Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 221 of 230
Found at i:65507255 original size:18 final size:18
Alignment explanation
Indices: 65507229--65507266 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
65507219 ACTTTTTAAC
*
65507229 TTTTAAATAT-TTTTTAT
1 TTTTAAATATATTTTGAT
65507246 TTTTAGAATATATTTTGAT
1 TTTTA-AATATATTTTGAT
65507265 TT
1 TT
65507267 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTAAATATATTTTGAT
Found at i:65509500 original size:15 final size:17
Alignment explanation
Indices: 65509480--65509517 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
65509470 AATAAATAAC
65509480 ATAAATTT-AA-TAAAA
1 ATAAATTTGAAGTAAAA
65509495 ATAAATTTGAAGTAAAA
1 ATAAATTTGAAGTAAAA
65509512 ATAAAT
1 ATAAAT
65509518 GAAACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 2 0.10
17 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAAATTTGAAGTAAAA
Found at i:65515336 original size:23 final size:24
Alignment explanation
Indices: 65515292--65515336 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
65515282 CAAACCCAAA
* **
65515292 TTTCACCACATGACAATGCAACTC
1 TTTCACCACATGAAAACCCAACTC
65515316 TTTC-CCACATGAAAACCCAAC
1 TTTCACCACATGAAAACCCAAC
65515337 ATTTCTGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.22
Consensus pattern (24 bp):
TTTCACCACATGAAAACCCAACTC
Found at i:65522562 original size:41 final size:39
Alignment explanation
Indices: 65522486--65522562 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 39
65522476 TCACCTACAC
* *
65522486 AATTTTAATTAATAATAAAATTACTTTTTAATATTTTTA
1 AATTTTAAATAATAATAAAATTACTTTTAAATATTTTTA
*
65522525 AATTTATAAATAATATATAATATTA-TTTTCAAATATTT
1 AATTT-TAAATAATA-ATAAAATTACTTTT-AAATATTT
65522563 AATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.16
40 12 0.38
41 15 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (39 bp):
AATTTTAAATAATAATAAAATTACTTTTAAATATTTTTA
Found at i:65526254 original size:21 final size:22
Alignment explanation
Indices: 65526229--65526278 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
65526219 GTTCGAATAG
*
65526229 TTTAATTACTTAAAT-AAAAAA
1 TTTAATTAATTAAATGAAAAAA
* * *
65526250 TTTAAATAATTTAATGACAAAA
1 TTTAATTAATTAAATGAAAAAA
65526272 TTTAATT
1 TTTAATT
65526279 TTTTAATTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTAATTAATTAAATGAAAAAA
Found at i:65526286 original size:13 final size:14
Alignment explanation
Indices: 65526270--65526298 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65526260 TTAATGACAA
65526270 AATT-TAATTTTTT
1 AATTGTAATTTTTT
65526283 AATTGTAATTTTTT
1 AATTGTAATTTTTT
65526297 AA
1 AA
65526299 AATTGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
AATTGTAATTTTTT
Found at i:65534424 original size:15 final size:15
Alignment explanation
Indices: 65534404--65534440 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
65534394 CGCAAGCTGC
65534404 TGAAGAATGAAACCG
1 TGAAGAATGAAACCG
*
65534419 TGAAGAATGAAATCG
1 TGAAGAATGAAACCG
65534434 TGGAAGA
1 T-GAAGA
65534441 TGCTTCTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.16
Consensus pattern (15 bp):
TGAAGAATGAAACCG
Found at i:65540103 original size:22 final size:23
Alignment explanation
Indices: 65540059--65540107 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
65540049 AAAGATCTAA
65540059 AAACAAAGTTGAATCAAAAACTG
1 AAACAAAGTTGAATCAAAAACTG
65540082 AAACAAAGTTGAATC-AAAACTG
1 AAACAAAGTTGAATCAAAAACTG
65540104 AAAC
1 AAAC
65540108 TTTAGATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.16
Consensus pattern (23 bp):
AAACAAAGTTGAATCAAAAACTG
Found at i:65540321 original size:41 final size:41
Alignment explanation
Indices: 65540275--65540356 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
65540265 CAATAAGAGG
65540275 GCATGAGAAAAAGCCGCCTACAACCAGAAAAGGAAAAGAAA
1 GCATGAGAAAAAGCCGCCTACAACCAGAAAAGGAAAAGAAA
65540316 GCATGAGAAAAAGCCGCCTACAACCAGAAAAGGAAAAGAAA
1 GCATGAGAAAAAGCCGCCTACAACCAGAAAAGGAAAAGAAA
65540357 ATCATGTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.20, G:0.22, T:0.05
Consensus pattern (41 bp):
GCATGAGAAAAAGCCGCCTACAACCAGAAAAGGAAAAGAAA
Found at i:65544673 original size:36 final size:36
Alignment explanation
Indices: 65544626--65544696 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
65544616 AGTATTGACC
65544626 CTCTTACTCGTTGCATTAAGAAAATAAGAACAATCA
1 CTCTTACTCGTTGCATTAAGAAAATAAGAACAATCA
*
65544662 CTCTTACTCGTTGCATTACGAAAATAAGAACAATC
1 CTCTTACTCGTTGCATTAAGAAAATAAGAACAATC
65544697 TCCTTGATCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (36 bp):
CTCTTACTCGTTGCATTAAGAAAATAAGAACAATCA
Found at i:65553772 original size:22 final size:21
Alignment explanation
Indices: 65553744--65553802 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
65553734 AAAACAGCCA
65553744 TTTCTCCCCTCGTTTTTGCTGG
1 TTTCTCCCCT-GTTTTTGCTGG
* * *
65553766 TTTCTCCCTTATTCTTGCTGG
1 TTTCTCCCCTGTTTTTGCTGG
65553787 TTTCTCCCCTGTTTTT
1 TTTCTCCCCTGTTTTT
65553803 TGCTTTGTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.02, C:0.31, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTCTCCCCTGTTTTTGCTGG
Found at i:65556697 original size:15 final size:16
Alignment explanation
Indices: 65556664--65556694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65556654 TGTAAAACTA
65556664 ATGTATGATATTTTTT
1 ATGTATGATATTTTTT
*
65556680 ATGTTTGATATTTTT
1 ATGTATGATATTTTT
65556695 ATGCTATGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (16 bp):
ATGTATGATATTTTTT
Found at i:65558844 original size:20 final size:20
Alignment explanation
Indices: 65558816--65558853 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65558806 TGCTCTGGGT
65558816 GAGAA-TTTTGCTGGCATGTG
1 GAGAATTTTTG-TGGCATGTG
*
65558836 GAGAGTTTTTGTGGCATG
1 GAGAATTTTTGTGGCATG
65558854 AATCTTGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.08, G:0.37, T:0.37
Consensus pattern (20 bp):
GAGAATTTTTGTGGCATGTG
Found at i:65559167 original size:29 final size:30
Alignment explanation
Indices: 65559135--65559192 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
65559125 TTAATCTAAT
*
65559135 GTACAATATC-ATATACA-AACTTTGATTTG
1 GTACAAT-TCTATATACACAACTTTAATTTG
*
65559164 GTACAATTCTATATATACAACTTTAATTT
1 GTACAATTCTATATACACAACTTTAATTT
65559193 CGATTCGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.52
30 10 0.40
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (30 bp):
GTACAATTCTATATACACAACTTTAATTTG
Found at i:65563947 original size:69 final size:69
Alignment explanation
Indices: 65563868--65564006 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
65563858 TCAACATAAA
65563868 ATAAAACAGACATCAATTATATTTTAATTTTAATTTCTTTGTTTTACTTTCCATAACAAATTGTC
1 ATAAAACAGACATCAATTATATTTTAATTTTAATTTCTTTGTTTTACTTTCCATAACAAATTGTC
65563933 AAAT
66 AAAT
*
65563937 ATAAAACAGACATCAATTATATTTTAATTTTAATTTCTTTGTTTTGCTTTCCATAACAAATTGTC
1 ATAAAACAGACATCAATTATATTTTAATTTTAATTTCTTTGTTTTACTTTCCATAACAAATTGTC
65564002 AAAT
66 AAAT
65564006 A
1 A
65564007 ACTTCTCAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (69 bp):
ATAAAACAGACATCAATTATATTTTAATTTTAATTTCTTTGTTTTACTTTCCATAACAAATTGTC
AAAT
Found at i:65578873 original size:17 final size:20
Alignment explanation
Indices: 65578834--65578877 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 20
65578824 AGCAATTTAA
65578834 TTCTTTCATGTTCTTTTAACT
1 TTCTTTCATGTTCTTTT-ACT
65578855 TTCTTT-AT-TTCTTTT-CT
1 TTCTTTCATGTTCTTTTACT
65578872 TTCTTT
1 TTCTTT
65578878 TCCATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
19 7 0.30
20 2 0.09
21 6 0.26
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.70
Consensus pattern (20 bp):
TTCTTTCATGTTCTTTTACT
Found at i:65579156 original size:24 final size:24
Alignment explanation
Indices: 65579129--65579177 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65579119 AGAGGAAAGT
65579129 TTAAAGAACATAAAACAAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAA
** * *
65579153 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAA
65579177 T
1 T
65579178 ATGGGGATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.20
Consensus pattern (24 bp):
TTAAAGAACATAAAACAAAAAAAA
Found at i:65580390 original size:7 final size:7
Alignment explanation
Indices: 65580380--65580407 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
65580370 TTCTATGACG
65580380 CGCCGCC
1 CGCCGCC
65580387 CGCCGCC
1 CGCCGCC
65580394 CGCCGCC
1 CGCCGCC
65580401 CGCCGCC
1 CGCCGCC
65580408 GGGTAGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.71, G:0.29, T:0.00
Consensus pattern (7 bp):
CGCCGCC
Found at i:65585704 original size:18 final size:17
Alignment explanation
Indices: 65585666--65585704 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 17
65585656 AAAAAGTTAT
65585666 AAAAAATTAAATATTAGA
1 AAAAAATTAAATATTA-A
65585684 AAAAAATTAAAAATATTAA
1 AAAAAATT--AAATATTAA
65585703 AA
1 AA
65585705 TTGATATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAAATTAAATATTAA
Found at i:65590392 original size:22 final size:21
Alignment explanation
Indices: 65590354--65590398 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
65590344 AAATTGGTTC
*
65590354 TTAAATTTTAAAATATTTATA
1 TTAAATTTTAAAATATTGATA
*
65590375 TTAAATTATTAAAGTATTGATA
1 TTAAATT-TTAAAATATTGATA
65590397 TT
1 TT
65590399 GCGTAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TTAAATTTTAAAATATTGATA
Found at i:65598776 original size:23 final size:23
Alignment explanation
Indices: 65598750--65598847 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
65598740 ATAAGTGCCA
65598750 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
65598773 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
65598796 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
65598818 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
65598841 CACTGAT
1 CACTGAT
65598848 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:65598815 original size:45 final size:45
Alignment explanation
Indices: 65598757--65598845 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
65598747 CCACACTGAT
* *
65598757 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
65598802 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
65598846 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:65598947 original size:8 final size:8
Alignment explanation
Indices: 65598934--65598962 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
65598924 ACCCGGGACT
65598934 CACTGTAA
1 CACTGTAA
65598942 CACTGTAA
1 CACTGTAA
65598950 CACTGTAA
1 CACTGTAA
65598958 CACTG
1 CACTG
65598963 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:65599090 original size:75 final size:75
Alignment explanation
Indices: 65599004--65599151 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
65598994 CTATTCCTAA
65599004 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
65599069 CAACTTTCAT
66 CAACTTTCAT
65599079 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
65599144 CAACTTTC
66 CAACTTTC
65599152 CTTCCACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:65602706 original size:17 final size:17
Alignment explanation
Indices: 65602664--65602710 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
65602654 AATTCAATTT
65602664 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
65602680 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
65602698 TAATATAAATAAT
1 TAATATAAATAAT
65602711 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:65603007 original size:30 final size:31
Alignment explanation
Indices: 65602968--65603027 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
65602958 GGAGGTGAGA
*
65602968 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
65602999 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
65603028 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:65603351 original size:9 final size:9
Alignment explanation
Indices: 65603334--65603364 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
65603324 TCGAGTTGAT
65603334 TCGAATAAC
1 TCGAATAAC
*
65603343 TCGATTAAC
1 TCGAATAAC
65603352 TCGAATAAC
1 TCGAATAAC
65603361 TCGA
1 TCGA
65603365 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:65608629 original size:24 final size:24
Alignment explanation
Indices: 65608583--65608631 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
65608573 TTTAAAATAC
*
65608583 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTATTGTTTAT
65608607 TTTTAAAATATTTTT-TGTGTTTAT
1 TTTTAAAATATTTTTAT-TGTTTAT
65608631 T
1 T
65608632 AAAAATCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTAAAATATTTTTATTGTTTAT
Found at i:65613836 original size:42 final size:42
Alignment explanation
Indices: 65613789--65613879 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
65613779 TTAAGCATAA
65613789 ATAATTTAAA-ATTTTTTATTATATATTAAATTTCCATAAAAT
1 ATAATTTAAACA-TTTTTATTATATATTAAATTTCCATAAAAT
*
65613831 ATAATTTAAACATTTTTATTATATATTTAATTTCCATAAAAT
1 ATAATTTAAACATTTTTATTATATATTAAATTTCCATAAAAT
65613873 ATAATTT
1 ATAATTT
65613880 TCAATCCGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (42 bp):
ATAATTTAAACATTTTTATTATATATTAAATTTCCATAAAAT
Found at i:65613839 original size:22 final size:22
Alignment explanation
Indices: 65613814--65613879 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
65613804 TTATTATATA
65613814 TTAAATTTCCATAAAATATAAT
1 TTAAATTTCCATAAAATATAAT
* **
65613836 TTAAACATTT--TTATTATAT-AT
1 TT-AA-ATTTCCATAAAATATAAT
65613857 TT-AATTTCCATAAAATATAAT
1 TTAAATTTCCATAAAATATAAT
65613878 TT
1 TT
65613880 TCAATCCGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 11
0.66 0.12 0.22
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 6 0.18
21 8 0.24
22 8 0.24
23 2 0.06
24 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATTTCCATAAAATATAAT
Found at i:65616014 original size:52 final size:52
Alignment explanation
Indices: 65615952--65616090 Score: 235
Period size: 52 Copynumber: 2.7 Consensus size: 52
65615942 TTGTCTCTTA
** *
65615952 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATTTATTCTTATCTCT
1 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
65616004 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
1 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
65616056 GTGAAGCATGCATATGGTGTTTGTA-ATTCCATAGG
1 GTGAAGCATGCATATGGTGTTTG-ACATTCCATAGG
65616091 TGTGTTTTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
52 82 0.99
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (52 bp):
GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
Found at i:65622397 original size:50 final size:51
Alignment explanation
Indices: 65622278--65622412 Score: 200
Period size: 51 Copynumber: 2.7 Consensus size: 51
65622268 TGTCTGCGAA
* * * ** *
65622278 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGAACCGGAAGGCCTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAGAACTTGAT
*
65622329 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAGAACTTGAT
65622379 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
65622413 TATCGAATGA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 38 0.49
51 39 0.51
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAGAACTTGAT
Found at i:65625981 original size:11 final size:13
Alignment explanation
Indices: 65625965--65625996 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
65625955 ATTTCATGAA
65625965 AAAATTTCG-T-G
1 AAAATTTCGTTCG
65625976 AAAATTTCGTTCG
1 AAAATTTCGTTCG
65625989 AAAATTTC
1 AAAATTTC
65625997 AATGTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:65627091 original size:26 final size:26
Alignment explanation
Indices: 65627057--65627106 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
65627047 GAATATAAAG
65627057 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
65627083 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
65627107 GAATCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:65627127 original size:33 final size:33
Alignment explanation
Indices: 65627085--65627286 Score: 172
Period size: 33 Copynumber: 5.6 Consensus size: 33
65627075 TTCCCCAAGG
65627085 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
65627118 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGA-TTCCCCG-AA--T-CAT-TG---GT
65627160 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
65627193 GGTTGCTAAGTGCTGATTCCACC-ATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC----AT-TG---GT
* *
65627235 GGTTGCTAAGTGCTGATTCCTCAAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
65627268 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
65627287 TACCATATCT
Statistics
Matches: 140, Mismatches: 9, Indels: 40
0.74 0.05 0.21
Matches are distributed among these distances:
33 58 0.41
34 11 0.08
35 2 0.01
36 4 0.03
37 5 0.04
38 5 0.04
39 4 0.03
40 2 0.01
41 10 0.07
42 39 0.28
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:65627177 original size:42 final size:42
Alignment explanation
Indices: 65627118--65627252 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
65627108 AATCATTGGT
65627118 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
* * *
65627160 GGTTGCTAAGTGCTGA-TTCCCCG-AA--T-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
* * *
65627193 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
65627235 GGTTGCTAAGTGCTGATT
1 GGTTGCTAAGTGCTGATT
65627253 CCTCAAATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
33 17 0.23
34 4 0.05
35 1 0.01
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 2 0.03
41 6 0.08
42 35 0.47
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
Found at i:65627204 original size:75 final size:75
Alignment explanation
Indices: 65627081--65627359 Score: 445
Period size: 75 Copynumber: 3.7 Consensus size: 75
65627071 CTGATTCCCC
* *
65627081 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCGTAAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
65627146 TTGAATGTGA
66 TTGAATGTGA
*
65627156 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
65627221 TTGAATGTGA
66 TTGAATGTGA
* *
65627231 AAGGGGTTGCTAAGTGCTGATTCCTCAAATCATTGGTGGTTGCTAAGTGCTGA-TTCTACCATAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTC-ACCATAT
65627295 CTTTGAATGTGA
65 C-TTGAATGTGA
* **
65627307 AAGGGGTTGCTAAGTG-TCGATTCCCCGAATCACTGGTGACTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGCT-GATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA
65627360 ATCCATTGAG
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
74 2 0.01
75 132 0.69
76 56 0.29
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
TTGAATGTGA
Found at i:65627253 original size:42 final size:42
Alignment explanation
Indices: 65627193--65627330 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
65627183 AATCATTGGT
65627193 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
* * *
65627235 GGTTGCTAAGTGCTGATTCC-TCAAATC----AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
*
65627268 GGTTGCTAAGTGCTGATTCTACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATC-TTGAATGTGAAAGG
65627311 GGTTGCTAAGTG-TCGATTCC
1 GGTTGCTAAGTGCT-GATTCC
65627331 CCGAATCACT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
33 20 0.26
34 5 0.06
36 2 0.03
37 2 0.03
39 2 0.03
40 2 0.03
41 5 0.06
42 21 0.27
43 18 0.23
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
Found at i:65631205 original size:15 final size:15
Alignment explanation
Indices: 65631185--65631215 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65631175 CCTTCCCAGG
*
65631185 TCTGAAAATTATTTC
1 TCTGAAAAGTATTTC
65631200 TCTGAAAAGTATTTC
1 TCTGAAAAGTATTTC
65631215 T
1 T
65631216 TTGTTGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (15 bp):
TCTGAAAAGTATTTC
Found at i:65633259 original size:34 final size:33
Alignment explanation
Indices: 65633221--65633285 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
65633211 TTAAAAAAAA
*
65633221 TTAATTAATTAATA-ATGTAATTATTATTTTTACT
1 TTAA-TAATTAATATATATAATTATT-TTTTTACT
**
65633255 TTAATAATTTTTATATATAATTATTTTTTTA
1 TTAATAATTAATATATATAATTATTTTTTTA
65633286 AATACATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (33 bp):
TTAATAATTAATATATATAATTATTTTTTTACT
Found at i:65633315 original size:18 final size:18
Alignment explanation
Indices: 65633292--65633326 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65633282 TTTAAATACA
65633292 TGTATATTTATTTTTATG
1 TGTATATTTATTTTTATG
*
65633310 TGTATATTTGTTTTTAT
1 TGTATATTTATTTTTAT
65633327 ATATATACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TGTATATTTATTTTTATG
Found at i:65633333 original size:18 final size:18
Alignment explanation
Indices: 65633294--65633333 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65633284 TAAATACATG
* *
65633294 TATATTTATTTTTATGTG
1 TATATTTATTTTTATATA
*
65633312 TATATTTGTTTTTATATA
1 TATATTTATTTTTATATA
65633330 TATA
1 TATA
65633334 CGCATACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TATATTTATTTTTATATA
Found at i:65634792 original size:18 final size:18
Alignment explanation
Indices: 65634769--65634810 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
65634759 TTAAGTGGGA
65634769 GTGAGGAGCTATGCCTTC
1 GTGAGGAGCTATGCCTTC
65634787 GTGAGGAGCTATGCCTTC
1 GTGAGGAGCTATGCCTTC
65634805 GTGAGG
1 GTGAGG
65634811 TTTTCACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.26
Consensus pattern (18 bp):
GTGAGGAGCTATGCCTTC
Found at i:65639593 original size:13 final size:13
Alignment explanation
Indices: 65639563--65639587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65639553 ATTTCAAAAA
65639563 AAAAAGAAAAGAT
1 AAAAAGAAAAGAT
65639576 AAAAAGAAAAGA
1 AAAAAGAAAAGA
65639588 AGAAAAAAAA
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAGAT
Found at i:65640961 original size:44 final size:44
Alignment explanation
Indices: 65640855--65641540 Score: 206
Period size: 44 Copynumber: 15.8 Consensus size: 44
65640845 GAAGATGGCA
* * * *
65640855 AATCTTATCTCTCTGAAGTCGCAGTAGAGCAGATTAAAAGCCGAT-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * *
65640900 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * *
65640944 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT--C--CCATTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCA-TG
* * * * ** *
65640984 AGTTTTATC-CTCCTGAAGTTGCAGTGGGGCAAAT-TGAA-GATG
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAACCATG
** *
65641026 ACAAATCTTATCTC-CTTGAAGTCCCAGTGGAGCAGATTA-AAGCCGAT-
1 ---AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * *
65641073 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * *
65641117 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT--C--CCATTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCA-TG
* * * ** *
65641157 AGTCTTATC-CTCCTGAAGTTGTAGTGGGGCAGAT-TGAA-GATGG
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAACCAT-G
* *
65641200 CAAGTCTTATCT-TCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA-C
1 -AA-TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * * *
65641246 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA-G
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-C-CATG
* * ** * * *
65641291 -ATCTTATCTTTTTGAAGTTGCAG-AAAGTAGATCGC-ATC-T-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * * * * *
65641330 AGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAGCA--
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TCA-CAACCATG
* * * ** *
65641374 AGTCTTATC-CTTTTGAAGTTGCAGTGGGGCAGAT-TGAA-GATGG
1 AATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATCACAACCAT-G
* *
65641417 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCAAT-
1 -AA-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * * * * * *
65641463 AATCTTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACC-TT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
*
65641506 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATC
65641541 CCATCTAGTT
Statistics
Matches: 472, Mismatches: 112, Indels: 116
0.67 0.16 0.17
Matches are distributed among these distances:
39 8 0.02
40 58 0.12
41 22 0.05
42 5 0.01
43 32 0.07
44 208 0.44
45 131 0.28
46 3 0.01
48 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
Found at i:65641135 original size:173 final size:173
Alignment explanation
Indices: 65640838--65641448 Score: 793
Period size: 173 Copynumber: 3.5 Consensus size: 173
65640828 CGATAGCGGA
* * * *
65640838 GCAGATCGAAGATGGCAAATCTTATCT-CTCTGAAGTCGCAGTAGAGCAGATTAAAAGCCGATAA
1 GCAGATTGAAGATGACAAATCTTATCTCCT-TGAAGTCGCAGTGGAGCAGATT-AAAGCCGACAA
65640902 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCA
64 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCA
*
65640967 GAGAGCAGATCCCATTTAGTTTTATCCTCCTGAAGTTGCAGTGGG
129 GAGAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
* * *
65641012 GCAAATTGAAGATGACAAATCTTATCTCCTTGAAGTCCCAGTGGAGCAGATTAAAGCCGATAATC
1 GCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAATC
65641077 CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
66 CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
*
65641142 GAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGTAGTGGG
131 GAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
* * *
65641185 GCAGATTGAAGATGGCAAGTCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGACAAT
1 GCAGATTGAAGATGACAAATCTTATC-TCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAAT
* * * ** * *
65641249 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTTTGAAGTTGCAG
65 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAG
* * * * * *
65641314 AAAGTAGATCGCATCTAGTCTTAT-CTCCCTGAGGTTGCAGTGGA
130 AGAGCAGATCCCATTTAGTCTTATCCT-CCTGAAGTTGCAGTGGG
* * * * * * * ** *
65641358 GCAGACT-AAG-TAAGCAAGTCTTATC-CTTTTGAAGTTGCAGTGGGGCAGATTGAAGATGGCAA
1 GCAGATTGAAGATGA-CAAATCTTATCTC-CTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAA
*
65641420 GTCTTATCTCCCTGAAGTTGCAGTGGAGC
64 -TCCTATCTCCCTGAAGTTGCAGTGGAGC
65641449 AGATTAAAGC
Statistics
Matches: 393, Mismatches: 37, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
170 1 0.00
171 1 0.00
172 44 0.11
173 298 0.76
174 47 0.12
175 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
GCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAATC
CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
GAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
Found at i:65641273 original size:217 final size:214
Alignment explanation
Indices: 65640988--65641667 Score: 686
Period size: 217 Copynumber: 3.1 Consensus size: 214
65640978 CCATTTAGTT
* * * * ** * **
65640988 TTATCCTCCTGAAGTTGCAGTGGGGCAAATTGAAGATGACAAATCTTATCTCCTTGAAGTCCCAG
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AATCTTATCTCCCTGAAGTTACAG
* * * * ** * *
65641053 TGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGG
65 TGGAGCGGATTAAAACC-ATAATCTTATCTCTCTGAAGTTGCAG-AAAGCAGATCAC-ACC-TAG
* * ** *
65641118 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCCCA-T-TTAGTCTTATCCTCCTGAAGTTGTA
126 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CCAAGTACAAGTCTTATCCTCCTGAAGTTGCA
65641180 GTGGGGCAGATTGAAGATGGCAAGTC
189 GTGGGGCAGATTGAAGATGGCAAGTC
* *
65641206 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTACAGT
* * * * * *
65641271 GGAGCGGATTAAAATCTCA-GATCTTATCTTTTTGAAGTTGCAGAAAGTAGATCGCATCTAGTCT
66 GGAGCGGATTAAAA-C-CATAATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCT
* * * **
65641335 TATCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTTTGAAGTTGCAGTG
129 TATCTCCCTGAAGTTGCAGTAGAGCAGACCAAGT-A-CAAGTCTTATCCTCCTGAAGTTGCAGTG
65641400 GGGCAGATTGAAGATGGCAAGTC
192 GGGCAGATTGAAGATGGCAAGTC
* * * *
65641423 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTTACAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTACAGT
* * * * * *
65641488 GGAACGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCCCATCTAGTTTT
66 GGAGCGGATTAAAACCATA-ATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCTT
* * * * * * *
65641553 ATCTCCCGGAAGTTGCAGTGGAGTAGACTAAATAAGCAAGTCTTATCCTCTTGAAGTTGCAGTGA
130 ATCTCCCTGAAGTTGCAGTAGAGCAGACCAAGT-A-CAAGTCTTATCCTCCTGAAGTTGCAGTGG
*
65641618 GGCAGATTGAAGATAGCGAA-TC
193 GGCAGATTGAAGATGGC-AAGTC
* * *
65641640 TTATCTCCCTGAAGTTGTAGTAGAGCAG
1 TTATCTTCCTGAAGTTGCAGTGGAGCAG
65641668 GATAACAGAT
Statistics
Matches: 394, Mismatches: 58, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
213 22 0.06
214 10 0.03
215 3 0.01
216 8 0.02
217 312 0.79
218 38 0.10
219 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (214 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTACAGT
GGAGCGGATTAAAACCATAATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCTTA
TCTCCCTGAAGTTGCAGTAGAGCAGACCAAGTACAAGTCTTATCCTCCTGAAGTTGCAGTGGGGC
AGATTGAAGATGGCAAGTC
Found at i:65646930 original size:22 final size:22
Alignment explanation
Indices: 65646886--65646930 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
65646876 TGCAGCTTTC
* **
65646886 TTTTTACTATTTTCTTATTATT
1 TTTTTACTATTTTATTACCATT
*
65646908 TTTTTACTGTTTTATTACCATT
1 TTTTTACTATTTTATTACCATT
65646930 T
1 T
65646931 CACGATTATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTACTATTTTATTACCATT
Found at i:65655527 original size:60 final size:60
Alignment explanation
Indices: 65655440--65655600 Score: 146
Period size: 60 Copynumber: 2.7 Consensus size: 60
65655430 GAAAATCAAG
* * * * * * * *
65655440 TTTAAGTATCAATTTGAACC-AATAAGCCAAGTTTAGGTA-TCTAATTAGACCAAAATAAAT
1 TTTAAGTACCAAATTGAACCTTA-AAGCCAAGTTCAAGTACT-TAATTAGACAAAAAAAAAC
* ** * *
65655500 TTTAGGTACCAAATTGAAGGTTAAAGCCAAATTCAAGTACTTAATTTGACAAAAAAAAAC
1 TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACTTAATTAGACAAAAAAAAAC
* * *
65655560 TTTAAGTACCAATTTGAACCTTAAAACCAAGTCCAAGTACT
1 TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACT
65655601 GAAATGTATA
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
60 77 0.97
61 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (60 bp):
TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACTTAATTAGACAAAAAAAAAC
Found at i:65655829 original size:21 final size:21
Alignment explanation
Indices: 65655771--65655839 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
65655761 AAATCTAATT
65655771 TATTTT-TATTTAAATAATTTAAA
1 TATTTTATATTTAAA-AA--TAAA
*
65655794 T-TTTTATAATGTAAAAATAAA
1 TATTTTAT-ATTTAAAAATAAA
*
65655815 TATTTTATATTTAAAATATGAA
1 TATTTTATATTTAAAA-ATAAA
65655837 TAT
1 TAT
65655840 AATTTAAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 12 0.31
22 17 0.44
23 4 0.10
24 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TATTTTATATTTAAAAATAAA
Found at i:65658911 original size:21 final size:21
Alignment explanation
Indices: 65658887--65658931 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
65658877 CACGTTAATC
*
65658887 ATTCTAAAATTAGGATAAATT
1 ATTCTAAAATAAGGATAAATT
65658908 ATTCTAAAATAAGGATAAATT
1 ATTCTAAAATAAGGATAAATT
65658929 ATT
1 ATT
65658932 TTTCTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTCTAAAATAAGGATAAATT
Found at i:65659937 original size:13 final size:14
Alignment explanation
Indices: 65659905--65659937 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
65659895 TTTGGGGTCA
65659905 AAGTTCGAGATTTG
1 AAGTTCGAGATTTG
*
65659919 AAGTTCGAG-TTTT
1 AAGTTCGAGATTTG
65659932 AAGTTC
1 AAGTTC
65659938 ATGATTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (14 bp):
AAGTTCGAGATTTG
Found at i:65661686 original size:19 final size:17
Alignment explanation
Indices: 65661651--65661694 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
65661641 GTTAAAATTG
65661651 TGTTAAATACTTATTTTCT
1 TGTTAAATACTTA-TTT-T
* *
65661670 TGTTAAATAGTTGTTTT
1 TGTTAAATACTTATTTT
65661687 TGTTAAAT
1 TGTTAAAT
65661695 CTCACATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 11 0.48
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (17 bp):
TGTTAAATACTTATTTT
Found at i:65675019 original size:69 final size:69
Alignment explanation
Indices: 65674909--65675046 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
65674899 ACTCTACTAG
*
65674909 ATATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCTTATATTAGGTGTCAAATTAT
1 ATATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTAT
65674974 ATTT
66 ATTT
65674978 ATATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTAT
1 ATATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTAT
65675043 ATTT
66 ATTT
65675047 TTCCCCTCTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (69 bp):
ATATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTAT
ATTT
Found at i:65683053 original size:48 final size:48
Alignment explanation
Indices: 65682982--65683078 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
65682972 TAAACATCAG
*
65682982 TTAAAGCATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
1 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
65683030 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
1 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
65683078 T
1 T
65683079 ATGCAGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (48 bp):
TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
Found at i:65683373 original size:6 final size:6
Alignment explanation
Indices: 65683364--65683391 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65683354 AACAAAAATC
65683364 AGAATG AGAATG AGAATG AGAATG AGAA
1 AGAATG AGAATG AGAATG AGAATG AGAA
65683392 AGCAGTGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (6 bp):
AGAATG
Found at i:65694861 original size:19 final size:19
Alignment explanation
Indices: 65694837--65694878 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
65694827 TAAAAATTGA
* *
65694837 AATTTTACATAATTTTTTT
1 AATTTTAAATAATTTATTT
*
65694856 AATTTTAAATTATTTATTT
1 AATTTTAAATAATTTATTT
65694875 AATT
1 AATT
65694879 ATTGTCGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTAAATAATTTATTT
Found at i:65696609 original size:41 final size:40
Alignment explanation
Indices: 65696564--65696665 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 40
65696554 TGATTCAGTA
65696564 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* *
65696605 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
65696646 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
65696666 AGCGCTATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 2 0.04
41 52 0.93
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:65699772 original size:19 final size:21
Alignment explanation
Indices: 65699750--65699793 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
65699740 CTTTAGCTCT
*
65699750 TTCTCTC-TCGATTC-ATTTC
1 TTCTCTCTTAGATTCTATTTC
65699769 TTCT-TCTTAGATTCTATTTC
1 TTCTCTCTTAGATTCTATTTC
65699789 TTCTC
1 TTCTC
65699794 GAGAACATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.10
19 10 0.48
20 9 0.43
ACGTcount: A:0.11, C:0.27, G:0.05, T:0.57
Consensus pattern (21 bp):
TTCTCTCTTAGATTCTATTTC
Found at i:65704603 original size:19 final size:21
Alignment explanation
Indices: 65704581--65704624 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
65704571 CTTTAGCTCT
*
65704581 TTCTCT-TTAGATT-TTTTTC
1 TTCTCTCTTAGATTCTATTTC
65704600 TTCT-TCTTAGATTCTATTTC
1 TTCTCTCTTAGATTCTATTTC
65704620 TTCTC
1 TTCTC
65704625 GAGAACATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.11, C:0.20, G:0.05, T:0.64
Consensus pattern (21 bp):
TTCTCTCTTAGATTCTATTTC
Found at i:65704607 original size:20 final size:20
Alignment explanation
Indices: 65704587--65704623 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65704577 CTCTTTCTCT
*
65704587 TTAGATT-TTTTTCTTCTTC
1 TTAGATTCTATTTCTTCTTC
65704606 TTAGATTCTATTTCTTCT
1 TTAGATTCTATTTCTTCT
65704624 CGAGAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.14, C:0.16, G:0.05, T:0.65
Consensus pattern (20 bp):
TTAGATTCTATTTCTTCTTC
Found at i:65704729 original size:16 final size:19
Alignment explanation
Indices: 65704707--65704747 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
65704697 TATTTTAGAC
65704707 GAATAAAAA-AA-GAAAAA
1 GAATAAAAATAAGGAAAAA
65704724 -AATAAAAATAAGGAAAAA
1 GAATAAAAATAAGGAAAAA
65704742 GAATAA
1 GAATAA
65704748 TTGTGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.38
17 2 0.10
18 6 0.29
19 5 0.24
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
GAATAAAAATAAGGAAAAA
Found at i:65706001 original size:22 final size:21
Alignment explanation
Indices: 65705958--65706001 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65705948 TATCATATGA
* *
65705958 TTATTTAATATTCTTTGTAAG
1 TTATTTAAAATTCTTTGCAAG
*
65705979 TTATTTAAAATGTTTTTGCAAG
1 TTATTTAAAAT-TCTTTGCAAG
65706001 T
1 T
65706002 AAAATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (21 bp):
TTATTTAAAATTCTTTGCAAG
Found at i:65706433 original size:34 final size:34
Alignment explanation
Indices: 65706369--65706438 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
65706359 TCGAGGGAAA
** *
65706369 AGTTATAAAGTGACCTTTCTTGAAATGAGATAAT
1 AGTTATAAAGTGACCTTTCTCCAAACGAGATAAT
65706403 AGTTATAAAGTGACCTTT-TCCAATACGAGATAAT
1 AGTTATAAAGTGACCTTTCTCCAA-ACGAGATAAT
65706437 AG
1 AG
65706439 AGTTTCGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 3 0.09
34 29 0.91
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (34 bp):
AGTTATAAAGTGACCTTTCTCCAAACGAGATAAT
Found at i:65715950 original size:12 final size:12
Alignment explanation
Indices: 65715933--65715960 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65715923 TTAAAAATAT
65715933 TTTTTTTTATAA
1 TTTTTTTTATAA
65715945 TTTTTTTTATAA
1 TTTTTTTTATAA
65715957 TTTT
1 TTTT
65715961 AATGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTATAA
Found at i:65715985 original size:29 final size:28
Alignment explanation
Indices: 65715953--65716009 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
65715943 AATTTTTTTT
*
65715953 ATAATTT-TAATGATTTTAAATTTTTAAAA
1 ATAATTTAT-ATGATTTTAAA-ATTTAAAA
*
65715982 ATAATTTATATGTTTTTAAAATTTAAAA
1 ATAATTTATATGATTTTAAAATTTAAAA
65716010 TATTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 17 0.68
30 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
ATAATTTATATGATTTTAAAATTTAAAA
Found at i:65716574 original size:17 final size:16
Alignment explanation
Indices: 65716533--65716575 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
65716523 TTTTTACGAA
65716533 TTTTTTAA-TTTTAAT
1 TTTTTTAATTTTTAAT
*
65716548 TTGATTTAATTTTTAAT
1 TT-TTTTAATTTTTAAT
65716565 TTTTTATAATT
1 TTTTT-TAATT
65716576 ATTTGTTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTAATTTTTAAT
Found at i:65717678 original size:17 final size:16
Alignment explanation
Indices: 65717656--65717688 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
65717646 AATATTTGGC
65717656 AATAATAATTAATTTAA
1 AATAATAA-TAATTTAA
65717673 AATAATAATAATTTAA
1 AATAATAATAATTTAA
65717689 TGAGCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATAATTTAA
Found at i:65718912 original size:22 final size:24
Alignment explanation
Indices: 65718885--65718928 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
65718875 CATTTTGTCA
65718885 ATTTTAACTT-TTAT-TCAAAAAT
1 ATTTTAACTTGTTATATCAAAAAT
*
65718907 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
65718929 CATACTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAT
Found at i:65721615 original size:17 final size:16
Alignment explanation
Indices: 65721571--65721629 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
65721561 ATTTAATGGA
65721571 AAAACTTTATTTTTTT
1 AAAACTTTATTTTTTT
* **
65721587 CAATTTTCTATTTTTTCT
1 AAAACTT-TATTTTTT-T
65721605 AAAACTTTATTTTTTT
1 AAAACTTTATTTTTTT
65721621 GAAAACTTT
1 -AAAACTTT
65721630 TATATATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (16 bp):
AAAACTTTATTTTTTT
Found at i:65721667 original size:5 final size:6
Alignment explanation
Indices: 65721649--65721674 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
65721639 AGTTTGGTCA
65721649 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
65721675 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:65727173 original size:17 final size:17
Alignment explanation
Indices: 65727148--65727180 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65727138 CAATTTTGTT
*
65727148 TTTATTTTGGGTTGGGG
1 TTTAATTTGGGTTGGGG
65727165 TTTAATTTGGGTTGGG
1 TTTAATTTGGGTTGGG
65727181 TTTTTGAAAA
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:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (17 bp):
TTTAATTTGGGTTGGGG
Found at i:65733037 original size:21 final size:21
Alignment explanation
Indices: 65733005--65733045 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
65732995 GAACATTTGG
65733005 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
65733026 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
65733046 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:65743777 original size:23 final size:26
Alignment explanation
Indices: 65743744--65743794 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
65743734 ATCGTAATAA
*
65743744 GACAACA-TTTTAAAAA-TAATATAT
1 GACAACATTTTTAAAAACAAATATAT
65743768 GACAA-ATTTTTAAAAACAAATATAT
1 GACAACATTTTTAAAAACAAATATAT
65743793 GA
1 GA
65743795 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.58
25 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (26 bp):
GACAACATTTTTAAAAACAAATATAT
Found at i:65745479 original size:20 final size:21
Alignment explanation
Indices: 65745448--65745486 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
65745438 CTTATTTTTT
65745448 AAAATTATTAAAATTATAAGA
1 AAAATTATTAAAATTATAAGA
65745469 AAAATTA-TAAAATTATAA
1 AAAATTATTAAAATTATAA
65745487 AAATTAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATTATTAAAATTATAAGA
Found at i:65746277 original size:11 final size:11
Alignment explanation
Indices: 65746263--65746290 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
65746253 AATATTTTGT
65746263 ATTTTTTAATA
1 ATTTTTTAATA
65746274 ATTTTTTAATA
1 ATTTTTTAATA
65746285 ATTTTT
1 ATTTTT
65746291 AGAGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTTTTAATA
Found at i:65746289 original size:20 final size:20
Alignment explanation
Indices: 65746236--65746289 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
65746226 TAAATATATC
*
65746236 ATTTTTATAATTTTATTAAT
1 ATTTTTATAATTTTAATAAT
*
65746256 ATTTTGTAT-TTTTTAATAAT
1 ATTTT-TATAATTTTAATAAT
65746276 -TTTTTAATAATTTT
1 ATTTTT-ATAATTTT
65746290 TAGAGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.04
19 6 0.21
20 18 0.64
21 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTATAATTTTAATAAT
Found at i:65747107 original size:32 final size:32
Alignment explanation
Indices: 65747071--65747135 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65747061 AGTTACGAGA
*
65747071 ACAAATATGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
65747103 ACAAATACGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
65747135 A
1 A
65747136 AAAACTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (32 bp):
ACAAATACGAGAATAAACATAAAAACAACAAT
Found at i:65748309 original size:16 final size:15
Alignment explanation
Indices: 65748283--65748317 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
65748273 TGATGTGAAT
65748283 AATATAAAATATTAA
1 AATATAAAATATTAA
*
65748298 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
65748314 AATA
1 AATA
65748318 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:65748501 original size:20 final size:21
Alignment explanation
Indices: 65748459--65748501 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
65748449 CCTTTTTTAG
* *
65748459 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
65748480 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
65748500 AA
1 AA
65748502 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:65748673 original size:21 final size:23
Alignment explanation
Indices: 65748631--65748673 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65748621 AGTATTTCGG
*
65748631 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
65748654 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
65748674 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:65748684 original size:23 final size:23
Alignment explanation
Indices: 65748637--65748686 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
65748627 TCGGAGTATG
*
65748637 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
65748660 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
65748683 TACA
1 TACA
65748687 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:65749262 original size:13 final size:13
Alignment explanation
Indices: 65749244--65749268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65749234 AAAAAGGAAA
65749244 AAAAATAAAAAAT
1 AAAAATAAAAAAT
65749257 AAAAATAAAAAA
1 AAAAATAAAAAA
65749269 GAGTAAAATA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:65749291 original size:14 final size:13
Alignment explanation
Indices: 65749245--65749291 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
65749235 AAAAGGAAAA
65749245 AAAATAAAAA-AT
1 AAAATAAAAAGAT
65749257 AAAAATAAAAAAGAGT
1 -AAAAT-AAAAAGA-T
65749273 AAAATAAAGAAGAT
1 AAAATAAA-AAGAT
65749287 AAAAT
1 AAAAT
65749292 CACCTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.17
14 14 0.47
15 10 0.33
16 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAGAT
Found at i:65749560 original size:24 final size:23
Alignment explanation
Indices: 65749519--65749576 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 23
65749509 TTTTGGGGGT
65749519 GTTAGG-TTTTTCTTTTTTTTGG
1 GTTAGGTTTTTTCTTTTTTTTGG
*
65749541 GTTAGGTTTTTTCTTTTTTTTTTG
1 GTTAGGTTTTTTC-TTTTTTTTGG
65749565 GTTAGGTTTTTT
1 GTTAGGTTTTTT
65749577 TTTGGGGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 6 0.18
23 6 0.18
24 21 0.64
ACGTcount: A:0.05, C:0.03, G:0.21, T:0.71
Consensus pattern (23 bp):
GTTAGGTTTTTTCTTTTTTTTGG
Found at i:65750448 original size:93 final size:92
Alignment explanation
Indices: 65750254--65750635 Score: 371
Period size: 93 Copynumber: 4.2 Consensus size: 92
65750244 GTGACCCGAA
* **
65750254 GCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG-CAAAGCATAAATT-AAAAAAAACATCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAA-CATAAATTGAAAAAAAACAAAA
*
65750316 ATTGAAAATACCTCAGCGTGTGGCTTGAG
65 ATTGAAAATACCTCAGCGTGT-GCCTGAG
* *
65750345 GCTCAACTCACCTCTCTCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAGAAAAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACATAAATTGAAAA-AAAACAAA
65750410 AATTGAAAATACCTCAGCGTGT-CCTGAG
64 AATTGAAAATACCTCAGCGTGTGCCTGAG
* *
65750438 GCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACA-AAATTTG---AAAAACA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTT-GACAAACATAAA-TTGAAAAAAAACA
* * ** *
65750499 GAATTTGAAAATACCTCAGCGTGTGAGTCAAG
62 AAAATTGAAAATACCTCAGCGTGTGCCT-GAG
* * * * *
65750531 GCTCAACTCACCACTCGCAATATGAGCTGATTTTTTGA-AACACAGAAATTG---AAGAACAGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAA-ACATAAATTGAAAAAAAACAAAA
* * *
65750592 ATGGAAAACACCTCAGC--GT-CTTGAG
65 ATTGAAAATACCTCAGCGTGTGCCTGAG
*
65750617 GTTCAACTCACCTCTCGCA
1 GCTCAACTCACCTCTCGCA
65750636 GAAATTAAAA
Statistics
Matches: 252, Mismatches: 27, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
86 19 0.08
87 1 0.00
88 2 0.01
89 2 0.01
90 31 0.12
91 64 0.25
92 2 0.01
93 76 0.30
94 18 0.07
95 37 0.15
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (92 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAAAAAAAACAAAAA
TTGAAAATACCTCAGCGTGTGCCTGAG
Found at i:65750509 original size:13 final size:14
Alignment explanation
Indices: 65750477--65750509 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
65750467 ATTTTTTTTG
65750477 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
65750491 GAAAAACAGAATTT
1 GAAAAACAAAATTT
65750505 GAAAA
1 GAAAA
65750510 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:65750985 original size:147 final size:146
Alignment explanation
Indices: 65750703--65751267 Score: 796
Period size: 147 Copynumber: 3.8 Consensus size: 146
65750693 GTGATCTGAA
* *
65750703 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTTGCAATATGAGTTGA-TATTTTGAAA-ACAGAAATTGAAATTACCTCAGC
** *
65750768 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAA
64 --GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
65750833 ATACCTCAACGTGTCTTGAG
127 ATACCTCAACGTGTCTTGAG
** * * *
65750853 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAATAGAAATTGAAATTACGTCAGCGT
1 GCTCAACTCACCTCTTGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
* *
65750917 GTCCCGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAAT
66 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAAT
65750982 ACCTCAACGTGTCTTGAG
129 ACCTCAACGTGTCTTGAG
**
65751000 GCTCAACTCATTTCTTGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTTGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
65751064 GTCCCGAGGCTCAACTCACCCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTA
66 GTCCCGAGGCTCAACTCA-CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATA
* * **
65751128 CCTTAGCGTGTCCCGAG
130 CCTCAACGTGTCTTGAG
* *
65751145 GCTCAACTCACCTCTTGCAATATGAGTTGATTATTTTTGACAACAGAAATTGAAATTACCCCAGC
1 GCTCAACTCACCTCTTGCAATATGAGTTGA-TA-TTTTGAAAACAGAAATTGAAATTACCTCAGC
* * *
65751210 GTGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGATTTTTTTG-AAACAGAAAT
64 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAAT
65751268 AAAAACATCA
Statistics
Matches: 378, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
145 91 0.24
146 19 0.05
147 150 0.40
148 85 0.22
149 6 0.02
150 27 0.07
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (146 bp):
GCTCAACTCACCTCTTGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTCTTGAG
Found at i:65751006 original size:75 final size:73
Alignment explanation
Indices: 65750703--65751267 Score: 733
Period size: 75 Copynumber: 7.7 Consensus size: 73
65750693 GTGATCTGAA
* *
65750703 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
65750768 ATGTGAACCGAG
64 --GTGTCCCGAG
* * *
65750780 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
**
65750845 GTCTTGAG
66 GTCCCGAG
** * * *
65750853 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAATAGAAATTGAAATTACGTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
65750917 GTCCCGAG
66 GTCCCGAG
* * * *
65750925 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
65750990 GTGTCTTGAG
64 GTGTCCCGAG
** * *
65751000 GCTCAACTCATTTCTTGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
65751064 GTCCCGAG
66 GTCCCGAG
*
65751072 GCTCAACTCACCCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTTAGCG
1 GCTCAACTCA-CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
65751136 TGTCCCGAG
65 TGTCCCGAG
* * *
65751145 GCTCAACTCACCTCTTGCAATATGAGTTGATTATTTTTGACAACAGAAATTGAAATTACCCCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTTGAAAACAGAAATTGAAATTACCTCAGC
*
65751210 GTGTCCTGAG
64 GTGTCCCGAG
* *
65751220 GCTCAACTCACCTCTCGTAGTATGAGTTGATTTTTTTG-AAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAAT
65751268 AAAAACATCA
Statistics
Matches: 429, Mismatches: 52, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
72 119 0.28
73 117 0.27
74 14 0.03
75 141 0.33
76 10 0.02
77 28 0.07
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCCGAG
Found at i:65751123 original size:220 final size:219
Alignment explanation
Indices: 65750703--65751267 Score: 776
Period size: 220 Copynumber: 2.6 Consensus size: 219
65750693 GTGATCTGAA
65750703 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA--
* * * *
65750768 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAA
64 ACGTG-TCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAA
** ** *
65750833 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAA
128 ATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
*
65750898 ATTGAAATTACGTCAGCGTGTCCCGAG
193 ATTGAAATTACCTCAGCGTGTCCCGAG
* * *
65750925 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAC
** * * *
65750990 GTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATT
66 GTGTC-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAAT
* *
65751054 ACCTCAGCGTGTCCCGAGGCTCAACTCACCCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAA
130 ACCTCAACGTGTCCCGAGGCTCAACTCA-CCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
*
65751119 TTGAAATTACCTTAGCGTGTCCCGAG
194 TTGAAATTACCTCAGCGTGTCCCGAG
* * * *
65751145 GCTCAACTCACCTCTTGCAATATGAGTTGATTATTTTTGACA-ACAGAAATTGAAATTACCCCAG
1 GCTCAACTCACCTCTTGCAATATGAGTTGATT-TTTTTGAAAGACAGAAATTGAAAATACCTCAA
* * * *
65751209 CGTGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGATTTTTTTG-AAACAGAAAT
65 CGTGT-CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTGAAAACAGAAAT
65751268 AAAAACATCA
Statistics
Matches: 303, Mismatches: 34, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
219 48 0.16
220 171 0.56
221 19 0.06
222 65 0.21
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (219 bp):
GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAC
GTGTCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAACAGAAATTGAAAATA
CCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
GAAATTACCTCAGCGTGTCCCGAG
Found at i:65761035 original size:23 final size:26
Alignment explanation
Indices: 65761002--65761052 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
65760992 ATCGTAATAA
*
65761002 GACAACA-TTTTAAAAA-TAATATAT
1 GACAACATTTTTAAAAACAAATATAT
65761026 GACAA-ATTTTTAAAAACAAATATAT
1 GACAACATTTTTAAAAACAAATATAT
65761051 GA
1 GA
65761053 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.58
25 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (26 bp):
GACAACATTTTTAAAAACAAATATAT
Found at i:65761164 original size:4 final size:4
Alignment explanation
Indices: 65761147--65761180 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
65761137 ATTTAAAATC
65761147 ATAA ATATA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA A
65761181 AGGTATAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:65762678 original size:19 final size:20
Alignment explanation
Indices: 65762646--65762683 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
65762636 CTTATTTTTT
65762646 AAAATTATTAAAATTATAAG
1 AAAATTATTAAAATTATAAG
65762666 AAAATTA-TAAAATTATAA
1 AAAATTATTAAAATTATAA
65762684 AAATTAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATTATTAAAATTATAAG
Found at i:65763387 original size:34 final size:32
Alignment explanation
Indices: 65763318--65763387 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 32
65763308 TTTACAATCT
65763318 TTTACAATTTCTAATAATTTATATTTTTACATTA
1 TTTACAATTTCTAATAATTTATATTTTT--ATTA
65763352 TTTACAATTTCTAATAATATTTATAGTTTTT-TTA
1 TTTACAATTTCTAAT-A-ATTTATA-TTTTTATTA
65763386 TT
1 TT
65763388 ATTTTATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
34 20 0.61
35 1 0.03
36 7 0.21
37 5 0.15
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTACAATTTCTAATAATTTATATTTTTATTA
Found at i:65763484 original size:9 final size:9
Alignment explanation
Indices: 65763431--65763504 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
65763421 TAAATATATC
65763431 ATTTTTATA
1 ATTTTTATA
65763440 A-TTTTATTA
1 ATTTTTA-TA
*
65763449 ATATTTTGTA
1 AT-TTTTATA
*
65763459 TTTTTTAATA
1 ATTTTT-ATA
65763469 ATTTTTTTATA
1 A--TTTTTATA
*
65763480 ATTTTTAGA
1 ATTTTTATA
*
65763489 GATTTTTATG
1 -ATTTTTATA
65763499 ATTTTT
1 ATTTTT
65763505 TGGATGATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.10
9 21 0.41
10 12 0.24
11 8 0.16
12 5 0.10
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:65764306 original size:32 final size:32
Alignment explanation
Indices: 65764270--65764334 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65764260 AGTTACGAGA
*
65764270 ACAAATATGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
65764302 ACAAATACGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
65764334 A
1 A
65764335 AAAACTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (32 bp):
ACAAATACGAGAATAAACATAAAAACAACAAT
Found at i:65765508 original size:16 final size:15
Alignment explanation
Indices: 65765482--65765516 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
65765472 TGATGTGAAT
65765482 AATATAAAATATTAA
1 AATATAAAATATTAA
*
65765497 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
65765513 AATA
1 AATA
65765517 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:65765699 original size:20 final size:21
Alignment explanation
Indices: 65765657--65765699 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
65765647 CCTTTTTTAG
* *
65765657 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
65765678 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
65765698 AA
1 AA
65765700 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:65765870 original size:21 final size:23
Alignment explanation
Indices: 65765828--65765870 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65765818 AGTATTTCGG
*
65765828 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
65765851 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
65765871 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:65765881 original size:23 final size:23
Alignment explanation
Indices: 65765834--65765883 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
65765824 TCGGAGTATG
*
65765834 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
65765857 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
65765880 TACA
1 TACA
65765884 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:65766459 original size:13 final size:13
Alignment explanation
Indices: 65766441--65766465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65766431 AAAAAGGAAA
65766441 AAAAATAAAAAAT
1 AAAAATAAAAAAT
65766454 AAAAATAAAAAA
1 AAAAATAAAAAA
65766466 AGGGTAAAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:65766728 original size:22 final size:22
Alignment explanation
Indices: 65766702--65766753 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
65766692 GGTTTCTTGG
65766702 TTTTTTTGGGGTGTTAGGTTTTC
1 TTTTTTTGGGG-GTTAGGTTTTC
** *
65766725 TTTTTTTTTGGGTTAGGTTTTT
1 TTTTTTTGGGGGTTAGGTTTTC
65766747 TTTTTTT
1 TTTTTTT
65766754 TTTTGTTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.04, C:0.02, G:0.23, T:0.71
Consensus pattern (22 bp):
TTTTTTTGGGGGTTAGGTTTTC
Found at i:65766754 original size:22 final size:22
Alignment explanation
Indices: 65766714--65766770 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
65766704 TTTTTGGGGT
*
65766714 GTTAGGTTTTCTTTTTTTTTGG
1 GTTAGGTTTTTTTTTTTTTTGG
**
65766736 GTTAGGTTTTTTTTTTTTTTTT
1 GTTAGGTTTTTTTTTTTTTTGG
65766758 GTTAGGTTTTTTT
1 GTTAGGTTTTTTT
65766771 GGGGAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.05, C:0.02, G:0.19, T:0.74
Consensus pattern (22 bp):
GTTAGGTTTTTTTTTTTTTTGG
Found at i:65778592 original size:15 final size:15
Alignment explanation
Indices: 65778568--65778623 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
65778558 CCCTTTTTTT
65778568 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
65778582 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
65778597 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
65778612 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
65778624 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:65778592 original size:21 final size:21
Alignment explanation
Indices: 65778562--65778623 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
65778552 CCTCCTCCCT
*
65778562 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
65778583 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
65778605 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
65778624 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:65784769 original size:37 final size:37
Alignment explanation
Indices: 65784713--65784854 Score: 135
Period size: 37 Copynumber: 3.8 Consensus size: 37
65784703 TATTTTTGGT
*
65784713 TGGACTAGCTCTTATGAGC-ATCTAACGTGTTATCGAG
1 TGGACTAGCTCTTAGGAGCAAT-TAACGTGTTATCGAG
* ** *
65784750 TGGACTAGCTCTTCGGAGCAATTGGCGTGTTATTGAG
1 TGGACTAGCTCTTAGGAGCAATTAACGTGTTATCGAG
* ** *
65784787 TGGACTAGCTCTTTA-GAGTAATTAGTGTGTTATCGAA
1 TGGACTAGCTC-TTAGGAGCAATTAACGTGTTATCGAG
* ** *
65784824 TGGATTAGCTCTTACTAGCAATTAGCGTGTT
1 TGGACTAGCTCTTAGGAGCAATTAACGTGTT
65784855 TCGGTTGGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
36 3 0.03
37 80 0.92
38 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (37 bp):
TGGACTAGCTCTTAGGAGCAATTAACGTGTTATCGAG
Found at i:65798374 original size:30 final size:30
Alignment explanation
Indices: 65798338--65798482 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
65798328 ACTTTTCTCA
*
65798338 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
65798368 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
65798398 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
65798428 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
65798458 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
65798483 CTTGTACCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 99 0.97
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:65798998 original size:23 final size:24
Alignment explanation
Indices: 65798961--65799005 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
65798951 ATTTTTTTGT
65798961 TATTATTATATTTC-TTAATATTA
1 TATTATTATATTTCTTTAATATTA
65798984 TATTA-TATATATTCTTTAATAT
1 TATTATTATAT-TTCTTTAATAT
65799006 ATTAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATTATATTTCTTTAATATTA
Found at i:65799029 original size:23 final size:24
Alignment explanation
Indices: 65799003--65799053 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
65798993 TATTCTTTAA
* *
65799003 TATATTAGGTATAT-TTTAAATTT
1 TATATTACGTATATATATAAATTT
*
65799026 TATATTACGTATATATATATATTT
1 TATATTACGTATATATATAAATTT
65799050 TATA
1 TATA
65799054 CTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
TATATTACGTATATATATAAATTT
Found at i:65799067 original size:27 final size:27
Alignment explanation
Indices: 65799037--65799165 Score: 81
Period size: 25 Copynumber: 5.0 Consensus size: 27
65799027 ATATTACGTA
*
65799037 TATATATATATTTTATACTATTTTA-T
1 TATATATATATTTTATACTATATTATT
* * *
65799063 T-TATATATCTTTAATATTATATTATT
1 TATATATATATTTTATACTATATTATT
* * * *
65799089 TATATATTTTTTTTCTAC-ATGTTATCT
1 TATATATATATTTTATACTATATTAT-T
* * *
65799116 TATGTATATATCTTA-ACTATATTATG
1 TATATATATATTTTATACTATATTATT
* * *
65799142 TATGTAT-T-TTTAACACTATATTAT
1 TATATATATATTTTATACTATATTAT
65799166 GTACATATTT
Statistics
Matches: 79, Mismatches: 19, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
24 3 0.04
25 30 0.38
26 18 0.23
27 28 0.35
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (27 bp):
TATATATATATTTTATACTATATTATT
Found at i:65799087 original size:25 final size:25
Alignment explanation
Indices: 65799039--65799196 Score: 79
Period size: 25 Copynumber: 6.1 Consensus size: 25
65799029 ATTACGTATA
* *
65799039 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
65799064 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
** * *
65799089 TATATAT-TTTTTTTCTACATGTTATCT
1 TATATATATTTAATACT--ATATTAT-T
*
65799116 TATGTATATATCTT-A-ACTATATTATG
1 TA--TATATAT-TTAATACTATATTATT
* * * *
65799142 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATT
* * *
65799167 TACATATTTTTAATATTATCATGTATT
1 TATATATATTTAATACTAT-AT-TATT
65799194 TAT
1 TAT
65799197 TTTTATATAT
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.02
24 11 0.11
25 54 0.53
26 10 0.10
27 14 0.14
29 7 0.07
30 1 0.01
31 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:65799092 original size:23 final size:23
Alignment explanation
Indices: 65798961--65799093 Score: 60
Period size: 25 Copynumber: 5.5 Consensus size: 23
65798951 ATTTTTTTGT
*
65798961 TATTA-TTATATTTCTTAATATTA
1 TATTATTTATATCT-TTAATATTA
*
65798984 TATTATATATATTCTTTAATA-TA
1 TATTATTTATA-TCTTTAATATTA
*
65799007 TTAGGTATATTTTAAAT-TTT-ATATTA
1 -TA--T-TA-TTTATATCTTTAATATTA
* * * *
65799033 CGTA-TATATATATATTTTATACTA
1 --TATTATTTATATCTTTAATATTA
*
65799057 TTTTATTTATATATCTTTAATATTA
1 TATTA-TT-TATATCTTTAATATTA
65799082 TATTATTTATAT
1 TATTATTTATAT
65799094 ATTTTTTTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
22 6 0.07
23 19 0.23
24 20 0.24
25 22 0.27
26 6 0.07
27 5 0.06
28 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTTATATCTTTAATATTA
Found at i:65799093 original size:14 final size:15
Alignment explanation
Indices: 65798981--65799093 Score: 63
Period size: 16 Copynumber: 7.4 Consensus size: 15
65798971 TTTCTTAATA
65798981 TTATATTATATATAT
1 TTATATTATATATAT
* * *
65798996 TCTTTAATATAT-TAG
1 T-TATATTATATATAT
* * *
65799011 GTATATTTTAAAT-T
1 TTATATTATATATAT
65799025 TTATATTACGTATATAT
1 TTATATTA--TATATAT
* *
65799042 ATATATTTTATACTAT
1 TTATATTATATA-TAT
*
65799058 TT-TATTTATATATCT
1 TTATA-TTATATATAT
65799073 TTAATATTATAT-TAT
1 TT-ATATTATATATAT
65799088 TTATAT
1 TTATAT
65799094 ATTTTTTTTC
Statistics
Matches: 71, Mismatches: 18, Indels: 19
0.66 0.17 0.18
Matches are distributed among these distances:
14 16 0.23
15 18 0.25
16 28 0.39
17 9 0.13
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (15 bp):
TTATATTATATATAT
Found at i:65799095 original size:16 final size:16
Alignment explanation
Indices: 65799043--65799096 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
65799033 CGTATATATA
* *
65799043 TATATTTTATACTATT
1 TATATATTATATTATT
*
65799059 T-TAT-TTATATATCTT
1 TATATATTATAT-TATT
65799074 TA-ATATTATATTATT
1 TATATATTATATTATT
65799089 TATATATT
1 TATATATT
65799097 TTTTTTCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 12 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:65799197 original size:23 final size:24
Alignment explanation
Indices: 65799117--65799206 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
65799107 ATGTTATCTT
*
65799117 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
65799139 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
65799164 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
*
65799187 ATGTATTTATTTTT-ATATAT
1 ATGTATATATTTTTAATATAT
65799207 GTACATATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
22 13 0.24
23 24 0.44
24 2 0.04
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:65799350 original size:16 final size:15
Alignment explanation
Indices: 65799326--65799373 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
65799316 TTAATTATAT
*
65799326 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
65799342 TATTTTAATATTTTA
1 TATTTTAATATTTTA
65799357 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
65799373 T
1 T
65799374 TATTCCCATC
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:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:65799361 original size:7 final size:8
Alignment explanation
Indices: 65799326--65799377 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
65799316 TTAATTATAT
*
65799326 TATTCTAA
1 TATTTTAA
*
65799334 TATTTTGA
1 TATTTTAA
65799342 TATTTTAA
1 TATTTTAA
65799350 TATTTT-A
1 TATTTTAA
65799357 TATTTTATA
1 TATTTTA-A
*
65799366 TATTTTAT
1 TATTTTAA
65799374 TATT
1 TATT
65799378 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:65807842 original size:69 final size:70
Alignment explanation
Indices: 65807667--65807842 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
65807657 CTTTCCAAGG
* ** *
65807667 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
65807732 TTTTT
66 GTTTT
* ** * *
65807737 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
65807802 TGTTTT
65 TGTTTT
** *
65807808 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65807843 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:65807987 original size:77 final size:76
Alignment explanation
Indices: 65807860--65808202 Score: 444
Period size: 77 Copynumber: 4.5 Consensus size: 76
65807850 TTTGTTTTTC
*
65807860 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
65807925 GTTGTTAAAAAA
66 GTT-TTAAAAAA
**
65807937 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
65808002 GTTTT----CA
66 GTTTTAAAAAA
* * * ** * * *
65808009 AAATTCAACTTATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
65808074 GTTTTCAAAAAA
66 GTTTT-AAAAAA
* * * *
65808086 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCATATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
65808150 TCTGTTTTTAAAAA
63 TCTGTTTTAAAAAA
*
65808164 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65808203 ATTACACACT
Statistics
Matches: 235, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
72 65 0.28
76 3 0.01
77 99 0.42
78 40 0.17
79 28 0.12
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAAAA
Found at i:65808059 original size:72 final size:71
Alignment explanation
Indices: 65807846--65808083 Score: 314
Period size: 72 Copynumber: 3.2 Consensus size: 71
65807836 TAAGCCTTTT
* * **
65807846 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTCAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
65807911 TAATTTC
65 TAATTTC
* *
65807918 AATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 AATTTCTGTT-TT-----CAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGC
65807983 TGAGGTAATTTC
60 TGAGGTAATTTC
* * *
65807995 AATTTCTGTTTTCAAAATTCAACTTATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAA-TCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
65808060 TATTTTC
65 TAATTTC
65808067 AATTTCTGTTTTCAAAA
1 AATTTCTGTTTTCAAAA
65808084 AAAAAATCAA
Statistics
Matches: 148, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
71 6 0.04
72 75 0.51
76 2 0.01
77 65 0.44
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (71 bp):
AATTTCTGTTTTCAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTC
Done.