Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 195 of 210
Found at i:64738157 original size:12 final size:12
Alignment explanation
Indices: 64738132--64738166 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
64738122 TTAGGGTTAA
*
64738132 GGGTTTGGGATG
1 GGGTTTGGGTTG
*
64738144 GGGTTGGGGTTG
1 GGGTTTGGGTTG
64738156 GGGTTTGGGTT
1 GGGTTTGGGTT
64738167 AGAGTTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.60, T:0.37
Consensus pattern (12 bp):
GGGTTTGGGTTG
Found at i:64747384 original size:31 final size:31
Alignment explanation
Indices: 64747327--64747385 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
64747317 GTGTAATTCA
*
64747327 TATTCGAGTTAAACCGAAAATTTTGATTTTT
1 TATTCGAGTTAAACCGAAAATCTTGATTTTT
* *
64747358 TATTCGAGTTGACCCGAATAA-CTTGATT
1 TATTCGAGTTAAACCGAA-AATCTTGATT
64747386 AACTCGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAATCTTGATTTTT
Found at i:64751813 original size:122 final size:122
Alignment explanation
Indices: 64751642--64751883 Score: 448
Period size: 122 Copynumber: 2.0 Consensus size: 122
64751632 AGAGCAAAGC
*
64751642 ATAATTGACTAGTCTTTCAGCCAATGATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
1 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
*
64751707 TCTTATTTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAACG
66 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAACG
* *
64751764 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGTTTAGTTTTTT
1 ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
64751829 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAA
66 TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAA
64751884 TGTTCTTACA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (122 bp):
ATAATTGACTAGTCTTTCAGCCAATAATTGGCTCTCCACTAGTTCATCAACCTGATTAGTGTTTT
TCTTAATTTGTTTCAGCTGCTAGGACGTGGAAAGATGTTACTTCAAAGTTCCTAACG
Found at i:64754395 original size:44 final size:45
Alignment explanation
Indices: 64754318--64754438 Score: 172
Period size: 44 Copynumber: 2.7 Consensus size: 45
64754308 TCTAAATCAT
* *
64754318 TGAGTGGTTTATCCACACTGTATTAGTAACTTTTATTTGCAATAA
1 TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
*
64754363 TGAGTGGTTTA-CCACACTGTATTAGCAGCTTTTATTTGCAACAA
1 TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
* * * *
64754407 TGAGCGGTCTATCCACACCGTACTAGCAACTT
1 TGAGTGGTTTATCCACACTGTATTAGCAACTT
64754439 GTCTATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 39 0.58
45 28 0.42
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (45 bp):
TGAGTGGTTTATCCACACTGTATTAGCAACTTTTATTTGCAACAA
Found at i:64754548 original size:21 final size:21
Alignment explanation
Indices: 64754515--64754554 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64754505 TGGTTTATCC
* *
64754515 ACAATGAGTGGTTCATCCACA
1 ACAATAAGCGGTTCATCCACA
*
64754536 ACAATAAGCGGTTTATCCA
1 ACAATAAGCGGTTCATCCA
64754555 TGACGTGGTG
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:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
ACAATAAGCGGTTCATCCACA
Found at i:64755370 original size:97 final size:98
Alignment explanation
Indices: 64755202--64755400 Score: 382
Period size: 97 Copynumber: 2.0 Consensus size: 98
64755192 AAAAACAAAT
64755202 CAAAATATTTAAAAATAATTAACTTCGCAACTAAAATTATTGTTACGTAAATAAAAAGGGATAAG
1 CAAAATATTT-AAAATAATTAACTTCGCAACTAAAATTATTGTTACGTAAATAAAAAGGGATAAG
64755267 GTAACATTAGTCCCTACATTTGGTAACTTTTTTC
65 GTAACATTAGTCCCTACATTTGGTAACTTTTTTC
64755301 CAAAATATTT-AAATAATTAACTTCGCAACTAAAATTATTGTTACGTAAATAAAAAGGGATAAGG
1 CAAAATATTTAAAATAATTAACTTCGCAACTAAAATTATTGTTACGTAAATAAAAAGGGATAAGG
64755365 TAACATTAGTCCCTACATTTGGTAACTTTTTTC
66 TAACATTAGTCCCTACATTTGGTAACTTTTTTC
64755398 CAA
1 CAA
64755401 TTTGATCTAT
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 90 0.90
99 10 0.10
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (98 bp):
CAAAATATTTAAAATAATTAACTTCGCAACTAAAATTATTGTTACGTAAATAAAAAGGGATAAGG
TAACATTAGTCCCTACATTTGGTAACTTTTTTC
Found at i:64761370 original size:25 final size:24
Alignment explanation
Indices: 64761341--64761435 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
64761331 GGATGTTATC
*
64761341 CGAAAAGAACAATAAATGAAAAGGT
1 CGAAAAGAA-TATAAATGAAAAGGT
* *
64761366 TGAAAAGGATATCAAATGAAAAGGT
1 CGAAAAGAATAT-AAATGAAAAGGT
* *
64761391 CGAAAAGGATATCAATGAAAAGGT
1 CGAAAAGAATATAAATGAAAAGGT
**
64761415 CGAAAAGAATAGCAATGAAAA
1 CGAAAAGAATATAAATGAAAA
64761436 TGTTGGTATC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 32 0.52
25 30 0.48
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (24 bp):
CGAAAAGAATATAAATGAAAAGGT
Found at i:64761412 original size:24 final size:24
Alignment explanation
Indices: 64761355--64761435 Score: 126
Period size: 24 Copynumber: 3.3 Consensus size: 24
64761345 AAGAACAATA
*
64761355 AATGAAAAGGTTGAAAAGGATATC
1 AATGAAAAGGTCGAAAAGGATATC
64761379 AAATGAAAAGGTCGAAAAGGATATC
1 -AATGAAAAGGTCGAAAAGGATATC
* *
64761404 AATGAAAAGGTCGAAAAGAATAGC
1 AATGAAAAGGTCGAAAAGGATATC
64761428 AATGAAAA
1 AATGAAAA
64761436 TGTTGGTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 30 0.57
25 23 0.43
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.16
Consensus pattern (24 bp):
AATGAAAAGGTCGAAAAGGATATC
Found at i:64762742 original size:55 final size:55
Alignment explanation
Indices: 64762692--64762858 Score: 192
Period size: 55 Copynumber: 3.0 Consensus size: 55
64762682 CACACAGTTT
64762692 GACACACGACCTATGACGCGGCAGTGTGACCCTATTTCGAATACTCACACAAGTG
1 GACACACGACCTATGACGCGGCAGTGTGACCCTATTTCGAATACTCACACAAGTG
* * * ** * * * *
64762747 GACACGCGACCTACGACGCTGCAACGTGGCTCTATTTCGCATACTCACACGAGTG
1 GACACACGACCTATGACGCGGCAGTGTGACCCTATTTCGAATACTCACACAAGTG
* * * * *
64762802 GACACACGACCTATGGCACGGCCGTGT-AGCCCTATTTCGAATACTCACGCGAGTG
1 GACACACGACCTATGACGCGGCAGTGTGA-CCCTATTTCGAATACTCACACAAGTG
64762857 GA
1 GA
64762859 TACATGCACG
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (55 bp):
GACACACGACCTATGACGCGGCAGTGTGACCCTATTTCGAATACTCACACAAGTG
Found at i:64763564 original size:34 final size:34
Alignment explanation
Indices: 64763521--64763589 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
64763511 ATAAATTGTC
64763521 GACTAAGATACGTTTTGGATGAACCACTGGTCGT
1 GACTAAGATACGTTTTGGATGAACCACTGGTCGT
*
64763555 GACTAAGATAGGTTTTGGATGAACCACTGGTCGT
1 GACTAAGATACGTTTTGGATGAACCACTGGTCGT
64763589 G
1 G
64763590 CAGAAACTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (34 bp):
GACTAAGATACGTTTTGGATGAACCACTGGTCGT
Found at i:64763664 original size:48 final size:48
Alignment explanation
Indices: 64763555--64763716 Score: 193
Period size: 48 Copynumber: 3.4 Consensus size: 48
64763545 CACTGGTCGT
* * * *
64763555 GACTAAGATAGGTTTTGGATGAACCACTGGTCGTGCAG--AAACTACA
1 GACTAAAATACGTTTTGGATGAACCACTGGTCGAGCAGATAAACTACC
* * * *
64763601 AACTAAAATATGTTTTGGATGAACCACTAGTCAAGCAGATAAACTACC
1 GACTAAAATACGTTTTGGATGAACCACTGGTCGAGCAGATAAACTACC
* **
64763649 GACTAAATTACGTTTTGGATGAACCACTGGTCGAGCAGATAAACTGTC
1 GACTAAAATACGTTTTGGATGAACCACTGGTCGAGCAGATAAACTACC
* *
64763697 GACTAAAATACATTGTGGAT
1 GACTAAAATACGTTTTGGAT
64763717 AAATAATGTG
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
46 32 0.33
48 65 0.67
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (48 bp):
GACTAAAATACGTTTTGGATGAACCACTGGTCGAGCAGATAAACTACC
Found at i:64767912 original size:3 final size:3
Alignment explanation
Indices: 64767904--64767951 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
64767894 CATGACTCTG
*
64767904 CAT CAT CAT CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
64767952 GGTTAATAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:64778602 original size:2 final size:2
Alignment explanation
Indices: 64778595--64778655 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
64778585 CTTCTCCCTT
64778595 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64778637 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
64778656 TTTATTTGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:64790257 original size:84 final size:84
Alignment explanation
Indices: 64790148--64790339 Score: 368
Period size: 84 Copynumber: 2.3 Consensus size: 84
64790138 TATAAAATTT
*
64790148 TAAATTAGT-AATGGTAAAATTATACTTTGGCCTACCAAAAATAATAAAAATTTAAATTTAATCC
1 TAAATTATTAAATGGTAAAATTATACTTTGGCCTACCAAAAATAATAAAAATTTAAATTTAATCC
64790212 TTTAAAAATAATAAATATA
66 TTTAAAAATAATAAATATA
64790231 TAAATTATTAAATGGTAAAATTATACTTTGGCCTACCAAAAATAATAAAAATTTAAATTTAATCC
1 TAAATTATTAAATGGTAAAATTATACTTTGGCCTACCAAAAATAATAAAAATTTAAATTTAATCC
64790296 TTTAAAAATAATAAATATA
66 TTTAAAAATAATAAATATA
64790315 TAAATTATTAAATGGTAAAATTATA
1 TAAATTATTAAATGGTAAAATTATA
64790340 TTTTTACTAT
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 8 0.07
84 99 0.93
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (84 bp):
TAAATTATTAAATGGTAAAATTATACTTTGGCCTACCAAAAATAATAAAAATTTAAATTTAATCC
TTTAAAAATAATAAATATA
Found at i:64800670 original size:13 final size:13
Alignment explanation
Indices: 64800652--64800676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64800642 TAATTTATAT
64800652 GTGTGAAAATTTC
1 GTGTGAAAATTTC
64800665 GTGTGAAAATTT
1 GTGTGAAAATTT
64800677 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:64801319 original size:44 final size:42
Alignment explanation
Indices: 64801259--64801354 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
64801249 ATGTGATTTT
* *
64801259 GTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTGA-GATTTAC
1 GTGTAAGACCAAGTCTGGGACATTGGCATC-ATAT-ATGA-TTAC
* *
64801303 GTGTAAGACTATGTCTGGGACATTGGCATCATATATGATTAC
1 GTGTAAGACCAAGTCTGGGACATTGGCATCATATATGATTAC
64801345 GTGTAAGACC
1 GTGTAAGACC
64801355 CTGTTTGGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 14 0.30
43 5 0.11
44 27 0.59
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCAAGTCTGGGACATTGGCATCATATATGATTAC
Found at i:64801364 original size:42 final size:43
Alignment explanation
Indices: 64801259--64801403 Score: 141
Period size: 42 Copynumber: 3.4 Consensus size: 43
64801249 ATGTGATTTT
* * *
64801259 GTGTAAGACCAAGTCTGGGACGTTGGCATCGATTTGA-GATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATAT-ATGA-TTAC
*
64801303 GTGTAAGACTATGTCTGGGACATTGGCATC-ATATATGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTAC
* * * * * *
64801345 GTGTAAGACCCTGTTTGGGACAGTGACATCGTTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTAC
* * *
64801388 ATGTAAAACCACGTCT
1 GTGTAAGACCATGTCT
64801404 AGGATGTTGG
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 30 0.36
43 26 0.31
44 27 0.33
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTAC
Found at i:64803975 original size:38 final size:38
Alignment explanation
Indices: 64803933--64804018 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 38
64803923 CAGTGCATAA
* *
64803933 TTTTTAAAATCTATTTTGAA-AAATATCAGTTCGTATAT
1 TTTTTAAAATCTATTTTCAAGAAATATCAATTCGTAT-T
* * ** *
64803971 TTTTTATAATCTTTTTTCAAGATTTATCAATTTGTATT
1 TTTTTAAAATCTATTTTCAAGAAATATCAATTCGTATT
64804009 TTTTTAAAAT
1 TTTTTAAAAT
64804019 TGTCTTTGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 27 0.69
39 12 0.31
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.55
Consensus pattern (38 bp):
TTTTTAAAATCTATTTTCAAGAAATATCAATTCGTATT
Found at i:64805224 original size:20 final size:20
Alignment explanation
Indices: 64805201--64805239 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64805191 ATTAAAATTG
**
64805201 AATTGAATTTTAAAAAATAT
1 AATTGAATTGAAAAAAATAT
*
64805221 AATTTAATTGAAAAAAATA
1 AATTGAATTGAAAAAAATA
64805240 AATAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTGAATTGAAAAAAATAT
Found at i:64805280 original size:18 final size:18
Alignment explanation
Indices: 64805243--64805379 Score: 86
Period size: 17 Copynumber: 7.4 Consensus size: 18
64805233 AAAAATAAAT
* *
64805243 AAATAAATTAAAGTTT-A
1 AAATAAATTTAATTTTAA
64805260 AAATAAATTTAATTTTAA
1 AAATAAATTTAATTTTAA
*
64805278 AAATAGAATTTAATTTAAA
1 AAATA-AATTTAATTTTAA
* *
64805297 ACAATTAAAATTAA-TTAAA
1 A-AA-TAAATTTAATTTTAA
64805316 GAAATAAATTGATTTAATTTT-A
1 -AAAT-AA---ATTTAATTTTAA
* *
64805338 AAATAAAATAAATTTTAA
1 AAATAAATTTAATTTTAA
*
64805356 AAATAAAAATTAA--TTAA
1 AAAT-AAATTTAATTTTAA
64805373 AAATAAA
1 AAATAAA
64805380 AATTNNNNNN
Statistics
Matches: 99, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
16 3 0.03
17 30 0.30
18 12 0.12
19 29 0.29
20 11 0.11
21 6 0.06
22 6 0.06
23 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATAAATTTAATTTTAA
Found at i:64805360 original size:39 final size:36
Alignment explanation
Indices: 64805243--64805380 Score: 111
Period size: 39 Copynumber: 3.7 Consensus size: 36
64805233 AAAAATAAAT
* * *
64805243 AAAT-AAATTAAAGTTTAAAATAAATTTAATTTTAA
1 AAATAAAATTTAATTTTAAAATAAAATTAATTTTAA
* * *
64805278 AAATAGAATTTAATTTAAAACAATTAAAATTAA-TTAAA
1 AAATAAAATTTAATTT-TAA-AA-TAAAATTAATTTTAA
*
64805316 GAAATAAATTGATTTAATTTTAAAATAAAATAAATTTTAA
1 -AAATAAA---ATTTAATTTTAAAATAAAATTAATTTTAA
* *
64805356 AAATAAAAATTAA-TTAAAAATAAAA
1 AAATAAAATTTAATTTTAAAATAAAA
64805381 ATTNNNNNNT
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
35 15 0.18
36 13 0.16
37 2 0.02
38 6 0.07
39 29 0.35
40 6 0.07
41 2 0.02
42 9 0.11
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (36 bp):
AAATAAAATTTAATTTTAAAATAAAATTAATTTTAA
Found at i:64808353 original size:26 final size:27
Alignment explanation
Indices: 64808262--64808351 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
64808252 TTTTCTTCAT
* * *
64808262 GTTTTTGGATAACATAAAGAACTATAA
1 GTTTTTGAATAACATAAAGAATTATGA
*
64808289 GTTTTTGAATAACATAAAATCAAGTACTATG-
1 GTTTTTGAATAACAT-AAA-GAA-T--TATGA
64808320 GTTTTTGAATAACATAAAGAATTATGA
1 GTTTTTGAATAACATAAAGAATTATGA
64808347 GTTTT
1 GTTTT
64808352 GATTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
26 4 0.08
27 19 0.37
28 4 0.08
29 4 0.08
30 3 0.06
31 15 0.29
32 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAGAATTATGA
Found at i:64808723 original size:12 final size:12
Alignment explanation
Indices: 64808702--64808762 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
64808692 TAATAATAAT
64808702 ATTA-TATTAAA
1 ATTATTATTAAA
64808713 ATTATTATT-AA
1 ATTATTATTAAA
*
64808724 A-TATTATAAATA
1 ATTATTATTAA-A
64808736 ATTA-TATTAAGA
1 ATTATTATTAA-A
64808748 ATT-TTATT-AA
1 ATTATTATTAAA
64808758 ATTAT
1 ATTAT
64808763 ATTTAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
10 10 0.24
11 10 0.24
12 19 0.46
13 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:64808728 original size:39 final size:38
Alignment explanation
Indices: 64808683--64808775 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 38
64808673 TTAGGCATCG
64808683 AAATATTCTTAATAATAATATTATATTAA-AATTATTATT
1 AAATATT-TTAATAATAATATTATATTAAGAATT-TTATT
*
64808722 AAATATTAT-A-AAT-A-ATTATATTAAGAATTTTATT
1 AAATATTTTAATAATAATATTATATTAAGAATTTTATT
64808756 AAATTATATTTAATAATAAT
1 AAA-TAT-TTTAATAATAAT
64808776 TATGTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
34 18 0.40
35 8 0.18
36 5 0.11
37 2 0.04
38 4 0.09
39 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
AAATATTTTAATAATAATATTATATTAAGAATTTTATT
Found at i:64808742 original size:34 final size:37
Alignment explanation
Indices: 64808694--64808786 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 37
64808684 AATATTCTTA
64808694 ATAATAAT-ATTATATTAAAATTATTATTAAA-TAT-T
1 ATAATAATAATTATATTAAAATT-TTATTAAATTATAT
64808729 AT-A-AATAATTATATTAAGAATTTTATTAAATTATAT
1 ATAATAATAATTATATTAA-AATTTTATTAAATTATAT
* *
64808765 TTAATAATAATTATGTTAAAAT
1 ATAATAATAATTATATTAAAAT
64808787 ATGACTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
33 3 0.06
34 19 0.38
35 9 0.18
36 2 0.04
37 4 0.08
38 13 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (37 bp):
ATAATAATAATTATATTAAAATTTTATTAAATTATAT
Found at i:64809820 original size:61 final size:61
Alignment explanation
Indices: 64809725--64809840 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
64809715 NNNNNNNNNT
64809725 AAATTATATATTATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATGATA
1 AAATTATATATTATTATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATATGATA
* * *
64809786 AAATTATTTATTTTTATTTTTATTAAATTATATTTAATAGTAATCTTATTAAAAT
1 AAATTATATATTATTATTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
64809841 TTAATAACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 50 0.98
62 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (61 bp):
AAATTATATATTATTATTTTTATTAAATTATATTTAATAATAATCTTATTAAAATATGATA
Found at i:64810584 original size:19 final size:19
Alignment explanation
Indices: 64810560--64810604 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
64810550 CATACATTAT
*
64810560 AAAAGAATAAGACAAAAAA
1 AAAAGAAAAAGACAAAAAA
* *
64810579 AAAAGAAAAATAGAAAAAA
1 AAAAGAAAAAGACAAAAAA
64810598 ATAAAGA
1 A-AAAGA
64810605 GAGAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAGACAAAAAA
Found at i:64810630 original size:21 final size:21
Alignment explanation
Indices: 64810595--64810635 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64810585 AAAATAGAAA
*
64810595 AAAATAAAGAGAGAAATAATGT
1 AAAAGAAAGAGAGAAA-AATGT
64810617 AAAAGAAA-AGAGAAAAATG
1 AAAAGAAAGAGAGAAAAATG
64810636 AAAGAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAAGAAAGAGAGAAAAATGT
Found at i:64811609 original size:86 final size:87
Alignment explanation
Indices: 64811502--64811674 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 87
64811492 AAACTTTGAA
64811502 TTTGTTTAAAGTAATGGAAAATGTTTTTAAAAAAATTATAAAAAATATAAAATATATATTTTTTA
1 TTTGTTTAAAGTAATGGAAAATGTTTTTAAAAAAATTATAAAAAATATAAAATATATATTTTTTA
64811567 AAATATCAAACAATGAAATTAT
66 AAATATCAAACAATGAAATTAT
64811589 TTTGTTTAAA-TAATGGAAAATGTTTTTAAAAAAATTATAAAAAATATAAAATATATATTTTTTA
1 TTTGTTTAAAGTAATGGAAAATGTTTTTAAAAAAATTATAAAAAATATAAAATATATATTTTTTA
64811653 AAATATCAAACAATGAAATTAT
66 AAATATCAAACAATGAAATTAT
64811675 AATCAGTAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 76 0.88
87 10 0.12
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.39
Consensus pattern (87 bp):
TTTGTTTAAAGTAATGGAAAATGTTTTTAAAAAAATTATAAAAAATATAAAATATATATTTTTTA
AAATATCAAACAATGAAATTAT
Found at i:64818222 original size:20 final size:20
Alignment explanation
Indices: 64818194--64818233 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
64818184 CTCTAATTAG
*
64818194 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
64818214 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
64818234 TCAATGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:64834051 original size:18 final size:18
Alignment explanation
Indices: 64834028--64834065 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64834018 CTCAGCATCC
64834028 AAACAAAACAAAACAATA
1 AAACAAAACAAAACAATA
* *
64834046 AAACAAAATAAAATAATA
1 AAACAAAACAAAACAATA
64834064 AA
1 AA
64834066 TAAATTACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACAAAACAAAACAATA
Found at i:64839584 original size:12 final size:12
Alignment explanation
Indices: 64839567--64839604 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
64839557 AAATATTTTA
64839567 TAATAATAGTAG
1 TAATAATAGTAG
*
64839579 TAATAATAGTAA
1 TAATAATAGTAG
*
64839591 TAATAATAATAG
1 TAATAATAGTAG
64839603 TA
1 TA
64839605 TTATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
TAATAATAGTAG
Found at i:64839619 original size:24 final size:26
Alignment explanation
Indices: 64839566--64839625 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
64839556 AAAATATTTT
*
64839566 ATAATAATAGTAGTAATAATAGTAATA
1 ATAATAATAGTAGTAATAATA-TAAAA
*
64839593 ATAATAATAGTA-TTATAAT-TAAAA
1 ATAATAATAGTAGTAATAATATAAAA
*
64839617 ATAAGAATA
1 ATAATAATA
64839626 AAAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.40
26 6 0.20
27 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAATAATAGTAGTAATAATATAAAA
Found at i:64841065 original size:15 final size:15
Alignment explanation
Indices: 64841045--64841078 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
64841035 TTGATTAAAC
64841045 TTAATTAAA-TATTAA
1 TTAATTAAACT-TTAA
64841060 TTAATTAAACTTTAA
1 TTAATTAAACTTTAA
64841075 TTAA
1 TTAA
64841079 CCAAACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTAAACTTTAA
Found at i:64843619 original size:43 final size:43
Alignment explanation
Indices: 64843555--64843887 Score: 420
Period size: 43 Copynumber: 7.8 Consensus size: 43
64843545 TTTTTAGGTA
*
64843555 TTTAGCGGCGCTT-TCCCACAAACTCCGCTAAAGACCACGACC
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
*
64843597 TTTAGCGGCACTTCTCCCACAAACGCCGCTAAAGACCACGACC
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
*
64843640 TTTAACGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
* * * *
64843683 TTTAACGGCGCTTCTCCCACAAATGCCGCTAAAGACAAAGACC
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
* *
64843726 TTTAGCGGCGCTTCTCCCACAAAGGCCGCTAAAGACCAAGACC
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
* * **
64843769 TTTAGCGGCGCTAT-TTCCACAAACGCCGCTATAGACCATAACC
1 TTTAGCGGCGCT-TCTCCCACAAACGCCGCTAAAGACCACGACC
** * * * *
64843812 TTTAATGACGCTTTTTCCCACAAACGCCGCTAAAGAACA-AACC
1 TTTAGCGGCGC-TTCTCCCACAAACGCCGCTAAAGACCACGACC
* ** *
64843855 TTTAGCGGCACTTCTAACAAAAACGCCGCTAAA
1 TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAA
64843888 AACATAATCT
Statistics
Matches: 258, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
42 30 0.12
43 205 0.79
44 23 0.09
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (43 bp):
TTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCACGACC
Found at i:64848186 original size:40 final size:40
Alignment explanation
Indices: 64848140--64848216 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
64848130 TTAAATCCCT
*
64848140 GAGCATTAGCGGCGCTTTTTAAAAAAC-TCCGCTAAAAATA
1 GAGCATTAGCGGCGCTTTATAAAAAACAT-CGCTAAAAATA
* *
64848180 GAGCATTCGCGGCGCTTTATCAAAAACATCGCTAAAA
1 GAGCATTAGCGGCGCTTTATAAAAAACATCGCTAAAA
64848217 GCCCTGAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTATAAAAAACATCGCTAAAAATA
Found at i:64848276 original size:41 final size:41
Alignment explanation
Indices: 64848131--64848425 Score: 364
Period size: 41 Copynumber: 7.2 Consensus size: 41
64848121 TAAATTATTT
* **** *
64848131 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAACTCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
** * * **
64848172 TAAA--AATAGAGCATTCGCGGCGCTTTA-TCAAAAACATCGC
1 TAAAGCCCT-GAGCATTAGCGGCGC-TTACCCAAAAACGCCGC
* *
64848212 TAAAAGCCCTGAGCATTAACGGCGC-TATCCCAAAAACGCTGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTA-CCCAAAAACGCCGC
64848254 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
64848295 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
64848336 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
* * * *
64848377 TAAAGCCCTGAGCATTAGCGGCACTTCCCCAAAAATGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
64848418 TAAAGCCC
1 TAAAGCCC
64848426 CGAAAGCTCA
Statistics
Matches: 225, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.00
40 27 0.12
41 171 0.76
42 25 0.11
43 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACCCAAAAACGCCGC
Found at i:64848528 original size:39 final size:40
Alignment explanation
Indices: 64848485--64848595 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
64848475 TCTGGAAAAT
* * *
64848485 GCCACTAATGCTTG-TTTTTAGCGGCGTTTTTCATAAAGC
1 GCCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGC
* *
64848524 GCCACTAATACTCGATCTTTAGCGGCGTTTTCCAAAAAGC
1 GCCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGC
*
64848564 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTT
1 GCCACTAATGCTCGATCTTTAGCGGCGTTTTT
64848596 TATCCAAACG
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.19
40 51 0.81
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
GCCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGC
Found at i:64849664 original size:3 final size:3
Alignment explanation
Indices: 64849656--64849693 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64849646 TCCTTCCTTC
64849656 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
64849694 CCATTGGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:64849911 original size:3 final size:3
Alignment explanation
Indices: 64849903--64849933 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
64849893 CAAGCAAGGG
64849903 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
64849934 ATAATCTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:64851200 original size:21 final size:19
Alignment explanation
Indices: 64851163--64851212 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
64851153 AAAATAATTA
64851163 TGAACTTTTCTTTATAATTTGT
1 TGAA-TTTT-TTTATAATTT-T
64851185 TGAATTTTTTTAATAATTTT
1 TGAATTTTTTT-ATAATTTT
64851205 T-AATTTTT
1 TGAATTTTT
64851213 ATAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.26
20 5 0.19
21 11 0.41
22 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (19 bp):
TGAATTTTTTTATAATTTT
Found at i:64865532 original size:2 final size:2
Alignment explanation
Indices: 64865525--64865550 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64865515 AAGGTAAAGA
64865525 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
64865551 CACTTTTTAC
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:64870660 original size:24 final size:23
Alignment explanation
Indices: 64870624--64870671 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
64870614 TATTGAGTTT
*
64870624 ATTTAAATTATTTAAATTTAAAA
1 ATTTAAATTATTTAAAATTAAAA
*
64870647 ATTTAATTTAATTTAAAATTAAAA
1 ATTTAAATT-ATTTAAAATTAAAA
64870671 A
1 A
64870672 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATTATTTAAAATTAAAA
Found at i:64873491 original size:32 final size:32
Alignment explanation
Indices: 64873450--64873513 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
64873440 AAATTACGCC
64873450 ACATGCGTATCCATTTAAAAGCATGTACTATG
1 ACATGCGTATCCATTTAAAAGCATGTACTATG
64873482 ACATGCGTATCCATTTAAAAGCATGTACTATG
1 ACATGCGTATCCATTTAAAAGCATGTACTATG
64873514 TTGGAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
ACATGCGTATCCATTTAAAAGCATGTACTATG
Found at i:64874798 original size:16 final size:16
Alignment explanation
Indices: 64874777--64874808 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64874767 TTTGGTTCGC
64874777 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
64874793 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
64874809 CGCAAGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:64875814 original size:40 final size:40
Alignment explanation
Indices: 64875759--64875919 Score: 322
Period size: 40 Copynumber: 4.0 Consensus size: 40
64875749 TAAATTGGCC
64875759 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
1 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
64875799 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
1 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
64875839 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
1 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
64875879 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
1 AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
64875919 A
1 A
64875920 TCTTTGGTTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.27
Consensus pattern (40 bp):
AGGAAGAAAACAAACATTTGCTAAATTTAAGATTGAATTA
Found at i:64882045 original size:2 final size:2
Alignment explanation
Indices: 64882038--64882070 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64882028 ATAGGAAATT
64882038 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
64882071 TATATTAAGA
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:64883257 original size:311 final size:312
Alignment explanation
Indices: 64882681--64883317 Score: 1163
Period size: 311 Copynumber: 2.0 Consensus size: 312
64882671 CTTAGGGATG
64882681 AATGATGGA-TACC-TGTGTCTAATAGTCAAATATCCAAAGTTCAAACCTATAGAACAATGTCTT
1 AATG-TGGACTACCTTGTGTCTAATAGTCAAATATCCAAAGTTCAAACCTATAGAACAATGTCTT
64882744 TATTGATCATGAACTTCTATTGTAATTACCAATTCCCCAAGCCAGAGAGGGAACAAGAAAATGCA
65 TATTGATCATGAACTTCTATTGTAATTACCAATTCCCCAAGCCAGAGAGGGAACAAGAAAATGCA
64882809 AAAGATGAGAAAATGAGTTTGAAACTTACTGGAAGCCATTTGCAGGCAATAAGAGATCCAACAGC
130 AAAGATGAGAAAATGAGTTTGAAACTTACTGGAAGCCATTTGCAGGCAATAAGAGATCCAACAGC
* * *
64882874 ATAAACTGATATTATGAGGCATGGTAGGAAGTAGGGAAATCTGCAATTGTATGCACATTAGAACA
195 ATAAACTGATATTATGAGGCATGGTAGGAAGTAGGGAAATCTACAATTGTATGCACATCAAAACA
* * *
64882939 TCACCACATAGAGAGAAAATGGGAAAAAATATGACATGTGGAT-AAAAAAAGC
260 CCACCACATAAAGAGAAAATGGGAAAAAATATGACAAGTGGATAAAAAAAAGC
64882991 AATGTGGACTACCTTGTGTCTAATAGTCAAATATCCAAAGTTCAAACCTATAGAACAATGTCTTT
1 AATGTGGACTACCTTGTGTCTAATAGTCAAATATCCAAAGTTCAAACCTATAGAACAATGTCTTT
64883056 ATTGATCATGAACTTCTATTGTAATTACCAATTCCCCAAGCCAGAGAGGGAACAAGAAAATGCAA
66 ATTGATCATGAACTTCTATTGTAATTACCAATTCCCCAAGCCAGAGAGGGAACAAGAAAATGCAA
64883121 AAGATGAGAAAATGAGTTTGAAACTTACTGGAAGCCATTTGCAGGCAATAAGAGATCCAACAGCA
131 AAGATGAGAAAATGAGTTTGAAACTTACTGGAAGCCATTTGCAGGCAATAAGAGATCCAACAGCA
* *
64883186 TAAACTGATATTATGAGGCATGGTTGGAAGTAGGTAAATCTACAATTGTATGCACATCAAAACAC
196 TAAACTGATATTATGAGGCATGGTAGGAAGTAGGGAAATCTACAATTGTATGCACATCAAAACAC
64883251 CACCACATAAAGAGAAAATGGGAAAAAATATGACAAGTGGATAAAAAAAAAGC
261 CACCACATAAAGAGAAAATGGGAAAAAATATGACAAGTGGAT-AAAAAAAAGC
64883304 AATGTGGACTACCT
1 AATGTGGACTACCT
64883318 CACGAAAATG
Statistics
Matches: 315, Mismatches: 8, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
309 4 0.01
310 8 0.03
311 280 0.89
313 23 0.07
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (312 bp):
AATGTGGACTACCTTGTGTCTAATAGTCAAATATCCAAAGTTCAAACCTATAGAACAATGTCTTT
ATTGATCATGAACTTCTATTGTAATTACCAATTCCCCAAGCCAGAGAGGGAACAAGAAAATGCAA
AAGATGAGAAAATGAGTTTGAAACTTACTGGAAGCCATTTGCAGGCAATAAGAGATCCAACAGCA
TAAACTGATATTATGAGGCATGGTAGGAAGTAGGGAAATCTACAATTGTATGCACATCAAAACAC
CACCACATAAAGAGAAAATGGGAAAAAATATGACAAGTGGATAAAAAAAAGC
Found at i:64883875 original size:22 final size:22
Alignment explanation
Indices: 64883844--64883886 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64883834 CCACCAAATA
*
64883844 AGAAAACGATGGAAGAAGAAGC
1 AGAAAACGATGGAAAAAGAAGC
*
64883866 AGAAATCGATGGAAAAAGAAG
1 AGAAAACGATGGAAAAAGAAG
64883887 TAAAAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.30, T:0.07
Consensus pattern (22 bp):
AGAAAACGATGGAAAAAGAAGC
Found at i:64883893 original size:22 final size:22
Alignment explanation
Indices: 64883846--64883893 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64883836 ACCAAATAAG
*
64883846 AAAA-CGATGGAAGAAGAAGCA
1 AAAATCGATGGAAAAAGAAGCA
* *
64883867 GAAATCGATGGAAAAAGAAGTA
1 AAAATCGATGGAAAAAGAAGCA
64883889 AAAAT
1 AAAAT
64883894 TACCTCTGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.58, C:0.06, G:0.25, T:0.10
Consensus pattern (22 bp):
AAAATCGATGGAAAAAGAAGCA
Found at i:64887464 original size:15 final size:15
Alignment explanation
Indices: 64887423--64887466 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
64887413 TCGCAGGCAG
*
64887423 AAATATAATTATACT
1 AAATATAATTATAAT
*
64887438 AAAAATTAAATTATAAT
1 AAATA-T-AATTATAAT
64887455 AAATATAATTAT
1 AAATATAATTAT
64887467 GCGAGACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATAATTATAAT
Found at i:64892823 original size:3 final size:3
Alignment explanation
Indices: 64892817--64892868 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
64892807 GTAGTAACCC
64892817 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64892865 ATT A
1 ATT A
64892869 CCGTCCATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:64895229 original size:5 final size:5
Alignment explanation
Indices: 64895219--64895245 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
64895209 CATGACTCTC
64895219 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
64895246 TCCATTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:64900402 original size:357 final size:357
Alignment explanation
Indices: 64899747--64900467 Score: 1334
Period size: 357 Copynumber: 2.0 Consensus size: 357
64899737 GTAGATCAAG
64899747 AAACAACTTGTTGTTTCTTAGAACACCATGAGACAAGTGTATGACCAAAGTAGACACAATAGCCT
1 AAACAACTTGTTGTTTCTTAGAACACCATGAGACAAGTGTATGACCAAAGTAGACACAATAGCCT
*
64899812 GTCGTAGAACGGCGGTCATCAAAATCTAGACCCCAATTAGCATCAGCATAACCAACTAAAGATAG
66 GTCGTAGAACGGCGGTCATCAAAATCTAGACCCCAATTAGCATCAGCATAACCAACTAAAAATAG
*
64899877 TCTGTCGGATCGGTGAAACACCAACCTGTGATTAATAGTGCCATGTAAATACCTCAAGATATGTT
131 TCTGTCGGATCGGTGAAACACCAACCTGTGATTAATAGTACCATGTAAATACCTCAAGATATGTT
*
64899942 TTAATCCTACCAGATGTACTGTAGTAGGTGCATGCATGAATTGACAAACGTGATTTACCACATAA
196 TTAATCCTACCAGATGTACTGTAGTAGGTGCATGCATGAATTGACAAACGCGATTTACCACATAA
64900007 GCAATATTCGATCGAGTTAAGACCATATATTGAAGAACACCGGCAAGACTTCTGTATTCAGTAGG
261 GCAATATTCGATCGAGTTAAGACCATATATTGAAGAACACCGGCAAGACTTCTGTATTCAGTAGG
64900072 ACCAGCAAGTCGATCACCCACATCTTTAGACA
326 ACCAGCAAGTCGATCACCCACATCTTTAGACA
*
64900104 AAACAACTTGTTGTTTCTTAGAACACCATGAGACAAGTGTATGGCCAAAGTAGACACAATAGCCT
1 AAACAACTTGTTGTTTCTTAGAACACCATGAGACAAGTGTATGACCAAAGTAGACACAATAGCCT
*
64900169 GTCGTAGAACGGCGGTCATCAAAATCTAGACCTCAATTAGCATCAGCATAACCAACTAAAAATAG
66 GTCGTAGAACGGCGGTCATCAAAATCTAGACCCCAATTAGCATCAGCATAACCAACTAAAAATAG
64900234 TCTGTCGGATCGGTGAAACACCAACCTGTGATTAATAGTACCATGTAAATACCTCAAGATATGTT
131 TCTGTCGGATCGGTGAAACACCAACCTGTGATTAATAGTACCATGTAAATACCTCAAGATATGTT
* *
64900299 TTAATGCTACCAGATGTACTGTAGTAGGTGCATGCATGAATTGACAAATGCGATTTACCACATAA
196 TTAATCCTACCAGATGTACTGTAGTAGGTGCATGCATGAATTGACAAACGCGATTTACCACATAA
*
64900364 GCAATATTCGGTCGAGTTAAGACCATATATTGAAGAACACCGGCAAGACTTCTGTATTCAGTAGG
261 GCAATATTCGATCGAGTTAAGACCATATATTGAAGAACACCGGCAAGACTTCTGTATTCAGTAGG
* * * *
64900429 GCTAGCAAGTCGATCGCCCTCATCTTTAGACA
326 ACCAGCAAGTCGATCACCCACATCTTTAGACA
64900461 AAACAAC
1 AAACAAC
64900468 ATGTGAGTAC
Statistics
Matches: 352, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
357 352 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (357 bp):
AAACAACTTGTTGTTTCTTAGAACACCATGAGACAAGTGTATGACCAAAGTAGACACAATAGCCT
GTCGTAGAACGGCGGTCATCAAAATCTAGACCCCAATTAGCATCAGCATAACCAACTAAAAATAG
TCTGTCGGATCGGTGAAACACCAACCTGTGATTAATAGTACCATGTAAATACCTCAAGATATGTT
TTAATCCTACCAGATGTACTGTAGTAGGTGCATGCATGAATTGACAAACGCGATTTACCACATAA
GCAATATTCGATCGAGTTAAGACCATATATTGAAGAACACCGGCAAGACTTCTGTATTCAGTAGG
ACCAGCAAGTCGATCACCCACATCTTTAGACA
Found at i:64911365 original size:16 final size:16
Alignment explanation
Indices: 64911344--64911376 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64911334 ACAATGTAAT
*
64911344 ACATACATACATGCAA
1 ACATACATACATACAA
64911360 ACATACATACATACAA
1 ACATACATACATACAA
64911376 A
1 A
64911377 GCTACTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.03, T:0.18
Consensus pattern (16 bp):
ACATACATACATACAA
Found at i:64918034 original size:13 final size:13
Alignment explanation
Indices: 64918001--64918027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64917991 ACAGAGCTAA
64918001 CCTGATATGATCG
1 CCTGATATGATCG
64918014 CCTGATATGATCG
1 CCTGATATGATCG
64918027 C
1 C
64918028 TTTATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (13 bp):
CCTGATATGATCG
Found at i:64922419 original size:25 final size:22
Alignment explanation
Indices: 64922392--64922438 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
64922382 AAAAAAATTA
64922392 AGAAA-AAAAATGGAAGGTTCT
1 AGAAAGAAAAATGGAAGGTTCT
64922413 AGAAAGAAAAATGGAAGGTTCT
1 AGAAAGAAAAATGGAAGGTTCT
64922435 AGAA
1 AGAA
64922439 TGATCGGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.53, C:0.04, G:0.26, T:0.17
Consensus pattern (22 bp):
AGAAAGAAAAATGGAAGGTTCT
Found at i:64928825 original size:22 final size:23
Alignment explanation
Indices: 64928786--64928836 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
64928776 GTTTGGTTGA
64928786 ATGGAATGATGTTGTAATAGCAT
1 ATGGAATGATGTTGTAATAGCAT
64928809 ATGGAATGAT-TTGTAATAGCAT
1 ATGGAATGATGTTGTAATAGCAT
*
64928831 AAGGAA
1 ATGGAA
64928837 AAAAAACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (23 bp):
ATGGAATGATGTTGTAATAGCAT
Found at i:64929006 original size:26 final size:26
Alignment explanation
Indices: 64928911--64929006 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 26
64928901 TGTATTAAAT
*
64928911 TTTAATAAGATTATTATTAAAAATAA
1 TTTAATAAAATTATTATTAAAAATAA
** *
64928937 TTTAATAAAAATAATAATTAATTTAACCATAT
1 TTTAAT-AAAAT--T-ATT-A-TTAAAAATAA
* * *
64928969 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAAAATAA
64928995 TTTAATAAAATT
1 TTTAATAAAATT
64929007 CTTAATATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
26 23 0.43
27 5 0.09
28 3 0.06
29 2 0.04
30 3 0.06
31 5 0.09
32 12 0.23
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAAAATAA
Found at i:64931543 original size:34 final size:34
Alignment explanation
Indices: 64931504--64931568 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
64931494 NNNNNNNTAA
*
64931504 AATATTCTATTTT-TA-ATATTTTAATATTTTAAAT
1 AATATT-TATTTTATATAT-TTTTAATAATTTAAAT
64931538 AATATTTATTTTATATATTTTTAATAATTTA
1 AATATTTATTTTATATATTTTTAATAATTTA
64931569 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (34 bp):
AATATTTATTTTATATATTTTTAATAATTTAAAT
Found at i:64934822 original size:70 final size:69
Alignment explanation
Indices: 64934740--64934872 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 69
64934730 ATTTAAAAAA
** *
64934740 AAAAAAGGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATT-TCTGAGATCATTTAAAAT
1 AAAAAAGGTCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCTC-GAGATCATTTAAAAT
64934804 TTGGG
65 TTGGG
* * *
64934809 AAAAAGGGATCATGCTCAGTAAGTTAGGACACGATCTCCTCATAATTCTCGAGATCGTTTAAAA
1 AAAAAAGG-TCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCTCGAGATCATTTAAAA
64934873 CTTGAGTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
69 7 0.12
70 47 0.84
71 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (69 bp):
AAAAAAGGTCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCTCGAGATCATTTAAAATT
TGGG
Found at i:64938145 original size:13 final size:13
Alignment explanation
Indices: 64938122--64938174 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
64938112 AGTTCTTCAT
64938122 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
64938135 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
64938148 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
64938161 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
64938174 T
1 T
64938175 TTTGTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:64940727 original size:123 final size:123
Alignment explanation
Indices: 64940508--64940880 Score: 728
Period size: 123 Copynumber: 3.0 Consensus size: 123
64940498 CATTATCAAA
64940508 CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
1 CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
64940573 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
66 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
64940631 CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
1 CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
64940696 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
66 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
*
64940754 CAAGAAATCACGGAATAAATGGTCAATGCCCCCATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
1 CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
*
64940819 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATACTATCCTGGGGAGT
66 TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
64940877 CAAG
1 CAAG
64940881 GATGCAAGGT
Statistics
Matches: 248, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 248 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (123 bp):
CAAGAAATCACGGAATAAATGGTCAATGCCCACATGATTCTCTACCCCTCCTTTCCTTTCCTCAC
TAGAGACAATAACATTTAAGTCACCCCCGAGGAGCCACAGTATCCTATCCTGGGGAGT
Found at i:64949930 original size:2 final size:2
Alignment explanation
Indices: 64949923--64949948 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64949913 TAGAAATCAG
64949923 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
64949949 GTTACTTGCA
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:64950012 original size:43 final size:44
Alignment explanation
Indices: 64949949--64950036 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
64949939 TATATATATA
64949949 GTTACTTGCAAATGTTATAGTAATATCCTAAGCATGTAAGTGTT
1 GTTACTTGCAAATGTTATAGTAATATCCTAAGCATGTAAGTGTT
64949993 GTTACTTGC-AATGTTATAGTAATATCCTAAGCATGTAAGTGTT
1 GTTACTTGCAAATGTTATAGTAATATCCTAAGCATGTAAGTGTT
64950036 G
1 G
64950037 AGATAGCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 35 0.80
44 9 0.20
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (44 bp):
GTTACTTGCAAATGTTATAGTAATATCCTAAGCATGTAAGTGTT
Found at i:64951878 original size:2 final size:2
Alignment explanation
Indices: 64951871--64951896 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64951861 TAGAAATCAG
64951871 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
64951897 GTTACTTGCA
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:64954176 original size:54 final size:54
Alignment explanation
Indices: 64954115--64954222 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
64954105 TACCAAAGAA
* *
64954115 TATATACTTTTAAAAGCCTAATAATTGCATGATGATTAGCAAAAACGAAAAGTC
1 TATATACTTTTAAAAGCCTAATAATTGCATAATGATTAGCAAAAAAGAAAAGTC
*
64954169 TATATACTTTTAAAAGCCTAATAATTGCATAATGATTAGCAAAAAAGGAAAGTC
1 TATATACTTTTAAAAGCCTAATAATTGCATAATGATTAGCAAAAAAGAAAAGTC
64954223 GTGTTGTCGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (54 bp):
TATATACTTTTAAAAGCCTAATAATTGCATAATGATTAGCAAAAAAGAAAAGTC
Found at i:64960997 original size:12 final size:12
Alignment explanation
Indices: 64960980--64961010 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
64960970 AATGTTTAGG
64960980 CCTGCAATGAAT
1 CCTGCAATGAAT
64960992 CCTGCAATGAAT
1 CCTGCAATGAAT
64961004 CGCTGCA
1 C-CTGCA
64961011 GTGTCGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (12 bp):
CCTGCAATGAAT
Found at i:64969644 original size:30 final size:31
Alignment explanation
Indices: 64969601--64969662 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
64969591 GAATGGCTTG
*
64969601 GATATGCCTAGATGTTAATAATGTGTTTTGT
1 GATATGCCAAGATGTTAATAATGTGTTTTGT
64969632 GATAT-CCAAGATGTTAATAATGTGTTTTGT
1 GATATGCCAAGATGTTAATAATGTGTTTTGT
64969662 G
1 G
64969663 CCATATTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (31 bp):
GATATGCCAAGATGTTAATAATGTGTTTTGT
Found at i:64971241 original size:259 final size:260
Alignment explanation
Indices: 64970771--64971289 Score: 1031
Period size: 259 Copynumber: 2.0 Consensus size: 260
64970761 ATCAAACCGA
64970771 CCCAACAAATCGACTTATTTTATATTATTTTAAATTATTTAAAATATATTTATATTTTATAATAT
1 CCCAACAAATCGACTTATTTTATATTATTTTAAATTATTTAAAATATATTTATATTTTATAATAT
64970836 AGATATATAACCATATAAGTCCAACCCAAAATATTTTTAATGACAACAGCTTGTGTACATCCTAG
66 AGATATATAACCATATAAGTCCAACCCAAAATATTTTTAATGACAACAGCTTGTGTACATCCTAG
64970901 AAGAGAGCTCCTAAGTCAAGACAATTATGAAACAATACTTGGACAAAGCTTCTGTCTAGGTGTAA
131 AAGAGAGCTCCTAAGTCAAGACAATTATGAAACAATACTTGGACAAAGCTTCTGTCTAGGTGTAA
64970966 CATTTGCAATAAAAAGGATTTATCAAAATTACTCTCTAGATAGCTATTTCATCAATGTTTACTAT
196 CATTTGCAATAAAAAGGATTTATCAAAATTACTCTCTAGATAGCTATTTCATCAATGTTTACTAT
64971031 CCCAACAAAT-GACTTATTTTATATTATTTTAAATTATTTAAAATATATTTATATTTTATAATAT
1 CCCAACAAATCGACTTATTTTATATTATTTTAAATTATTTAAAATATATTTATATTTTATAATAT
64971095 AGATATATAACCATATAAGTCCAACCCAAAATATTTTTAATGACAACAGCTTGTGTACATCCTAG
66 AGATATATAACCATATAAGTCCAACCCAAAATATTTTTAATGACAACAGCTTGTGTACATCCTAG
64971160 AAGAGAGCTCCTAAGTCAAGACAATTATGAAACAATACTTGGACAAAGCTTCTGTCTAGGTGTAA
131 AAGAGAGCTCCTAAGTCAAGACAATTATGAAACAATACTTGGACAAAGCTTCTGTCTAGGTGTAA
64971225 CATTTGCAATAAAAAGGATTTATCAAAATTACTCTCTAGATAGCTATTTCATCAATGTTTACTAT
196 CATTTGCAATAAAAAGGATTTATCAAAATTACTCTCTAGATAGCTATTTCATCAATGTTTACTAT
64971290 TAAATTTATA
Statistics
Matches: 259, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
259 249 0.96
260 10 0.04
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (260 bp):
CCCAACAAATCGACTTATTTTATATTATTTTAAATTATTTAAAATATATTTATATTTTATAATAT
AGATATATAACCATATAAGTCCAACCCAAAATATTTTTAATGACAACAGCTTGTGTACATCCTAG
AAGAGAGCTCCTAAGTCAAGACAATTATGAAACAATACTTGGACAAAGCTTCTGTCTAGGTGTAA
CATTTGCAATAAAAAGGATTTATCAAAATTACTCTCTAGATAGCTATTTCATCAATGTTTACTAT
Found at i:64974040 original size:1 final size:1
Alignment explanation
Indices: 64974036--64974066 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
64974026 CCCCCCCCCC
*
64974036 AAAAAAAAAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
64974067 CCACACCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:64974067 original size:11 final size:11
Alignment explanation
Indices: 64974035--64974067 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
64974025 CCCCCCCCCC
64974035 CAAAAAAAAAA
1 CAAAAAAAAAA
64974046 -AAAAAAAAAA
1 CAAAAAAAAAA
64974056 CAAAAAAAAAA
1 CAAAAAAAAAA
64974067 C
1 C
64974068 CACACCTACN
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:64977809 original size:30 final size:30
Alignment explanation
Indices: 64977770--64977834 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
64977760 GTGTATAATT
*
64977770 ATATCAAATC-AAATTTATATATCAAATTAA
1 ATATTAAATCAAAATTTATATAT-AAATTAA
* *
64977800 ATATTAAATCAAAATTTATGTATAAATTTA
1 ATATTAAATCAAAATTTATATATAAATTAA
64977830 ATATT
1 ATATT
64977835 TATCGCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (30 bp):
ATATTAAATCAAAATTTATATATAAATTAA
Found at i:64982056 original size:25 final size:25
Alignment explanation
Indices: 64982028--64982077 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
64982018 TTTCTCACCC
64982028 CAATTTACCTCCGATAAAATTTTGA
1 CAATTTACCTCCGATAAAATTTTGA
* **
64982053 CAATTTGCCTTTGATAAAATTTTGA
1 CAATTTACCTCCGATAAAATTTTGA
64982078 GAAAATCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
CAATTTACCTCCGATAAAATTTTGA
Found at i:64983850 original size:2 final size:2
Alignment explanation
Indices: 64983843--64983900 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
64983833 TCGTCTGAGC
* *
64983843 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CG
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
64983885 CA CG CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA
64983901 TAAAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.50, G:0.05, T:0.00
Consensus pattern (2 bp):
CA
Found at i:64995593 original size:29 final size:29
Alignment explanation
Indices: 64995561--64995642 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 29
64995551 AAAATTTCAA
64995561 AATTTAAAAGTATAAGGCTAAAATTGATC
1 AATTTAAAAGTATAAGGCTAAAATTGATC
* * **
64995590 AATTCGAAAAGTACAAACACTAAAATTGATC
1 AATT-TAAAAGTA-TAAGGCTAAAATTGATC
*
64995621 AAATTAAAA-TATAAGGACTAAA
1 AATTTAAAAGTATAAGG-CTAAA
64995643 TTCATAAGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
28 2 0.05
29 11 0.27
30 11 0.27
31 17 0.41
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.26
Consensus pattern (29 bp):
AATTTAAAAGTATAAGGCTAAAATTGATC
Found at i:64997666 original size:113 final size:112
Alignment explanation
Indices: 64997526--64998029 Score: 423
Period size: 114 Copynumber: 4.4 Consensus size: 112
64997516 AAATCTCAAG
* * * *
64997526 ACCAACACGCAGCGTTCTGGTGC-TGATGTATATTGGCATTAGTGGCGCTTACGAACAAACGCCG
1 ACCAAAACGCAGCGTT-TGGT-CTTGATGTATATTAGAATTAGTGGCGCTTATGAA-AAACGCCG
* *
64997590 GTAATGTATAGTATTAAGCGGC-CTTAGTGGAAGCGCCGCAAAAGATGTTA
63 CTAATGTATAGTATT-AGCGGCACTTAGTGGAAGCGCCGCAAAAGATCTTA
* ** *
64997640 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTTCAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAT-GA-AAAACGCCGC
* * ** * * * *
64997705 TAATATATAGTATTAGCGGCGCAAAGCCT-TAAACGCCGCAAGACATCTTA
64 TAATGTATAGTATTAGCGGCACTTAG--TGGAAGCGCCGCAAAAGATCTTA
* * * * * *
64997755 ATCAAAACGCAGCGTGTTGGTCTTGATGTATAATATAATTAGTGGCGTTTAAGGAAAACGCCAG-
1 ACCAAAACGCAGCGT-TTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAACGCC-GC
* * * * *
64997819 TAAATG-ATAGT-TATAGCAGCATTTGGTGGTAAGCGCCTCAAAATATCTTA
64 T-AATGTATAGTAT-TAGCGGCACTTAGTGG-AAGCGCCGCAAAAGATCTTA
* * * *
64997869 ACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCGTTTGATGAAAAACGCCGCT
1 ACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTT-ATGAAAAACGCCGCT
* * *
64997934 AAAGTATA-TCATTAGCGGC-GTTTGTGGAACGCGCCGC-AAAGTATCTTA
65 AATGTATAGT-ATTAGCGGCACTTAGTGGAA-GCGCCGCAAAAG-ATCTTA
* * * *
64997982 ACCAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGC
1 ACCAAAACGCAGCGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGC
64998030 ANNNNNNNNN
Statistics
Matches: 311, Mismatches: 59, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
112 7 0.02
113 104 0.33
114 133 0.43
115 35 0.11
116 32 0.10
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTA
ATGTATAGTATTAGCGGCACTTAGTGGAAGCGCCGCAAAAGATCTTA
Found at i:64999013 original size:7 final size:7
Alignment explanation
Indices: 64999003--64999078 Score: 84
Period size: 7 Copynumber: 11.0 Consensus size: 7
64998993 TTACTGTTCG
64999003 GGGTTTA
1 GGGTTTA
64999010 GGGTTTA
1 GGGTTTA
*
64999017 GGGTTTG
1 GGGTTTA
64999024 GGGTTT-
1 GGGTTTA
64999030 GGGTTTA
1 GGGTTTA
64999037 GGGTTTA
1 GGGTTTA
*
64999044 GGGTTTG
1 GGGTTTA
64999051 GGGTTT-
1 GGGTTTA
* *
64999057 GGTTTTT
1 GGGTTTA
64999064 GAGGTTTA
1 G-GGTTTA
*
64999072 AGGTTTA
1 GGGTTTA
64999079 CAAATTATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
6 11 0.18
7 45 0.75
8 4 0.07
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:64999034 original size:27 final size:27
Alignment explanation
Indices: 64999003--64999077 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
64998993 TTACTGTTCG
64999003 GGGTTTAGGGTTTAGGGTTTGGGGTTT
1 GGGTTTAGGGTTTAGGGTTTGGGGTTT
64999030 GGGTTTAGGGTTTAGGGTTTGGGGTTT
1 GGGTTTAGGGTTTAGGGTTTGGGGTTT
* * *
64999057 GGTTTTTGAGGTTTAAGGTTT
1 GGGTTTAG-GGTTTAGGGTTT
64999078 ACAAATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 33 0.75
28 11 0.25
ACGTcount: A:0.09, C:0.00, G:0.44, T:0.47
Consensus pattern (27 bp):
GGGTTTAGGGTTTAGGGTTTGGGGTTT
Found at i:64999035 original size:20 final size:20
Alignment explanation
Indices: 64999002--64999052 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
64998992 TTTACTGTTC
64999002 GGGGTTTAGGGTTTAGGGTTT
1 GGGGTTT-GGGTTTAGGGTTT
64999023 GGGGTTTGGGTTTAGGGTTT
1 GGGGTTTGGGTTTAGGGTTT
*
64999043 AGGGTTTGGG
1 GGGGTTTGGG
64999053 GTTTGGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.08, C:0.00, G:0.51, T:0.41
Consensus pattern (20 bp):
GGGGTTTGGGTTTAGGGTTT
Found at i:65006338 original size:22 final size:22
Alignment explanation
Indices: 65006307--65006350 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65006297 TAGTGGCGTT
* *
65006307 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAGACCTA
65006329 AAAAAACGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAGACCTA
65006351 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAGACCTA
Found at i:65008776 original size:34 final size:34
Alignment explanation
Indices: 65008733--65008800 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
65008723 CAAAAAAAGT
*
65008733 ACATCAAGGCTAATTTAGTAGCTTATTCTTTAAA
1 ACATCAAGGCTAATTTAATAGCTTATTCTTTAAA
65008767 ACATCAAGGCTAATTTAATAGCTTATTCTTTAAA
1 ACATCAAGGCTAATTTAATAGCTTATTCTTTAAA
65008801 CGTGATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
ACATCAAGGCTAATTTAATAGCTTATTCTTTAAA
Found at i:65013041 original size:26 final size:25
Alignment explanation
Indices: 65012976--65013048 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
65012966 AATTTTCTCG
*
65012976 AAATTTTATAGGGGGTAAAATCGTCA
1 AAATTTTATA-GGGGTAAAATTGTCA
**
65013002 AAATTTTACCGGGGATAAAATTGTCA
1 AAATTTTATAGGGG-TAAAATTGTCA
*
65013028 AAATTTTATTGGGGTAAAATT
1 AAATTTTATAGGGGTAAAATT
65013049 AGGATGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (25 bp):
AAATTTTATAGGGGTAAAATTGTCA
Found at i:65019833 original size:22 final size:22
Alignment explanation
Indices: 65019799--65019841 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65019789 TGGTTTTTCT
*
65019799 ATTTTTAATAATTT-TTTAATG
1 ATTTTTAAGAATTTATTTAATG
65019820 ATTTTTGAAGAATTTATTTAAT
1 ATTTTT-AAGAATTTATTTAAT
65019842 TAAAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
ATTTTTAAGAATTTATTTAATG
Found at i:65025586 original size:244 final size:245
Alignment explanation
Indices: 65025146--65025634 Score: 971
Period size: 244 Copynumber: 2.0 Consensus size: 245
65025136 ACTTTAGCCC
65025146 CTTATAAATATAAAAATTATAAAGATATAGGCTATTAAAATGGTGAAATTACATTTTTGCTAGCA
1 CTTATAAATATAAAAATTATAAAGATATAGGCTATTAAAATGGTGAAATTACATTTTTGCTAGCA
65025211 TAAAAATTACAATTTAATTTCAGCCCCTTAAAAATTTTTTGGTTTCGCCTCTGCTAGTGGAATAA
66 TAAAAATTACAATTTAATTTCAGCCCCTTAAAAATTTTTTGGTTTCGCCTCTGCTAGTGGAATAA
65025276 CATTAGACATAAAATAAAGAATAGTTAATACAAATTTAAACTTAAAATTAGAAAGATAACTAAAA
131 CATTAGACATAAAATAAAGAATAGTTAATACAAATTTAAACTTAAAATTAGAAAGATAACTAAAA
65025341 ATTCCTGAACAAAATTAAAACACGAGAATAACTAAATATTACCAATGCGT
196 ATTCCTGAACAAAATTAAAACACGAGAATAACTAAATATTACCAATGCGT
65025391 CTTATAAATA-AAAAATTATAAAGATATAGGCTATTAAAATGGTGAAATTACATTTTTGCTAGCA
1 CTTATAAATATAAAAATTATAAAGATATAGGCTATTAAAATGGTGAAATTACATTTTTGCTAGCA
65025455 TAAAAATTACAATTTAATTTCAGCCCCTTAAAAATTTTTTGGTTTCGCCTCTGCTAGTGGAATAA
66 TAAAAATTACAATTTAATTTCAGCCCCTTAAAAATTTTTTGGTTTCGCCTCTGCTAGTGGAATAA
65025520 CATTAGACATAAAATAAAGAATAGTTAATACAAATTTAAACTTAAAATTAGAAAGATAACTAAAA
131 CATTAGACATAAAATAAAGAATAGTTAATACAAATTTAAACTTAAAATTAGAAAGATAACTAAAA
65025585 ATTCCTGAACAAAATTAAAACACGAGAATAACTAAATATTACCAATGCGT
196 ATTCCTGAACAAAATTAAAACACGAGAATAACTAAATATTACCAATGCGT
65025635 TAATTTATTA
Statistics
Matches: 244, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
244 234 0.96
245 10 0.04
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (245 bp):
CTTATAAATATAAAAATTATAAAGATATAGGCTATTAAAATGGTGAAATTACATTTTTGCTAGCA
TAAAAATTACAATTTAATTTCAGCCCCTTAAAAATTTTTTGGTTTCGCCTCTGCTAGTGGAATAA
CATTAGACATAAAATAAAGAATAGTTAATACAAATTTAAACTTAAAATTAGAAAGATAACTAAAA
ATTCCTGAACAAAATTAAAACACGAGAATAACTAAATATTACCAATGCGT
Found at i:65026669 original size:97 final size:97
Alignment explanation
Indices: 65026495--65026672 Score: 245
Period size: 97 Copynumber: 1.8 Consensus size: 97
65026485 TTGAACATGT
* * * *
65026495 GGTTACAAAATTGTGTTTTCTTTATAAATTTGAGTAAATAGTTAATGAATTTTGTAGTTGTTGTA
1 GGTTACAAAATCGTGTTTTCATTATAAATTTGAGTAAATAATTAATGAATTTTGTAGTTGTTATA
*
65026560 AAATATTGTTATTTAGAACTTTCAGTGTGTTC
66 AAATATTATTATTTAGAACTTTCAGTGTGTTC
* *
65026592 GGTTACAAAATCGTGTTTTCATTA-AGAA-TTGAAGTAAATAATTTATGATTTTTGTAGTTGTTA
1 GGTTACAAAATCGTGTTTTCATTATA-AATTTG-AGTAAATAATTAATGAATTTTGTAGTTGTTA
65026655 TAACAA-ATTATTATTTAG
64 TAA-AATATTATTATTTAG
65026673 GGAGATACTT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
96 4 0.06
97 65 0.92
98 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (97 bp):
GGTTACAAAATCGTGTTTTCATTATAAATTTGAGTAAATAATTAATGAATTTTGTAGTTGTTATA
AAATATTATTATTTAGAACTTTCAGTGTGTTC
Found at i:65028212 original size:16 final size:17
Alignment explanation
Indices: 65028181--65028213 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65028171 TAATAAATAT
*
65028181 ATATTTTTAATTTTAAA
1 ATATTTTTAATATTAAA
65028198 ATATTTTTAA-ATTAAA
1 ATATTTTTAATATTAAA
65028214 TTTTTTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTTTAATATTAAA
Found at i:65030289 original size:16 final size:15
Alignment explanation
Indices: 65030268--65030297 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65030258 CACAAAGACG
65030268 GTGGAACCAGTCCCAA
1 GTGGAACCA-TCCCAA
65030284 GTGGAACCATCCCA
1 GTGGAACCATCCCA
65030298 TGGTGTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.33, G:0.23, T:0.13
Consensus pattern (15 bp):
GTGGAACCATCCCAA
Found at i:65031300 original size:18 final size:20
Alignment explanation
Indices: 65031260--65031300 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
65031250 TTATTTTAAA
*
65031260 TTTTTTATATAGTATGTAGC
1 TTTTTTATATAGTATATAGC
65031280 TTTTTTAT-TAGTATATA-C
1 TTTTTTATATAGTATATAGC
65031298 TTT
1 TTT
65031301 ATATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTTTTATATAGTATATAGC
Found at i:65033662 original size:6 final size:6
Alignment explanation
Indices: 65033651--65033675 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65033641 TCAGCTTATC
65033651 CTAACA CTAACA CTAACA CTAACA C
1 CTAACA CTAACA CTAACA CTAACA C
65033676 CAATTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CTAACA
Found at i:65037736 original size:24 final size:26
Alignment explanation
Indices: 65037690--65037743 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
65037680 ATTGGTTCCT
65037690 TTTTTTTTCATTTTGAGCAA-TTTAA
1 TTTTTTTTCATTTTGAGCAATTTTAA
*
65037715 TTTTTTTTC-TTTT-ATGCTATTTTAA
1 TTTTTTTTCATTTTGA-GCAATTTTAA
65037740 TTTT
1 TTTT
65037744 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 7 0.27
25 18 0.69
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTTTTTCATTTTGAGCAATTTTAA
Found at i:65040058 original size:16 final size:17
Alignment explanation
Indices: 65040037--65040071 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
65040027 TATACATATG
65040037 TTTTATTTTTTA-TTTT
1 TTTTATTTTTTACTTTT
65040053 TTTTATTTTTTACTTTT
1 TTTTATTTTTTACTTTT
65040070 TT
1 TT
65040072 ATATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTATTTTTTACTTTT
Found at i:65040094 original size:20 final size:18
Alignment explanation
Indices: 65040066--65040117 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
65040056 TATTTTTTAC
65040066 TTTTT-TATATATACTTT
1 TTTTTATATATATACTTT
*
65040083 ATATTTTATATATACACTTT
1 -T-TTTTATATATATACTTT
*
65040103 TTTTTAAATATATAC
1 TTTTTATATATATAC
65040118 ACATGTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 13 0.45
19 5 0.17
20 11 0.38
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTATATATATACTTT
Found at i:65040107 original size:18 final size:18
Alignment explanation
Indices: 65040066--65040119 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
65040056 TATTTTTTAC
65040066 TTTTTTATATAT--ACTT
1 TTTTTTATATATACACTT
65040082 TATATTTTATATATACACTT
1 T-T-TTTTATATATACACTT
65040102 TTTTTTAAATATATACAC
1 TTTTTT--ATATATACAC
65040120 ATGTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 14 0.44
19 1 0.03
20 15 0.47
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTATATATACACTT
Found at i:65041912 original size:19 final size:18
Alignment explanation
Indices: 65041884--65041922 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
65041874 TGTACTGTGT
**
65041884 ATGTTTTTTTCTTTTAAA
1 ATGTTTTTTTAATTTAAA
65041902 ATGTATTTTTTAATTTAAA
1 ATGT-TTTTTTAATTTAAA
65041921 AT
1 AT
65041923 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
ATGTTTTTTTAATTTAAA
Found at i:65042636 original size:28 final size:28
Alignment explanation
Indices: 65042605--65042693 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
65042595 AAATTTTTTA
* *
65042605 AAAACACT-AAAATAATAAAAATTATAAT
1 AAAA-ACTAAAAAAAATAAAAACTATAAT
*
65042633 AAAAACTAAAAAAAATAATAACTATAAT
1 AAAAACTAAAAAAAATAAAAACTATAAT
* * *
65042661 --AAACTAAAAAGAAGTTAAAAACTAAAAA
1 AAAAACTAAAAA-AA-ATAAAAACTATAAT
65042689 AAAAA
1 AAAAA
65042694 GTTGGCACAC
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 10 0.20
27 5 0.10
28 31 0.63
30 3 0.06
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAACTAAAAAAAATAAAAACTATAAT
Found at i:65042653 original size:22 final size:21
Alignment explanation
Indices: 65042613--65042653 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
65042603 TAAAAACACT
* *
65042613 AAAATAATAAAAATTATAATA
1 AAAATAAAAAAAATAATAATA
65042634 AAAACTAAAAAAAATAATAA
1 AAAA-TAAAAAAAATAATAA
65042654 CTATAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATAAAAAAAATAATAATA
Found at i:65043218 original size:29 final size:29
Alignment explanation
Indices: 65043172--65043233 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
65043162 TTTCAACTTT
*
65043172 TTTTATTTTATTTCAATAAATCATTATAC
1 TTTTATTATATTTCAATAAATCATTATAC
**
65043201 TTTTATTATA-TTCAAATAAATTGTTATAC
1 TTTTATTATATTTC-AATAAATCATTATAC
65043230 TTTT
1 TTTT
65043234 GAATCCCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTTATTATATTTCAATAAATCATTATAC
Found at i:65046299 original size:16 final size:17
Alignment explanation
Indices: 65046273--65046306 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65046263 AAAATTGGAA
*
65046273 TGAGAAAATTATTTAAT
1 TGAGAAAATTAATTAAT
65046290 TGAG-AAATTAATTAAT
1 TGAGAAAATTAATTAAT
65046306 T
1 T
65046307 TAAATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TGAGAAAATTAATTAAT
Found at i:65048128 original size:9 final size:9
Alignment explanation
Indices: 65048110--65048142 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
65048100 ATGAATAAGC
65048110 AAAT-AAAT
1 AAATAAAAT
65048118 AAATAAAAT
1 AAATAAAAT
*
65048127 AATTAAAAT
1 AAATAAAAT
65048136 AAATAAA
1 AAATAAA
65048143 GGACTTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Found at i:65069711 original size:31 final size:29
Alignment explanation
Indices: 65069676--65069774 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 29
65069666 CTAACGGCTC
* *
65069676 AGTGACTAAAATGTTACAATGTGATAACATA
1 AGTGACTAAAATGTAAC-ATGTCA-AACATA
* *
65069707 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATGTCAAACATA
* *
65069736 AGTGACTAAAATGTAACATGAACCAAACAAA
1 AGTGACTAAAATGTAACATG--TCAAACATA
65069767 AGTGACTA
1 AGTGACTA
65069775 TTTTAGTAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 24 0.41
30 4 0.07
31 30 0.52
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGTCAAACATA
Found at i:65077505 original size:9 final size:9
Alignment explanation
Indices: 65077491--65077537 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 9
65077481 AAATGACTTC
65077491 AAAATTATA
1 AAAATTATA
65077500 AAAATT-TA
1 AAAATTATA
*
65077508 GAAATTAT-
1 AAAATTATA
65077516 AAAA-TATA
1 AAAATTATA
65077524 AAAATTATA
1 AAAATTATA
65077533 TAAAA
1 -AAAA
65077538 ATAAAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.09
8 14 0.44
9 11 0.34
10 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:65077544 original size:16 final size:15
Alignment explanation
Indices: 65077491--65077558 Score: 66
Period size: 17 Copynumber: 4.3 Consensus size: 15
65077481 AAATGACTTC
*
65077491 AAAATTATAAAAATTT
1 AAAATTATAAAAA-AT
*
65077507 AGAAATTATAAAATAT
1 A-AAATTATAAAAAAT
65077523 AAAAATTATATAAAAAT
1 -AAAATTATA-AAAAAT
65077540 AAAATGTA-AAAAAAT
1 AAAAT-TATAAAAAAT
65077555 AAAA
1 AAAA
65077559 AAAATATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
15 10 0.22
16 16 0.36
17 19 0.42
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATTATAAAAAAT
Found at i:65077886 original size:56 final size:59
Alignment explanation
Indices: 65077776--65077959 Score: 187
Period size: 60 Copynumber: 3.2 Consensus size: 59
65077766 GAAATGTTAG
* * * * * * *
65077776 GGACTAACTTGGACAAAAAAAAAATCAAGCCCGAAGGTGCG-AACAATTGTCAAGTTTAA
1 GGACTAACTTGAACAAAAAATAATTCAAGCCCTAATGTG-GAAACAATTATCAAGTTCAA
* ** * * *
65077835 GGACTAATTTG-GGAAAAAA-AGTTCAGGCCCTAATGT-GAAATAATTATCAAGTTCAA
1 GGACTAACTTGAACAAAAAATAATTCAAGCCCTAATGTGGAAACAATTATCAAGTTCAA
* *
65077891 GGACTAACTTGAAACAAAAAATAATTCAAGCCCTAGTGTGGGAACAATTATCAAGTTCAA
1 GGACTAACTTG-AACAAAAAATAATTCAAGCCCTAATGTGGAAACAATTATCAAGTTCAA
65077951 GGACTAACT
1 GGACTAACT
65077960 CAAACAACAA
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
55 1 0.01
56 25 0.25
57 12 0.12
58 12 0.12
59 24 0.24
60 27 0.27
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (59 bp):
GGACTAACTTGAACAAAAAATAATTCAAGCCCTAATGTGGAAACAATTATCAAGTTCAA
Found at i:65079513 original size:16 final size:17
Alignment explanation
Indices: 65079482--65079514 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65079472 TAAAATTTTA
65079482 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
65079500 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
65079515 CTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:65079562 original size:16 final size:16
Alignment explanation
Indices: 65079532--65079581 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
65079522 TATATATGTA
65079532 TAATAAAAATATAAAAT
1 TAAT-AAAATATAAAAT
* *
65079549 TAATAAAATTTAAATT
1 TAATAAAATATAAAAT
*
65079565 TAATAACAACATAAAAT
1 TAATAA-AATATAAAAT
65079582 ATATAATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAAATATAAAAT
Found at i:65083409 original size:375 final size:374
Alignment explanation
Indices: 65082699--65083447 Score: 1403
Period size: 375 Copynumber: 2.0 Consensus size: 374
65082689 ATATATATAT
65082699 ATATATATATGTAATTCGAATGTAAGGCTTATTTCTTGGGTTGGATTTAAAGTTTTGAGTTATAA
1 ATATATATATGTAATTCGAATGTAAGGCTTATTTCTTGGGTTGGATTTAAAGTTTTGAGTTATAA
65082764 ATATTGGTTTGAAAGTATAATACAAGTTCTTGAGCTAAAATTAATATTTATGAATTACTATATTA
66 ATATTGGTTTGAAAGTATAATACAAGTTCTTGAGCTAAAATTAATATTTATGAATTACTATATTA
* * *
65082829 ATATGCGTGTGGTTCAAACATACACACATATATATATTCAAGTTCTTGAGTTGGAAAAAATTAAG
131 ATATGCGTGTGGCTCAAACATACAAACATATATATATTCAAATTCTTGAGTTGGAAAAAATTAAG
*
65082894 GTATGAATTTTATATATCTAAGGAAGTTCGAATACAGGTTGTAAAGTCTTTTGAGCTGAATTTAA
196 GGATGAATTTTATATATCTAAGGAAGTTCGAATACAGGTTGTAAAGTCTTTTGAGCTGAATTTAA
65082959 TGTTTTTGAGTTATACTTATGTGGTTCGAATGCATGTTTACTTAGAAGAATCGAATATAATTCAA
261 TGTTTTTGAGTTATACTTATGTGGTTCGAATGCATGTTTACTTAGAAGAATCGAATATAATTCAA
65083024 TGTTACAGATATACGGTTGTTAAGTAAGACTTATGTAATTAAAAAGATC
326 TGTTACAGATATACGGTTGTTAAGTAAGACTTATGTAATTAAAAAGATC
65083073 ATATATATATGTAATTCGAATGTAAGGCTTATTTCTTGGGTTGGATTTAAAGTTTTGAGTTATAA
1 ATATATATATGTAATTCGAATGTAAGGCTTATTTCTTGGGTTGGATTTAAAGTTTTGAGTTATAA
65083138 ATATTGGTTTGAAAGTATAATACAAGTTCTTGAGCTAAAATTAATA-TTATGAATTACATATATT
66 ATATTGGTTTGAAAGTATAATACAAGTTCTTGAGCTAAAATTAATATTTATGAATTAC-TATATT
* *
65083202 AATATGCGTGTGGCTCGAACATACAAAAATATATATATATTCAAATTCTTGAGTTGG-AAAAATT
130 AATATGCGTGTGGCTCAAACATAC--AAACATATATATATTCAAATTCTTGAGTTGGAAAAAATT
65083266 AAGGGATGAATTTTATATATCTAAGGAAGTTCGAATACAGGTTGTAAAGTCTTTTGAGCTGAATT
193 AAGGGATGAATTTTATATATCTAAGGAAGTTCGAATACAGGTTGTAAAGTCTTTTGAGCTGAATT
65083331 TAATGTTTTTGAGTTATACTTATGTGGTTCGAATGCATGTTTACTTAGAAGAATCGAATATAATT
258 TAATGTTTTTGAGTTATACTTATGTGGTTCGAATGCATGTTTACTTAGAAGAATCGAATATAATT
65083396 CAATGTTACAGATATACGGTTGTTAAGTAAGACTTATGTAATTAAAAAGATC
323 CAATGTTACAGATATACGGTTGTTAAGTAAGACTTATGTAATTAAAAAGATC
65083448 TTTATGAAAG
Statistics
Matches: 366, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
373 11 0.03
374 139 0.38
375 188 0.51
376 28 0.08
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.39
Consensus pattern (374 bp):
ATATATATATGTAATTCGAATGTAAGGCTTATTTCTTGGGTTGGATTTAAAGTTTTGAGTTATAA
ATATTGGTTTGAAAGTATAATACAAGTTCTTGAGCTAAAATTAATATTTATGAATTACTATATTA
ATATGCGTGTGGCTCAAACATACAAACATATATATATTCAAATTCTTGAGTTGGAAAAAATTAAG
GGATGAATTTTATATATCTAAGGAAGTTCGAATACAGGTTGTAAAGTCTTTTGAGCTGAATTTAA
TGTTTTTGAGTTATACTTATGTGGTTCGAATGCATGTTTACTTAGAAGAATCGAATATAATTCAA
TGTTACAGATATACGGTTGTTAAGTAAGACTTATGTAATTAAAAAGATC
Found at i:65084436 original size:21 final size:20
Alignment explanation
Indices: 65084396--65084433 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
65084386 TTTGTTGCCC
65084396 AAGAGTAAATACTCAAAATT
1 AAGAGTAAATACTCAAAATT
65084416 AAGAGTAAATACTCAAAA
1 AAGAGTAAATACTCAAAA
65084434 ATTGAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.21
Consensus pattern (20 bp):
AAGAGTAAATACTCAAAATT
Found at i:65086422 original size:57 final size:57
Alignment explanation
Indices: 65086316--65086452 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 57
65086306 CGGTAAAAAG
*
65086316 GATCTAGCTCGGACGGGTGATCCTATCCTGATATAACCCTCCCGAAGAATATGTGTGAAAA-A
1 GATCTAGCCCGGACGGGTGAT-C--T--TGATATAACCCTCCCGAAGAATATGTG-GAAAATA
* * * *
65086378 GATCTAGCCTGGACGGGTGATCTTGATATAGCCCTCTCGAAGAATATGTGGAAAATG
1 GATCTAGCCCGGACGGGTGATCTTGATATAACCCTCCCGAAGAATATGTGGAAAATA
*
65086435 GATTTAGCCCGGACGGGT
1 GATCTAGCCCGGACGGGT
65086453 AATTCGAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
56 5 0.07
57 41 0.61
59 1 0.01
61 1 0.01
62 19 0.28
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (57 bp):
GATCTAGCCCGGACGGGTGATCTTGATATAACCCTCCCGAAGAATATGTGGAAAATA
Found at i:65089579 original size:47 final size:47
Alignment explanation
Indices: 65089479--65089591 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
65089469 ATGGGGTTCG
* * *
65089479 CATAAAACATAAAGGGTTCGTATAATTCAATATGTAGGGTTCGCATA
1 CATAAAACATAAAGGGTTCGCATAAGTCAATATGTAGAGTTCGCATA
* *
65089526 CCTAAAACATGAAGGGTTCGCATATAGT-AGA-ATGTAGAGTTCGCATGA
1 CATAAAACATAAAGGGTTCGCATA-AGTCA-ATATGTAGAGTTCGCAT-A
* *
65089574 -ATAAAACTTACAGGGTTC
1 CATAAAACATAAAGGGTTC
65089592 ACACCTATGC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (47 bp):
CATAAAACATAAAGGGTTCGCATAAGTCAATATGTAGAGTTCGCATA
Found at i:65091369 original size:19 final size:19
Alignment explanation
Indices: 65091296--65091406 Score: 58
Period size: 19 Copynumber: 5.9 Consensus size: 19
65091286 AGTACTTATT
*
65091296 ATTTTTAT-ATTTTTTATAA
1 ATTTTTATAATTTTTAAT-A
*
65091315 ATTTATATCAA-TTTTAATA
1 ATTTTTAT-AATTTTTAATA
* *
65091334 CATATATT-TAATATTTAATA
1 -AT-TTTTATAATTTTTAATA
65091354 ATTTTTATAATTTTT-AT-
1 ATTTTTATAATTTTTAATA
* *
65091371 -TTTTTA-AAATTTTAAAA
1 ATTTTTATAATTTTTAATA
65091388 ATATTTTA-AGATTTTTAAT
1 AT-TTTTATA-ATTTTTAAT
65091407 CACTTTTATG
Statistics
Matches: 70, Mismatches: 11, Indels: 21
0.69 0.11 0.21
Matches are distributed among these distances:
15 6 0.09
16 7 0.10
18 6 0.09
19 25 0.36
20 23 0.33
21 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTTTATAATTTTTAATA
Found at i:65091403 original size:9 final size:9
Alignment explanation
Indices: 65091347--65091405 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
65091337 ATATTTAATA
65091347 TTTAATAATT
1 TTTAA-AATT
*
65091357 TTTATAATT
1 TTTAAAATT
*
65091366 TTT--ATTT
1 TTTAAAATT
65091373 TTTAAAATT
1 TTTAAAATT
*
65091382 TTAAAAATAT
1 TTTAAAAT-T
*
65091392 TTTAAGATT
1 TTTAAAATT
65091401 TTTAA
1 TTTAA
65091406 TCACTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 6 0.15
9 23 0.57
10 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:65099899 original size:96 final size:95
Alignment explanation
Indices: 65099708--65099896 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 95
65099698 AAACCCTAAA
* * *
65099708 TACTCAAGTAACCCTAAACCCTAATTTATTTGATTTCTTCCTTAAAAACCCTAAACCCTAACCCT
1 TACTCAAGTAACCCTAAACCCTAATTTATTTAATTTCTT-CTTAAAAACCATAAACACTAACCCT
*
65099773 AATCTAATTTTTTTAAAATTTATAATTAATT
65 AATCTAATTTTCTTAAAATTTATAATTAATT
*
65099804 TACTCAAGTAACCCTAAACCCTAATTTATTTAATTT-TT-TT-CAAACCATAAACACTAAACCCT
1 TACTCAAGTAACCCTAAACCCTAATTTATTTAATTTCTTCTTAAAAACCATAAACACT-AACCCT
65099866 AATCTAA-TTTCTT-AAATTTATAATTAATT
65 AATCTAATTTTCTTAAAATTTATAATTAATT
65099895 TA
1 TA
65099897 ATTAAGAAAC
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
91 18 0.21
92 17 0.20
93 15 0.17
95 2 0.02
96 35 0.40
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.40
Consensus pattern (95 bp):
TACTCAAGTAACCCTAAACCCTAATTTATTTAATTTCTTCTTAAAAACCATAAACACTAACCCTA
ATCTAATTTTCTTAAAATTTATAATTAATT
Found at i:65100153 original size:40 final size:40
Alignment explanation
Indices: 65100062--65100159 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
65100052 CAACGTAGAC
* * *
65100062 ACAAAGCGCTCCCTCAAGGAAACGTTTTCTGTCCATGTGG
1 ACAAAGCGCTTCCTTAAGGAAACGTTTTCTGTCCACGTGG
* * * *
65100102 ACAAAGTGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGG
1 ACAAAGCGCTTCCTTAAGGAAACGTTTTCTGTCCACGTGG
65100142 ACAAAGCGCTTCCTTAAG
1 ACAAAGCGCTTCCTTAAG
65100160 AAAGTGTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
ACAAAGCGCTTCCTTAAGGAAACGTTTTCTGTCCACGTGG
Found at i:65100169 original size:40 final size:40
Alignment explanation
Indices: 65100062--65100170 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
65100052 CAACGTAGAC
* * *
65100062 ACAAAGCGCTCCCTCAAGGAAA-CGTTTTCTGTCCATGTGG
1 ACAAAGCGCTTCCTTAA-GAAAGCGTTTTCTGTCCACGTGG
* * * *
65100102 ACAAAGTGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGG
1 ACAAAGCGCTTCCTTAAGAAAGCGTTTTCTGTCCACGTGG
*
65100142 ACAAAGCGCTTCCTTAAGAAAGTGTTTTC
1 ACAAAGCGCTTCCTTAAGAAAGCGTTTTC
65100171 CTGCTTTATC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 3 0.05
40 53 0.95
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (40 bp):
ACAAAGCGCTTCCTTAAGAAAGCGTTTTCTGTCCACGTGG
Found at i:65104700 original size:24 final size:24
Alignment explanation
Indices: 65104658--65104709 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
65104648 AATCAAAGTC
65104658 AAATATATTAAGCTAATAAA-AGCT
1 AAATATATTAAGCTAATAAATA-CT
*
65104682 AAATATATTATA-CTCATAAATACT
1 AAATATATTA-AGCTAATAAATACT
65104706 AAAT
1 AAAT
65104710 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATATATTAAGCTAATAAATACT
Found at i:65116164 original size:2 final size:2
Alignment explanation
Indices: 65116157--65116182 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65116147 TACCCTTAAT
65116157 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
65116183 AATAATCAAT
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:65117188 original size:20 final size:21
Alignment explanation
Indices: 65117134--65117189 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
65117124 AAAAAATGAC
65117134 ATTTTAGATTTTTTTAATAAAT
1 ATTTT-GATTTTTTTAATAAAT
** *
65117156 ATTTTGAAATTTTTAA-AATT
1 ATTTTGATTTTTTTAATAAAT
65117176 ATTTTGATTTTTTT
1 ATTTTGATTTTTTT
65117190 TTTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 15 0.52
21 9 0.31
22 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTTGATTTTTTTAATAAAT
Found at i:65117291 original size:18 final size:18
Alignment explanation
Indices: 65117264--65117298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65117254 CAATCTATCG
*
65117264 TTTGAGTTATTCAAATTA
1 TTTGAATTATTCAAATTA
*
65117282 TTTGAATTATTCGAATT
1 TTTGAATTATTCAAATT
65117299 GTGAAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTATTCAAATTA
Found at i:65118877 original size:24 final size:26
Alignment explanation
Indices: 65118844--65118899 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
65118834 CATTTAATCA
* *
65118844 GTAAATATATATTTTTTAA-AAATTT
1 GTAAAAATATATTATTTAATAAATTT
65118869 -TAAAAATATATTATTTAATAAATTT
1 GTAAAAATATATTATTTAATAAATTT
65118894 GTAAAA
1 GTAAAA
65118900 TAAATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 16 0.59
25 6 0.22
26 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
GTAAAAATATATTATTTAATAAATTT
Done.