Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 277 of 295
Found at i:88239475 original size:30 final size:29
Alignment explanation
Indices: 88239435--88239550 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
88239425 TAAAAAATAA
* *
88239435 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
88239465 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
88239495 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
88239525 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
88239551 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:88240080 original size:24 final size:24
Alignment explanation
Indices: 88240053--88240107 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
88240043 AAACAAAAAA
88240053 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
* *
88240077 AAGCAGAAAAAAAGAATAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
88240101 AAGCAGC
1 AAGCAGC
88240108 CCACTTTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.65, C:0.09, G:0.24, T:0.02
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Found at i:88240735 original size:17 final size:17
Alignment explanation
Indices: 88240692--88240739 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
88240682 AGAAAAAAAT
88240692 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
88240711 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
88240727 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
88240740 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:88240842 original size:16 final size:16
Alignment explanation
Indices: 88240794--88240842 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
88240784 TTTCTTTCTA
*
88240794 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
88240810 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
88240827 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
88240843 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:88240872 original size:20 final size:21
Alignment explanation
Indices: 88240841--88240880 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
88240831 ATTCGTGTTT
88240841 TCGTGTTTTCAAAAAAAAATC
1 TCGTGTTTTCAAAAAAAAATC
88240862 TCGTG-TTTCAAAAAAAAAT
1 TCGTGTTTTCAAAAAAAAAT
88240881 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
TCGTGTTTTCAAAAAAAAATC
Found at i:88240886 original size:6 final size:6
Alignment explanation
Indices: 88240871--88240902 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
88240861 CTCGTGTTTC
88240871 AAAA-A AAAATA AAAATA AAAA-A AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
88240903 AATTCTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (6 bp):
AAAATA
Found at i:88240890 original size:11 final size:11
Alignment explanation
Indices: 88240871--88240904 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
88240861 CTCGTGTTTC
*
88240871 AAAAA-AAAAT
1 AAAAATAAAAA
88240881 AAAAATAAAAA
1 AAAAATAAAAA
88240892 AAAAATAAAAA
1 AAAAATAAAAA
88240903 AA
1 AA
88240905 TTCTCGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:88240989 original size:18 final size:18
Alignment explanation
Indices: 88240968--88241397 Score: 241
Period size: 17 Copynumber: 25.0 Consensus size: 18
88240958 AAATTTAGTG
88240968 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
88240986 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
88241004 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
88241022 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
88241039 TTTTCGTGTTTAAAAAAA
1 TTTTCGTGTTTTCAAAAA
*
88241057 TTTTACGTGTTTTCACAAA
1 TTTT-CGTGTTTTCAAAAA
*
88241076 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
88241093 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
88241111 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
88241127 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
88241145 TTCTCGCG-TTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
88241162 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
88241180 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
88241194 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
88241209 ---TCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88241223 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
88241240 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88241257 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
88241274 TTCCCGTG-TTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
* *
88241293 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
88241311 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
88241330 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
88241347 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
88241363 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88241381 TTCTCGTATTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
88241398 AAACTTTCGT
Statistics
Matches: 320, Mismatches: 59, Indels: 67
0.72 0.13 0.15
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 9 0.03
15 3 0.01
16 21 0.07
17 124 0.39
18 114 0.36
19 37 0.12
20 5 0.02
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:88241065 original size:19 final size:18
Alignment explanation
Indices: 88240968--88241086 Score: 89
Period size: 18 Copynumber: 6.6 Consensus size: 18
88240958 AAATTTAGTG
**
88240968 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTAAAAAAA
**
88240986 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTAAAAAAA
**
88241004 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTAAAAAAA
* * * *
88241022 TTCTGGCGTTT-CAAAAA
1 TTTTCGTGTTTAAAAAAA
88241039 TTTTCGTGTTTAAAAAAA
1 TTTTCGTGTTTAAAAAAA
** *
88241057 TTTTACGTGTTTTCACAAA
1 TTTT-CGTGTTTAAAAAAA
88241076 TTTTCGTGTTT
1 TTTTCGTGTTT
88241087 CACAAATTCT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
17 16 0.18
18 54 0.61
19 18 0.20
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTTCGTGTTTAAAAAAA
Found at i:88241094 original size:54 final size:53
Alignment explanation
Indices: 88240968--88241397 Score: 193
Period size: 54 Copynumber: 8.3 Consensus size: 53
88240958 AAATTTAGTG
**
88240968 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAATTTTCGTGTTTAAAAAAATCTTTGTGTTTTCAAAAA
* * * *
88241022 TTCTGGCGTTTCAAAAATTTTCGTGTTTAAAAAAAT-TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCTTT--GTGTTTTCAAAAA
* * ** ** *
88241076 TTTTCGTGTTTCACAAATTCTCGTGTTTTCAAAAA-CTCCAGTG-TTTC-AAAG
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCT-TTGTGTTTTCAAAAA
* * * * * *
88241127 TTTCCATGTTTTCAAAAATTCTCGCGTTTAAAAAAA-ATTCGTG-TTTCAAAATA
1 TTTTCGTG-TTTCAAAAATTTTCGTGTTTAAAAAAATCTTTGTGTTTTCAAAA-A
* ** ***
88241180 TTCTCGCATTTC---AATTTT--TGTTT-TTTAAATC---GTG-TTTCAAAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCTTTGTGTTTTCAAAAA
* * * ** **
88241223 ATGTCGTGTTTTAAAAATTTTCGTGTTT-CTAAAAT-TTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCTT-TGTGTTTTCAAAAA
** * * * * *
88241274 TTCCCGTGTTTCAAAAAAAATGTCGTGTTTTAAGAAAAT-TTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTC--AAAAATTTTCGTG-TTTAAAAAAATCTTTGTGTTTTC-AAAAA
* * * *
88241330 TTTTCGTGTTTCTAAAATTTTCGTGTTT-ACAAATTC-TCGTGTTTTCAAAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCTTTGTGTTTTCAAAAA
* * *
88241381 TTCTCGTATTTTAAAAA
1 TTTTCGTGTTTCAAAAA
88241398 AAACTTTCGT
Statistics
Matches: 283, Mismatches: 68, Indels: 53
0.70 0.17 0.13
Matches are distributed among these distances:
43 8 0.03
44 11 0.04
46 9 0.03
47 4 0.01
48 10 0.04
49 5 0.02
51 48 0.17
52 55 0.19
53 46 0.16
54 65 0.23
55 7 0.02
56 15 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (53 bp):
TTTTCGTGTTTCAAAAATTTTCGTGTTTAAAAAAATCTTTGTGTTTTCAAAAA
Found at i:88241398 original size:18 final size:18
Alignment explanation
Indices: 88241360--88241398 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88241350 TCGTGTTTAC
* *
88241360 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTATTTTAAA
88241378 AAATTCTCGTATTTTAAA
1 AAATTCTCGTATTTTAAA
88241396 AAA
1 AAA
88241399 AACTTTCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (18 bp):
AAATTCTCGTATTTTAAA
Found at i:88241406 original size:90 final size:89
Alignment explanation
Indices: 88241218--88241410 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 89
88241208 ATCGTGTTTC
* *
88241218 AAAAAATGTCG-TGTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
1 AAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
* *
88241281 GTTTCAAAAAAAATGTCGTGTTTTA
66 GTTTC-AAAAAAATCTCGTATTTTA
* * * * *
88241306 AGAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTG-TTTACAAATTCTCGT
1 AAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
*
88241370 GTTTTC-AAAAATTCTCGTATTTTAA
66 G-TTTCAAAAAAATCTCGTATTTT-A
88241395 AAAAAACTTTCGTTTT
1 AAAAAA-TTTCGTTTT
88241411 AAAAAAGAGA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
88 23 0.26
89 24 0.27
90 42 0.47
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (89 bp):
AAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGT
GTTTCAAAAAAATCTCGTATTTTA
Found at i:88253388 original size:123 final size:123
Alignment explanation
Indices: 88253162--88253404 Score: 346
Period size: 122 Copynumber: 2.0 Consensus size: 123
88253152 AGGAAAATCA
* *
88253162 ACTCATATCACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
1 ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
*
88253227 GAGAAGTGAGTTGAGCCTAGGGGCACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
66 GAGAAGTGAGTTGAGCCTAGGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
**
88253285 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTC-AAAATCAACTCATATTGC
1 ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
* * ** * * *
88253349 TAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTAATTTTAATTTCTGTTGTTAAA
66 GAGAAGTGAGTTGAGCCT-AGGGACACGCCAAGGTATTTTTAGTTTATGTT-TTAAA
88253405 AAAAATCAAC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
122 58 0.55
123 48 0.45
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (123 bp):
ACTCATATCACGAGAGGTGAGTTAAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTAGGGACACGCCAAGGTATTTTTAGTTTATGTTTTAAATTG
Found at i:88253525 original size:72 final size:72
Alignment explanation
Indices: 88253317--88254269 Score: 1529
Period size: 72 Copynumber: 13.2 Consensus size: 72
88253307 TAAGCCTTTT
* * ** * *
88253317 AATTTATGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
88253381 GTAATTTT
65 GTAATTTC
* * * *
88253389 AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT--CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
88253454 AGGTAATTTC
63 AGGTAATTTC
* * *
88253464 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
88253529 TATTTTC
66 TAATTTC
88253536 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
88253601 GTAATTTC
65 GTAATTTC
88253609 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88253674 TAATTTC
66 TAATTTC
88253681 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88253746 TAATTTC
66 TAATTTC
88253753 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88253818 TAATTTC
66 TAATTTC
88253825 AATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88253889 TAATTTC
66 TAATTTC
88253896 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88253961 TAATTTC
66 TAATTTC
88253968 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
88254033 TATTTTC
66 TAATTTC
*
88254040 AATTTCTGCTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
88254105 TAATTTC
66 TAATTTC
*
88254112 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
88254177 TATTTTC
66 TAATTTC
* ** * * *
88254184 AAATTCTACT-TTTTC-AAA-TCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGC
1 -AATT-T-CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGT
**
88254246 TGAGGTCTTTTC
61 TGAGGTAATTTC
*
88254258 AAATTCTGTTTT
1 AATTTCTGTTTT
88254270 TAATTTTTGT
Statistics
Matches: 840, Mismatches: 29, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
71 75 0.09
72 598 0.71
73 78 0.09
74 27 0.03
75 62 0.07
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:88253948 original size:287 final size:287
Alignment explanation
Indices: 88253317--88254269 Score: 1525
Period size: 287 Copynumber: 3.3 Consensus size: 287
88253307 TAAGCCTTTT
* * ** *
88253317 AATTTATGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * * *
88253382 TAATTTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
65 TAATTTCAATTTCTGTT-TT--CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* *
88253447 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
127 CACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
* * *
88253512 CTCAGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATG
192 CTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATG
88253577 AGTTGAGCCTCAAGACACGTTGAGGTAATTTC
256 AGTTGAGCCTCAAGACACGTTGAGGTAATTTC
*
88253609 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
88253674 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
65 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
88253739 GTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
130 GTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
88253804 AAGACACGTTGAGGTAATTTCAATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
195 AAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
88253868 GAGCCTCAAGACACGTTGAGGTAATTTC
260 GAGCCTCAAGACACGTTGAGGTAATTTC
*
88253896 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
88253961 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
65 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* *
88254026 GTTGAGGTATTTTCAATTTCTGCTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
130 GTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
88254091 AAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
195 AAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
* *
88254156 GAGCCTCAAGACACATTGAGGTATTTTC
260 GAGCCTCAAGACACGTTGAGGTAATTTC
* ** * *
88254184 AAATTCTACT-TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCT
1 -AATT-T-CTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCT
** *
88254247 GAGGTCTTTTCAAATTCTGTTTT
61 GAGGTAATTTCAATTTCTGTTTT
88254270 TAATTTTTGT
Statistics
Matches: 626, Mismatches: 28, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
287 285 0.46
288 92 0.15
289 139 0.22
290 32 0.05
291 13 0.02
292 65 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (287 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTG
AGCCTCAAGACACGTTGAGGTAATTTC
Found at i:88254381 original size:53 final size:54
Alignment explanation
Indices: 88254304--88254553 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
88254294 GTTTCAAAAA
* *
88254304 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
88254358 AAAAATCAA-TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
*
88254411 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
* *
88254461 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTATTTTTC
*
88254516 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
88254554 GGCTCACGTG
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 47 0.26
52 4 0.02
53 50 0.27
54 35 0.19
55 42 0.23
56 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
Found at i:88254819 original size:13 final size:15
Alignment explanation
Indices: 88254795--88254828 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
88254785 TTTAATTTTC
88254795 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
88254809 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
88254823 AAAATT
1 AAAATT
88254829 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:88254887 original size:30 final size:29
Alignment explanation
Indices: 88254824--88254940 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 29
88254814 TTAAAAATAA
* *
88254824 AAATTGCATTTTGACACCTAAACTTT-TCCT
1 AAATTTCATTTTGAC-CCTAAACTTTCT-TT
88254854 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
88254884 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCTTT
* * *
88254914 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
88254941 AAAAATTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 12 0.16
30 57 0.78
31 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:88255470 original size:24 final size:24
Alignment explanation
Indices: 88255443--88255497 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
88255433 AAACAAAAAA
88255443 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
* *
88255467 AAGCAGAAAAAAAGAATAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
88255491 AAGCAGC
1 AAGCAGC
88255498 CCACTTTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.65, C:0.09, G:0.24, T:0.02
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Found at i:88256122 original size:17 final size:17
Alignment explanation
Indices: 88256079--88256126 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
88256069 AGAAAAAAAT
88256079 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
88256098 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
88256114 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
88256127 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:88256229 original size:16 final size:16
Alignment explanation
Indices: 88256181--88256229 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
88256171 TTTCTTTCTA
*
88256181 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
88256197 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
88256214 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
88256230 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:88256266 original size:20 final size:20
Alignment explanation
Indices: 88256228--88256264 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
88256218 ATTCGTGTTT
88256228 TCGTGTTTTCAAAAAAAATC
1 TCGTGTTTTCAAAAAAAATC
88256248 TCGTG-TTTCAAAAAAAA
1 TCGTGTTTTCAAAAAAAA
88256265 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAAATC
Found at i:88256276 original size:9 final size:9
Alignment explanation
Indices: 88256258--88256291 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
88256248 TCGTGTTTCA
88256258 AAAAAAAAT
1 AAAAAAAAT
*
88256267 AAAAATAAT
1 AAAAAAAAT
88256276 AAAAAAAAT
1 AAAAAAAAT
88256285 AAAAAAA
1 AAAAAAA
88256292 TTCTCGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:88256376 original size:18 final size:18
Alignment explanation
Indices: 88256355--88256782 Score: 239
Period size: 18 Copynumber: 25.0 Consensus size: 18
88256345 AAATTTAGTG
88256355 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
88256373 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
88256391 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
88256409 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
88256426 TTTTCGTGTTTAAAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88256444 TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
88256462 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
88256479 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
88256497 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
88256513 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
88256531 TTCTCGCG-TTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
88256548 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
88256566 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
88256580 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
88256595 ---TCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88256609 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
88256626 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
88256643 -TTTCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
88256659 TTCCCGTG-TTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
* *
88256678 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
88256696 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
88256715 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
88256732 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
88256748 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
88256766 TTCTCGTATTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
88256783 AAACTTTCGT
Statistics
Matches: 316, Mismatches: 61, Indels: 67
0.71 0.14 0.15
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 9 0.03
15 3 0.01
16 31 0.10
17 115 0.36
18 124 0.39
19 22 0.07
20 5 0.02
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:88256427 original size:53 final size:53
Alignment explanation
Indices: 88256364--88256771 Score: 223
Period size: 53 Copynumber: 8.0 Consensus size: 53
88256354 GTTTTCGTGT
* *
88256364 TTTCAAAAATTTTCGTGTTTTCAAAAATCTT-TGTGTTTTCAAAAATTCTGGCG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAT-TTACGTGTTTTCAAAAATTCTCGCG
** * * *
88256417 TTTCAAAAATTTTCGTGTTTAAAAAAATTTACGTGTTTTCACAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTTACGTGTTTTCAAAAATTCTCGCG
* * * * ** **
88256470 TTTCACAAATTCTCGTGTTTTCAAAAA-CTCCAGTG-TTTCAAAGTTTC-CATG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTTAC-GTGTTTTCAAAAATTCTCGCG
* * ** * *
88256521 TTTTCAAAAATTCTCGCGTTTAAAAAAAATT-CGTG-TTTCAAAATATTCTCGCA
1 -TTTCAAAAATTTTCGTGTTTTCAAAAATTTACGTGTTTTCAAAA-ATTCTCGCG
** * * *
88256574 TTTC---AATTTT--TGTTTT-TTAAA--T-CGTG-TTTCAAAAAATGTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTTACGTGTTTTCAAAAATTCTCGCG
* * * * *
88256617 TTTTAAAAATTTTCGTG-TTTCTAAAATTT-CCTGTTTT-AAAAATTCCCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTTACGTGTTTTCAAAAATTCTCGCG
* * * * * *
88256667 TTTCAAAAAAAATGTCGTGTTTTAAGAAAATTT-CGTTTTTTCTAAAAATTTTCGTG
1 TTTC--AAAAATTTTCGTGTTTTCA-AAAATTTACGTGTTTTC-AAAAATTCTCGCG
* *
88256723 TTTCTAAAATTTTCGTG-TTT-ACAAATTCT-CGTGTTTTCAAAAATTCTCG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATT-TACGTGTTTTCAAAAATTCTCG
88256772 TATTTTAAAA
Statistics
Matches: 275, Mismatches: 58, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
43 8 0.03
44 13 0.05
46 9 0.03
47 7 0.03
48 6 0.02
49 5 0.02
50 17 0.06
51 31 0.11
52 64 0.23
53 77 0.28
54 23 0.08
56 15 0.05
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (53 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAATTTACGTGTTTTCAAAAATTCTCGCG
Found at i:88256436 original size:17 final size:17
Alignment explanation
Indices: 88256355--88256782 Score: 234
Period size: 17 Copynumber: 25.0 Consensus size: 17
88256345 AAATTTAGTG
88256355 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
88256373 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
88256391 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTG-TTTCAAAAA
* * *
88256409 TTCTGGCGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
*
88256426 TTTTCGTGTTTAAAAAAA
1 TTTTCGTGTTT-CAAAAA
* *
88256444 TTTACGTGTTTTCACAAA
1 TTTTCGTG-TTTCAAAAA
*
88256462 TTTTCGTGTTTCACAAA
1 TTTTCGTGTTTCAAAAA
*
88256479 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
88256497 -CTCCAGTGTTTC-AAAG
1 TTTTC-GTGTTTCAAAAA
* *
88256513 TTTCCATGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
88256531 TTCTCGCGTTTAAAAAA
1 TTTTCGTGTTTCAAAAA
**
88256548 AATTCGTGTTTCAAAATA
1 TTTTCGTGTTTCAAAA-A
* **
88256566 TTCTCGCATTTC---AA
1 TTTTCGTGTTTCAAAAA
***
88256580 TTTT--TGTTTTTTAAA
1 TTTTCGTGTTTCAAAAA
88256595 ---TCGTGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
* * *
88256609 ATGTCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
*
88256626 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
* *
88256643 -TTTCCTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
**
88256659 TTCCCGTGTTTCAAAAAAA
1 TTTTCGTGTTTC--AAAAA
* * *
88256678 ATGTCGTGTTTTAAGAAA
1 TTTTCGTGTTTCAA-AAA
* *
88256696 ATTTCGTTTTTTCTAAAAA
1 TTTTCG-TGTTTC-AAAAA
*
88256715 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
*
88256732 TTTTCGTGTTT-ACAAA
1 TTTTCGTGTTTCAAAAA
*
88256748 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
88256766 TTCTCGTATTTTAAAAA
1 TTTTCGTGTTTCAAAAA
88256783 AAACTTTCGT
Statistics
Matches: 315, Mismatches: 69, Indels: 53
0.72 0.16 0.12
Matches are distributed among these distances:
12 4 0.01
14 12 0.04
15 3 0.01
16 28 0.09
17 127 0.40
18 108 0.34
19 31 0.10
20 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:88256720 original size:89 final size:87
Alignment explanation
Indices: 88256595--88256765 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 87
88256585 GTTTTTTAAA
88256595 TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCC-TGTTTTAAAAA
1 TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTG-TTTAAAAA
88256659 TTCCCGTG-TTTCAAAAAAAATG
65 TTCCCGTGTTTTCAAAAAAAATG
* * * * *
88256681 TCGTGTTTTAAGAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTGTTTACA
1 TCGTGTTTCAA-AAAATGTCG-TGTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTAAA
*
88256746 AATTCTCGTGTTTTCAAAAA
63 AATTCCCGTGTTTTCAAAAA
88256766 TTCTCGTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
86 10 0.14
87 8 0.11
88 4 0.05
89 41 0.55
90 11 0.15
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (87 bp):
TCGTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTAAAAAT
TCCCGTGTTTTCAAAAAAAATG
Found at i:88258633 original size:93 final size:93
Alignment explanation
Indices: 88258474--88258644 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
88258464 GCCCATAAGT
* * *
88258474 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88258539 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
88258567 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88258632 CGAGTTCGGATGC
66 CGAGCTCGGATGC
88258645 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88258641 original size:46 final size:46
Alignment explanation
Indices: 88258466--88258641 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
88258456 TGTAACCCGC
* *
88258466 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88258512 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
88258558 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88258605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88258642 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:88262102 original size:11 final size:11
Alignment explanation
Indices: 88262086--88262110 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88262076 TCTTTCCAAC
88262086 AAAAAAAACAA
1 AAAAAAAACAA
88262097 AAAAAAAACAA
1 AAAAAAAACAA
88262108 AAA
1 AAA
88262111 CTTCAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:88263576 original size:17 final size:19
Alignment explanation
Indices: 88263539--88263578 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
88263529 TTTTCCAATT
88263539 TTTTAATATTATTTTTGAA
1 TTTTAATATTATTTTTGAA
88263558 TTTTAATA-TATTTTT-AA
1 TTTTAATATTATTTTTGAA
88263575 TTTT
1 TTTT
88263579 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTAATATTATTTTTGAA
Found at i:88263579 original size:18 final size:20
Alignment explanation
Indices: 88263538--88263579 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
88263528 ATTTTCCAAT
88263538 TTTTTAATATTATTTTTGAA
1 TTTTTAATATTATTTTTGAA
88263558 -TTTTAATA-TATTTTT-AA
1 TTTTTAATATTATTTTTGAA
88263575 TTTTT
1 TTTTT
88263580 TTAAATGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.10
18 11 0.52
19 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTAATATTATTTTTGAA
Found at i:88263583 original size:20 final size:19
Alignment explanation
Indices: 88263517--88263580 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
88263507 TATATATTAT
*
88263517 TTTTTTAATGA-ATTTTCCAA
1 TTTTTTAAT-ATATTTT-TAA
88263537 TTTTTTAATATTATTTTTGAA
1 TTTTTTAATA-TATTTTT-AA
88263558 --TTTTAATATATTTTTAA
1 TTTTTTAATATATTTTTAA
88263575 TTTTTT
1 TTTTTT
88263581 TAAATGTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 13 0.34
20 9 0.24
21 7 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTAATATATTTTTAA
Found at i:88268409 original size:21 final size:20
Alignment explanation
Indices: 88268385--88268424 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88268375 ATTGGTCCTA
88268385 TTTAAAGTATAAAAAAATAAT
1 TTTAAA-TATAAAAAAATAAT
**
88268406 TTTAAATATGTAAAAATAA
1 TTTAAATATAAAAAAATAA
88268425 ATTATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTAAATATAAAAAAATAAT
Found at i:88270669 original size:28 final size:29
Alignment explanation
Indices: 88270638--88270717 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
88270628 AACTTAAGGG
* *
88270638 AAAAAATAGTTTAGGTACCACATGTGACAA
1 AAAAAATAGTTTAGGTACCA-ATATGAGAA
*
88270668 AAACAAA-AGTTTAGGTACTAATATGAG-A
1 AAA-AAATAGTTTAGGTACCAATATGAGAA
*
88270696 AAAAAATAGTTTAGTTACCAAT
1 AAAAAATAGTTTAGGTACCAAT
88270718 TTAAGAGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 5 0.12
30 15 0.35
31 3 0.07
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (29 bp):
AAAAAATAGTTTAGGTACCAATATGAGAA
Found at i:88275261 original size:21 final size:21
Alignment explanation
Indices: 88275200--88275264 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
88275190 AGGTTGCACA
* *
88275200 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGAGCTGAACG
* * * *
88275221 GAAAC-CATAAGGGTTGAACG
1 GAAGCACACAAGAGCTGAACG
88275241 GAAGCACACAAGAGCTGAACG
1 GAAGCACACAAGAGCTGAACG
88275262 GAA
1 GAA
88275265 ACCCATAAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.09
Consensus pattern (21 bp):
GAAGCACACAAGAGCTGAACG
Found at i:88275287 original size:42 final size:42
Alignment explanation
Indices: 88275200--88275327 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 42
88275190 AGGTTGCACA
* *
88275200 GAAGCACACAAGTGCTAAACGGAAA-CCATAAGGGTTGAACG
1 GAAGCACACAAGAGCTAAACGGAAACCCATAAGGGTTAAACG
* *
88275241 GAAGCACACAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
1 GAAGCACACAAGAGCTAAACGGAAACCCATAAGGGTTAAACG
* * ** * * *
88275283 GAAGCTCAAAAGAGCTAAATTGAAACCCATTAGAGTTAAATG
1 GAAGCACACAAGAGCTAAACGGAAACCCATAAGGGTTAAACG
88275325 GAA
1 GAA
88275328 ACTTATATGA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 23 0.32
42 50 0.68
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (42 bp):
GAAGCACACAAGAGCTAAACGGAAACCCATAAGGGTTAAACG
Found at i:88277496 original size:21 final size:21
Alignment explanation
Indices: 88277470--88277510 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88277460 TAAAAATTAA
88277470 AAAAAT-TACAAAAACTATTTC
1 AAAAATATA-AAAAACTATTTC
*
88277491 AAAAATATAAAAAATTATTT
1 AAAAATATAAAAAACTATTT
88277511 TTTAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATAAAAAACTATTTC
Found at i:88278761 original size:17 final size:17
Alignment explanation
Indices: 88278739--88278771 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88278729 GTGATATTAA
*
88278739 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
88278756 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
88278772 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:88280264 original size:22 final size:23
Alignment explanation
Indices: 88280230--88280286 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
88280220 TAAATACAAT
* *
88280230 TTAAATAATAAAAAAT-TTAAAT-
1 TTAATTAA-AAAAAATATAAAATA
*
88280252 TTAATTAGAAAAATATATAAAATA
1 TTAATTA-AAAAAAATATAAAATA
88280276 TTAATTAAAAA
1 TTAATTAAAAA
88280287 TATAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 12 0.41
23 10 0.34
24 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAATTAAAAAAAATATAAAATA
Found at i:88288438 original size:31 final size:31
Alignment explanation
Indices: 88288403--88288470 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
88288393 TCAATTAATC
88288403 CTTTTAAATTAATAGCAATTAACTTTTATGA
1 CTTTTAAATTAATAGCAATTAACTTTTATGA
88288434 CTTTTAAATTAATAGCAATTAACTTTTATGA
1 CTTTTAAATTAATAGCAATTAACTTTTATGA
88288465 CTTTTA
1 CTTTTA
88288471 TGATTTAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (31 bp):
CTTTTAAATTAATAGCAATTAACTTTTATGA
Found at i:88288959 original size:21 final size:21
Alignment explanation
Indices: 88288935--88288978 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
88288925 TTGGTCTCGG
88288935 TTTTTTT-TCTTGACTCCAAT
1 TTTTTTTATCTTGACTCCAAT
**
88288955 TTTTTTTATCTTGGGTCCAAT
1 TTTTTTTATCTTGACTCCAAT
88288976 TTT
1 TTT
88288979 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTTTTTATCTTGACTCCAAT
Found at i:88300535 original size:21 final size:23
Alignment explanation
Indices: 88300492--88300536 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
88300482 TTAACATGTT
88300492 TATGACTTAGATTTATTATTAAA
1 TATGACTTAGATTTATTATTAAA
* *
88300515 TATGATTTA-ATTT-TTTTTAAA
1 TATGACTTAGATTTATTATTAAA
88300536 T
1 T
88300537 GCTTTGGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (23 bp):
TATGACTTAGATTTATTATTAAA
Found at i:88303483 original size:30 final size:30
Alignment explanation
Indices: 88303447--88303508 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
88303437 GCATTTAATA
*
88303447 TAAACTTTGGCAAAATTACATTTTTGCCCC
1 TAAACTTTGGCAAAATTACACTTTTGCCCC
* *
88303477 TAAACTTTTGCATAATTACACTTTTGCCCC
1 TAAACTTTGGCAAAATTACACTTTTGCCCC
88303507 TA
1 TA
88303509 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
TAAACTTTGGCAAAATTACACTTTTGCCCC
Found at i:88307987 original size:5 final size:5
Alignment explanation
Indices: 88307977--88308033 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
88307967 TTATGTTTTA
88307977 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
88308027 ATTAT AT
1 ATTAT AT
88308034 AAAGAAACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:88308978 original size:20 final size:23
Alignment explanation
Indices: 88308928--88308983 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
88308918 AAAGTGAATG
88308928 GAATTATATTGAATTGAAAATATA
1 GAATTA-ATTGAATTGAAAATATA
*
88308952 TAATTAATT-AATT-AAAATAT-
1 GAATTAATTGAATTGAAAATATA
88308972 GAATTAATTGAA
1 GAATTAATTGAA
88308984 AACTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
GAATTAATTGAATTGAAAATATA
Found at i:88309412 original size:18 final size:18
Alignment explanation
Indices: 88309349--88309417 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
88309339 GGAAAGATCA
*
88309349 ACTGTTACTGAATAATTT
1 ACTGTTACTGAATAATTG
* *
88309367 AGTTGTT-CTGTAT-ATCTG
1 A-CTGTTACTGAATAAT-TG
* *
88309385 ATTTTTACTGAATAATTG
1 ACTGTTACTGAATAATTG
*
88309403 ACTGTTACTGGATAA
1 ACTGTTACTGAATAA
88309418 CCGATCAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
17 6 0.15
18 27 0.69
19 6 0.15
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGAATAATTG
Found at i:88309477 original size:18 final size:18
Alignment explanation
Indices: 88309427--88309541 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
88309417 ACCGATCAAT
*
88309427 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * * *
88309445 TGATTATCATTGAATAAT
1 TGATTGTTACTGAATAAC
*
88309463 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
88309481 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * * *
88309499 TAATCGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
88309516 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
88309536 TGATTG
1 TGATTG
88309542 ATTAATTGCT
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
17 12 0.17
18 50 0.71
20 8 0.11
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:88310696 original size:22 final size:23
Alignment explanation
Indices: 88310670--88310715 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
88310660 CAACCAAACC
88310670 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
88310692 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
88310715 A
1 A
88310716 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:88310721 original size:23 final size:23
Alignment explanation
Indices: 88310677--88310721 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
88310667 ACCAATTCAA
*
88310677 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
88310700 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
88310722 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:88320048 original size:31 final size:31
Alignment explanation
Indices: 88319990--88320049 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
88319980 TCATTGTACC
*
88319990 CAAAATTTCACGTATATATTTGAATCAAAAT
1 CAAAATTTCACGTATATAATTGAATCAAAAT
* *
88320021 CAAAATTTCATGTGTATAATT-ATATCAAA
1 CAAAATTTCACGTATATAATTGA-ATCAAA
88320050 CCAAAAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
CAAAATTTCACGTATATAATTGAATCAAAAT
Found at i:88322738 original size:27 final size:27
Alignment explanation
Indices: 88322706--88322757 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
88322696 ATTTTTTTAG
88322706 AATTTTTA-AAA-ATTATATAAATTTTGT
1 AATTTTTATAAATATT-T-TAAATTTTGT
88322733 AATTTTTATAAATATTTTAAATTTT
1 AATTTTTATAAATATTTTAAATTTT
88322758 TGAAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 4 0.17
29 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AATTTTTATAAATATTTTAAATTTTGT
Found at i:88322749 original size:20 final size:21
Alignment explanation
Indices: 88322726--88322772 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
88322716 AATTATATAA
*
88322726 ATTTTGTAATTTTT-ATAAA-T
1 ATTTTGAAATTTTTGA-AAATT
88322746 ATTTT-AAATTTTTGAAAATT
1 ATTTTGAAATTTTTGAAAATT
88322766 ATTTTGA
1 ATTTTGA
88322773 TTACTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTGAAATTTTTGAAAATT
Found at i:88322764 original size:19 final size:20
Alignment explanation
Indices: 88322721--88322770 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
88322711 TTAAAAATTA
*
88322721 TATAAATT-TTGT-AATTTT
1 TATAAATTATTTTAAATTTT
88322739 TATAAA-TATTTTAAATTTT
1 TATAAATTATTTTAAATTTT
88322758 TGA-AAATTATTTT
1 T-ATAAATTATTTT
88322771 GATTACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 9 0.33
19 10 0.37
20 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATAAATTATTTTAAATTTT
Found at i:88323738 original size:22 final size:22
Alignment explanation
Indices: 88323696--88323738 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
88323686 TGAAATTTTT
*
88323696 TATTTTAATATTAAAGTATAAA
1 TATTTTAATATTAAAGAATAAA
*
88323718 TATTTTGAATTTTAAA-AATAA
1 TATTTT-AATATTAAAGAATAA
88323739 TTTACCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TATTTTAATATTAAAGAATAAA
Found at i:88326853 original size:4 final size:4
Alignment explanation
Indices: 88326844--88326869 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
88326834 CTTCTTATTT
88326844 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
88326870 ATTTCTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:88329408 original size:21 final size:21
Alignment explanation
Indices: 88329384--88329423 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
88329374 AGTTTCTGTA
88329384 TTTTA-ATTTAATTAATTTAGT
1 TTTTATATTT-ATTAATTTAGT
*
88329405 TTTTATATTTTTTAATTTA
1 TTTTATATTTATTAATTTA
88329424 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTATATTTATTAATTTAGT
Found at i:88330809 original size:3 final size:3
Alignment explanation
Indices: 88330801--88330836 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
88330791 TTTGCACATT
88330801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88330837 ATGGTCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:88331699 original size:30 final size:30
Alignment explanation
Indices: 88331656--88331714 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
88331646 ACTTAACAAA
88331656 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
88331686 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
88331715 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:88338958 original size:33 final size:33
Alignment explanation
Indices: 88338921--88338998 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
88338911 TTTCTAAATG
*
88338921 TATTTTTAATCTATTGGAAAATATT-TATTTTAA
1 TATTTTTAATATATTGG-AAATATTATATTTTAA
* * *
88338954 TATTTTTAATATATTTGATATATTATTTTTTAA
1 TATTTTTAATATATTGGAAATATTATATTTTAA
*
88338987 T-TTTTTTATATA
1 TATTTTTAATATA
88338999 AAAAGATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 16 0.41
33 23 0.59
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (33 bp):
TATTTTTAATATATTGGAAATATTATATTTTAA
Found at i:88340058 original size:22 final size:22
Alignment explanation
Indices: 88340006--88340059 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 22
88339996 TAATAACAAT
* *
88340006 AAAAAATAACAATATAATAGTG
1 AAAAAATAACATTAAAATAGTG
*
88340028 ---AAATGACATTAAAATAGTG
1 AAAAAATAACATTAAAATAGTG
88340047 AAAAAATAACATT
1 AAAAAATAACATT
88340060 TTTTTTTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
19 16 0.64
22 9 0.36
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (22 bp):
AAAAAATAACATTAAAATAGTG
Found at i:88340823 original size:14 final size:14
Alignment explanation
Indices: 88340804--88340832 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88340794 TCGAGTACGT
88340804 TAAAGCACATTATC
1 TAAAGCACATTATC
88340818 TAAAGCACATTATC
1 TAAAGCACATTATC
88340832 T
1 T
88340833 GAGTTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TAAAGCACATTATC
Found at i:88343087 original size:20 final size:20
Alignment explanation
Indices: 88343057--88343127 Score: 94
Period size: 19 Copynumber: 3.6 Consensus size: 20
88343047 AAATTACAAA
88343057 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
88343076 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
88343095 TAAAATTCAAAAT-ATTTAC
1 AAAAATTCAAAATAATTTTC
88343114 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
88343128 TTATATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 25 0.54
20 17 0.37
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:88343159 original size:10 final size:10
Alignment explanation
Indices: 88343146--88343172 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
88343136 TTAAAAATTA
88343146 TAAAAAAATC
1 TAAAAAAATC
88343156 TAAAAAAATC
1 TAAAAAAATC
88343166 TAAAAAA
1 TAAAAAA
88343173 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAAATC
Found at i:88345458 original size:12 final size:12
Alignment explanation
Indices: 88345441--88345466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88345431 AGACATCAAC
88345441 TGTTTCTATGAT
1 TGTTTCTATGAT
88345453 TGTTTCTATGAT
1 TGTTTCTATGAT
88345465 TG
1 TG
88345467 AAAAGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
TGTTTCTATGAT
Found at i:88347383 original size:40 final size:40
Alignment explanation
Indices: 88347307--88347383 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
88347297 CTCTGAAACC
* * *
88347307 TTGAACCATAAATCTCAAACTCAACTCTGAACCTTAACTT
1 TTGAACCATAAACCCCAAACTCAACTCTAAACCTTAACTT
* *
88347347 TTGAACCCTAAACCCCAAACTCAAACT-TAAATCTTAA
1 TTGAACCATAAACCCCAAACTC-AACTCTAAACCTTAA
88347384 AACTTAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (40 bp):
TTGAACCATAAACCCCAAACTCAACTCTAAACCTTAACTT
Found at i:88347538 original size:20 final size:21
Alignment explanation
Indices: 88347515--88347581 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
88347505 AGGGGTTCAT
88347515 AATTTAAAGTTTG-GGTTTAA
1 AATTTAAAGTTTGAGGTTTAA
**
88347535 AATTTAGGGTTTGAGGTTTAA
1 AATTTAAAGTTTGAGGTTTAA
* * * *
88347556 CATTTGATGTTTAAGGTTTAA
1 AATTTAAAGTTTGAGGTTTAA
*
88347577 GATTT
1 AATTT
88347582 GGGATTTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (21 bp):
AATTTAAAGTTTGAGGTTTAA
Found at i:88347554 original size:21 final size:20
Alignment explanation
Indices: 88347523--88347608 Score: 59
Period size: 21 Copynumber: 4.2 Consensus size: 20
88347513 ATAATTTAAA
88347523 GTTTGGGTTTAAAATTTAGG
1 GTTTGGGTTTAAAATTTAGG
* *
88347543 GTTTGAGGTTTAACATTT-GAT
1 GTTTG-GGTTTAAAATTTAG-G
* *
88347564 GTTTAAGGTTTAAGATTT-GG
1 GTTT-GGGTTTAAAATTTAGG
* *
88347584 GATTTTGGATTTAAAGTTTAGG
1 G--TTTGGGTTTAAAATTTAGG
88347606 GTT
1 GTT
88347609 CGGGATAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
20 9 0.18
21 36 0.71
22 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (20 bp):
GTTTGGGTTTAAAATTTAGG
Found at i:88350737 original size:15 final size:15
Alignment explanation
Indices: 88350719--88350753 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
88350709 TTTTTTAAAG
*
88350719 TTTTTAT-TTTGTAA
1 TTTTTATATTTGAAA
88350733 TTTTTATATTTGAAA
1 TTTTTATATTTGAAA
88350748 TTTTTA
1 TTTTTA
88350754 AGAATCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTGAAA
Found at i:88354328 original size:28 final size:28
Alignment explanation
Indices: 88354274--88354329 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
88354264 AAATTAACCG
* ***
88354274 AAAAAGTTTAGTTCGGTTAATTTTTAAA
1 AAAAAGTTTAATTCGGTTAACGGTTAAA
*
88354302 AAAAATTTTAATTCGGTTAACGGTTAAA
1 AAAAAGTTTAATTCGGTTAACGGTTAAA
88354330 GGTTTAAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (28 bp):
AAAAAGTTTAATTCGGTTAACGGTTAAA
Found at i:88359912 original size:24 final size:26
Alignment explanation
Indices: 88359849--88359912 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
88359839 TTATATAAAA
*
88359849 ATTAAATT-AAATAAATTTTAATATT
1 ATTATATTGAAATAAATTTTAATATT
* *
88359874 ATTATATTGATAATAAATTTTATTTTT
1 ATTATATTGA-AATAAATTTTAATATT
88359901 ATT-T-TTGAAATA
1 ATTATATTGAAATA
88359913 TTTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 4 0.12
25 11 0.32
26 2 0.06
27 17 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
ATTATATTGAAATAAATTTTAATATT
Found at i:88360085 original size:15 final size:16
Alignment explanation
Indices: 88360058--88360088 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
88360048 ATTTTATTTT
88360058 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
88360074 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
88360089 TGATATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:88363330 original size:18 final size:20
Alignment explanation
Indices: 88363307--88363352 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
88363297 ATTTCTTTAA
88363307 TTTATTAATTAAT-TT-ATT
1 TTTATTAATTAATATTAATT
88363325 TTTATTAA--AATATTAATT
1 TTTATTAATTAATATTAATT
88363343 TTTA-TAATTA
1 TTTATTAATTA
88363353 GTGCCTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 15 0.62
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTAATTAATATTAATT
Found at i:88365197 original size:12 final size:12
Alignment explanation
Indices: 88365180--88365205 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88365170 CTTGGACTCT
88365180 CTATAAATCATC
1 CTATAAATCATC
88365192 CTATAAATCATC
1 CTATAAATCATC
88365204 CT
1 CT
88365206 TATTAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (12 bp):
CTATAAATCATC
Found at i:88367767 original size:30 final size:33
Alignment explanation
Indices: 88367732--88367796 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 33
88367722 TATTTTATAC
*
88367732 TTTTATAATTTTTAAA-ATATT-AAAT-TAATT
1 TTTTATAATTTTTAAAGAAATTAAAATATAATT
*
88367762 TTTTATTATTTTTAAAGAAATTAAAATATAATT
1 TTTTATAATTTTTAAAGAAATTAAAATATAATT
88367795 TT
1 TT
88367797 ATTTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 15 0.50
31 4 0.13
32 4 0.13
33 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (33 bp):
TTTTATAATTTTTAAAGAAATTAAAATATAATT
Found at i:88367797 original size:31 final size:29
Alignment explanation
Indices: 88367727--88367799 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
88367717 TTTAATATTT
* * *
88367727 TATACTTTTATAATTTTTAAAATATTAAA
1 TATAATTTTATTATTTTTAAAAAATTAAA
88367756 T-TAATTTTTTATTATTTTTAAAGAAATTAAAA
1 TATAA--TTTTATTATTTTTAAA-AAATT-AAA
88367788 TATAATTTTATT
1 TATAATTTTATT
88367800 TTTACTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 2 0.06
29 1 0.03
30 15 0.42
31 11 0.31
32 4 0.11
33 3 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TATAATTTTATTATTTTTAAAAAATTAAA
Found at i:88368362 original size:15 final size:15
Alignment explanation
Indices: 88368342--88368395 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
88368332 ACACTACAAA
88368342 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
88368357 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
88368374 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
88368391 ATATT
1 ATATT
88368396 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:88368523 original size:22 final size:22
Alignment explanation
Indices: 88368489--88368530 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
88368479 ATTAAATAAT
88368489 TTATTAAAATAATAAATTATAC
1 TTATTAAAATAATAAATTATAC
* * *
88368511 TTATTATACTAATAATTTAT
1 TTATTAAAATAATAAATTAT
88368531 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAC
Found at i:88369791 original size:30 final size:30
Alignment explanation
Indices: 88369752--88369817 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
88369742 TTTTATAAAT
88369752 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
* *
88369782 AATTTATATTTCATATATTAAAATATTAACA
1 AATTAATATTTCATATATTAAAATATTTA-A
88369813 AATTA
1 AATTA
88369818 TAATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 19 0.63
31 9 0.30
32 2 0.07
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:88374566 original size:35 final size:35
Alignment explanation
Indices: 88374527--88374597 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
88374517 TAAAAAAAAT
*
88374527 TCAAAATC-CTGAAATCGATTATCAAACCCCACAAA
1 TCAAAATCTCT-AAATCAATTATCAAACCCCACAAA
* *
88374562 TCAAAGTCTCTAAATCAATTATCAAACCCCGCAAA
1 TCAAAATCTCTAAATCAATTATCAAACCCCACAAA
88374597 T
1 T
88374598 AGGCAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.23
Consensus pattern (35 bp):
TCAAAATCTCTAAATCAATTATCAAACCCCACAAA
Found at i:88374762 original size:16 final size:16
Alignment explanation
Indices: 88374741--88374807 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
88374731 TAGTTGGGTG
88374741 AATGGAATAAGACTGT
1 AATGGAATAAGACTGT
* *
88374757 AATGGAAT-AGATATAT
1 AATGGAATAAGA-CTGT
* *
88374773 AATGAAATATAG-TTGT
1 AATGGAATA-AGACTGT
*
88374789 AATGGAATAAAACTGT
1 AATGGAATAAGACTGT
88374805 AAT
1 AAT
88374808 CAGTAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.10
16 33 0.85
18 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.30
Consensus pattern (16 bp):
AATGGAATAAGACTGT
Found at i:88375589 original size:22 final size:23
Alignment explanation
Indices: 88375558--88375608 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
88375548 TTCAAATTCC
*
88375558 AATAATTATATTT-AATGTGAAT
1 AATAAATATATTTAAATGTGAAT
* *
88375580 AATAAATATATTTAAATTTTAAT
1 AATAAATATATTTAAATGTGAAT
88375603 AATAAA
1 AATAAA
88375609 ATTATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AATAAATATATTTAAATGTGAAT
Found at i:88375812 original size:29 final size:28
Alignment explanation
Indices: 88375777--88375835 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
88375767 TAAAGTTCAT
88375777 TTTAGTC-CTTATACTATTACAATGAACAA
1 TTTAGTCTC-TATA-TATTACAATGAACAA
*
88375806 TTTAGTCTCTGTATATTACAATGAACAA
1 TTTAGTCTCTATATATTACAATGAACAA
88375834 TT
1 TT
88375836 GTTGAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 17 0.61
29 10 0.36
30 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (28 bp):
TTTAGTCTCTATATATTACAATGAACAA
Found at i:88377354 original size:40 final size:40
Alignment explanation
Indices: 88377307--88377388 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
88377297 GTTTGGCAAT
88377307 TAGTTGATAGTTGATTGCCGATTATGGTGGTTGATTTGAC
1 TAGTTGATAGTTGATTGCCGATTATGGTGGTTGATTTGAC
*
88377347 TAGTTGATAGTTGATTTCCGATTATGGTGGTTGATTTGAC
1 TAGTTGATAGTTGATTGCCGATTATGGTGGTTGATTTGAC
88377387 TA
1 TA
88377389 ACTCATTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (40 bp):
TAGTTGATAGTTGATTGCCGATTATGGTGGTTGATTTGAC
Found at i:88377383 original size:20 final size:20
Alignment explanation
Indices: 88377316--88377383 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
88377306 TTAGTTGATA
*
88377316 GTTGATTGCCGATTATGGTG
1 GTTGATTTCCGATTATGGTG
* * *
88377336 GTTGATTT--GACTAGTTGATA
1 GTTGATTTCCGATTA--TGGTG
88377356 GTTGATTTCCGATTATGGTG
1 GTTGATTTCCGATTATGGTG
88377376 GTTGATTT
1 GTTGATTT
88377384 GACTAACTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 4 0.11
20 29 0.78
22 4 0.11
ACGTcount: A:0.18, C:0.07, G:0.29, T:0.46
Consensus pattern (20 bp):
GTTGATTTCCGATTATGGTG
Found at i:88381410 original size:7 final size:7
Alignment explanation
Indices: 88381398--88381440 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
88381388 TGTTTTGTTA
88381398 TAAAATT
1 TAAAATT
88381405 TAAAATT
1 TAAAATT
88381412 TAAAATT
1 TAAAATT
88381419 TAAAATT
1 TAAAATT
*
88381426 CAAAATT
1 TAAAATT
*
88381433 CAAAATT
1 TAAAATT
88381440 T
1 T
88381441 TTTGTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAAATT
Found at i:88385855 original size:15 final size:15
Alignment explanation
Indices: 88385837--88385866 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88385827 TAAATAATTC
*
88385837 AATTTAAAATTTAAA
1 AATTTAAAAATTAAA
88385852 AATTTAAAAATTAAA
1 AATTTAAAAATTAAA
88385867 TTAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTAAAAATTAAA
Found at i:88386796 original size:17 final size:17
Alignment explanation
Indices: 88386764--88386797 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
88386754 ATTTTTTACT
* *
88386764 TAAAAAATATTTTAAAA
1 TAAAAAATAATCTAAAA
88386781 TAAAAAATAATCTAAAA
1 TAAAAAATAATCTAAAA
88386798 ATTTAGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAATAATCTAAAA
Found at i:88393283 original size:25 final size:25
Alignment explanation
Indices: 88393254--88393327 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 25
88393244 CTTATCAATC
*
88393254 TAATTAATAATTAATTCTATTTAA-T
1 TAATTACTAA-TAATTCTATTTAATT
*
88393279 TAATTACTAAATAATTTTATTTCTAATT
1 TAATTACT-AATAATTCTA-TT-TAATT
*
88393307 TAATTACTAATATTTCTATTT
1 TAATTACTAATAATTCTATTT
88393328 TCTAATTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 15 0.37
26 6 0.15
27 11 0.27
28 9 0.22
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (25 bp):
TAATTACTAATAATTCTATTTAATT
Found at i:88393315 original size:28 final size:28
Alignment explanation
Indices: 88393254--88393334 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
88393244 CTTATCAATC
* * *
88393254 TAATTAATAATTAATTCTA-TT-TAA-T
1 TAATTACTAAATAATTTTATTTCTAATT
88393279 TAATTACTAAATAATTTTATTTCTAATT
1 TAATTACTAAATAATTTTATTTCTAATT
88393307 TAATTACT-AAT-ATTTCTATTTTCTAATT
1 TAATTACTAAATAATTT-TA-TTTCTAATT
88393335 CTTTACTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 16 0.33
26 6 0.12
27 8 0.17
28 18 0.38
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATTACTAAATAATTTTATTTCTAATT
Found at i:88394287 original size:9 final size:9
Alignment explanation
Indices: 88394273--88394297 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
88394263 AAAATGTAAC
88394273 ATTTAAAAT
1 ATTTAAAAT
88394282 ATTTAAAAT
1 ATTTAAAAT
88394291 ATTTAAA
1 ATTTAAA
88394298 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:88396138 original size:21 final size:21
Alignment explanation
Indices: 88396082--88396138 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
88396072 TTTTTCACAT
* *
88396082 TAATTTAATATTAAAGAATAA
1 TAATTTAATATAAAACAATAA
*
88396103 TATATTCT-AT-CAAAACAATAA
1 TA-ATT-TAATATAAAACAATAA
88396124 TAATTTAATATAAAA
1 TAATTTAATATAAAA
88396139 TGTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.04
20 5 0.18
21 16 0.57
22 5 0.18
23 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAATATAAAACAATAA
Found at i:88400555 original size:52 final size:48
Alignment explanation
Indices: 88400536--88400738 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
88400526 TGACAAGTGG
* *
88400536 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
88400582 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
88400634 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
88400680 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
88400726 AAAGTGATAAGTG
1 AAAGTGATAAGTG
88400739 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:88400590 original size:98 final size:98
Alignment explanation
Indices: 88400470--88400738 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
88400460 TTTGAGTACT
*
88400470 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
88400535 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
88400568 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
88400633 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
88400666 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
88400731 GATAAGTG
65 GAAAAGTG
88400739 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:88400746 original size:37 final size:37
Alignment explanation
Indices: 88400702--88400884 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
88400692 GATAGCTTTA
*
88400702 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
88400739 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
88400776 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
88400813 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
88400850 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
88400885 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:88407709 original size:32 final size:29
Alignment explanation
Indices: 88407650--88407777 Score: 168
Period size: 29 Copynumber: 4.3 Consensus size: 29
88407640 TAAAGTATGT
88407650 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
88407679 ATATGAATGTGATTTGGGCCACCTAATGGGCC
1 ATATGAATGTGATTTGGG---CCTAATGGGCC
* * *
88407711 ATACGAATATGATTTGGGCCTAATGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
88407740 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
88407768 ATATGCATGT
1 ATATGAATGT
88407778 ATGTAGACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.26
29 37 0.43
32 27 0.31
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:88413578 original size:13 final size:13
Alignment explanation
Indices: 88413556--88413589 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
88413546 TTACATGAAA
88413556 TTGCATTTACATG
1 TTGCATTTACATG
*
88413569 TTGTATTTACATG
1 TTGCATTTACATG
88413582 TTGCATTT
1 TTGCATTT
88413590 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (13 bp):
TTGCATTTACATG
Found at i:88416309 original size:19 final size:20
Alignment explanation
Indices: 88416285--88416326 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
88416275 ATGAATGTTA
*
88416285 TAAATTTTAATAAA-TTATT
1 TAAATTTAAATAAATTTATT
88416304 TAAATTTAAATAAATTTATT
1 TAAATTTAAATAAATTTATT
88416324 TAA
1 TAA
88416327 CTCAACCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATTTAAATAAATTTATT
Found at i:88422079 original size:22 final size:22
Alignment explanation
Indices: 88422051--88422172 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
88422041 TTCCACATCC
88422051 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
88422073 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
88422097 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
88422120 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
88422144 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
88422167 ATCACA
1 ATCACA
88422173 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:88422086 original size:47 final size:47
Alignment explanation
Indices: 88422023--88422230 Score: 303
Period size: 47 Copynumber: 4.4 Consensus size: 47
88422013 CCCTTCGGGT
* * *
88422023 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88422070 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88422117 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
88422164 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
88422211 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
88422231 GTACATCAAT
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 144 0.99
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88426109 original size:44 final size:44
Alignment explanation
Indices: 88426060--88426149 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
88426050 TATATGAGCT
* *
88426060 TACTAAGCATGATCTGCTTACTAGGTTTTATTTTCTCTGTTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
*
88426104 TACTAAGCATTATATGCTTACTAGGTTTTATTTTCTCTATTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
88426148 TA
1 TA
88426150 GTGCACAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (44 bp):
TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
Found at i:88433220 original size:15 final size:14
Alignment explanation
Indices: 88433200--88433238 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
88433190 AAAGAAAGAT
88433200 GTTAATTAAGGTTTA
1 GTTAATTAA-GTTTA
88433215 GTTAATTGAAGTTTA
1 GTTAATT-AAGTTTA
*
88433230 ATTAATTAA
1 GTTAATTAA
88433239 TTCTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (14 bp):
GTTAATTAAGTTTA
Found at i:88434350 original size:19 final size:19
Alignment explanation
Indices: 88434326--88434402 Score: 140
Period size: 19 Copynumber: 4.2 Consensus size: 19
88434316 AGATTACAAG
88434326 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
88434345 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
88434362 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
88434381 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
88434400 ATC
1 ATC
88434403 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:88434368 original size:36 final size:36
Alignment explanation
Indices: 88434326--88434396 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
88434316 AGATTACAAG
88434326 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
88434362 ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 ATCATATCTAAGATTGCATATCATATCTAAGATTG
88434397 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:88435258 original size:2 final size:2
Alignment explanation
Indices: 88435251--88435305 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
88435241 GAAATGTATA
88435251 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
88435293 TG TG TG TG TG TG T
1 TG TG TG TG TG TG T
88435306 TGAAGATGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:88439298 original size:50 final size:50
Alignment explanation
Indices: 88439223--88439399 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
88439213 CCATGGAAAC
88439223 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
88439273 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
88439323 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
88439373 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
88439400 CTGATCAGCG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:88439585 original size:31 final size:31
Alignment explanation
Indices: 88439377--88439578 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
88439367 AAATGACAAC
88439377 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
88439408 CGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
88439439 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
88439470 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
88439501 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
88439532 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
88439563 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
88439579 TGGCTACAAG
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:88439596 original size:7 final size:7
Alignment explanation
Indices: 88439584--88439612 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
88439574 AGCTTTGGCT
88439584 ACAAGTG
1 ACAAGTG
88439591 ACAAGTG
1 ACAAGTG
88439598 ACAAGTG
1 ACAAGTG
88439605 ACAAGTG
1 ACAAGTG
88439612 A
1 A
88439613 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:88439719 original size:47 final size:46
Alignment explanation
Indices: 88439620--88439741 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 46
88439610 TGATTTCTGT
* *
88439620 ATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTACTG
* * *
88439666 CATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTACGTG
1 -ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-CTAC-TG
*
88439715 -TAAGACCATAGT-TGGGCTATGGCATCA
1 ATAAGACCATA-TCTGGGATATGGCATCA
88439742 TTATGTAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 59 0.91
48 4 0.06
49 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (46 bp):
ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTACTG
Found at i:88441907 original size:27 final size:27
Alignment explanation
Indices: 88441873--88441924 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
88441863 ATTTTATCAG
** *
88441873 GGGTAAAATTGTCAAAATTTTACTGAA
1 GGGTAAAATCATCAAAATTTAACTGAA
88441900 GGGTAAAATCATCAAAATTTAACTG
1 GGGTAAAATCATCAAAATTTAACTG
88441925 GGATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (27 bp):
GGGTAAAATCATCAAAATTTAACTGAA
Found at i:88444386 original size:23 final size:23
Alignment explanation
Indices: 88444354--88444397 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
88444344 ACTACCATTT
88444354 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
88444377 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
88444398 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:88444390 original size:13 final size:11
Alignment explanation
Indices: 88444358--88444400 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
88444348 CCATTTTCTA
*
88444358 AATAAAATAAT
1 AATAAAATATT
88444369 AAT-AAATATCT
1 AATAAAATAT-T
88444380 AAGTAAAATATT
1 AA-TAAAATATT
88444392 AATAAAATA
1 AATAAAATA
88444401 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:88449550 original size:16 final size:15
Alignment explanation
Indices: 88449529--88449576 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
88449519 GATGGGAATA
88449529 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
88449545 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
88449560 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
88449576 A
1 A
88449577 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:88449559 original size:8 final size:8
Alignment explanation
Indices: 88449525--88449576 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
88449515 CAATGATGGG
*
88449525 AATAATAA
1 AATATTAA
88449533 AATATATAA
1 AATAT-TAA
88449542 AATA-TAA
1 AATATTAA
88449549 AATATTAA
1 AATATTAA
*
88449557 AATATCAA
1 AATATTAA
*
88449565 AATATTAG
1 AATATTAA
88449573 AATA
1 AATA
88449577 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:88449576 original size:24 final size:24
Alignment explanation
Indices: 88449524--88449580 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
88449514 ACAATGATGG
*
88449524 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
88449548 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
88449572 GAATAATAA
1 GAATAATAA
88449581 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:88449742 original size:23 final size:22
Alignment explanation
Indices: 88449691--88449744 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
88449681 ATACTACATC
88449691 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
88449710 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
88449733 AATATGTACATA
1 AATATGTACATA
88449745 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:88449791 original size:22 final size:24
Alignment explanation
Indices: 88449707--88449792 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
88449697 TACATATATA
* *
88449707 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
88449730 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
88449755 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
88449778 -AAGATATATACATAA
1 AAAAATATATACATAA
88449793 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:88449846 original size:25 final size:25
Alignment explanation
Indices: 88449812--88449945 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
88449802 TAGAAAAAAT
88449812 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
88449837 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
88449862 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
88449888 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
88449910 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
88449933 AAATAT-AATAATA
1 ATATATAAATAATA
88449946 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:88450575 original size:30 final size:30
Alignment explanation
Indices: 88450425--88450599 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
88450415 TAGGTACAAG
* *
88450425 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * * *
88450455 AGGTAATGGAGCAA-GTGTGGCTAGTAGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
88450485 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
88450515 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
88450545 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
88450575 TTGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
88450600 TGAGAAAAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 2 0.02
30 126 0.98
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:88453314 original size:35 final size:35
Alignment explanation
Indices: 88453287--88453452 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
88453277 CATGGAAAAG
88453287 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
88453322 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
88453357 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
88453397 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
88453432 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
88453453 TTCAATGAGG
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 80 0.70
37 2 0.02
38 3 0.03
40 29 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Done.