Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 294 of 444
Found at i:85069725 original size:24 final size:24
Alignment explanation
Indices: 85069698--85069745 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
85069688 AAATGATGGA
*
85069698 ATACAATTCTAATTAATATGGTTT
1 ATACAATTCTAATTAATATAGTTT
85069722 ATACAATTCTAATTAATATAGTTT
1 ATACAATTCTAATTAATATAGTTT
85069746 TTCTTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (24 bp):
ATACAATTCTAATTAATATAGTTT
Found at i:85070894 original size:11 final size:11
Alignment explanation
Indices: 85070856--85070886 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
85070846 AGTAATGGTA
85070856 TTTTTTAGTAT
1 TTTTTTAGTAT
*
85070867 TTTTTTAGTGT
1 TTTTTTAGTAT
85070878 TTTTTTAGT
1 TTTTTTAGT
85070887 TTTGTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (11 bp):
TTTTTTAGTAT
Found at i:85071261 original size:23 final size:23
Alignment explanation
Indices: 85071234--85071277 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
85071224 GCAGAGAAAT
* *
85071234 AACAGTAGCAAAATTAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
85071257 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
85071278 AGTGTAACAT
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:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:85072331 original size:3 final size:3
Alignment explanation
Indices: 85072323--85072496 Score: 81
Period size: 3 Copynumber: 55.3 Consensus size: 3
85072313 TTTGTGTCTA
85072323 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT
* *
85072370 CTATT TAT TAT CCT-T TAT ATAT ATAT ATAT GTA- TAT T-T TAA AAT T-T
1 -TA-T TAT TAT --TAT TAT -TAT -TAT -TAT -TAT TAT TAT TAT TAT TAT
* * * * * *
85072416 AGAT TAT T-T GTGT TTT TAC TA- CAT ATAT TGT TAT TAT TAT TAT TAT
1 -TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
85072462 TAT TAT TAC TAT TAT TAT TCAT TGT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T
85072497 TATGTACTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
2 8 0.06
3 93 0.69
4 32 0.24
5 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:85072641 original size:3 final size:3
Alignment explanation
Indices: 85072633--85072678 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
85072623 TCACACACTT
*
85072633 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
85072679 ATTCTATCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85077618 original size:3 final size:3
Alignment explanation
Indices: 85077610--85077644 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
85077600 GTTCTTAAAA
* *
85077610 AAG AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
85077645 ATCATATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:85077645 original size:9 final size:9
Alignment explanation
Indices: 85077607--85077645 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
85077597 CAGGTTCTTA
85077607 AAAAAGAAG
1 AAAAAGAAG
*
85077616 AAGAAGAAG
1 AAAAAGAAG
85077625 AAGAAA-AAG
1 AA-AAAGAAG
85077634 AAAAAGAAG
1 AAAAAGAAG
85077643 AAA
1 AAA
85077646 TCATATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 3 0.12
9 21 0.81
10 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:85077804 original size:22 final size:22
Alignment explanation
Indices: 85077776--85077817 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
85077766 AAAAGTGCAG
*
85077776 TAAAAAA-AGAAAATAAAAAATA
1 TAAAAAATA-AAAACAAAAAATA
85077798 TAAAAAATAAAAACAAAAAA
1 TAAAAAATAAAAACAAAAAA
85077818 GATCGTGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (22 bp):
TAAAAAATAAAAACAAAAAATA
Found at i:85078359 original size:5 final size:5
Alignment explanation
Indices: 85078344--85078421 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
85078334 CTTCACTACA
* * *
85078344 AAAAG -AAAG AAAAG AAAATA AAAAG AAAA- ACAAAA AGAAAG TAAAG
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG A-AAAG A-AAAG AAAAG
* *
85078390 AAAAG AAACG AAAAAGG AAAAG AAAGG AAAAG
1 AAAAG AAAAG -AAAA-G AAAAG AAAAG AAAAG
85078422 GAGAAGCCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 5 0.09
5 36 0.63
6 15 0.26
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:85078370 original size:16 final size:16
Alignment explanation
Indices: 85078343--85078393 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
85078333 ACTTCACTAC
85078343 AAAAAGAAAGAAAAGA
1 AAAAAGAAAGAAAAGA
85078359 AAATAA-AAAGAAAA-A
1 AAA-AAGAAAGAAAAGA
*
85078374 CAAAAAGAAAGTAAAGA
1 -AAAAAGAAAGAAAAGA
85078391 AAA
1 AAA
85078394 GAAACGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAGAAAAGA
Found at i:85078378 original size:32 final size:31
Alignment explanation
Indices: 85078341--85078421 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
85078331 ATACTTCACT
85078341 ACAAAAAGAAAGAAAAGAAAATAAAAAGAAAA
1 ACAAAAAGAAAGAAAAGAAAA-AAAAAGAAAA
* * *
85078373 ACAAAAAGAAAGTAAAGAAAAGAAACGAAAA
1 ACAAAAAGAAAGAAAAGAAAAAAAAAGAAAA
**
85078404 AGGAAAAGAAAGGAAAAG
1 ACAAAAAGAAA-GAAAAG
85078422 GAGAAGCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 17 0.40
32 25 0.60
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (31 bp):
ACAAAAAGAAAGAAAAGAAAAAAAAAGAAAA
Found at i:85079419 original size:45 final size:45
Alignment explanation
Indices: 85079311--85080100 Score: 674
Period size: 45 Copynumber: 17.7 Consensus size: 45
85079301 TACCATGGCG
* * *
85079311 AATCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTG-AAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * ** * * *
85079355 AACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * *
85079400 AATCTTATC-CCCTTAAAGTTGCAGTGGAGTAGATTG-AAGTTACA
1 AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * *
85079444 GATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCCG-AAGTTAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTA-CA
* * **
85079489 AACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTG-AAGTTACA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * * * *
85079533 AGTCTTATCTCCTTAAAGTTGCAATGGAGCAGACTAAAATTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * * **
85079578 AACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTG-AAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
85079622 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
*
85079667 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * *
85079712 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* *
85079757 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * * * ** *
85079802 AATCTTATCTCCTTAAAGTTTCAGTGGAGCAAATTG-AAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * ***
85079846 AGTCTTATCTCCCTGAAGTTACAGTGGAATGGA-TCG-AA-TATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAAGT-TA-CA
* * * * * * *
85079891 AATCTTATCTCTCTGAAGTTACAGTAGAGCTGA-TTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * * ** *
85079935 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTG-AAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
* * * *** * *
85079979 AGTCTTATCTTCCTGAAGTTACAGTGGAATGGA-TCAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTA-CA
** * * * * *
85080024 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
*
85080068 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
85080101 TCGAAACATT
Statistics
Matches: 604, Mismatches: 126, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
43 2 0.00
44 261 0.43
45 341 0.56
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACA
Found at i:85079434 original size:89 final size:88
Alignment explanation
Indices: 85079311--85080100 Score: 678
Period size: 89 Copynumber: 8.9 Consensus size: 88
85079301 TACCATGGCG
* * * *
85079311 AATCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGTCACAAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTC-CTGAAGTTG
** *
85079376 CAGTGGAGCAGGTTAAAAATAACA
65 CAGTGGAGCAGACTAAAAGTAACA
* *
85079400 AATCTTATC-CCCTTAAAGTTGCAGTGGAGTAGATTGAAGTTACAGATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCC-TGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCT-CCTGAAGTT
* * ** *
85079464 GCAGTGGAGTAGGC-CGAAGTTAGCA
64 GCAGTGGAGCAGACTAAAAG-TAACA
* * * * * *
85079489 AACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCTTAAAGTT
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCC-TGAAGTT
* * *
85079553 GCAATGGAGCAGACTAAAATTTACA
64 GCAGTGGAGCAGACTAAAAGTAACA
* * * *
85079578 AACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCT-CCTGAAGTTG
* *
85079643 CAGTGGAGCAGACTGAAAGTTACA
65 CAGTGGAGCAGACTAAAAGTAACA
* * *
85079667 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACAAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAGTTACAAATCTTATCTCC-TGAAGTT
* * * *
85079732 GCAGTGGAGTAGACTGAAGGTTACA
64 GCAGTGGAGCAGACTAAAAGTAACA
* *
85079757 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGGTTACAAATCTTATCTCCTTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-GTTACAAATCTTATCTCC-TGAAGTT
* * ** ** *
85079822 TCAGTGGAGCA-AATTGAAGCCACT
64 GCAGTGGAGCAGACTAAAAGTAACA
* * * * *
85079846 AGTCTTATCTCCCTGAAGTTACAGTGGAATGGATCGAA-TATAGCAAATCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGT-TA-CAAATCTTATCTC-CTGAAGT
* * * * *
85079910 TACAGTAGAGCTGA-TTAAAGCT-ATA
63 TGCAGTGGAGCAGACTAAAAG-TAACA
* * * * ** * * *
85079935 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCACTAGTCTTATCTTCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATC-TCCTGAAGTTG
*** * *
85080000 CAGTGGAATGGA-TCAAAGATAGCA
65 CAGTGGAGCAGACTAAAAG-TAACA
** * * * * *
85080024 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCT-CCTGAAGTTG
85080089 CAGTGGAGCAGA
65 CAGTGGAGCAGA
85080101 TCGAAACATT
Statistics
Matches: 574, Mismatches: 106, Indels: 42
0.80 0.15 0.06
Matches are distributed among these distances:
87 1 0.00
88 42 0.07
89 404 0.70
90 127 0.22
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCTGAAGTTGC
AGTGGAGCAGACTAAAAGTAACA
Found at i:85079521 original size:134 final size:133
Alignment explanation
Indices: 85079311--85080101 Score: 693
Period size: 133 Copynumber: 5.9 Consensus size: 133
85079301 TACCATGGCG
* * * * *
85079311 AATCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGTCACAAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGTTACAAACCTTATCTCCCTGAAGTTG
** * * * *
85079376 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCCCCTTAAAGTTGCAGTGGAGTAGATTGAAGTT
66 CAGTGGAGCAGACTGAAAGTTACAAATCTTATCCCCTTAAAGTTGCAGTGGAGCAGATTGAAGTT
85079441 ACA
131 ACA
* * *
85079444 GATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCCGAAGTTAGCAAACCTTAT-TCCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGTTA-CAAACCTTATCT-CCCTGAAGT
* ** * * * **
85079508 TGCAGTGGGGCAGGTTG-AAGTTACAAGTCTTATCTCCTTAAAGTTGCAATGGAGCAGACTAAAA
64 TGCAGTGGAGCAGACTGAAAGTTACAAATCTTATCCCCTTAAAGTTGCAGTGGAGCAGA-TTGAA
*
85079572 TTTACA
128 GTTACA
* * * ** *
85079578 AACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGTTACAAACCTTATCTCCCTGAAGTTG
* * *
85079643 CAGTGGAGCAGACTGAAAGTTACAAACCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAAG
66 CAGTGGAGCAGACTGAAAGTTACAAATCTTATC-CCCTTAAAGTTGCAGTGGAGCAGATTG-AAG
85079707 TTACA
129 TTACA
* *
85079712 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGGTTACAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAA-GTTACAAACCTTATCTCCCTGAAGTT
* * * * * *
85079777 GCAGTGGAGTAGACTGAAGGTTACAAATCTTATCTCCTTAAAGTTTCAGTGGAGCAAATTGAAGC
65 GCAGTGGAGCAGACTGAAAGTTACAAATCTTATCCCCTTAAAGTTGCAGTGGAGCAGATTGAAGT
* *
85079842 CACT
130 TACA
* * * * * *
85079846 AGTCTTATCTCCCTGAAGTTACAGTGGAATGGA-TCGAA-TATAGCAAATCTTATCTCTCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGT-TA-CAAACCTTATCTCCCTGAAG
* * * * * * * * * *
85079909 TTACAGTAGAGCTGA-TTAAAGCTATAAACCTTATCTCCC-TGAAGTTGCAGTAGAGCAAATTGA
63 TTGCAGTGGAGCAGACTGAAAGTTACAAATCTTATC-CCCTTAAAGTTGCAGTGGAGCAGATTGA
** *
85079972 AGCCACT
127 AGTTACA
* * * * * * * * **
85079979 AGTCTTATCTTCCTGAAGTTACAGTGGAATGGA-TCAAAGATAGCAAATCTTATCTCTTTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGTTA-CAAACCTTATCTCCCTGAAGT
* * * * * * *
85080043 TGCAGTAGAGTAGA-TTAAAGCTATAAACCTTATCTCCC-TGAAGTTGCAGTGGAGCAGAT
64 TGCAGTGGAGCAGACTGAAAGTTACAAATCTTATC-CCCTTAAAGTTGCAGTGGAGCAGAT
85080102 CGAAACATTA
Statistics
Matches: 561, Mismatches: 83, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
132 1 0.00
133 262 0.47
134 220 0.39
135 78 0.14
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGTTACAAACCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTGAAAGTTACAAATCTTATCCCCTTAAAGTTGCAGTGGAGCAGATTGAAGTT
ACA
Found at i:85079620 original size:178 final size:178
Alignment explanation
Indices: 85079314--85080100 Score: 746
Period size: 178 Copynumber: 4.4 Consensus size: 178
85079304 CATGGCGAAT
* * *
85079314 CTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGTCACAAACCTTATCT-CTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCT-TGAAGTTGCA
** *
85079378 GTGGAGCAGGTTAAAAATAACAAATCTTATC-CCCTTAAAGTTGCAGTGGAGTAGATTGAAGTTA
65 GTGGAGCAGACTAAAAATTACAAATCTTATCTCCC-TAAAGTTGCAGTGGAGTAGATTGAAGTTA
* * *
85079442 CAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCCG-AAGTTAGCAAAC
129 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAAGTTA-CAAAC
* * * *
85079492 CTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCTTAAAGTTGCA
1 CTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCTTGAAGTTGCA
* * * * *
85079556 ATGGAGCAGACTAAAATTTACAAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGTTAC
65 GTGGAGCAGACTAAAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTTAC
*
85079621 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACAAAC
130 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAAGTTACAAAC
*
85079670 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAGTTACAAATCTTATCTCCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTTACAAATCTTATCTCCTTGAAGTTGCA
* * ** * *
85079735 GTGGAGTAGACTGAAGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGGTTA
65 GTGGAGCAGACTAAAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAA-GTTA
* * * * ** ** * **
85079800 CAAATCTTATCTCCTTAAAGTTTCAGTGGAGCAAATTG-AAGCCACTAGT
129 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAAGTTACAAAC
* *** * *
85079849 CTTATCTCCCTGAAGTTACAGTGGAATGGATCGAA-TATAGCAAATCTTATCT-CTCTGAAGTTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA-CAAATCTTATCTCCT-TGAAGTTG
* * * ** * * * * * * **
85079912 CAGTAGAGCTGA-TTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCC
63 CAGTGGAGCAGACTAAAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTT
* * * * *** * * *
85079976 ACTAGTCTTATCTTCCTGAAGTTACAGTGGAATGGATC-AAAGATAGCAAAT
128 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAAGTTA-CAAAC
** * * * * * * *
85080027 CTTATCTCTTTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCTTGAAGTTGCAG
85080092 TGGAGCAGA
66 TGGAGCAGA
85080101 TCGAAACATT
Statistics
Matches: 500, Mismatches: 95, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
177 61 0.12
178 250 0.50
179 152 0.30
180 37 0.07
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (178 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCTTGAAGTTGCAG
TGGAGCAGACTAAAAATTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTTACA
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAAAGTTACAAAC
Found at i:85080603 original size:23 final size:23
Alignment explanation
Indices: 85080576--85080619 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
85080566 GTAGAAAAAT
*
85080576 AACAGTAGCAAAATCAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
85080599 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
85080620 AGTGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:85081609 original size:11 final size:11
Alignment explanation
Indices: 85081593--85081620 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
85081583 TTAATTTTCT
85081593 TTCATTAATCA
1 TTCATTAATCA
85081604 TTCATTAATCA
1 TTCATTAATCA
85081615 TTCATT
1 TTCATT
85081621 TTATTTGTGC
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:0.18, G:0.00, T:0.50
Consensus pattern (11 bp):
TTCATTAATCA
Found at i:85081642 original size:3 final size:3
Alignment explanation
Indices: 85081634--85081678 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
85081624 TTTGTGCATA
85081634 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
85081679 TATCTATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:85081767 original size:3 final size:3
Alignment explanation
Indices: 85081754--85081803 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
85081744 TTACTACATA
* * * *
85081754 TAT TGT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAAT TGT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
85081800 TAT T
1 TAT T
85081804 TATGTACTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:85081948 original size:3 final size:3
Alignment explanation
Indices: 85081940--85081987 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
85081930 CACACACTTC
85081940 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
85081988 ATTCTATCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:85083980 original size:136 final size:136
Alignment explanation
Indices: 85083736--85084005 Score: 540
Period size: 136 Copynumber: 2.0 Consensus size: 136
85083726 AGCTCATTCA
85083736 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
85083801 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
85083866 CATTTG
131 CATTTG
85083872 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
85083937 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
85084002 CATT
131 CATT
85084006 AGGGGAGACT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 134 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
CATTTG
Found at i:85085825 original size:26 final size:25
Alignment explanation
Indices: 85085786--85085866 Score: 144
Period size: 26 Copynumber: 3.2 Consensus size: 25
85085776 TGAAATTCCC
85085786 ATCATGAACATTTACCTAACCCATT
1 ATCATGAACATTTACCTAACCCATT
85085811 ATCATGAAACATTTACCTAACCCATT
1 ATCATG-AACATTTACCTAACCCATT
85085837 ATCATGGAACATTTACCTAACCCATT
1 ATCAT-GAACATTTACCTAACCCATT
85085863 ATCA
1 ATCA
85085867 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 6 0.11
26 47 0.87
27 1 0.02
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (25 bp):
ATCATGAACATTTACCTAACCCATT
Found at i:85097290 original size:362 final size:363
Alignment explanation
Indices: 85096624--85097349 Score: 1427
Period size: 362 Copynumber: 2.0 Consensus size: 363
85096614 TTTCTCGAAT
85096624 TGAGTCGAGTGAGATGGAATTCAAATCGAATCGAATCGAATATATTTCTTCGAGTTAAATTTTAA
1 TGAGTCGAGTGAGATGGAATTCAAATCGAATCGAATCGAATATATTTCTTCGAGTTAAATTTTAA
85096689 AAAATAATTTTGGGTCCTTGTAACCATGGTCACCTATCATAATAAAATTTGTCCACCTTAATCAA
66 AAAATAATTTTGGGTCCTTGTAACCATGGTCACCTATCATAATAAAATTTGTCCACCTTAATCAA
85096754 TTTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTTT
131 TTTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTTT
*
85096819 TTGCTTGCTTTGTTGTTTCAATTATCTTTAGATTCTTGTCACTATGTATTTTGGAATTAAAAAAT
196 TTGCTTGCTTTGTTGTTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTGGAATTAAAAAAT
85096884 ATATTAAATGTACAAATGTGATTTTTTAATAAAAATTATTTTAAAGATAAAATGTGAAATTAATA
261 ATATTAAATGTACAAATGTGATTTTTTAATAAAAATTATTTTAAAGATAAAATGTGAAATTAATA
85096949 CCAATATAAAATTTTAGCACGAATATTTTATGGCATAA
326 CCAATATAAAATTTTAGCACGAATATTTTATGGCATAA
85096987 TGAGTCGAGTGAGATGGAATTCAAATCGAATCGAATCGAATATATTTCTTCGAGTTAAATTTTAA
1 TGAGTCGAGTGAGATGGAATTCAAATCGAATCGAATCGAATATATTTCTTCGAGTTAAATTTTAA
*
85097052 AAAATAATTTTGGGTCCTTGTAACCATTGTCACCTATCATAATAAAATTTGTCCACCTTAATCAA
66 AAAATAATTTTGGGTCCTTGTAACCATGGTCACCTATCATAATAAAATTTGTCCACCTTAATCAA
85097117 -TTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTTT
131 TTTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTTT
85097181 TTGCTTGCTTTGTTGTTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTGGAATTAAAAAAT
196 TTGCTTGCTTTGTTGTTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTGGAATTAAAAAAT
85097246 ATATTAAATGTACAAATGTGATTTTTTAATAAAAATTATTTTAAAGATAAAATGTGAAATTAATA
261 ATATTAAATGTACAAATGTGATTTTTTAATAAAAATTATTTTAAAGATAAAATGTGAAATTAATA
85097311 CCAATATAAAATTTTAGCACGAATATTTTATGGCATAA
326 CCAATATAAAATTTTAGCACGAATATTTTATGGCATAA
85097349 T
1 T
85097350 TAATGATTCA
Statistics
Matches: 361, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
362 232 0.64
363 129 0.36
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (363 bp):
TGAGTCGAGTGAGATGGAATTCAAATCGAATCGAATCGAATATATTTCTTCGAGTTAAATTTTAA
AAAATAATTTTGGGTCCTTGTAACCATGGTCACCTATCATAATAAAATTTGTCCACCTTAATCAA
TTTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATCTTTTATATACGGGTTAGCTTTT
TTGCTTGCTTTGTTGTTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTGGAATTAAAAAAT
ATATTAAATGTACAAATGTGATTTTTTAATAAAAATTATTTTAAAGATAAAATGTGAAATTAATA
CCAATATAAAATTTTAGCACGAATATTTTATGGCATAA
Found at i:85098050 original size:9 final size:9
Alignment explanation
Indices: 85098022--85098063 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
85098012 ATTCGAGTTG
85098022 ACTCGAATA
1 ACTCGAATA
* *
85098031 ACTTGATTA
1 ACTCGAATA
85098040 ACTCGAATA
1 ACTCGAATA
85098049 ACTCGAATA
1 ACTCGAATA
85098058 ACTCGA
1 ACTCGA
85098064 TTCGTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:85098314 original size:29 final size:30
Alignment explanation
Indices: 85098260--85098320 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
85098250 ATCTCAAAAT
* *
85098260 TATACATGAACTTTGATTTAATGTGCAATTA
1 TATACATGAACTTTAATTT-AGGTGCAATTA
85098291 TATACATGAACTTTAATTT-GGTGCAATTA
1 TATACATGAACTTTAATTTAGGTGCAATTA
85098320 T
1 T
85098321 CTCCCTGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTA
Found at i:85103794 original size:42 final size:42
Alignment explanation
Indices: 85103725--85103827 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
85103715 ATATGGCTAG
* * *
85103725 GGACATTAGCTTGTGTCCAGGCAGTGTGAGCCACACGGGTAA
1 GGACATGAGCGTGTGTCCAGGCAGTGTGAGCCACACGGGCAA
* *
85103767 GGACAT-AGGCGTGTGTCTAGGCCGTGTGAGCCACACGGGCAA
1 GGACATGA-GCGTGTGTCCAGGCAGTGTGAGCCACACGGGCAA
*
85103809 GGATATGAGCGTGTGTCCA
1 GGACATGAGCGTGTGTCCA
85103828 AGTCGTGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 51 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.20
Consensus pattern (42 bp):
GGACATGAGCGTGTGTCCAGGCAGTGTGAGCCACACGGGCAA
Found at i:85114093 original size:40 final size:39
Alignment explanation
Indices: 85114017--85114111 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
85114007 CCATCTCCGA
* * *
85114017 CCAACCCAACACACC-ATGTGGGGACAGAATCGACCCAC
1 CCAACCCTACACACCAATATGGGGACAGAATCAACCCAC
* * *
85114055 CCAACCCTACACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACCAA-TATGGGGACAGAATCAACCCAC
85114095 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
85114112 AAGGTACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 14 0.29
39 1 0.02
40 34 0.69
ACGTcount: A:0.37, C:0.39, G:0.13, T:0.12
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGGGACAGAATCAACCCAC
Found at i:85121437 original size:33 final size:33
Alignment explanation
Indices: 85121390--85121465 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
85121380 GGGCCTACAC
* *
85121390 GCCCCTGTGGCCCACACGATTCAACTTAGCTTT
1 GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
*
85121423 GCCCGTGTGGCCCACATGACTCAACTTAGCTTT
1 GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
85121456 GCCCGTGTGG
1 GCCCGTGTGG
85121466 ATTACACGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (33 bp):
GCCCGTGTGGCCCACACGACTCAACTTAGCTTT
Found at i:85122125 original size:5 final size:5
Alignment explanation
Indices: 85122110--85122139 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
85122100 AGAAAAACGG
85122110 AGAAGA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAA-A AGAAA AGAAA AGAAA AGAAA AGAA
85122140 TTTTGATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:85131255 original size:16 final size:16
Alignment explanation
Indices: 85131234--85131264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85131224 TAATGTGCCC
85131234 AAAAATCATATTTTTG
1 AAAAATCATATTTTTG
*
85131250 AAAAATTATATTTTT
1 AAAAATCATATTTTT
85131265 TCCCCTAAAC
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:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAATCATATTTTTG
Found at i:85132529 original size:22 final size:21
Alignment explanation
Indices: 85132501--85132550 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
85132491 ATAGAAACTG
85132501 ATAGAATTCTAATTCCCAAAAA
1 ATAGAATTCT-ATTCCCAAAAA
**
85132523 ATAGAATT-TATTCTTAAAAA
1 ATAGAATTCTATTCCCAAAAA
85132543 ATA-AATTC
1 ATAGAATTC
85132551 GCACTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 1 0.04
22 8 0.32
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAGAATTCTATTCCCAAAAA
Found at i:85134859 original size:34 final size:34
Alignment explanation
Indices: 85134810--85134906 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
85134800 GGTAGTAAGG
*
85134810 AAATATAGTAA-AATATAATATAATTTACAAATAA
1 AAATAT-GTAATAATATAATATAATATACAAATAA
* **
85134844 AAATATGTAATAATATAA-ATCATATAGTAATAA
1 AAATATGTAATAATATAATATAATATACAAATAA
85134877 AATATATGTAATAAAATATAATATAATATA
1 AA-ATATGTAAT--AATATAATATAATATA
85134907 AGAAGAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
33 17 0.32
34 22 0.42
36 7 0.13
37 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (34 bp):
AAATATGTAATAATATAATATAATATACAAATAA
Found at i:85134889 original size:14 final size:15
Alignment explanation
Indices: 85134843--85134896 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
85134833 TTTACAAATA
* *
85134843 AAAATATGTAATAAT
1 AAAATATATAGTAAT
85134858 ATAAATCATATAGTAAT
1 A-AAAT-ATATAGTAAT
85134875 AAAATATAT-GTAAT
1 AAAATATATAGTAAT
85134889 AAAATATA
1 AAAATATA
85134897 ATATAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 13 0.37
15 5 0.14
16 8 0.23
17 9 0.26
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (15 bp):
AAAATATATAGTAAT
Found at i:85135060 original size:45 final size:43
Alignment explanation
Indices: 85135010--85135116 Score: 105
Period size: 45 Copynumber: 2.5 Consensus size: 43
85135000 TAACTTTATA
* *
85135010 AATAAATATATAATAATATGAATAC-TATAATATATATATATAAT
1 AATAAATATATAATAATAT-AAAACATATAATATAGATATA-AAT
*
85135054 ATATAAA-A-ATAATATGTACTAAAACATATAATATAGATATAAAT
1 A-ATAAATATATAATA-ATA-TAAAACATATAATATAGATATAAAT
*
85135098 AATATATATATAA-AATATA
1 AATAAATATATAATAATATA
85135117 TGATAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
42 2 0.04
43 12 0.23
44 14 0.27
45 24 0.46
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (43 bp):
AATAAATATATAATAATATAAAACATATAATATAGATATAAAT
Found at i:85135101 original size:15 final size:15
Alignment explanation
Indices: 85135081--85135182 Score: 58
Period size: 15 Copynumber: 7.0 Consensus size: 15
85135071 ACTAAAACAT
85135081 ATAATATAGATATAA
1 ATAATATAGATATAA
*
85135096 ATAATATATATAT-A
1 ATAATATAGATATAA
*
85135110 A-AATATATGATAAAA
1 ATAATATA-GATATAA
85135125 ATTAA-A-A-ATAT-A
1 A-TAATATAGATATAA
*
85135137 ATAATATA-ATAGATA
1 ATAATATAGATATA-A
*
85135152 A-AATATAGTAAAATAA
1 ATAATATAG--ATATAA
*
85135168 ATAATATATATATAA
1 ATAATATAGATATAA
85135183 TGAAAATACA
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
13 13 0.20
14 11 0.17
15 22 0.33
16 3 0.05
17 11 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATATAGATATAA
Found at i:85135154 original size:30 final size:30
Alignment explanation
Indices: 85135105--85135175 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
85135095 AATAATATAT
85135105 ATATAA-AATAT-ATGATAAAA-ATTA-AAA
1 ATATAATAATATAATGATAAAATA-TAGAAA
85135132 ATATAATAATATAATAGATAAAATATAGTAAA
1 ATATAATAATATAAT-GATAAAATATAG-AAA
85135164 ATA-AATAATATA
1 ATATAATAATATA
85135176 TATATAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 6 0.16
28 5 0.13
29 2 0.05
30 9 0.24
31 10 0.26
32 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (30 bp):
ATATAATAATATAATGATAAAATATAGAAA
Found at i:85135183 original size:45 final size:44
Alignment explanation
Indices: 85135041--85135219 Score: 133
Period size: 45 Copynumber: 4.1 Consensus size: 44
85135031 ATACTATAAT
* * * * * *
85135041 ATATATATATAAT-ATATAAAAATAATATGTACTAAAACATATA
1 ATATATATATAATAATATAATAATAAAATATAGTAAAATAAATA
* *
85135084 ATATAGATATAAATAATAT-ATATATAAAATATA-TGATAAA-AATTA
1 ATATATATAT-AATAATATAATA-ATAAAATATAGT-A-AAATAAATA
85135129 A-A-A-ATATAATAATATAATAGATAAAATATAGTAAAATAAATA
1 ATATATATATAATAATATAATA-ATAAAATATAGTAAAATAAATA
* * *
85135171 ATATATATATAATGAAAATACAT-ATAACATATAGTAAAATACA-A
1 ATATATATATAAT-AATATA-ATAATAAAATATAGTAAAATAAATA
85135215 ATATA
1 ATATA
85135220 AAAAATATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
41 11 0.10
42 23 0.21
43 12 0.11
44 14 0.12
45 42 0.38
46 8 0.07
47 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (44 bp):
ATATATATATAATAATATAATAATAAAATATAGTAAAATAAATA
Found at i:85135195 original size:21 final size:20
Alignment explanation
Indices: 85135166--85135219 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
85135156 ATAGTAAAAT
85135166 AAATA-ATATATATATAATGA
1 AAATACATATATATATAAT-A
* *
85135186 AAATACATATAACATATAGTA
1 AAATACATAT-ATATATAATA
*
85135207 AAATACAAATATA
1 AAATACATATATA
85135220 AAAAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.25
21 14 0.50
22 7 0.25
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATACATATATATATAATA
Found at i:85137378 original size:288 final size:289
Alignment explanation
Indices: 85136857--85137527 Score: 1094
Period size: 288 Copynumber: 2.3 Consensus size: 289
85136847 AATCTACTAT
* * * ** * *
85136857 CTTCGATCTGCTCTCCGACAATACAGAGATTTCAAATCATCTTAAATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATCGTAAGCAC
* **
85136922 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTT
*
85136987 GGATTTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACA
131 GGATTTGTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCGATTTGTTCCTTGTAAACACA
* *
85137052 AGAATGCCAAATCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGAT-TGCTATGTGTC
196 AGAATGCCAAATCATCTTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGCC
*
85137116 TGTCCTCCGTCGAATATGGAAACGCCAAA
261 TGCCCTCCGTCGAATATGGAAACGCCAAA
* * * *
85137145 CTTCGATTTGTTCTCTGGCAATACAGAAATGCCAAATCATCTTAAACTTGCTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATCGTAAGCAC
*
85137210 GTGAAATCCAAATCAGCTATGGT-TTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCT
66 GTGAAAGCCAAATCAGCTAT-GTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCT
85137274 TGGATTTGTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCGATTTGTTCCTTGTAAACAC
130 TGGATTTGTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCGATTTGTTCCTTGTAAACAC
*
85137339 AAGAATGCCAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGC
195 AAGAATGCCAAATCATCTTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGC
* *
85137404 CTGCCCTTCGTCGAATATGGAGACGCCAAA
260 CTGCCCTCCGTCGAATATGGAAACGCCAAA
* * *
85137434 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATCGTAAGCAC
85137499 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
85137528 CTGCTCTCCG
Statistics
Matches: 350, Mismatches: 30, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
288 229 0.65
289 121 0.35
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (289 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATACCAAATCATCTT
GGATTTGTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCGATTTGTTCCTTGTAAACACA
AGAATGCCAAATCATCTTAGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTGCTATGTGCC
TGCCCTCCGTCGAATATGGAAACGCCAAA
Found at i:85137649 original size:131 final size:120
Alignment explanation
Indices: 85137314--85137649 Score: 340
Period size: 131 Copynumber: 2.7 Consensus size: 120
85137304 ATCTGCTACG
*
85137314 TCCTCGATTTGTTC-CTTGTA-AACACA-AGAATGCCAAATCATCTTGGATCTGCTTCAGCATAA
1 TCCTCGATTTGTTCTC-TG-ACAATACAGAG-ATGCCAAATCATCTTGGATCTGCTTCAGCAT-A
* ** * *
85137376 ACATCTGAAGGTTAGATCTGCTATGTGCCTGCCCTTCGTCGAATATGGAGACGCCAAAC
62 ACACCTGAAGGCCAGATCTGCTATGTGCCTGCCCTCCGTCGAATATGGAAACGCCAAAC
* * * *
85137435 T--TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGTA
1 TCCTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCATAA-CA
* * * * * * *
85137498 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAAATGCCAAATC
65 CCTGAAGGCCAGATCTGCTATG---T-G-CCTGCCCTCCGTCGAATATGGAAACGCCAAA-C
85137560 TGTTTCCTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCATG
1 ----TCCTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCAT-
85137625 AACACCTGAAGGCCAGATCTGCTAT
61 AACACCTGAAGGCCAGATCTGCTAT
85137650 ACTTTAACCT
Statistics
Matches: 173, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
118 3 0.02
119 62 0.36
120 3 0.02
121 1 0.01
122 1 0.01
123 1 0.01
124 26 0.15
125 1 0.01
129 1 0.01
131 72 0.42
132 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (120 bp):
TCCTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGCATAACAC
CTGAAGGCCAGATCTGCTATGTGCCTGCCCTCCGTCGAATATGGAAACGCCAAAC
Found at i:85137770 original size:43 final size:43
Alignment explanation
Indices: 85137658--85137856 Score: 121
Period size: 43 Copynumber: 4.7 Consensus size: 43
85137648 ATACTTTAAC
* * *
85137658 CTGTTACCCTACTGCTTAAGGGG-TTAAG--GCGCATCTTCGAT
1 CTGTTACCCTACTGCTT-AGGGGATTAAGATCCGCATCTTTGAG
* *
85137699 CTGCT-CCACTACTGTTTAGGGAGA-TAAGATCCGCAAT-TTTGAG
1 CTGTTACC-CTACTGCTTAGGG-GATTAAGATCCGC-ATCTTTGAG
** * * *
85137742 CTGTTACCCTACTGCTTAGGGGATTAAGATGAGTCGTCATTGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGATCCG-CATCTTTGAG
* * *
85137786 CTGTT-CCACTACTACTTAGGGAGA-TAAGATCTGTAAT-TTT-AG
1 CTGTTACC-CTACTGCTTAGGG-GATTAAGATCCG-CATCTTTGAG
*
85137828 CCTGTTACCCTACTGCTTAGGGAATTAAG
1 -CTGTTACCCTACTGCTTAGGGGATTAAG
85137857 GCGAGTCTTG
Statistics
Matches: 122, Mismatches: 21, Indels: 28
0.71 0.12 0.16
Matches are distributed among these distances:
40 6 0.05
41 17 0.14
42 4 0.03
43 56 0.46
44 37 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGATTAAGATCCGCATCTTTGAG
Found at i:85137808 original size:87 final size:84
Alignment explanation
Indices: 85137652--85137857 Score: 256
Period size: 87 Copynumber: 2.4 Consensus size: 84
85137642 TCTGCTATAC
* * **
85137652 TTTAACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCGCATCTTCGATCTGCTCCACTACTGTTT
1 TTTAGCCTGTTACCCTACTGCTT-AGGGGATTAAGGAGCATCTTCGATCTGCTCCACTACTACTT
85137716 AGGGAGATAAGATCCGCAAT
65 AGGGAGATAAGATCCGCAAT
* *
85137736 TTTGAG-CTGTTACCCTACTGCTTAGGGGATTAAGATGAGTCGTCATT-GATCTGTTCCACTACT
1 TTT-AGCCTGTTACCCTACTGCTTAGGGGATTAAG--GAG-CATC-TTCGATCTGCTCCACTACT
* *
85137799 ACTTAGGGAGATAAGATCTGTAAT
61 ACTTAGGGAGATAAGATCCGCAAT
*
85137823 TTTAGCCTGTTACCCTACTGCTTAGGGAATTAAGG
1 TTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGG
85137858 CGAGTCTTGT
Statistics
Matches: 106, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
83 5 0.05
84 25 0.24
85 2 0.02
86 4 0.04
87 68 0.64
88 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (84 bp):
TTTAGCCTGTTACCCTACTGCTTAGGGGATTAAGGAGCATCTTCGATCTGCTCCACTACTACTTA
GGGAGATAAGATCCGCAAT
Found at i:85152510 original size:34 final size:34
Alignment explanation
Indices: 85152461--85152558 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 34
85152451 GGTAGTAAGG
*
85152461 AAATATAGTAA-AATATAATATAATTTACAAATAA
1 AAATAT-GTAATAATATAATATAATATACAAATAA
* **
85152495 AAATATGTAATAATATAA-ATCATATAGTAATAA
1 AAATATGTAATAATATAATATAATATACAAATAA
85152528 AATATATGTAATAAAATATATATATAATATA
1 AA-ATATGTAAT--AATATA-ATATAATATA
85152559 AGAAGAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
33 17 0.32
34 22 0.42
36 6 0.11
37 1 0.02
38 7 0.13
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
AAATATGTAATAATATAATATAATATACAAATAA
Found at i:85152540 original size:14 final size:15
Alignment explanation
Indices: 85152494--85152549 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
85152484 TTTACAAATA
* *
85152494 AAAATATGTAATAAT
1 AAAATATATAGTAAT
85152509 ATAAATCATATAGTAAT
1 A-AAAT-ATATAGTAAT
85152526 AAAATATAT-GTAAT
1 AAAATATATAGTAAT
85152540 AAAATATATA
1 AAAATATATA
85152550 TATAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 8 0.22
17 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATATATAGTAAT
Found at i:85152548 original size:16 final size:16
Alignment explanation
Indices: 85152505--85152556 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
85152495 AAATATGTAA
85152505 TAATATAAATCATATA-G
1 TAATA-AAAT-ATATATG
85152522 TAAT-AAA-ATATATG
1 TAATAAAATATATATG
*
85152536 TAATAAAATATATATA
1 TAATAAAATATATATG
85152552 TAATA
1 TAATA
85152557 TAAGAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 6 0.19
16 11 0.35
17 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (16 bp):
TAATAAAATATATATG
Found at i:85152687 original size:9 final size:8
Alignment explanation
Indices: 85152669--85152840 Score: 61
Period size: 7 Copynumber: 21.9 Consensus size: 8
85152659 ATAAATAAAT
85152669 ATATAATA
1 ATATAATA
85152677 ATATGAATA
1 ATAT-AATA
85152686 ATATAAT-
1 ATATAATA
85152693 ATATAAT-
1 ATATAATA
85152700 ATATATATA
1 ATATA-ATA
*
85152709 A-AAAATA
1 ATATAATA
*
85152716 ATATGTACTA
1 ATA--TAATA
* *
85152726 AAACATATA
1 ATATA-ATA
85152735 ATATAGAT-
1 ATATA-ATA
85152743 ATA-AATA
1 ATATAATA
85152750 ATAT-ATA
1 ATATAATA
*
85152757 TATATAAAAA
1 -ATAT-AATA
85152767 ATATATGATA
1 ATATA--ATA
85152777 A-A-AATTA
1 ATATAA-TA
85152784 A-A-AAT-
1 ATATAATA
85152789 ATATAATA
1 ATATAATA
85152797 ATATAATA
1 ATATAATA
*
85152805 GATAAAAT-
1 -ATATAATA
85152813 ATAGTAA-A
1 ATA-TAATA
85152821 ATA-AATA
1 ATATAATA
85152828 ATAT-AT-
1 ATATAATA
85152834 ATATAAT
1 ATATAAT
85152841 GAAAATACAT
Statistics
Matches: 127, Mismatches: 13, Indels: 49
0.67 0.07 0.26
Matches are distributed among these distances:
5 1 0.01
6 11 0.09
7 43 0.34
8 35 0.28
9 27 0.21
10 10 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (8 bp):
ATATAATA
Found at i:85152719 original size:39 final size:38
Alignment explanation
Indices: 85152673--85152832 Score: 125
Period size: 37 Copynumber: 4.2 Consensus size: 38
85152663 ATAAATATAT
*
85152673 AATAATATGAATAATATAATATATAATATATATATAAAA
1 AATAATAT-AATAATAAAATATATAATATATATATAAAA
* * * * *
85152712 AATAATAT-GTACTAAAACATATAATATAGATATAAAT
1 AATAATATAATAATAAAATATATAATATATATATAAAA
* * *
85152749 AATATATATATATAA-AAAATATATGATA-A-AAATTAAA
1 AATA-ATATA-ATAATAAAATATATAATATATATATAAAA
* * *
85152786 AAT-ATATAATAATATAATAGATAAAATATAGTA-AAATA
1 AATAATATAATAATAAAATATATAATATATA-TATAAA-A
85152824 AATAATATA
1 AATAATATA
85152833 TATATAATGA
Statistics
Matches: 93, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
34 4 0.04
35 14 0.15
36 1 0.01
37 38 0.41
38 10 0.11
39 24 0.26
40 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (38 bp):
AATAATATAATAATAAAATATATAATATATATATAAAA
Found at i:85152790 original size:52 final size:54
Alignment explanation
Indices: 85152688--85152804 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 54
85152678 TATGAATAAT
*
85152688 ATAATAT-ATAATATATATATAAAAAATAATATGTACTAAAACATATAATATAGA
1 ATAATATAAT-ATATATATATAAAAAATAATATGTACTAAAACATAAAATATAGA
*
85152742 TATAA-ATAATATATATATATAAAAAAT-ATATG-A-TAAAA-ATTAAAAATATATA
1 -ATAATATAATATATATATATAAAAAATAATATGTACTAAAACA-T-AAAATATAGA
85152794 ATAATATAATA
1 ATAATATAATA
85152805 GATAAAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
50 1 0.02
51 10 0.18
52 15 0.27
53 5 0.09
54 19 0.34
55 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (54 bp):
ATAATATAATATATATATATAAAAAATAATATGTACTAAAACATAAAATATAGA
Found at i:85152874 original size:27 final size:26
Alignment explanation
Indices: 85152818--85152876 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
85152808 AAAATATAGT
* *
85152818 AAAATA-A-ATAATATATATATAATG
1 AAAATACATATAACATATATAAAATG
85152842 AAAATACATATAACATATAGTAAAATG
1 AAAATACATATAACATATA-TAAAATG
*
85152869 CAAATACA
1 AAAATACA
85152877 AAAAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 1 0.03
26 9 0.31
27 13 0.45
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATACATATAACATATATAAAATG
Found at i:85152886 original size:27 final size:26
Alignment explanation
Indices: 85152827--85152892 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
85152817 TAAAATAAAT
* * *
85152827 AATATATATATAATGAAAATACATAT
1 AATATATATAAAATGAAAATACAAAA
* *
85152853 AACATATAGTAAAATGCAAATACAAAA
1 AATATATA-TAAAATGAAAATACAAAA
85152880 AATATATGATAAA
1 AATATAT-ATAAA
85152893 CAAATCCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.22
27 24 0.75
28 1 0.03
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
AATATATATAAAATGAAAATACAAAA
Found at i:85157517 original size:43 final size:42
Alignment explanation
Indices: 85157381--85157532 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 42
85157371 TAGGATTTCT
* *
85157381 GATATTTAATTTCGTGTAAGACCAC-ATCTGGATCATTGACATC
1 GATATTTGATTTCGTGTAAGACC-CTATCTGGA-CATTGGCATC
* * * * * *
85157424 GAT-TTGAGATTTACGTGGAAGACCATGTCTAGGACATTGGTATT
1 GATATT-TGATTT-CGTGTAAGACCCTATCT-GGACATTGGCATC
*
85157468 G-TATTTGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATC
1 GATATTTGATTTCGTGTAAGACCCTATCT-GGACATTGGCATC
* *
85157510 GATATTTGATTACATGTAAGACC
1 GATATTTGATTTCGTGTAAGACC
85157533 ACGTTTGGGA
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 27 0.32
43 32 0.38
44 23 0.27
45 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (42 bp):
GATATTTGATTTCGTGTAAGACCCTATCTGGACATTGGCATC
Found at i:85157542 original size:43 final size:43
Alignment explanation
Indices: 85157469--85157551 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
85157459 ATTGGTATTG
* *
85157469 TATTTGATTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCGA
1 TATTTGATTACATGTAAGACCCTATCTGGGAC-GTTGGCATCGA
85157512 TATTTGATTACATGTAAGACCACGT-T-TGGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-C-TATCTGGGACGTTGGCAT
85157552 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.03
43 31 0.89
44 2 0.06
45 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTATCTGGGACGTTGGCATCGA
Found at i:85163391 original size:46 final size:47
Alignment explanation
Indices: 85163247--85163505 Score: 250
Period size: 46 Copynumber: 5.5 Consensus size: 47
85163237 TTTGTGTGCT
* * *
85163247 AGTGTAAGACATGTCTAGGACACGCATCGG-CTAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGA-GATGTAGAGCC
* * * *
85163293 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
85163341 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* *
85163387 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGCC
* * *
85163431 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-AGAGCC
85163481 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
85163506 ACGTTAGCCT
Statistics
Matches: 180, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 75 0.42
47 27 0.15
48 24 0.13
49 4 0.02
50 23 0.13
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:85163485 original size:94 final size:93
Alignment explanation
Indices: 85163247--85163563 Score: 310
Period size: 94 Copynumber: 3.4 Consensus size: 93
85163237 TTTGTGTGCT
* * *
85163247 AGTGTAAGACATGTCTAGGACA-CGCATCGGCTAC-AT-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ACGATATGTGAGAGCCAGTGTAAGA-CATGTC
* * *
85163309 TGGGACATGGCATCGGC-ATTGAGACGAGAGC
64 TGGGACAT-GCATCAGCTATTGAGATGAG-TC
* *
85163340 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGT-A-AGCCAGTGTAAGACATGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGG-CACGATATGTGAGAGCCAGTGTAAGACATGTC
* *
85163402 TGGGACATGCATCAGCTA-CGAGATGTGTC
64 TGGGACATGCATCAGCTATTGAGATGAGTC
*
85163431 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACTATGT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC-GATATGTGAGAGCCAGTGTAAGAC-ATGT
* * **
85163496 CTGGGACATGACGTTAGCCTTTATTTCGAT-AGTC
63 CTGGGACATG-CATCAG-C--TATTGAGATGAGTC
85163530 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
85163564 TTATACACTA
Statistics
Matches: 189, Mismatches: 18, Indels: 27
0.81 0.08 0.12
Matches are distributed among these distances:
90 9 0.05
91 17 0.09
92 26 0.14
93 16 0.08
94 55 0.29
95 17 0.09
96 6 0.03
97 1 0.01
99 39 0.21
100 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACGATATGTGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATCAGCTATTGAGATGAGTC
Found at i:85170408 original size:17 final size:16
Alignment explanation
Indices: 85170379--85170418 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
85170369 GAAAAATGAG
85170379 AAATTTTAAAACACGA
1 AAATTTTAAAACACGA
85170395 AAATTTTAAAAACACGA
1 AAATTTT-AAAACACGA
85170412 AAATTTT
1 AAATTTT
85170419 TGAAACCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (16 bp):
AAATTTTAAAACACGA
Found at i:85170424 original size:17 final size:17
Alignment explanation
Indices: 85170382--85170424 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
85170372 AAATGAGAAA
85170382 TTTTAAAACACGAAAAT
1 TTTTAAAACACGAAAAT
*
85170399 TTTAAAAACACGAAAAT
1 TTTTAAAACACGAAAAT
*
85170416 TTTTGAAAC
1 TTTTAAAAC
85170425 CTGAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (17 bp):
TTTTAAAACACGAAAAT
Found at i:85171091 original size:37 final size:37
Alignment explanation
Indices: 85171020--85171091 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
85171010 ATATATATAT
* *
85171020 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
85171057 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
85171092 TAAAAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:85171645 original size:17 final size:17
Alignment explanation
Indices: 85171623--85171655 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85171613 ATGTATATAG
85171623 AAAGAAGAAAA-AAAAAC
1 AAAGAA-AAAAGAAAAAC
85171640 AAAGAAAAAAGAAAAA
1 AAAGAAAAAAGAAAAA
85171656 AAAATTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAAAAC
Found at i:85171822 original size:14 final size:14
Alignment explanation
Indices: 85171805--85171844 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
85171795 CTTTTTTTTT
85171805 TTTTGCTGGAAATG
1 TTTTGCTGGAAATG
* *
85171819 TTTTGCTGGAATTT
1 TTTTGCTGGAAATG
85171833 TCTTTGCTGGAA
1 T-TTTGCTGGAA
85171845 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.47
Consensus pattern (14 bp):
TTTTGCTGGAAATG
Found at i:85171865 original size:19 final size:18
Alignment explanation
Indices: 85171819--85171905 Score: 103
Period size: 17 Copynumber: 5.1 Consensus size: 18
85171809 GCTGGAAATG
85171819 TTTT-GCTGGAA--TTTT
1 TTTTGGCTGGAATTTTTT
*
85171834 CTTT-GCTGGAATTTTTT
1 TTTTGGCTGGAATTTTTT
85171851 TTTTGGCTGGAAATTTTTT
1 TTTTGGCTGG-AATTTTTT
85171870 TTTTGGCTGGAATTTTTT
1 TTTTGGCTGGAATTTTTT
**
85171888 TGCT-GCTGGAATTTTTT
1 TTTTGGCTGGAATTTTTT
85171905 T
1 T
85171906 GCTGGAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
15 10 0.16
17 21 0.33
18 15 0.23
19 18 0.28
ACGTcount: A:0.13, C:0.08, G:0.21, T:0.59
Consensus pattern (18 bp):
TTTTGGCTGGAATTTTTT
Found at i:85171901 original size:54 final size:53
Alignment explanation
Indices: 85171799--85171977 Score: 188
Period size: 54 Copynumber: 3.5 Consensus size: 53
85171789 TTTTGGCTTT
* *
85171799 TTTTTTTTTTGCTGG-AAA---TGTTTT-GCTGGAATTTTCTT--TGCTGGAA
1 TTTTTTTTTTGCTGGAAAATTTTTTTTTGGCTGGAATTTTTTTGCTGCTGGAA
*
85171845 TTTTTTTTTTGGCTGGAAATTTTTTTTTTGGCTGGAATTTTTTTGCTGCTGGAA
1 TTTTTTTTTT-GCTGGAAAATTTTTTTTTGGCTGGAATTTTTTTGCTGCTGGAA
85171899 ---TTTTTTTGCTGGAAAATTTTTTTTTGCTGCTGGAAAATTTTTTTGCTGCTGGAA
1 TTTTTTTTTTGCTGGAAAATTTTTTTTTG--GCTGG--AATTTTTTTGCTGCTGGAA
85171953 ----TTTTTTGCTGGAAAATTTTTTTTTG
1 TTTTTTTTTTGCTGGAAAATTTTTTTTTG
85171978 CTTCCCCCCC
Statistics
Matches: 117, Mismatches: 4, Indels: 17
0.85 0.03 0.12
Matches are distributed among these distances:
46 10 0.09
47 5 0.04
48 2 0.02
50 18 0.15
51 12 0.10
52 18 0.15
53 25 0.21
54 27 0.23
ACGTcount: A:0.16, C:0.08, G:0.21, T:0.56
Consensus pattern (53 bp):
TTTTTTTTTTGCTGGAAAATTTTTTTTTGGCTGGAATTTTTTTGCTGCTGGAA
Found at i:85171976 original size:19 final size:17
Alignment explanation
Indices: 85171799--85171958 Score: 120
Period size: 19 Copynumber: 9.4 Consensus size: 17
85171789 TTTTGGCTTT
85171799 TTTTTTTTTTGCTGGAA
1 TTTTTTTTTTGCTGGAA
* *
85171816 ---ATGTTTTGCTGGAA
1 TTTTTTTTTTGCTGGAA
*
85171830 --TTTTCTTTGCTGGAA
1 TTTTTTTTTTGCTGGAA
85171845 TTTTTTTTTTGGCTGGAAA
1 TTTTTTTTTT-GCTGG-AA
85171864 TTTTTTTTTTGGCTGGAA
1 TTTTTTTTTT-GCTGGAA
**
85171882 TTTTTTTGCTGCTGGAA
1 TTTTTTTTTTGCTGGAA
85171899 ---TTTTTTTGCTGGAAAA
1 TTTTTTTTTTGCTGG--AA
85171915 TTTTTTTTTGCTGCTGGAAAA
1 TTTTTTTTT--TGCTGG--AA
**
85171936 TTTTTTTGCTGCTGGAA
1 TTTTTTTTTTGCTGGAA
85171953 TTTTTT
1 TTTTTT
85171959 GCTGGAAAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
14 22 0.18
15 11 0.09
16 2 0.02
17 22 0.18
18 15 0.13
19 30 0.25
21 17 0.14
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (17 bp):
TTTTTTTTTTGCTGGAA
Found at i:85171993 original size:53 final size:54
Alignment explanation
Indices: 85171880--85171984 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 54
85171870 TTTTGGCTGG
***
85171880 AATTTTTTTGCTGCTGGAATTTTTTTGCTGGAAAATTTTTTTTTGCTGCTGGAA
1 AATTTTTTTGCTGCTGGAATTTTTTTGCTGGAAAATTTTTTTTTGCTGCCCCAA
*
85171934 AATTTTTTTGCTGCTGGAA-TTTTTTGCTGGAAAATTTTTTTTTGCTTCCCC
1 AATTTTTTTGCTGCTGGAATTTTTTTGCTGGAAAATTTTTTTTTGCTGCCCC
85171985 CCCTTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 28 0.60
54 19 0.40
ACGTcount: A:0.17, C:0.12, G:0.18, T:0.52
Consensus pattern (54 bp):
AATTTTTTTGCTGCTGGAATTTTTTTGCTGGAAAATTTTTTTTTGCTGCCCCAA
Found at i:85173021 original size:13 final size:13
Alignment explanation
Indices: 85173003--85173027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85172993 TTTGAAACAT
85173003 AGAAATTAAAAGC
1 AGAAATTAAAAGC
85173016 AGAAATTAAAAG
1 AGAAATTAAAAG
85173028 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:85173588 original size:75 final size:74
Alignment explanation
Indices: 85173335--85174078 Score: 582
Period size: 74 Copynumber: 10.2 Consensus size: 74
85173325 ATTTTCTAAC
* * * ** * *
85173335 TAAAAATACCTCAGC--GTGCCCCGAGGCTCAATTCATTTCTTGCAATATGAGT-TGATTTTGGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTGA
85173397 -ACATAAAT
66 CACATAAAT
* * * * *
85173405 TGAAATTACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCACAATATGAG-CTGATTTTTGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTG-
**
85173467 AACAACAGGAAT
65 -AC-ACATAAAT
* * ** * ** *
85173479 TAAAAACATCTCAGC--GTGACCTGAGGCTTGACTCACATCTCGCAATATGAGTCAAAATTCTTG
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTC-TGATTTTTG
*
85173542 ACACATAAAC
65 ACACATAAAT
* ** *
85173552 TAAAGATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAAT-TGATTTTTGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTGA
85173616 -ACATAAAT
66 CACATAAAT
* * * *
85173624 TGAAATTACCTCAACGTGT--CTTGAGGCTCAAACTCACCTCTCGCAATATGAG-CTGATTTTTG
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTC-AACTCACCTCTCGCAATATGAGTCTGATTTTTG
**
85173686 AAACAACAGGAAT
65 --AC-ACATAAAT
* * ** ** *
85173699 TAAAAACATCTCAGC--GTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAAAATTCTTG
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTC-TGATTTTTG
* *
85173762 AAACATAAAC
65 ACACATAAAT
* * ** *
85173772 TAAAGATACCTCAGCGTGTAACCTGAGGCTCAACTCATTTCTCGCAATATGAAT-TGATTTTTGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTGA
85173836 -ACATAAAT
66 CACATAAAT
* * * *
85173844 TGAAATTACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTTGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTG-
**
85173906 AACAACAGGAAT
65 -AC-ACATAAAT
* * ** ** *
85173918 TAAAAACATCTCAGC--GTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAAAATTCTTG
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTC-TGATTTTTG
* *
85173981 AAACATAAAC
65 ACACATAAAT
** *
85173991 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAAT-TGATTTTTGA
1 TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTG-
* *
85174055 AAACATGAAT
65 ACACATAAAT
*
85174065 TAAAGATACCTCAG
1 TAAAAATACCTCAG
85174079 AGTACCCAAA
Statistics
Matches: 520, Mismatches: 117, Indels: 70
0.74 0.17 0.10
Matches are distributed among these distances:
70 91 0.17
71 28 0.05
72 52 0.10
73 75 0.14
74 134 0.26
75 122 0.23
76 18 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (74 bp):
TAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTCTGATTTTTGA
CACATAAAT
Found at i:85173982 original size:219 final size:219
Alignment explanation
Indices: 85173332--85174055 Score: 1317
Period size: 219 Copynumber: 3.3 Consensus size: 219
85173322 TCAATTTTCT
* * * * * *
85173332 AACTAAAAATACCTCAGC--GTGCCCCGAGGCTCAATTCATTTCTTGCAATATGAGTTGATTTTG
1 AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
*
85173395 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGCTGA
66 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
85173460 TTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACATCTCGCAAT
131 TTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAAT
*
85173525 ATGAGTCAAAATTCTTGACACATA
196 ATGAGTCAAAATTCTTGAAACATA
*
85173549 AACTAAAGATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
1 AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
85173614 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAACTCACCTCTCGCAATATGAGCTG
66 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTC-AACTCACCTCTCGCAATATGAGCTG
85173679 ATTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAA
130 ATTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAA
85173744 TATGAGTCAAAATTCTTGAAACATA
195 TATGAGTCAAAATTCTTGAAACATA
* *
85173769 AACTAAAGATACCTCAGCGTGTAACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
1 AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
85173834 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
66 GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
85173899 TTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAAT
131 TTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAAT
85173964 ATGAGTCAAAATTCTTGAAACATA
196 ATGAGTCAAAATTCTTGAAACATA
85173988 AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
1 AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
85174053 GAA
66 GAA
85174056 AACATGAATT
Statistics
Matches: 491, Mismatches: 13, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
217 17 0.03
219 259 0.53
220 215 0.44
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (219 bp):
AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTT
GAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTTGAAACAACAGGAATTAAAAACATCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAAT
ATGAGTCAAAATTCTTGAAACATA
Found at i:85185734 original size:17 final size:16
Alignment explanation
Indices: 85185705--85185744 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
85185695 GAAAAATGAG
85185705 AAATTTTAAAACACGA
1 AAATTTTAAAACACGA
85185721 AAATTTTAAAAACACGA
1 AAATTTT-AAAACACGA
85185738 AAATTTT
1 AAATTTT
85185745 TGAAACCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (16 bp):
AAATTTTAAAACACGA
Found at i:85185750 original size:17 final size:17
Alignment explanation
Indices: 85185708--85185750 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
85185698 AAATGAGAAA
85185708 TTTTAAAACACGAAAAT
1 TTTTAAAACACGAAAAT
*
85185725 TTTAAAAACACGAAAAT
1 TTTTAAAACACGAAAAT
*
85185742 TTTTGAAAC
1 TTTTAAAAC
85185751 CTGAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (17 bp):
TTTTAAAACACGAAAAT
Found at i:85186425 original size:37 final size:37
Alignment explanation
Indices: 85186354--85186425 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
85186344 ATATATATAT
* *
85186354 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
85186391 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
85186426 TAAAAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:85187155 original size:14 final size:14
Alignment explanation
Indices: 85187136--85187175 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
85187126 TGGCTTTTTT
85187136 TTTTGCTGGAAATG
1 TTTTGCTGGAAATG
* *
85187150 TTTTGCTGGAATTT
1 TTTTGCTGGAAATG
85187164 TCTTTGCTGGAA
1 T-TTTGCTGGAA
85187176 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.47
Consensus pattern (14 bp):
TTTTGCTGGAAATG
Found at i:85187189 original size:17 final size:16
Alignment explanation
Indices: 85187131--85187322 Score: 143
Period size: 15 Copynumber: 11.8 Consensus size: 16
85187121 GATTTTGGCT
85187131 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
* *
85187147 --ATGTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
*
85187161 -TTTTCTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
85187176 TTTTTTTTTGGCTGGAAA
1 TTTTTTTTT-GCTGG-AA
85187194 TTTTTTTTTTGGCTGGAA
1 -TTTTTTTTT-GCTGGAA
*
85187212 TTTTTTTGCTGCTGGAA
1 TTTTTTT-TTGCTGGAA
85187229 --TTTTTTTGCTGGAAAA
1 TTTTTTTTTGCTGG--AA
85187245 TTTTTTTTGCTGCTGGAA
1 TTTTTTTT--TGCTGGAA
85187263 ---TTTTTTGCTGGAAAA
1 TTTTTTTTTGCTGG--AA
*
85187278 TTTTTTTGCTGCTGGAA
1 TTTTTTT-TTGCTGGAA
85187295 --TTTTTTTGCTGGAAAA
1 TTTTTTTTTGCTGG--AA
85187311 TTTTTTTTTGCT
1 TTTTTTTTTGCT
85187323 TCCCCCCCTT
Statistics
Matches: 144, Mismatches: 10, Indels: 42
0.73 0.05 0.21
Matches are distributed among these distances:
13 6 0.04
14 24 0.17
15 28 0.19
16 11 0.08
17 21 0.15
18 27 0.19
19 21 0.15
20 6 0.04
ACGTcount: A:0.16, C:0.08, G:0.21, T:0.55
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:85187198 original size:19 final size:18
Alignment explanation
Indices: 85187150--85187268 Score: 96
Period size: 17 Copynumber: 7.0 Consensus size: 18
85187140 GCTGGAAATG
85187150 TTTT-GCTGGAA--TTTT
1 TTTTGGCTGGAATTTTTT
*
85187165 CTTT-GCTGGAA-TTTTT
1 TTTTGGCTGGAATTTTTT
85187181 TTTTGGCTGGAAATTTTTT
1 TTTTGGCTGG-AATTTTTT
85187200 TTTTGGCTGGAATTTTTT
1 TTTTGGCTGGAATTTTTT
**
85187218 TGCT-GCTGGAA---TTT
1 TTTTGGCTGGAATTTTTT
**
85187232 TTTT-GCTGGAAAATTTT
1 TTTTGGCTGGAATTTTTT
85187249 TTTTGCTGCTGGAATTTTTT
1 TTTTG--GCTGGAATTTTTT
85187269 GCTGGAAAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.14
15 10 0.12
16 7 0.08
17 19 0.22
18 12 0.14
19 15 0.17
20 11 0.13
ACGTcount: A:0.14, C:0.08, G:0.21, T:0.56
Consensus pattern (18 bp):
TTTTGGCTGGAATTTTTT
Found at i:85187211 original size:36 final size:34
Alignment explanation
Indices: 85187130--85187301 Score: 145
Period size: 32 Copynumber: 5.2 Consensus size: 34
85187120 AGATTTTGGC
* *
85187130 TTTTTTTTTTGCTGGAA-ATGTTT--TGCTGGAA
1 TTTTTTTTTTGCTGGAATTTTTTTGCTGCTGGAA
* *
85187161 --TTTTCTTTGCTGGAATTTTTTT-TTGGCTGGAAA
1 TTTTTTTTTTGCTGGAATTTTTTTGCT-GCTGG-AA
85187194 TTTTTTTTTTGGCTGGAATTTTTTTGCTGCTGGAA
1 TTTTTTTTTT-GCTGGAATTTTTTTGCTGCTGGAA
85187229 ---TTTTTTTGCTGGAAAATTTTTTTTGCTGCTGGAA
1 TTTTTTTTTTGCTGG--AA-TTTTTTTGCTGCTGGAA
85187263 ----TTTTTTGCTGGAAAATTTTTTTGCTGCTGGAA
1 TTTTTTTTTTGCTGG--AATTTTTTTGCTGCTGGAA
85187295 TTTTTTT
1 TTTTTTT
85187302 GCTGGAAAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 25
0.80 0.03 0.17
Matches are distributed among these distances:
29 14 0.12
30 4 0.03
31 6 0.05
32 29 0.24
33 19 0.16
34 17 0.14
35 9 0.07
36 22 0.18
37 1 0.01
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (34 bp):
TTTTTTTTTTGCTGGAATTTTTTTGCTGCTGGAA
Found at i:85187220 original size:50 final size:48
Alignment explanation
Indices: 85187150--85187301 Score: 152
Period size: 51 Copynumber: 3.0 Consensus size: 48
85187140 GCTGGAAATG
85187150 TTTT-GCTGGAATTTTCTTTGCTGGAATTTTTTTTTGGCTGGAAATTTTTT
1 TTTTGGCTGGAATTTT-TTTGCTGGAA--TTTTTTTGGCTGGAAATTTTTT
*
85187200 TTTTGGCTGGAATTTTTTTGCTGCTGGAATTTTTTT-GCTGGAAA-ATTTT
1 TTTTGGCTGGAA-TTTTTT--TGCTGGAATTTTTTTGGCTGGAAATTTTTT
85187249 TTTTGCTGCTGGAA-TTTTTTGCTGGAAAATTTTTTTGCTGCTGG-AATTTTTT
1 TTTTG--GCTGGAATTTTTTTGCTGG--AATTTTTTTG--GCTGGAAATTTTTT
85187301 T
1 T
85187302 GCTGGAAAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 22
0.79 0.02 0.20
Matches are distributed among these distances:
47 6 0.07
49 23 0.26
50 12 0.14
51 25 0.28
52 14 0.16
53 8 0.09
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.55
Consensus pattern (48 bp):
TTTTGGCTGGAATTTTTTTGCTGGAATTTTTTTGGCTGGAAATTTTTT
Found at i:85187233 original size:32 final size:32
Alignment explanation
Indices: 85187133--85187317 Score: 197
Period size: 33 Copynumber: 5.7 Consensus size: 32
85187123 TTTTGGCTTT
*
85187133 TTTTTTTGCTGGAAA--TGTTT--TGCTGGAA
1 TTTTTTTGCTGGAAATTTTTTTGCTGCTGGAA
*
85187161 TTTTCTTTGCTGG-AATTTTTTT-TTGGCTGGAAA
1 TTTT-TTTGCTGGAAATTTTTTTGCT-GCTGG-AA
85187194 TTTTTTTTTTGGCTGG-AATTTTTTTGCTGCTGGAA
1 ---TTTTTTT-GCTGGAAATTTTTTTGCTGCTGGAA
85187229 TTTTTTTGCTGGAAAATTTTTTTTGCTGCTGGAA
1 TTTTTTTGCTGG-AAA-TTTTTTTGCTGCTGGAA
85187263 -TTTTTTGCTGGAAAATTTTTTTGCTGCTGGAA
1 TTTTTTTGCTGG-AAATTTTTTTGCTGCTGGAA
85187295 TTTTTTTGCTGGAAAATTTTTTT
1 TTTTTTTGCTGG-AAATTTTTTT
85187318 TTGCTTCCCC
Statistics
Matches: 140, Mismatches: 2, Indels: 25
0.84 0.01 0.15
Matches are distributed among these distances:
28 6 0.04
29 8 0.06
30 4 0.03
31 6 0.04
32 29 0.21
33 41 0.29
34 17 0.12
35 5 0.04
36 23 0.16
37 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.21, T:0.55
Consensus pattern (32 bp):
TTTTTTTGCTGGAAATTTTTTTGCTGCTGGAA
Found at i:85187247 original size:33 final size:33
Alignment explanation
Indices: 85187153--85187317 Score: 214
Period size: 33 Copynumber: 4.9 Consensus size: 33
85187143 GGAAATGTTT
**
85187153 TGCTGGAATTTTCTTTGCTGGAATTTTTTTTTG-
1 TGCTGGAATTTT-TTTGCTGGAAAATTTTTTTGC
85187186 -GCTGGAAATTTTTTTTTTGGCTGG--AATTTTTTTGC
1 TGCTGG-AA---TTTTTTT-GCTGGAAAATTTTTTTGC
85187221 TGCTGGAATTTTTTTGCTGGAAAATTTTTTTTGC
1 TGCTGGAATTTTTTTGCTGGAAAA-TTTTTTTGC
85187255 TGCTGGAA-TTTTTTGCTGGAAAATTTTTTTGC
1 TGCTGGAATTTTTTTGCTGGAAAATTTTTTTGC
85187287 TGCTGGAATTTTTTTGCTGGAAAATTTTTTT
1 TGCTGGAATTTTTTTGCTGGAAAATTTTTTT
85187318 TTGCTTCCCC
Statistics
Matches: 119, Mismatches: 2, Indels: 22
0.83 0.01 0.15
Matches are distributed among these distances:
31 5 0.04
32 29 0.24
33 41 0.34
34 25 0.21
35 5 0.04
36 14 0.12
ACGTcount: A:0.16, C:0.08, G:0.21, T:0.54
Consensus pattern (33 bp):
TGCTGGAATTTTTTTGCTGGAAAATTTTTTTGC
Found at i:85188530 original size:13 final size:14
Alignment explanation
Indices: 85188503--85188536 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
85188493 CTCAACCAAA
85188503 ATTTTATTTTAATAT
1 ATTTT-TTTTAATAT
85188518 ATTTTTTTT-ATAT
1 ATTTTTTTTAATAT
85188531 ATTTTT
1 ATTTTT
85188537 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 4 0.21
15 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTTTTAATAT
Found at i:85188532 original size:15 final size:15
Alignment explanation
Indices: 85188503--85188543 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
85188493 CTCAACCAAA
85188503 ATTTTATTTTAATAT
1 ATTTTATTTTAATAT
85188518 ATTTT-TTTT-ATAT
1 ATTTTATTTTAATAT
85188531 ATTTTTATTTTAA
1 A-TTTTATTTTAA
85188544 AATGCACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 9 0.39
16 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTATTTTAATAT
Found at i:85188674 original size:46 final size:46
Alignment explanation
Indices: 85188621--85188711 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
85188611 AGTTAACCCA
85188621 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
1 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
85188667 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTAC
1 CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTAC
85188712 TCATAAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (46 bp):
CCATTTACTTAAGATTGATGATGATATCATGATAAATAATTGTACG
Found at i:85190461 original size:21 final size:20
Alignment explanation
Indices: 85190437--85190485 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
85190427 TAGTCTAAGT
85190437 ATTAAAATAGATAAAAAAAAA
1 ATTAAAATAGAT-AAAAAAAA
* *
85190458 ATTAAAA-GGATAAATAAAA
1 ATTAAAATAGATAAAAAAAA
85190477 ATTATAAAT
1 ATTA-AAAT
85190486 GAATTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (20 bp):
ATTAAAATAGATAAAAAAAA
Found at i:85190814 original size:19 final size:19
Alignment explanation
Indices: 85190773--85190815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
85190763 TATATTAACT
**
85190773 AAAATTTATGTATAATTTT
1 AAAATTTATGTATAATTAA
85190792 AAAATTTATGT-TGAATTAA
1 AAAATTTATGTAT-AATTAA
85190811 AAAAT
1 AAAAT
85190816 GAGATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
AAAATTTATGTATAATTAA
Found at i:85191999 original size:15 final size:15
Alignment explanation
Indices: 85191979--85192009 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85191969 TGTAGATAGG
85191979 TAGTTTGGTGAATTT
1 TAGTTTGGTGAATTT
85191994 TAGTTTGGTGAATTT
1 TAGTTTGGTGAATTT
85192009 T
1 T
85192010 CAGATGCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TAGTTTGGTGAATTT
Found at i:85196773 original size:14 final size:14
Alignment explanation
Indices: 85196754--85196784 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85196744 TATCTAAACT
85196754 ATTGGATTAGCGGC
1 ATTGGATTAGCGGC
*
85196768 ATTGGATTAGTGGC
1 ATTGGATTAGCGGC
85196782 ATT
1 ATT
85196785 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (14 bp):
ATTGGATTAGCGGC
Found at i:85202542 original size:11 final size:11
Alignment explanation
Indices: 85202526--85202551 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85202516 ACAAACTGTT
85202526 TTATCAGAAGA
1 TTATCAGAAGA
85202537 TTATCAGAAGA
1 TTATCAGAAGA
85202548 TTAT
1 TTAT
85202552 TTCGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (11 bp):
TTATCAGAAGA
Found at i:85204446 original size:3 final size:3
Alignment explanation
Indices: 85204438--85204478 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
85204428 GTTTATTACA
85204438 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
85204479 ATAACGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:85205204 original size:37 final size:37
Alignment explanation
Indices: 85205154--85205229 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
85205144 AAGTCTAAAC
85205154 TAGTGAATATTAAAGCTTGAGTTAACTTATTGTATGA
1 TAGTGAATATTAAAGCTTGAGTTAACTTATTGTATGA
* * *
85205191 TAGTGAATGTTAAAGCTTGAGTTCACTTGTTGTATGA
1 TAGTGAATATTAAAGCTTGAGTTAACTTATTGTATGA
85205228 TA
1 TA
85205230 TGTTGAGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (37 bp):
TAGTGAATATTAAAGCTTGAGTTAACTTATTGTATGA
Found at i:85207919 original size:141 final size:143
Alignment explanation
Indices: 85207670--85208040 Score: 440
Period size: 141 Copynumber: 2.6 Consensus size: 143
85207660 CTCACGTTCA
*
85207670 ATTCCTCTCCTACTCACATTTGTATTTTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTA
1 ATTCCTCTCCTACTCATATTTGTA-TTTTTTTATTTCATGTTGCTTCAAG-TTTTTAAATTTTTA
* *
85207735 ATTAATTTTTTAACATATTAGTTCTTTGATCAGATGGTTAGATAGTT-GCA-A-CT-A-T-ATCT
64 ATTAATTTTTTAACATATTAGTTCTTTCATAAGATGGTTAGATAGTTAG-ATATCTAATTAATCT
* *
85207794 TTAAGTCTTGAGTTTG
128 TCAAGTCTCGAGTTTG
* * *
85207810 ATTTCTCTCCTACTCATATTTGTA-TTTTTTATTTCACGTTGCTTAAAGTTTTTAAATTTTTTAA
1 ATTCCTCTCCTACTCATATTTGTATTTTTTTATTTCATGTTGCTTCAAGTTTTTAAA-TTTTTAA
* * *
85207874 TTAATGTTTTTTTAACATTTTTGTTCTTTCATAAGATGGTTAGATAGTTAGATAGTTGTAATTAC
65 TTAA---TTTTTTAACATATTAGTTCTTTCATAAGATGGTTAGATAGTTAGATA--TCTAATTA-
85207939 ATCTTCAAGTCTCGAGTTTG
124 ATCTTCAAGTCTCGAGTTTG
*
85207959 ATTCCTCTACTACTCATATTTGTAATTTTTTTATTTCATGTTGCTTCAAG-TTTT---TTTTTAA
1 ATTCCTCTCCTACTCATATTTGT-ATTTTTTTATTTCATGTTGCTTCAAGTTTTTAAATTTTTAA
*
85208020 TTAATATTTTGAACATATTAG
65 TTAAT-TTTTTAACATATTAG
85208041 CTCATTTCTT
Statistics
Matches: 197, Mismatches: 18, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
137 8 0.04
138 33 0.17
140 22 0.11
141 39 0.20
142 2 0.01
143 1 0.01
144 12 0.06
145 1 0.01
146 12 0.06
147 1 0.01
149 39 0.20
150 5 0.03
151 22 0.11
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (143 bp):
ATTCCTCTCCTACTCATATTTGTATTTTTTTATTTCATGTTGCTTCAAGTTTTTAAATTTTTAAT
TAATTTTTTAACATATTAGTTCTTTCATAAGATGGTTAGATAGTTAGATATCTAATTAATCTTCA
AGTCTCGAGTTTG
Found at i:85208051 original size:149 final size:145
Alignment explanation
Indices: 85207766--85208035 Score: 357
Period size: 149 Copynumber: 1.8 Consensus size: 145
85207756 TTCTTTGATC
* * * * * *
85207766 AGATGGTTAGATAGTTGCAACTATATCTTTAAGTCTTGAGTTTGATTTCTCTCCTACTCATATTT
1 AGATAGTTAGATAGTTGCAACTACATCTTCAAGTCTCGAGTTTGATTCCTCTACTACTCATATTT
* *
85207831 GTATTTTTTATTTCACGTTGCTTAAAGTTTTTAAATTTTTTAATTAATGTTTTTTTAACATTTTT
66 GTATTTTTTATTTCACGTTGCTTAAAG-TTTT--ATTTTTTAATTAA-GTATTTTGAACATTTTT
85207896 GTTCTTTCATAAGATGGTT
127 GTTCTTTCATAAGATGGTT
* *
85207915 AGATAGTTAGATAGTTGTAATTACATCTTCAAGTCTCGAGTTTGATTCCTCTACTACTCATATTT
1 AGATAGTTAGATAGTTGCAACTACATCTTCAAGTCTCGAGTTTGATTCCTCTACTACTCATATTT
* *
85207980 GTAATTTTTTTATTTCATGTTGCTTCAAG-TTT-TTTTTTAATTAA-TATTTTGAACAT
66 GT-A-TTTTTTATTTCACGTTGCTTAAAGTTTTATTTTTTAATTAAGTATTTTGAACAT
85208036 ATTAGCTCAT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
144 10 0.09
146 12 0.11
149 62 0.58
150 1 0.01
151 22 0.21
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.51
Consensus pattern (145 bp):
AGATAGTTAGATAGTTGCAACTACATCTTCAAGTCTCGAGTTTGATTCCTCTACTACTCATATTT
GTATTTTTTATTTCACGTTGCTTAAAGTTTTATTTTTTAATTAAGTATTTTGAACATTTTTGTTC
TTTCATAAGATGGTT
Found at i:85208782 original size:139 final size:140
Alignment explanation
Indices: 85208579--85208845 Score: 401
Period size: 139 Copynumber: 1.9 Consensus size: 140
85208569 ATATCTATCT
* * * * *
85208579 AACTATCTAACCATCTAACGAAAGAACTAAAATGTTAAAAAACATTAATTACAAATTTAAAAAGC
1 AACTATCTAAACATCTAACCAAAAAACTAAAATATTAAAAAACATTAATTAAAAATTTAAAAAGC
85208644 TTGAAGCAACATGAAATAAAAAATACAAATATAAGTAAAAGAGAAATCGAACACGAGACTCAAAA
66 TTGAAGCAACATGAAATAAAAAATACAAATATAAGTAAAAGAGAAATCGAACACGAGACTCAAAA
85208709 ATATAGTTGC
131 ATATAGTTGC
* *
85208719 AACTATCTAAACATCTAACCAAAAAACTAATATATT-AAAAATATTAATTAAAAATTTAAAAAGC
1 AACTATCTAAACATCTAACCAAAAAACTAAAATATTAAAAAACATTAATTAAAAATTTAAAAAGC
* * * ** * *
85208783 TTGAAGCAACATGAAATAAAAATTACAAATGTGAGTAGGAGAGGAATCGAACCCGAGACTCAA
66 TTGAAGCAACATGAAATAAAAAATACAAATATAAGTAAAAGAGAAATCGAACACGAGACTCAA
85208846 GGATAAAAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
139 82 0.73
140 31 0.27
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.22
Consensus pattern (140 bp):
AACTATCTAAACATCTAACCAAAAAACTAAAATATTAAAAAACATTAATTAAAAATTTAAAAAGC
TTGAAGCAACATGAAATAAAAAATACAAATATAAGTAAAAGAGAAATCGAACACGAGACTCAAAA
ATATAGTTGC
Found at i:85210630 original size:22 final size:22
Alignment explanation
Indices: 85210602--85210643 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85210592 GATGTCTGTC
85210602 ATAAAGTACCAATACCTATTTT
1 ATAAAGTACCAATACCTATTTT
* *
85210624 ATAAAGTATCGATACCTATT
1 ATAAAGTACCAATACCTATT
85210644 CCAGTATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAAGTACCAATACCTATTTT
Found at i:85213878 original size:5 final size:5
Alignment explanation
Indices: 85213868--85213911 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
85213858 GCCTAAGATG
* *
85213868 TGAAT TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
85213912 GTTAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:85214415 original size:26 final size:25
Alignment explanation
Indices: 85214367--85214438 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
85214357 CCCGATATAT
*
85214367 GGCTCTTCGGAGCTTCCCGATTAAA
1 GGCTCTTCGGAGCTTCCCAATTAAA
* *
85214392 GGCTCTTTGAGAGCTTCCTAATTAATA
1 GGCTCTTCG-GAGCTTCCCAATTAA-A
* * *
85214419 -GCTCCTCAGAGCTTTCCAAT
1 GGCTCTTCGGAGCTTCCCAAT
85214439 ATTGGCTCGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 18 0.49
26 18 0.49
27 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTCCCAATTAAA
Found at i:85214550 original size:24 final size:24
Alignment explanation
Indices: 85214523--85214580 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
85214513 ATTGGCTCGC
85214523 ATGAGCTTCCTGATTATGACTCTT
1 ATGAGCTTCCTGATTATGACTCTT
85214547 ATGAGCTTCCTGATTATGACTCTT
1 ATGAGCTTCCTGATTATGACTCTT
85214571 ATGAGCTTCC
1 ATGAGCTTCC
85214581 CGTTATATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (24 bp):
ATGAGCTTCCTGATTATGACTCTT
Found at i:85222195 original size:68 final size:68
Alignment explanation
Indices: 85222046--85222203 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
85222036 CTATCCAATT
* * * *
85222046 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
85222111 TTTA
65 TATA
* * *
85222115 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
85222177 CTATATA
63 C-ATATA
85222184 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
85222204 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:85224883 original size:43 final size:43
Alignment explanation
Indices: 85224829--85224950 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
85224819 ACCGAGATGT
* *
85224829 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATAGC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA-AGC
* * *
85224872 GATTATGTGTAAGACCATGTCTAGGG-CATCGGCATCGTTAATC
1 GATTACGTGTAAGACCATGTCT-GGGACATTGGCATCGTTAAGC
* * * *
85224915 GATTACGTGTAAGACCTTTTCTGAGACAGTGGCATC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC
85224951 AATTTGTGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 58 0.89
44 5 0.08
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAGC
Found at i:85238751 original size:40 final size:40
Alignment explanation
Indices: 85238696--85238774 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
85238686 CAGTTCGGTT
85238696 TCAATACAATGGCATG-TCTAACAAGCTTACAATAACATAA
1 TCAATACAATGGCATGCT-TAACAAGCTTACAATAACATAA
* * **
85238736 TCAATTCAATGGCATGCTTAACATGCTTACGGTAACATA
1 TCAATACAATGGCATGCTTAACAAGCTTACAATAACATA
85238775 TTCGGTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (40 bp):
TCAATACAATGGCATGCTTAACAAGCTTACAATAACATAA
Found at i:85241501 original size:20 final size:20
Alignment explanation
Indices: 85241448--85241501 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
85241438 AGTTTATCGG
* *
85241448 ATGGAAACTGGATATATGAA
1 ATGGAAACTGGTTAGATGAA
*
85241468 ATGGAAAATGGTTAGATGAA
1 ATGGAAACTGGTTAGATGAA
*
85241488 ATGGAAACTCGTTA
1 ATGGAAACTGGTTA
85241502 TTTGTAATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (20 bp):
ATGGAAACTGGTTAGATGAA
Found at i:85248829 original size:27 final size:27
Alignment explanation
Indices: 85248787--85248927 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 27
85248777 AGGAAGCGTC
*
85248787 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
85248814 CTGGTGGCTCTACCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
85248840 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
85248868 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
85248895 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
85248922 CTGGTG
1 CTGGTG
85248928 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
26 11 0.11
27 84 0.84
28 5 0.05
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:85248866 original size:54 final size:54
Alignment explanation
Indices: 85248784--85248927 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
85248774 TGGAGGAAGC
85248784 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
*
85248838 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* * *
85248892 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
85248928 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:85257987 original size:13 final size:13
Alignment explanation
Indices: 85257969--85257996 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85257959 CACGCCTATA
85257969 TGGCTCGACTGTG
1 TGGCTCGACTGTG
85257982 TGGCTCGACTGTG
1 TGGCTCGACTGTG
85257995 TG
1 TG
85257997 TCTCACACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.39, T:0.32
Consensus pattern (13 bp):
TGGCTCGACTGTG
Found at i:85275245 original size:79 final size:79
Alignment explanation
Indices: 85275114--85275267 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
85275104 GGTACGCTTC
* * * *
85275114 TACGTTACTCTGTTGATGAAGAATATATGACATCTGATTATGTTAGATTGATTGTTACTAATTCT
1 TACGTTACTCTGTTGATGAAGAATACATAACATCTGAATATGTTAGACTGATTGTTACTAATTCT
85275179 GATTGATAACCCTT
66 GATTGATAACCCTT
* * * * *
85275193 TACGTTACTTTGTTGATGAGGAATACATAATATCTGAATA-GCTTAGACTGATTGTTATTAATTT
1 TACGTTACTCTGTTGATGAAGAATACATAACATCTGAATATG-TTAGACTGATTGTTACTAATTC
*
85275257 TGATTTATAAC
65 TGATTGATAAC
85275268 TGTGCATGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.02
79 63 0.98
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (79 bp):
TACGTTACTCTGTTGATGAAGAATACATAACATCTGAATATGTTAGACTGATTGTTACTAATTCT
GATTGATAACCCTT
Found at i:85275789 original size:15 final size:15
Alignment explanation
Indices: 85275748--85275793 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
85275738 TCTGCTTTGC
*
85275748 TCTGTTTGGTTCTGT
1 TCTGTTCGGTTCTGT
** *
85275763 TCTACTCCGTTCTGT
1 TCTGTTCGGTTCTGT
85275778 TCTGTTCGGTTCTGT
1 TCTGTTCGGTTCTGT
85275793 T
1 T
85275794 GTACTATTGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.02, C:0.22, G:0.22, T:0.54
Consensus pattern (15 bp):
TCTGTTCGGTTCTGT
Found at i:85281802 original size:4 final size:4
Alignment explanation
Indices: 85281793--85281819 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
85281783 TACAAAGCTT
85281793 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
85281820 TTGAGGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:85287811 original size:33 final size:34
Alignment explanation
Indices: 85287762--85287827 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
85287752 GTACTAATAT
*
85287762 TAATAATAAATGTAATA-GGGATAAAAAATATAA
1 TAATAATAAATATAATATGGGATAAAAAATATAA
* * *
85287795 TAATAATATATATAATATGGTATTAAAAATATA
1 TAATAATAAATATAATATGGGATAAAAAATATA
85287828 TATATAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (34 bp):
TAATAATAAATATAATATGGGATAAAAAATATAA
Found at i:85288014 original size:31 final size:31
Alignment explanation
Indices: 85287979--85288074 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 31
85287969 AACATTAAAC
* *
85287979 ATATATACATATA-ATGTATAAAAAATATATA
1 ATATATACACATATAT-AATAAAAAATATATA
*
85288010 ATATATACACATATATAATAAAAAATATTAAA
1 ATATATACACATATATAATAAAAAATA-TATA
85288042 AGTATATACGTAACATATATAATAGAAATAATA
1 A-TATATAC---ACATATATAATA-AAA-AATA
85288075 GTAGTAACTA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
31 22 0.41
32 6 0.11
33 7 0.13
36 12 0.22
37 3 0.06
38 4 0.07
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.32
Consensus pattern (31 bp):
ATATATACACATATATAATAAAAAATATATA
Found at i:85290194 original size:14 final size:14
Alignment explanation
Indices: 85290175--85290208 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85290165 AGTTGATTTT
*
85290175 TTGAAAAGCAAAAA
1 TTGAAAAACAAAAA
*
85290189 TTGAAAAACAGAAA
1 TTGAAAAACAAAAA
85290203 TTGAAA
1 TTGAAA
85290209 TTACCTCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:85290255 original size:88 final size:87
Alignment explanation
Indices: 85290101--85290267 Score: 280
Period size: 88 Copynumber: 1.9 Consensus size: 87
85290091 GAGTTGATTT
* *
85290101 TTGACAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
85290166 GTTGATTTTTTGAAAAGCAAAAA
66 GTTGA-TTTTTGAAAAGCAAAAA
* * *
85290189 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
85290254 GTTGATTTTTGAAA
66 GTTGATTTTTGAAA
85290268 CATAAACTGA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 9 0.12
88 65 0.88
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAGCAAAAA
Found at i:85290310 original size:71 final size:71
Alignment explanation
Indices: 85290194--85290338 Score: 200
Period size: 71 Copynumber: 2.0 Consensus size: 71
85290184 AAAAATTGAA
* * * * *
85290194 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAACTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAA
*
85290259 TTTTTG
66 TTTCTG
* * * *
85290265 AAACATAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAGCTCACTTCTCGCAATATAAGTTAA
1 AAACAGAAACTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAA
85290330 TTTCTG
66 TTTCTG
85290336 AAA
1 AAA
85290339 ACTGAAATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (71 bp):
AAACAGAAACTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAA
TTTCTG
Found at i:85290420 original size:87 final size:87
Alignment explanation
Indices: 85290265--85290607 Score: 537
Period size: 87 Copynumber: 3.9 Consensus size: 87
85290255 TTGATTTTTG
* * * * * *
85290265 AAACATAAACTGAAAATACCTCAACGTG-TCTTGAGGCTCAGCTCACTTCTCGCAATATAAGTTA
1 AAACAGAAATTGAAAATACCTCAGCGTGTTC-TGAGGCTCAACTCACTTCTCGCAATATGAGTTG
*
85290329 ATTTCTGAAAACTGAAATTTGAA
65 ATTTCTGAAAACAGAAATTTGAA
*
85290352 AAACAGAAATTGAAAATACCTCAGCATGTTCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
*
85290417 TTTCTGAAAATAGAAATTTGAA
66 TTTCTGAAAACAGAAATTTGAA
* *
85290439 AAATAGAAATTGAAAATACCTCAGCGTGTTCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
85290504 TTTCTGAAAACAGAAATTTGAA
66 TTTCTGAAAACAGAAATTTGAA
* *
85290526 AAATAGAAATTGAAAATACCTCAGCGTGTTCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG-
85290591 ATTT-TGAAAACAGAAAT
65 ATTTCTGAAAACAGAAAT
85290608 AAAAATATCA
Statistics
Matches: 241, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
87 235 0.98
88 6 0.02
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (87 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
TTTCTGAAAACAGAAATTTGAA
Found at i:85290440 original size:14 final size:13
Alignment explanation
Indices: 85290421--85290456 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
85290411 AGTTGATTTC
85290421 TGAAAATAGAAATT
1 TGAAAATAGAAA-T
85290435 TGAAAAATAGAAAT
1 TG-AAAATAGAAAT
85290449 TGAAAATA
1 TGAAAATA
85290457 CCTCAGCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 5 0.24
15 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (13 bp):
TGAAAATAGAAAT
Found at i:85290443 original size:15 final size:14
Alignment explanation
Indices: 85290423--85290454 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
85290413 TTGATTTCTG
85290423 AAAATAGAAATTTGA
1 AAAATAGAAA-TTGA
85290438 AAAATAGAAATTGA
1 AAAATAGAAATTGA
85290452 AAA
1 AAA
85290455 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (14 bp):
AAAATAGAAATTGA
Found at i:85301947 original size:3 final size:3
Alignment explanation
Indices: 85301922--85302132 Score: 134
Period size: 3 Copynumber: 70.7 Consensus size: 3
85301912 TTAATTTGAC
* * * * *
85301922 ATT ATT ATC ATT ATT -TT AAT ATT ATT ACT ATT GTT ATT -TT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * **
85301968 GTT ATT ATT ATAT ATT ATT ACTT ATT ATT ATT ATT ATT ATT AGT AAC
1 ATT ATT ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* **
85302015 A-T GTT ATT ATT ATT ATT ATT ATT ATT ATAT ATAT ATTT ATT ACC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T A-TT ATT ATT ATT
* * *
85302062 -TT -TT ATT -TT -TT ATT ATT ATT AGTA ACGT ATT GTT ATT -TCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT AT-T ATT
* *
85302105 ATT -TT ATT ATT CTT ATT CTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
85302133 CATGGTACTA
Statistics
Matches: 162, Mismatches: 33, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
2 15 0.09
3 128 0.79
4 18 0.11
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:85301948 original size:23 final size:23
Alignment explanation
Indices: 85301922--85302132 Score: 125
Period size: 23 Copynumber: 9.1 Consensus size: 23
85301912 TTAATTTGAC
* *
85301922 ATTATTATCATTATTTTAATATT
1 ATTATTATTATTATTTTATTATT
* * *
85301945 ATTACTATTGTTATTTTATTACT
1 ATTATTATTATTATTTTATTATT
* *
85301968 GTTATTATTA-TATATTATTACTT
1 ATTATTATTATTATTTTATTA-TT
*
85301991 ATTATTATTATTA--TTATTAGT
1 ATTATTATTATTATTTTATTATT
** *
85302012 AACA-TGTTATTATTATTATTATT
1 ATTATTATTATTATT-TTATTATT
**
85302035 ATTATTA-TATATATATTTATTACC
1 ATTATTATTAT-TAT-TTTATTATT
85302059 ATT-TT-TTATT-TTTTATTATT
1 ATTATTATTATTATTTTATTATT
*
85302079 ATTAGTAACGTATTGTTATTTCTATTATT
1 ATTA-T----TATTATTATTT-TATTATT
*
85302108 -TTATTATTCTTATTCTTATTATT
1 ATTATTATTATTATT-TTATTATT
85302131 AT
1 AT
85302133 CATGGTACTA
Statistics
Matches: 143, Mismatches: 25, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
20 17 0.12
21 4 0.03
22 17 0.12
23 68 0.48
24 17 0.12
25 1 0.01
26 1 0.01
27 5 0.03
28 6 0.04
29 7 0.05
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (23 bp):
ATTATTATTATTATTTTATTATT
Found at i:85301953 original size:17 final size:19
Alignment explanation
Indices: 85301922--85302041 Score: 83
Period size: 17 Copynumber: 6.4 Consensus size: 19
85301912 TTAATTTGAC
85301922 ATTATTATCATTATT-TTAAT
1 ATTATTA-C-TTATTATTAAT
*
85301942 ATTATTAC-TATTGTT-AT
1 ATTATTACTTATTATTAAT
*
85301959 TTTATTACTGTTATTATTATAT
1 ATTATTAC--TTATTATTA-AT
*
85301981 ATTATTACTTATTATTATT
1 ATTATTACTTATTATTAAT
*
85302000 ATTATTA-TTAGTA--ACAT
1 ATTATTACTTATTATTA-AT
* *
85302017 GTTATTA-TTATTATTATT
1 ATTATTACTTATTATTAAT
85302035 ATTATTA
1 ATTATTA
85302042 TATATATATT
Statistics
Matches: 81, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.01
17 25 0.31
18 14 0.17
19 10 0.12
20 22 0.27
22 9 0.11
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (19 bp):
ATTATTACTTATTATTAAT
Found at i:85301974 original size:29 final size:30
Alignment explanation
Indices: 85301926--85302046 Score: 111
Period size: 32 Copynumber: 3.9 Consensus size: 30
85301916 TTTGACATTA
* * *
85301926 TTATCATTATT-TTAATATTATTACTATTG
1 TTATTATTATTATTATTATTATTAATATTG
* * *
85301955 TTATT-TTATTACTGTTATTATTATATATTA
1 TTATTATTATTATTATTATTATTA-ATATTG
* *
85301985 TTACTTATTATTATTATTATTATTAGTAACATG
1 TTA-TTATTATTATTATTATTATTAAT-A-TTG
85302018 TTATTATTATTATTATTATTATTATATAT
1 TTATTATTATTATTATTATTATTA-ATAT
85302047 ATATTTATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
28 5 0.07
29 13 0.18
30 7 0.10
31 3 0.04
32 39 0.54
33 5 0.07
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (30 bp):
TTATTATTATTATTATTATTATTAATATTG
Found at i:85302051 original size:29 final size:28
Alignment explanation
Indices: 85301923--85302132 Score: 111
Period size: 26 Copynumber: 7.7 Consensus size: 28
85301913 TAATTTGACA
* *
85301923 TTATTATCATTAT-T-TTAATATTATTA
1 TTATTATTATTATATATTATTATTATTA
* * * *
85301949 CTATTGTTATT-T-TATTACTGTTATTA
1 TTATTATTATTATATATTATTATTATTA
85301975 TTATATATTATTACT-TATTATTATTATTA
1 TTAT-TATTATTA-TATATTATTATTATTA
* * *
85302004 TTATTAGTA--ACATGTTATTATTATTA
1 TTATTATTATTATATATTATTATTATTA
**
85302030 TTATTATTATTATATATATATTTATTACCA
1 TTATTATTATTATATAT-TA-TTATTATTA
* * *
85302060 TT-TT-TTATTTTTTATTATTATTAGTAA
1 TTATTATTATTATATATTATTATTA-TTA
* * *
85302087 CGTATTGTTATT-TCTATTATT-TTATTA
1 -TTATTATTATTATATATTATTATTATTA
* *
85302114 TTCTTATTCTTAT-TATTAT
1 TTATTATTATTATATATTAT
85302133 CATGGTACTA
Statistics
Matches: 142, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
25 2 0.01
26 62 0.44
27 12 0.08
28 21 0.15
29 31 0.22
30 14 0.10
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
TTATTATTATTATATATTATTATTATTA
Found at i:85306499 original size:20 final size:20
Alignment explanation
Indices: 85306462--85306500 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85306452 AAATTCTAAA
**
85306462 AAGATAAATACATTTAATTG
1 AAGATAAATACAGATAATTG
*
85306482 AAGATAAATAGAGATAATT
1 AAGATAAATACAGATAATT
85306501 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.31
Consensus pattern (20 bp):
AAGATAAATACAGATAATTG
Found at i:85306519 original size:19 final size:18
Alignment explanation
Indices: 85306495--85306538 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
85306485 ATAAATAGAG
85306495 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
85306515 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
85306532 ATAATTA
1 ATAATTA
85306539 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:85306554 original size:15 final size:15
Alignment explanation
Indices: 85306534--85306566 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85306524 TAATCCTAAT
85306534 AATTATCCTAATATA
1 AATTATCCTAATATA
85306549 AATTATCCTAATATA
1 AATTATCCTAATATA
85306564 AAT
1 AAT
85306567 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:85316386 original size:14 final size:14
Alignment explanation
Indices: 85316354--85316388 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
85316344 TTGTGTTGAG
85316354 GAGCCAAAAGTACC
1 GAGCCAAAAGTACC
* *
85316368 AAGCCAAAAGTACT
1 GAGCCAAAAGTACC
85316382 GAGCCAA
1 GAGCCAA
85316389 TCGAGTCACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.09
Consensus pattern (14 bp):
GAGCCAAAAGTACC
Done.