTAATATATTTTTAAT
1 TTTAATATA-TTATATTTTTTATTATTAATTTTTATATAATATCATCTATAAATATATTTTTAAT
*
2558730 ATCATATATTTTATTTTCATTTATATATATATATTATATATTTAAT
65 ATCATATATTTTATTCTCATTTATATATATATATTATATATTTAAT
2558776 TTTAATATA-TATATTTTTTATTATTAATTTTTATATAATATCATCTGATAAATATATTTTTAAT
1 TTTAATATATTATATTTTTTATTATTAATTTTTATATAATATCATCT-ATAAATATATTTTTAAT
* * *
2558840 GTCATATATTTTATTCTCATTTAT-TATTATAATTTTATATATTTTAT
65 ATCATATATTTTATTCTCATTTATATA-TAT-ATATTATATATTTAAT
2558887 TTT
1 TTT
2558890 TATTTTTTAA
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
109 39 0.37
110 40 0.38
111 26 0.25
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (110 bp):
TTTAATATATTATATTTTTTATTATTAATTTTTATATAATATCATCTATAAATATATTTTTAATA
TCATATATTTTATTCTCATTTATATATATATATTATATATTTAAT
Found at i:2558880 original size:10 final size:9
Alignment explanation
Indices: 2558861--2558973 Score: 51
Period size: 7 Copynumber: 13.9 Consensus size: 9
2558851 TATTCTCATT
2558861 TATTATTATA
1 TATT-TTATA
2558871 -ATTTTATA
1 TATTTTATA
2558879 TA-TTT-TA
1 TATTTTATA
2558886 T-TTTTAT-
1 TATTTTATA
2558893 T-TTTTAATA
1 TATTTT-ATA
2558902 TATTTT-T-
1 TATTTTATA
2558909 TA--TTATA
1 TATTTTATA
2558916 TA-TTT-TA
1 TATTTTATA
*
2558923 T-TTTAATA
1 TATTTTATA
2558931 TATTTTACCTA
1 TATTTTA--TA
*
2558942 TATTATATA
1 TATTTTATA
*
2558951 AATTTTA-A
1 TATTTTATA
2558959 T-TTTT-TA
1 TATTTTATA
2558966 TATTTTAT
1 TATTTTAT
2558974 TTTATTTTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 35
0.66 0.05 0.29
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 26 0.32
8 22 0.28
9 17 0.21
10 4 0.05
11 8 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTTATA
Found at i:2558885 original size:23 final size:23
Alignment explanation
Indices: 2558859--2558923 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
2558849 TTTATTCTCA
2558859 TTTATTATTATAATTTTATATAT
1 TTTATTATTATAATTTTATATAT
* *
2558882 TTTATTTTTAT-TTTTTAATATAT
1 TTTATTATTATAATTTT-ATATAT
2558905 TTT-TTATTATATATTTTAT
1 TTTATTATTATA-ATTTTAT
2558924 TTTAATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 10 0.29
23 21 0.60
24 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATTATAATTTTATATAT
Found at i:2558933 original size:15 final size:15
Alignment explanation
Indices: 2558894--2559032 Score: 80
Period size: 15 Copynumber: 9.5 Consensus size: 15
2558884 TATTTTTATT
2558894 TTTTAATATATTTT-
1 TTTTAATATATTTTA
2558908 TTATT-ATATATTTTA
1 TT-TTAATATATTTTA
2558923 TTTTAATATATTTTA
1 TTTTAATATATTTTA
* * * **
2558938 CCTATATTATA-TAAA
1 -TTTTAATATATTTTA
2558953 TTTTAAT-T-TTTTA
1 TTTTAATATATTTTA
*
2558966 TATT--T-TATTTTA
1 TTTTAATATATTTTA
*
2558978 TTTTAATTTTTGATTCTTA
1 TTTTAA--TAT-ATT-TTA
*
2558997 TATT-ATATATTTTA
1 TTTTAATATATTTTA
*
2559011 TTTTAATATTTTTTA
1 TTTTAATATATTTTA
2559026 TTTTAAT
1 TTTTAAT
2559033 TATAACAGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 27
0.69 0.12 0.20
Matches are distributed among these distances:
11 2 0.02
12 8 0.08
13 6 0.06
14 23 0.24
15 35 0.37
16 10 0.11
17 1 0.01
18 4 0.04
19 6 0.06
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (15 bp):
TTTTAATATATTTTA
Found at i:2558967 original size:24 final size:25
Alignment explanation
Indices: 2558940--2559014 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
2558930 ATATTTTACC
2558940 TATATTATA-TAAATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
* **
2558964 TATATTTTATTTTATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
* *
2558989 GATTCTTATATTATATATTTT-ATTTT
1 TA-TATTATATTA-A-ATTTTAATTTT
2559015 AATATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.36
26 7 0.18
27 5 0.13
28 5 0.13
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (25 bp):
TATATTATATTAAATTTTAATTTTT
Found at i:2560651 original size:13 final size:13
Alignment explanation
Indices: 2560633--2560658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2560623 ATTTAGTTAT
2560633 AAAAAATAAAATA
1 AAAAAATAAAATA
2560646 AAAAAATAAAATA
1 AAAAAATAAAATA
2560659 GGTTTAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:2567724 original size:73 final size:73
Alignment explanation
Indices: 2567637--2567820 Score: 208
Period size: 73 Copynumber: 2.5 Consensus size: 73
2567627 AGACATACGA
* * ** *
2567637 CTCTTAGTCAACTAACATTGCTACTTAGTCGATTAAGTTGTTTCTGTCTCTGAACCCAATTTTTG
1 CTCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTCATTTCTGTCTCTGAACCCAATTTCTG
** *
2567702 GCGGTGAG
66 GCAATAAG
* * * * *
2567710 CTCTTAGTCGACTAACAATGCTTCTTAGTCGATTTAGTCATTTTTGTCTTTGAACCCAGTTTCTG
1 CTCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTCATTTCTGTCTCTGAACCCAATTTCTG
2567775 GCAATAAG
66 GCAATAAG
* * *
2567783 CTCTTAGTCGACTAATAATGTCT-CTTGGTCGACTAAGT
1 CTCTTAGTCGACTAACAATG-CTACTTAGTCGATTAAGT
2567821 GTTCTCTCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 91 0.98
74 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (73 bp):
CTCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTCATTTCTGTCTCTGAACCCAATTTCTG
GCAATAAG
Found at i:2572790 original size:71 final size:71
Alignment explanation
Indices: 2572682--2572933 Score: 318
Period size: 71 Copynumber: 3.6 Consensus size: 71
2572672 TAATTGTTAA
2572682 TTAATCAATTAGGCCTAAT-ACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
2572746 AAAAAT
66 AAAAAT
* *
2572752 TTAATTAATTAGGCCTAATAACTTAATTAAACAATTTAATCAAGTAGGCCCAATAACTTGATTAA
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
*
2572817 ACAAAT
66 AAAAAT
* **** * * * *
2572823 TTAATCAATCAGGCCTAATAACTTAATTGTTTAATTTAATTAATTAGGCTCC-ATGACTTAACT-
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCAATTAGGC-CCAATAACTTGATTA
*
2572886 AAACAAT
65 AAAAAAT
*
2572893 TTAATGAATTAGG-C--ATAACTTAATTAAACAATTTTAATCAA
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAA-TTTAATCAA
2572934 GTGCTNNNNN
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
67 13 0.08
68 8 0.05
69 1 0.01
70 34 0.22
71 98 0.63
72 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (71 bp):
TTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTGATTAA
AAAAAT
Found at i:2572800 original size:35 final size:35
Alignment explanation
Indices: 2572682--2572933 Score: 280
Period size: 35 Copynumber: 7.2 Consensus size: 35
2572672 TAATTGTTAA
2572682 TTAATCAATTAGGCCTAAT-ACTTAATTAAACAAT
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAAT
* * *
2572716 TTAATCAATTAGGCCCAATAACTTGATTAAAAAAAT
1 TTAATCAATTAGGCCTAATAACTTAATT-AAACAAT
*
2572752 TTAATTAATTAGGCCTAATAACTTAATTAAACAAT
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAAT
* * *
2572787 TTAATCAAGTAGGCCCAATAACTTGATTAAACAAAT
1 TTAATCAATTAGGCCTAATAACTTAATTAAAC-AAT
* ****
2572823 TTAATCAATCAGGCCTAATAACTTAATTGTTTAAT
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAAT
* * * *
2572858 TTAATTAATTAGG-CTCCATGACTTAACTAAACAAT
1 TTAATCAATTAGGCCT-AATAACTTAATTAAACAAT
*
2572893 TTAATGAATTAGG-C--ATAACTTAATTAAACAATT
1 TTAATCAATTAGGCCTAATAACTTAATTAAACAA-T
2572926 TTAATCAA
1 TTAATCAA
2572934 GTGCTNNNNN
Statistics
Matches: 181, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
32 15 0.08
33 8 0.04
34 20 0.11
35 80 0.44
36 58 0.32
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (35 bp):
TTAATCAATTAGGCCTAATAACTTAATTAAACAAT
Found at i:2575510 original size:12 final size:12
Alignment explanation
Indices: 2575493--2575527 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2575483 AATATATTAA
*
2575493 AATAAAATATAT
1 AATAAAAAATAT
2575505 AATAAAAAATAT
1 AATAAAAAATAT
*
2575517 ATTAAAAAATA
1 AATAAAAAATA
2575528 ANNNNNNNNN
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAAAAATAT
Found at i:2575964 original size:15 final size:15
Alignment explanation
Indices: 2575932--2575987 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
2575922 TTATTTTCTC
*
2575932 TGCAATCA-ATTGCT
1 TGCAATCACATTACT
*
2575946 TGCAATTACATTACT
1 TGCAATCACATTACT
2575961 TGCAATCACATTACT
1 TGCAATCACATTACT
*
2575976 TGTAATCACATT
1 TGCAATCACATT
2575988 GCATTGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 7 0.19
15 30 0.81
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:2576266 original size:8 final size:8
Alignment explanation
Indices: 2576255--2576288 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
2576245 TAAAAATGAG
2576255 AATAAAAT
1 AATAAAAT
2576263 AATAAAAT
1 AATAAAAT
2576271 AATAAAAT
1 AATAAAAT
*
2576279 AACAAAAT
1 AATAAAAT
2576287 AA
1 AA
2576289 AGATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
AATAAAAT
Found at i:2576274 original size:16 final size:16
Alignment explanation
Indices: 2576255--2576302 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2576245 TAAAAATGAG
*
2576255 AATAAAATAATAAAAT
1 AATAAAATAACAAAAT
2576271 AATAAAATAACAAAAT
1 AATAAAATAACAAAAT
*
2576287 AAAGATAAATAACAAA
1 -AATA-AAATAACAAA
2576303 CACAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.54
17 3 0.11
18 10 0.36
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (16 bp):
AATAAAATAACAAAAT
Found at i:2576312 original size:18 final size:18
Alignment explanation
Indices: 2576275--2576312 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2576265 TAAAATAATA
*
2576275 AAATAACAAAATAAAGAT
1 AAATAACAAAACAAAGAT
2576293 AAATAACAAACACAAA-AT
1 AAATAACAAA-ACAAAGAT
2576311 AA
1 AA
2576313 TACAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (18 bp):
AAATAACAAAACAAAGAT
Found at i:2585193 original size:7 final size:7
Alignment explanation
Indices: 2585181--2585209 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2585171 AGAACAAGAA
2585181 AATAAAG
1 AATAAAG
2585188 AATAAAG
1 AATAAAG
2585195 AATAAAG
1 AATAAAG
2585202 AA-AAAG
1 AATAAAG
2585208 AA
1 AA
2585210 ATAGCTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (7 bp):
AATAAAG
Found at i:2585212 original size:14 final size:14
Alignment explanation
Indices: 2585170--2585212 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
2585160 AGAAACCAAG
*
2585170 AAGAACAAGAAAATA
1 AAGAAAAAG-AAATA
2585185 AAGAATAAAG-AATA
1 AAGAA-AAAGAAATA
2585199 AAGAAAAAGAAATA
1 AAGAAAAAGAAATA
2585213 GCTTAGTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 5 0.20
16 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.09
Consensus pattern (14 bp):
AAGAAAAAGAAATA
Found at i:2585520 original size:15 final size:16
Alignment explanation
Indices: 2585500--2585540 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
2585490 ACCAGTATCT
2585500 AAAAACCACAAAAGA-
1 AAAAACCACAAAAGAG
*
2585515 AAAAACCA-AAAATAG
1 AAAAACCACAAAAGAG
*
2585530 GAAAACCACAA
1 AAAAACCACAA
2585541 CCAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 15 0.68
16 2 0.09
ACGTcount: A:0.71, C:0.20, G:0.07, T:0.02
Consensus pattern (16 bp):
AAAAACCACAAAAGAG
Found at i:2603681 original size:136 final size:135
Alignment explanation
Indices: 2603438--2603681 Score: 316
Period size: 136 Copynumber: 1.8 Consensus size: 135
2603428 ATTGAACTTG
* * * * *
2603438 TTGTGAGATTGGTCGAGCCTAGATCAAGTCTAGGAATTTTATTTTTAAAATCAAACCTGCTTTGA
1 TTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTAATTATTAAAATCAAACCTGCTTTGA
* * * *
2603503 GATAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAACAAAAAAAATAAATCAT
66 GAAAGGTTAAGCCTAAGTCAAGCTAAGGAATCTTAATTTTTCATTAAACAAAAAAAATAAATCAT
2603568 ACCTA
131 ACCTA
**
2603573 TTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTCAATTATTAAAATTGAACCTG-TTGT
1 TTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTT-AATTATTAAAATCAAACCTGCTT-T
2603637 GAGAAAGGTTGAA-CCTAAGTCAAGTCTAAGG-A-CTTCAATTTTTCA
64 GAGAAAGGTT-AAGCCTAAGTCAAG-CTAAGGAATCTT-AATTTTTCA
2603682 AATCGAACCT
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
135 41 0.44
136 45 0.48
137 7 0.08
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (135 bp):
TTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTAATTATTAAAATCAAACCTGCTTTGA
GAAAGGTTAAGCCTAAGTCAAGCTAAGGAATCTTAATTTTTCATTAAACAAAAAAAATAAATCAT
ACCTA
Found at i:2603719 original size:60 final size:60
Alignment explanation
Indices: 2603596--2603741 Score: 149
Period size: 60 Copynumber: 2.4 Consensus size: 60
2603586 CAAGCCCAGA
* * * *
2603596 TCAAGTCTAGGAATTTCAATTATTAAAATTGAACCTGTTGTGAGAAAGGTTGAACCTAAG
1 TCAAGTCTAGGAACTTCAATTTTTCAAATCGAACCTGTTGTGAGAAAGGTTGAACCTAAG
* * *
2603656 TCAAGTCTAAGG-ACTTCAATTTTTCAAATCGAACCTGCTT-TGAGAGAGGTT-AAGTCTAGG
1 TCAAGTCT-AGGAACTTCAATTTTTCAAATCGAACCTG-TTGTGAGAAAGGTTGAA-CCTAAG
2603716 TCAAG-CTTAGGAATCTT-AATTTTTCA
1 TCAAGTC-TAGGAA-CTTCAATTTTTCA
2603742 TTAAACAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
59 6 0.08
60 59 0.81
61 8 0.11
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (60 bp):
TCAAGTCTAGGAACTTCAATTTTTCAAATCGAACCTGTTGTGAGAAAGGTTGAACCTAAG
Found at i:2603756 original size:196 final size:194
Alignment explanation
Indices: 2603423--2603849 Score: 694
Period size: 196 Copynumber: 2.2 Consensus size: 194
2603413 ATTAGAAAAT
* * * **
2603423 TTAAAATTGAACTTGTTGTGAGATTGGTCGAGCCTAGATCAAGTCTAGGAATTTTATTTTTAAAA
1 TTAAAATTGAACCTGTTGTGAGATAGGTCGAACCTAGATCAAGTCTAGGAATTCAATTTTTAAAA
*
2603488 TCAAACCTGCTTTGAGATAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAACA
66 TCAAACCTGCTTTGAGAGAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAACA
2603553 AAAAAAATAAATCATACCTATTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTCAATTA
131 AAAAAAATAAATCATACCTATTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTC-ATTA
* * * *
2603618 TTAAAATTGAACCTGTTGTGAGAAAGGTTGAACCTA-AGTCAAGTCTAAGGACTTCAATTTTTCA
1 TTAAAATTGAACCTGTTGTGAGATAGGTCGAACCTAGA-TCAAGTCT-AGGAATTCAATTTTTAA
*
2603682 AATCGAACCTGCTTTGAGAGAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAA
64 AATCAAACCTGCTTTGAGAGAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAA
2603747 CAAAAAAAATAAATCATACCTATTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTCATT
129 CAAAAAAAATAAATCATACCTATTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTCATT
*
2603812 T
194 A
* *
2603813 TTAAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAG
1 TTAAAATTGAACCTGTTGTGAGATAGGTCGAACCTAG
2603850 GTCTATAACG
Statistics
Matches: 213, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
194 1 0.00
195 74 0.35
196 138 0.65
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (194 bp):
TTAAAATTGAACCTGTTGTGAGATAGGTCGAACCTAGATCAAGTCTAGGAATTCAATTTTTAAAA
TCAAACCTGCTTTGAGAGAGGTTAAGTCTAGGTCAAGCTTAGGAATCTTAATTTTTCATTAAACA
AAAAAAATAAATCATACCTATTGTGAGATAGGTCAAGCCCAGATCAAGTCTAGGAATTTCATTA
Found at i:2608630 original size:74 final size:74
Alignment explanation
Indices: 2608508--2608682 Score: 262
Period size: 74 Copynumber: 2.4 Consensus size: 74
2608498 AAATAGTGTG
* *
2608508 CTCTTAGTTGACTAACTATACTTCTTAGTCGATTAAGTATTCTCTGTCTTGTAATTGAATTCTCT
1 CTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTATTCTCTGTCTTGTAATTGAAGTCTCT
2608573 AGCAGTGAA
66 AGCAGTGAA
* *
2608582 CTCTTAGTTGACTCACTATGCTTCTTAGTCGATTAAGT-TCTCTTTGTCTTGTAATTGAAGTCTC
1 CTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTAT-TCTCTGTCTTGTAATTGAAGTCTC
* *
2608646 TTGCAGTGAG
65 TAGCAGTGAA
* *
2608656 CTCTTAGTTGACTAACCATGATTCTTA
1 CTCTTAGTTGACTAACTATGCTTCTTA
2608683 ACTGACTATG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 1 0.01
74 90 0.99
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (74 bp):
CTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTATTCTCTGTCTTGTAATTGAAGTCTCT
AGCAGTGAA
Found at i:2614235 original size:36 final size:36
Alignment explanation
Indices: 2614181--2614253 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
2614171 ATTAAGTTGT
*
2614181 GCCTAATTGATTAAATTTGTTTAATCAAGTTATTGG
1 GCCTAATTCATTAAATTTGTTTAATCAAGTTATTGG
* *
2614217 GCCTAATTCATTAGATTTGTTTAATCGAGTTATTGG
1 GCCTAATTCATTAAATTTGTTTAATCAAGTTATTGG
2614253 G
1 G
2614254 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (36 bp):
GCCTAATTCATTAAATTTGTTTAATCAAGTTATTGG
Found at i:2614336 original size:35 final size:35
Alignment explanation
Indices: 2614265--2614340 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
2614255 NNNNNNNNNC
* *
2614265 AAATTGTTTAATTAAGTTATTAGGCCAAATTAATT
1 AAATTATTTAATTAAGTTATGAGGCCAAATTAATT
* ** *
2614300 AAATTATTTAATTAAGTTATGGGGCTTAATTGATT
1 AAATTATTTAATTAAGTTATGAGGCCAAATTAATT
2614335 AAATTA
1 AAATTA
2614341 AACAATTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTATTTAATTAAGTTATGAGGCCAAATTAATT
Found at i:2622457 original size:24 final size:23
Alignment explanation
Indices: 2622437--2622483 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
2622427 TACAAAAATA
2622437 TGTTACACACCATAATTAAAACAGGT
1 TGTTACACACCAT-ATTAAAA-A-GT
*
2622463 TGTTACACACCATGTTAAAAA
1 TGTTACACACCATATTAAAAA
2622484 AAAATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.05
25 6 0.30
26 13 0.65
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (23 bp):
TGTTACACACCATATTAAAAAGT
Found at i:2622522 original size:79 final size:81
Alignment explanation
Indices: 2622384--2622600 Score: 244
Period size: 81 Copynumber: 2.7 Consensus size: 81
2622374 ACATATAATA
* * * * *
2622384 TTACACACTATGTTGAAAAAAAATATTGTTGTTATACATTATGTACAAAAATATGTTACACACCA
1 TTACACACCATGTTGAAAAAAAA-ATTATTGTTACACGTTATGTACAAAAATATATTACACACCA
* *
2622449 TAATTAAAA-CAGGTTG
65 TAATTAAAAGAAGATTG
* *
2622465 TTACACACCATGTT-AAAAAAAAATTATTATTACACGTTATGTAC-AAAATCATATTACACTCCA
1 TTACACACCATGTTGAAAAAAAAATTATTGTTACACGTTATGTACAAAAAT-ATATTACACACCA
*
2622528 TAGTTAAAAGAAGATTG
65 TAATTAAAAGAAGATTG
* ** * **
2622545 TCACACGTCATGTTGAAAAAAATATTATTGTTACACGTTATGTTGAAAAA-ATATTA
1 TTACACACCATGTTGAAAAAAAAATTATTGTTACACGTTATGTACAAAAATATATTA
2622601 TTATACATAC
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 5 0.04
79 37 0.32
80 30 0.26
81 39 0.34
82 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (81 bp):
TTACACACCATGTTGAAAAAAAAATTATTGTTACACGTTATGTACAAAAATATATTACACACCAT
AATTAAAAGAAGATTG
Found at i:2622581 original size:30 final size:29
Alignment explanation
Indices: 2622541--2622602 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
2622531 TTAAAAGAAG
2622541 ATTGTCACACGTCATGTTGAAAAAAATATT
1 ATTGTCACACGTCATGTTG-AAAAAATATT
* *
2622571 ATTGTTACACGTTATGTTGAAAAAATATT
1 ATTGTCACACGTCATGTTGAAAAAATATT
2622600 ATT
1 ATT
2622603 ATACATACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
ATTGTCACACGTCATGTTGAAAAAATATT
Found at i:2633975 original size:4 final size:4
Alignment explanation
Indices: 2633966--2633992 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2633956 AGCATTTGGT
2633966 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
2633993 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2635258 original size:68 final size:68
Alignment explanation
Indices: 2635126--2635292 Score: 181
Period size: 68 Copynumber: 2.5 Consensus size: 68
2635116 ATCTTATAAT
* * * ** * *
2635126 GTATATGAAAAAAACATCATATACATAATCTCATGGCATTCATGATGCATTCTCAATAATCTCAT
1 GTATATGAAATATACATCATATACATAATCTCATGGCATTCATAACACATACTCAATAACCTCAT
*
2635191 GTA
66 ATA
* * * * *
2635194 GTATATGGAATATACATCATATACATAATCTCATGGTATTTATAACACATACTTAATCACCTCAT
1 GTATATGAAATATACATCATATACATAATCTCATGGCATTCATAACACATACTCAATAACCTCAT
*
2635259 ATG
66 ATA
* * *
2635262 GTATATGAAATTTACATTATATACACAATCT
1 GTATATGAAATATACATCATATACATAATCT
2635293 TATAGTGTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 81 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (68 bp):
GTATATGAAATATACATCATATACATAATCTCATGGCATTCATAACACATACTCAATAACCTCAT
ATA
Found at i:2642410 original size:29 final size:29
Alignment explanation
Indices: 2642368--2642439 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
2642358 ATGTTACACT
* *
2642368 CCATGTTGAAAAAATATTATTATTATATG
1 CCATGTTGAAAAAATATTATTATTACAGG
2642397 CCATGTTGAAAAAATATTATTATTACAGG
1 CCATGTTGAAAAAATATTATTATTACAGG
*
2642426 CCATGTTCAAAAAA
1 CCATGTTGAAAAAA
2642440 ATTTTGTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (29 bp):
CCATGTTGAAAAAATATTATTATTACAGG
Found at i:2648789 original size:171 final size:170
Alignment explanation
Indices: 2648355--2651450 Score: 2879
Period size: 171 Copynumber: 18.1 Consensus size: 170
2648345 NNNNNNNNNN
* *
2648355 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTTGTTAAAACACATCATATTTG
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA--TTTTTGTTAAAACAGATAATATTTG
* ** * * ** * *
2648420 ATTGTCTACATAAGGAAAC-GGCAAGAAAAAGATATTCATTGACAAGAAAAGTTCATCTATTGTC
64 AATGTCTACATTGGGAAACATG-AAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTC
* *
2648484 AC-CTATGCGTTCGAAAGCCTTATTACTTGCTTTAAATGGTTTT
128 ACTC-ATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * ** *
2648527 ATAATCTCTTAATTTA-TTTAAGTCAAATTTTTTCACATTTTTGGTTAAAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTGA
* * * * * * **
2648591 ATGTCTGCATTGAGAAACTTGAAGAAAAACACATTTATTGGCAAGAATGGTCCAT-TAGTAGTCA
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTA-TAGTCA
** *
2648655 CTCATGTGTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTT
129 CTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * *
2648697 ATAAACTTATAATTCATTTTAAATTGAATTTTTTTACATTGTTTGTTAAAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATT-TTTGTTAAAACAGATAATATTTGA
* * ** * *
2648762 ATATCTACATTGGGAAACATCAAGAAAAAGACATTCATTGACAAGAAAAGTCTATCTACAGTCAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * *
2648827 TCATGCGTTCGGAAGCCTTATTACTCGCTTTAAATGATTTT
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * ** *
2648868 ATAATCTCTTAATTAATTTTAAGTTAAATTTTTGAACATTTTTGATTAAAACAGTTAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTG-TTAAAACAGATAATATTTGA
* *
2648933 ATGTTTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCAATAGTCAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * * *
2648998 CCATGCGTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTC
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * *
2649039 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTTGCTAAAACAAATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA-TTTTTGTTAAAACAGATAATATTTGA
* ** * * * * *
2649104 ATATCT--ATCT-CAAAAAAAGAAAGAAAAAGCCATTCATTGGCAAGAAAAGTCTATCTATAGTC
65 ATGTCTACAT-TGGGAAACATG-AAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTC
* * *
2649166 ACTCATCCATTCAAAAGCCTTATTACTCGCTTTAAATAGTTTT
128 ACTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* *
2649209 GTAATCTC-TCAATTGATTTTAAGTTTAATTTTTTTACATTTTTGGTTAAAACAGATAATATTTG
1 ATAATCTCAT-AATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTG
* * * * * *
2649273 AATGTCTACACTAGGAAACGTGAA-AAGAAAGATATTCATTGGCAAGAAAAGTCTATCTATAGTC
64 AATGTCTACATTGGGAAACATGAAGAA-AAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTC
* * *
2649337 AC-C-TGTACGTTCGAAAGCCTTATTACTCGCTTTAAATAGATTT
128 ACTCATG--CATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * * * * *
2649380 ATAGTCTCTTAATTAATTTTAAGTTAAATTTTTTTACATTTTTGGTCATAATAGATAACATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTGA
* * * * * * * *
2649445 ATATCTACATTGAGAAACGTGAAGAAAAAGACATTCAATGATAAAAAAAGTCTATTTATAGTCAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * *
2649510 CCATGCGTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTT
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * *
2649551 ATAATCTCATAAGTGATTTTAAGTTGAATTTTTTTATATTTCTTATGAGAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT-TTGTTAAAACAGATAATATTTGA
** * * * *
2649616 ATGTCT--ATCT-CAAAAAATGGGAAGAGAAAA-CCATTTATTGGTAAGAAAAGTGCATCTATAG
65 ATGTCTACAT-TGGGAAACAT--GAAGA-AAAAGACATTCATTGGTAAGAAAAGTCCATCTATAG
* * **
2649677 TCACTTATGCATTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
126 TCACTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * *
2649722 ATAATCTC-TCAATTGATTTTAAGTTGAATTTGTGTACATTTTTAGTTAAAATAGATAATATTTC
1 ATAATCTCAT-AATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTG
* *** * * ** * * * *
2649786 AATGTTTACACCAGGAAACGTGAGGAGGAAGACATTTATTGGCAAGAAGAGTCCATCAATAGTCA
64 AATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCA
* * *
2649851 C-CTATACATTCGAAAGCCTTGTTATTCGCTTTAAATGGTTTT
129 CTC-ATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * * *
2649893 ATAATCGCATAATTAATTTTGAA-TTAAATTTTTTTTATATTTTTTATTGAAACAGATAATATTT
1 ATAATCTCATAATTGATTTT-AAGTTGAA-TTTTTTTACA-TTTTTGTTAAAACAGATAATATTT
* *** * * * * * * * *
2649957 GAATGTCTACCTTAAAAAAGAGGAAGAAAAAGCCTTTCATTGATAGGAAAAGTCTATCTATAATC
63 GAATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTC
* *
2650022 AC-CAATACATTCGAAAGCCTTCA-TACTCGCTTTAAATGATTTT
128 ACTC-ATGCATTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTT
** * * * *
2650065 ATAATCTTTTAGTTAATTTTAAGTTGAATTTTTTTACATATTTAGTTGAAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACAT-TTTTGTTAAAACAGATAATATTTGA
* * * *
2650130 ATGTCCACATTGGGAAACATGAAGAAAAAGACATTCATTGATAAGAGAAGTCCATCTATAGTTAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * *
2650195 GCATACATTCGAAAGCCTTATTACTCGCCTTAAATGGTTTT
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* ** ** * *
2650236 ATAGTCTTTTAATTGATTTTAAGTCAAATTTTTTTACATTTTTTGTTATAATAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA-TTTTTGTTAAAACAGATAATATTTGA
* * * * *
2650301 ATGTCTACATTGAGAAACGTGAAGAAAAAGATATTCTTTGGTAAGAAAAGTCCGTCTATAGTCAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * * *
2650366 CCATGCATTTGAAAGCCTTGTTACTCACTTTAAATGGTTTT
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * *
2650407 ATAATCTCATAATTGATTTTATGTTGAATTGTTTTACATTTCTTGTGAAAACAGATAATATTTAA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT-TTGTTAAAACAGATAATATTTGA
* * * * * *
2650472 ATGTCTACCTT--AAAAAAAGAAAAGAAAAAGCCA-TCGATTGGTAAGGAAAGTCCATCTATAGT
65 ATGTCTACATTGGGAAACATG--AAGAAAAAGACATTC-ATTGGTAAGAAAAGTCCATCTATAGT
* * * *
2650534 CACCCATGCGTTCGAAAGCCTTATTGCTCTCTTTAAATGGTTTT
127 CACTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
*
2650578 ATAATCTCATAATTGA--TTAAGTTAAATTTTTTTACATTTTTAGTTAAAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTGA
* * * * *
2650641 ATGTCTAAATTGGAAAACATGAA-AAAAA-A-ATTCAATGGCAAGAAAAGTCCAACTATAGTCAC
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCAC
* * * * * **
2650703 TTATGCATTTGAAAGCCTTCTTACTTGTTTTAAATATTTTT
130 TCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * *
2650744 AAAATCCCATAATTGATTTT-AGCTTGAATGTTTTTATATTTTCTGTTAAAACAGATAATATATG
1 ATAATCTCATAATTGATTTTAAG-TTGAATTTTTTTACATTTT-TGTTAAAACAGATAATATTTG
* ** * * *
2650808 AATGTCAACATCAGGAAACGTAAAGAAAAA-ACTATTCATT-ATCAAGAAAAAG-CCATCTATAG
64 AATGTCTACATTGGGAAACATGAAGAAAAAGAC-ATTCATTGGT-AAG-AAAAGTCCATCTATAG
* * * * * *
2650870 TCACCCATGCCTTTGAAAACTTTATTACTTGCTTTAAATGGTTTT
126 TCACTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * * * * * * *
2650915 ATAATCTCTTAATAGACTTTAAGTTGAATTGTTTTATATTTTTTGTTAAAATATATTATAATTAA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA-TTTTTGTTAAAACAGATAATATTTGA
* * * * ** * *
2650980 AAGT-TAGCCTTGAGAAACATGAAGCAAAAGTTA-TCTATTGGTAAGAGAAGTCCATTTATAGTC
65 ATGTCTA-CATTGGGAAACATGAAGAAAAAGACATTC-ATTGGTAAGAAAAGTCCATCTATAGTC
* * ** * *
2651043 ACTTAAGTTTTCGAAAGCATTATTACTCGCTTTAAATGATTTT
128 ACTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * ** *
2651086 ATAATCTCATAATTGATTTTAAGTTG-ATTTGTTTTACATTTTTTGTTAAAATATATTGTAATTG
1 ATAATCTCATAATTGATTTTAAGTTGAATTT-TTTTACA-TTTTTGTTAAAACAGATAATATTTG
* * ** ** * * * * *
2651150 AATGAT-TTC-TTCGAGAAATGTGAACTAAAAGTCATCCATTGGTAA-AAGTAGTTCATTTATAG
64 AATG-TCTACATT-GGGAAACATGAAGAAAAAGACATTCATTGGTAAGAA-AAGTCCATCTATAG
** * * * *
2651212 TTGCTTAAGTC-TTCGAAAGCCTTATTACTGGCTTTAAATAGTTTT
126 TCACTCATG-CATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * * *
2651257 ATAATCTCATAATTCATTTTAAGTTGAATGTTCTTATATTTTTGGCTAAAACAGATAATATTTGA
1 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-GTTAAAACAGATAATATTTGA
* ** * * *
2651322 ATGTCTACATTGGAAAACATGAAGAAAAACCCATTCACTAGG-AAGAAAAGTCTATCTATACTCA
65 ATGTCTACATTGGGAAACATGAAGAAAAAGACATTCA-TTGGTAAGAAAAGTCCATCTATAGTCA
*
2651386 CTCATGCATTTGAAAGCCTTATTACTCGCTTTAAATGGTTTT
129 CTCATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
*
2651428 ATAGTCTCATAATTGATTTTAAG
1 ATAATCTCATAATTGATTTTAAG
2651451 NNNNNNNNNN
Statistics
Matches: 2389, Mismatches: 453, Indels: 165
0.79 0.15 0.05
Matches are distributed among these distances:
166 70 0.03
167 4 0.00
168 61 0.03
169 88 0.04
170 287 0.12
171 1674 0.70
172 193 0.08
173 12 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (170 bp):
ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGTTAAAACAGATAATATTTGAA
TGTCTACATTGGGAAACATGAAGAAAAAGACATTCATTGGTAAGAAAAGTCCATCTATAGTCACT
CATGCATTCGAAAGCCTTATTACTCGCTTTAAATGGTTTT
Done.