Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009967.1 Kokia drynarioides strain JFW-HI SEQ_124716, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 294732
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 69 characters in sequence are not A, C, G, or T
Found at i:492 original size:23 final size:23
Alignment explanation
Indices: 464--590 Score: 105
Period size: 23 Copynumber: 5.4 Consensus size: 23
454 ACACTAGTGC
464 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
* *
487 GCTCTCTATTATTAGCACTGTGTGT
1 GCTCTCT-GT-TTAGCACTGTCTGT
* * *
512 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* * *
535 GCTCTCTGATTT-GTACTTTATGT
1 GCTCTCTG-TTTAGCACTGTCTGT
* * *
558 ACTCTCTGTTTAGCACTATGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
581 GCTCTCTGTT
1 GCTCTCTGTT
591 ACCCAGCACT
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.03
23 61 0.71
24 3 0.03
25 16 0.19
26 3 0.03
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:587 original size:69 final size:66
Alignment explanation
Indices: 498--637 Score: 167
Period size: 69 Copynumber: 2.0 Consensus size: 66
488 CTCTCTATTA
* * *
498 TTAGCACTGTGTGTGCTCTCTGATT-AGCACTTTGTGTGCTCTCTGATTTGTACTTTAT-GTACT
1 TTAGCACTATGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCTG-TTAGTA-TTT-TGGTACT
561 CTCTGT
61 CTCTGT
567 TTAGCACTATGTGTGCTCTCTGTTACCCAGCACTTATGTGCTCTCTGTTAGTATTTTGGTACTCT
1 TTAGCACTATGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCTGTTAGTATTTTGGTACTCT
632 CTGT
63 CTGT
636 TT
1 TT
638 GTTCCGTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
68 3 0.05
69 37 0.59
70 5 0.08
71 13 0.21
72 5 0.08
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (66 bp):
TTAGCACTATGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCTGTTAGTATTTTGGTACTCTCTG
T
Found at i:6549 original size:25 final size:25
Alignment explanation
Indices: 6519--6574 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
6509 ATAGTCATAA
* * *
6519 ACGCCATTCTTTTATAGTTCCTTAC
1 ACGCCATTATTTCATAATTCCTTAC
*
6544 ATGCCATTATTTCATAATTCCTTAC
1 ACGCCATTATTTCATAATTCCTTAC
6569 ACGCCA
1 ACGCCA
6575 ATCATTTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (25 bp):
ACGCCATTATTTCATAATTCCTTAC
Found at i:6587 original size:25 final size:25
Alignment explanation
Indices: 6536--6587 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
6526 TCTTTTATAG
* * *
6536 TTCCTTACATGCCATTATTTCATAA
1 TTCCTTACACGCCATCATTTCAGAA
6561 TTCCTTACACGCCAATCATTT-AGAA
1 TTCCTTACACGCC-ATCATTTCAGAA
6586 TT
1 TT
6588 TGCCATAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (25 bp):
TTCCTTACACGCCATCATTTCAGAA
Found at i:6810 original size:28 final size:28
Alignment explanation
Indices: 6779--6840 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
6769 TACTTTTTAG
* *
6779 AGGTTTGCCATTAAGGCGTTCCTTTCAA
1 AGGTTTGCCATGAAGACGTTCCTTTCAA
* * *
6807 AGGTTTGTCATGAAGACTTTCCTTTCAG
1 AGGTTTGCCATGAAGACGTTCCTTTCAA
6835 AGGTTT
1 AGGTTT
6841 ACCACAAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (28 bp):
AGGTTTGCCATGAAGACGTTCCTTTCAA
Found at i:6966 original size:58 final size:58
Alignment explanation
Indices: 6865--6977 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
6855 CTTTTAACGA
* * * * * * *
6865 AGATCACCACAAAGGCTTTCTTGTCTATAGTTTTTCCATAAAGGCATTCCTTTAATAG
1 AGATCACCACAAAGGCTTTCCTATCCAGAGTTCTGCCACAAAGGCATTCCTTTAATAG
* *
6923 AGATCGCCACAAAGGCTTTCCTATCCAGAGTTCTGCCACAAAGGCTTTCCTTTAA
1 AGATCACCACAAAGGCTTTCCTATCCAGAGTTCTGCCACAAAGGCATTCCTTTAA
6978 GAGGTTCGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (58 bp):
AGATCACCACAAAGGCTTTCCTATCCAGAGTTCTGCCACAAAGGCATTCCTTTAATAG
Found at i:6997 original size:28 final size:28
Alignment explanation
Indices: 6823--7088 Score: 110
Period size: 29 Copynumber: 9.3 Consensus size: 28
6813 GTCATGAAGA
* **
6823 CTTTCCTTTCAGAGGTTTACCACAAAGG
1 CTTTCCTTTAAGAGGTTCGCCACAAAGG
* * * * *
6851 CTATCTTTTAACGAAGATCACCACAAAGG
1 CTTTCCTTTAA-GAGGTTCGCCACAAAGG
* * * ** *
6880 CTTT-CTTGTCTATAGTTTTTCCATAAAGG
1 CTTTCCTT-T-AAGAGGTTCGCCACAAAGG
* * *
6909 CATTCCTTTAATAGAGATCGCCACAAAGG
1 CTTTCCTTTAAGAG-GTTCGCCACAAAGG
**
6938 CTTTCCTATCCAGA-GTTCTGCCACAAAGG
1 CTTTCCT-TTAAGAGGTTC-GCCACAAAGG
* *
6967 CTTTCCTTTAAGAGGTTCGCCATAAAAG
1 CTTTCCTTTAAGAGGTTCGCCACAAAGG
** * **
6995 CTTACTGTTTTAA-AGTTTTTCCACAAAGG
1 CTT--TCCTTTAAGAGGTTCGCCACAAAGG
* * *
7024 CTGTCTTTTGAGAGGTTCGCCACAAAGG
1 CTTTCCTTTAAGAGGTTCGCCACAAAGG
* **
7052 -TTTACCTTTCCAA-AGTTTTTCCACAAAGG
1 CTTT-CCTTT--AAGAGGTTCGCCACAAAGG
7081 CTTTCCTT
1 CTTTCCTT
7089 GTTGGATTTT
Statistics
Matches: 172, Mismatches: 51, Indels: 29
0.68 0.20 0.12
Matches are distributed among these distances:
27 8 0.05
28 49 0.28
29 98 0.57
30 17 0.10
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (28 bp):
CTTTCCTTTAAGAGGTTCGCCACAAAGG
Found at i:7023 original size:57 final size:57
Alignment explanation
Indices: 6893--7088 Score: 205
Period size: 57 Copynumber: 3.4 Consensus size: 57
6883 TCTTGTCTAT
* * * * * * * *
6893 AGTTTTTCCATAAAGGCATTCCTTTAATAGAGATCGCCACAAAGGCTTTCCTATCCAG
1 AGTTTTTCCACAAAGGCTTTCCTTTAAGAG-GTTCGCCACAAAAGCTTACCTTTCCAA
* * * **
6951 AGTTCTGCCACAAAGGCTTTCCTTTAAGAGGTTCGCCATAAAAGCTTA-CTGTTTTAA
1 AGTTTTTCCACAAAGGCTTTCCTTTAAGAGGTTCGCCACAAAAGCTTACCT-TTCCAA
* * * * *
7008 AGTTTTTCCACAAAGGCTGTCTTTTGAGAGGTTCGCCACAAAGGTTTACCTTTCCAA
1 AGTTTTTCCACAAAGGCTTTCCTTTAAGAGGTTCGCCACAAAAGCTTACCTTTCCAA
7065 AGTTTTTCCACAAAGGCTTTCCTT
1 AGTTTTTCCACAAAGGCTTTCCTT
7089 GTTGGATTTT
Statistics
Matches: 111, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
56 2 0.02
57 82 0.74
58 27 0.24
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (57 bp):
AGTTTTTCCACAAAGGCTTTCCTTTAAGAGGTTCGCCACAAAAGCTTACCTTTCCAA
Found at i:8307 original size:6 final size:7
Alignment explanation
Indices: 8291--8316 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8281 AAAGCCATCC
8291 AAAATTA
1 AAAATTA
8298 AAAATTA
1 AAAATTA
8305 AAAATTA
1 AAAATTA
8312 AAAAT
1 AAAAT
8317 GTCCAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:14573 original size:30 final size:31
Alignment explanation
Indices: 14504--14578 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
14494 AAAATGTTAA
* *
14504 TTAGTGACTGATTTGTCATTTTTCGATAACG
1 TTAGTGACTAATTTATCATTTTTCGATAACG
*
14535 TTAGTGACTAATTTATTATTTTTCGA-AA-G
1 TTAGTGACTAATTTATCATTTTTCGATAACG
14564 TTGAGTGACTGAATT
1 TT-AGTGACT-AATT
14579 AAAAGCAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 9 0.23
31 27 0.69
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (31 bp):
TTAGTGACTAATTTATCATTTTTCGATAACG
Found at i:22755 original size:53 final size:53
Alignment explanation
Indices: 22672--22781 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
22662 AATAGCTTTC
22672 TGTTTAATCCAGACTTAAATACCCACAATCACTCCACCTCTCGATGTGAGCAA
1 TGTTTAATCCAGACTTAAATACCCACAATCACTCCACCTCTCGATGTGAGCAA
* *
22725 TGTTTAATCCAGACTTAAATACCCATAATCACTCCACCTCTCGGTGTGAGCAA
1 TGTTTAATCCAGACTTAAATACCCACAATCACTCCACCTCTCGATGTGAGCAA
22778 TGTT
1 TGTT
22782 GTGCATTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (53 bp):
TGTTTAATCCAGACTTAAATACCCACAATCACTCCACCTCTCGATGTGAGCAA
Found at i:32594 original size:22 final size:22
Alignment explanation
Indices: 32565--32622 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
32555 TGCACTAATG
*
32565 AACGGAGAGCACCAAGGTGCTA
1 AACGGAGAGCACAAAGGTGCTA
* *
32587 GACGGAGAGCACAAATGTGCTA
1 AACGGAGAGCACAAAGGTGCTA
*
32609 AATGGAGAGCACAA
1 AACGGAGAGCACAA
32623 TACATGCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.31, T:0.10
Consensus pattern (22 bp):
AACGGAGAGCACAAAGGTGCTA
Found at i:32645 original size:26 final size:24
Alignment explanation
Indices: 32588--32646 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
32578 AAGGTGCTAG
**
32588 ACGGAGAGCACAAATGTGCTAAAT
1 ACGGAGAGCACAAACATGCTAAAT
32612 --GGAGAGCACAATACATGCTAAAT
1 ACGGAGAGCACAA-ACATGCTAAAT
32635 AACGGAGAGCAC
1 -ACGGAGAGCAC
32647 GCCAAGGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 11 0.38
23 9 0.31
26 9 0.31
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (24 bp):
ACGGAGAGCACAAACATGCTAAAT
Found at i:33035 original size:36 final size:36
Alignment explanation
Indices: 32972--33040 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
32962 AAGATGGTAA
* *
32972 TTTCTCTTCTTCTCACTTCTTAGCCTTCTCTTTCCCC
1 TTTCTCTTCTTCTCAATTCTTACCCTTCT-TTTCCCC
* *
33009 TTTC-CTTCTTCTTAATTCTTCCCCTTCTTTTC
1 TTTCTCTTCTTCTCAATTCTTACCCTTCTTTTC
33041 TTTCTCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 4 0.14
36 20 0.71
37 4 0.14
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.55
Consensus pattern (36 bp):
TTTCTCTTCTTCTCAATTCTTACCCTTCTTTTCCCC
Found at i:33874 original size:26 final size:26
Alignment explanation
Indices: 33845--33897 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
33835 ATAAAATTTA
*
33845 TTCTTTCAGAATAAATTATCACTACT
1 TTCTTTCAGAATAAATTATCACAACT
33871 TTCTTTCAGAATAAATTATCACAACT
1 TTCTTTCAGAATAAATTATCACAACT
33897 T
1 T
33898 ATGAAAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.42
Consensus pattern (26 bp):
TTCTTTCAGAATAAATTATCACAACT
Found at i:41583 original size:21 final size:22
Alignment explanation
Indices: 41545--41598 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
41535 AACATTATAT
* *
41545 TTGTAAATCTCCTCATAAT-GC
1 TTGTAACTCTCCTAATAATAGC
* **
41566 TTGTAACTCTCTTAATAATATT
1 TTGTAACTCTCCTAATAATAGC
41588 TTGTAACTCTC
1 TTGTAACTCTC
41599 ATCATTATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (22 bp):
TTGTAACTCTCCTAATAATAGC
Found at i:45244 original size:21 final size:22
Alignment explanation
Indices: 45215--45275 Score: 99
Period size: 21 Copynumber: 2.9 Consensus size: 22
45205 ACAAAACATT
45215 ATGT-TTGTAACTCTCCTCATA
1 ATGTCTTGTAACTCTCCTCATA
45236 ATG-CTTGTAACTCTCCTCATA
1 ATGTCTTGTAACTCTCCTCATA
*
45257 ATGTTTTGTAACTCTCCTC
1 ATGTCTTGTAACTCTCCTC
45276 GTTATGTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (22 bp):
ATGTCTTGTAACTCTCCTCATA
Found at i:45268 original size:22 final size:22
Alignment explanation
Indices: 45218--45284 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
45208 AAACATTATG
45218 TTTGTAACTCTCCTCATAATG-
1 TTTGTAACTCTCCTCATAATGT
*
45239 CTTGTAACTCTCCTCATAATGT
1 TTTGTAACTCTCCTCATAATGT
* *
45261 TTTGTAACTCTCCTCGTTATGT
1 TTTGTAACTCTCCTCATAATGT
45283 TT
1 TT
45285 GTTTTAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.46
Consensus pattern (22 bp):
TTTGTAACTCTCCTCATAATGT
Found at i:45678 original size:11 final size:12
Alignment explanation
Indices: 45648--45681 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
45638 TTGTTATTTT
45648 TTAAATTTATAA
1 TTAAATTTATAA
45660 TTAAATTTA-AA
1 TTAAATTTATAA
*
45671 TTATATTTATA
1 TTAAATTTATA
45682 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:46101 original size:9 final size:9
Alignment explanation
Indices: 46089--46120 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
46079 AACTAATAAC
46089 AAGAACAAG
1 AAGAACAAG
46098 AAGAACAAG
1 AAGAACAAG
46107 AAGAACAAG
1 AAGAACAAG
46116 AAGAA
1 AAGAA
46121 AAGTTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.69, C:0.09, G:0.22, T:0.00
Consensus pattern (9 bp):
AAGAACAAG
Found at i:47212 original size:40 final size:40
Alignment explanation
Indices: 47166--47278 Score: 181
Period size: 40 Copynumber: 2.8 Consensus size: 40
47156 TTTGGACAAA
* *
47166 AAACGCCGCAAAAGGTAAAGCAATAGCGGTGTTTTTCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTCTTCCAT
*
47206 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTCTTCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTCTTCCAT
* *
47246 AAACGCCGCAAAAGGTAAAACAATAGCAGCGTT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTT
47279 TATAGGAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (40 bp):
AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTCTTCCAT
Found at i:47341 original size:41 final size:41
Alignment explanation
Indices: 47293--47400 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
47283 GGAAATACGT
* *
47293 CGCTAAAGGTCAAAGCATTAGCGGTGTTTATGAGGAAGCAC
1 CGCTAAAGGTCAAAGCATTAGCGGCGTTTATGAGAAAGCAC
* * * * **
47334 CGTTAAAGGTCAGAGCATTAGCGGCGTTTTTGATAAAGCGT
1 CGCTAAAGGTCAAAGCATTAGCGGCGTTTATGAGAAAGCAC
* *
47375 CGCTAAAAGCCAAAGCATTAGCGGCG
1 CGCTAAAGGTCAAAGCATTAGCGGCG
47401 CTTTTTCATA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.22
Consensus pattern (41 bp):
CGCTAAAGGTCAAAGCATTAGCGGCGTTTATGAGAAAGCAC
Found at i:53268 original size:9 final size:9
Alignment explanation
Indices: 53254--53281 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
53244 AGAGAGAGTC
53254 ATGAAAATG
1 ATGAAAATG
53263 ATGAAAATG
1 ATGAAAATG
53272 ATGAAAATG
1 ATGAAAATG
53281 A
1 A
53282 AATGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (9 bp):
ATGAAAATG
Found at i:55086 original size:48 final size:48
Alignment explanation
Indices: 55031--55148 Score: 193
Period size: 48 Copynumber: 2.5 Consensus size: 48
55021 AATCCTTAGC
55031 CTATTGTAAA-GAAGCCCTCATTATTAAATATAAATTAAATTGACAATT
1 CTATTGTAAATGAA-CCCTCATTATTAAATATAAATTAAATTGACAATT
* *
55079 CTATTGTAAATTAACCCTCATTGTTAAATATAAATTAAATTGACAATT
1 CTATTGTAAATGAACCCTCATTATTAAATATAAATTAAATTGACAATT
*
55127 CTATTGTAAATTAACCCTCATT
1 CTATTGTAAATGAACCCTCATT
55149 TTGATACAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 65 0.97
49 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (48 bp):
CTATTGTAAATGAACCCTCATTATTAAATATAAATTAAATTGACAATT
Found at i:61336 original size:52 final size:52
Alignment explanation
Indices: 61254--61399 Score: 222
Period size: 52 Copynumber: 2.8 Consensus size: 52
61244 AATTCGCAAG
*
61254 GGATTCATATACTCATGATGACA-TAGAGTCATCAGACCTCTTAATCCGTAAA
1 GGATTCATATACTCATGATGACACT-TAGTCATCAGACCTCTTAATCCGTAAA
* * **
61306 GGATTCATATACTCACGATGACACTTAGTCATTAGACCTCTTAATTTGTAAA
1 GGATTCATATACTCATGATGACACTTAGTCATCAGACCTCTTAATCCGTAAA
*
61358 GGATTCATATACTCATGATGACACTTAGTCATCGGACCTCTT
1 GGATTCATATACTCATGATGACACTTAGTCATCAGACCTCTT
61400 CGTTTATGGC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 84 0.99
53 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (52 bp):
GGATTCATATACTCATGATGACACTTAGTCATCAGACCTCTTAATCCGTAAA
Found at i:63363 original size:21 final size:21
Alignment explanation
Indices: 63337--63378 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
63327 TTCTGGTATG
*
63337 AGAAGTGGTTGAAATAACCCT
1 AGAAGTGGTTAAAATAACCCT
63358 AGAAGTGGTTAAAATAACCCT
1 AGAAGTGGTTAAAATAACCCT
63379 CGAGAGGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (21 bp):
AGAAGTGGTTAAAATAACCCT
Found at i:68086 original size:13 final size:13
Alignment explanation
Indices: 68052--68088 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
68042 TTTCCATTTG
68052 AAATAATATTTTT
1 AAATAATATTTTT
*
68065 -AATTA-ATTTTT
1 AAATAATATTTTT
68076 AAATAATATTTTT
1 AAATAATATTTTT
68089 TTTCATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:87838 original size:43 final size:42
Alignment explanation
Indices: 87777--88041 Score: 293
Period size: 43 Copynumber: 6.3 Consensus size: 42
87767 ACTTGATGTA
87777 TAAATGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
1 TAAA-GGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
*
87820 TAAATGAAGCACTCATGTCTCGAGATGAGCATGAGATTATA-T
1 TAAAGGAAG-ACTCATGTCTCGAGATGAGCATGAGATTATATT
*
87862 TAAAGGAAGACTCATGTCTCGAGATGAGCATGAGAGTATA-T
1 TAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
* * * ** *
87903 TAAAGGAAGACTCATGTCTCGGGGTGAGAATTTGATTATGTT
1 TAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
* ** * *
87945 TAAAAGGAAGACTCGTGAGTCG-GAAAGAGCATGAGATTATGTT
1 T-AAAGGAAGACTCATGTCTCGAG-ATGAGCATGAGATTATATT
* * * * **
87988 TTAAGGAAGACTCATGACTTGGGATGAGCATGAGATTACGTT
1 TAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
*
88030 TAAAGGGAGACT
1 TAAAGGAAGACT
88042 TCTAGCTCGG
Statistics
Matches: 191, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
41 64 0.34
42 59 0.31
43 68 0.36
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (42 bp):
TAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATT
Found at i:87951 original size:84 final size:84
Alignment explanation
Indices: 87772--88041 Score: 278
Period size: 84 Copynumber: 3.2 Consensus size: 84
87762 GAATCACTTG
* * *
87772 ATGTATAAATGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATTTAAATGAAGCACTCATG
1 ATGTTTAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATA-TTAAAGGAAG-ACTCATG
*
87837 TCTCGAGATGAGCATGAGATT
64 TCTCGAGATGAGAATGAGATT
* *
87858 AT-ATT-AAAGGAAGACTCATGTCTCGAGATGAGCATGAGAGTATATTAAAGGAAGACTCATGTC
1 ATGTTTAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATTAAAGGAAGACTCATGTC
* * **
87921 TCGGGGTGAGAATTTGATT
66 TCGAGATGAGAATGAGATT
* ** * * *
87940 ATGTTTAAAAGGAAGACTCGTGAGTCG-GAAAGAGCATGAGATTATGTTTTAAGGAAGACTCATG
1 ATGTTTAAAAGGAAGACTCATGTCTCGAG-ATGAGCATGAGATTAT-ATTAAAGGAAGACTCATG
* * * *
88004 ACTTGGGATGAGCATGAGATT
64 TCTCGAGATGAGAATGAGATT
* *
88025 ACGTTT-AAAGGGAGACT
1 ATGTTTAAAAGGAAGACT
88042 TCTAGCTCGG
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
82 25 0.16
83 12 0.08
84 78 0.51
85 37 0.24
86 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (84 bp):
ATGTTTAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATATTAAAGGAAGACTCATGTC
TCGAGATGAGAATGAGATT
Found at i:88591 original size:24 final size:24
Alignment explanation
Indices: 88557--88614 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
88547 TATATTTGAG
*
88557 GTATCGATAGTTCTGAACATAGAA
1 GTATCGGTAGTTCTGAACATAGAA
88581 GTATCGGTAGTTCTGAACATAGAA
1 GTATCGGTAGTTCTGAACATAGAA
*
88605 GTATTGGTAG
1 GTATCGGTAG
88615 ATCGTTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (24 bp):
GTATCGGTAGTTCTGAACATAGAA
Found at i:92200 original size:15 final size:14
Alignment explanation
Indices: 92174--92209 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
92164 AAAAATTAGA
92174 AAATTATTAAAAAAT
1 AAATT-TTAAAAAAT
92189 ATAATTTTAAAAAAT
1 A-AATTTTAAAAAAT
92204 AAATTT
1 AAATTT
92210 ATTAAGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTTTAAAAAAT
Found at i:92557 original size:6 final size:6
Alignment explanation
Indices: 92546--92604 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
92536 AAAGGATGTA
* *
92546 ATAATT ATAATT ATAATT ATAATTT ATAATT ATTAGTT AGAA-- ATAATT
1 ATAATT ATAATT ATAATT ATAA-TT ATAATT A-TAATT ATAATT ATAATT
92594 ATAATT -TAATT
1 ATAATT ATAATT
92605 TTGATATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
4 3 0.07
5 5 0.11
6 26 0.58
7 11 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:100469 original size:15 final size:16
Alignment explanation
Indices: 100442--100471 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100432 CCTAAATCAC
100442 ATAATGCATTACCTAA
1 ATAATGCATTACCTAA
100458 ATAATG-ATTACCTA
1 ATAATGCATTACCTA
100472 TAGAACAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (16 bp):
ATAATGCATTACCTAA
Found at i:105019 original size:24 final size:24
Alignment explanation
Indices: 104992--105046 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
104982 ACAATCAATT
*
104992 CATTTTATATTACAGTTGCATTGA
1 CATTTTATATTACAGTTGCACTGA
* *
105016 CATTTTGTATTACATTTGCACTGA
1 CATTTTATATTACAGTTGCACTGA
105040 CAATTTT
1 C-ATTTT
105047 TACTCTTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (24 bp):
CATTTTATATTACAGTTGCACTGA
Found at i:110080 original size:15 final size:15
Alignment explanation
Indices: 110057--110104 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
110047 TTCTTCTTGT
*
110057 TCTTCTTTTTCCTTC
1 TCTTTTTTTTCCTTC
110072 TC-TTTTTTTCCTTCC
1 TCTTTTTTTTCCTT-C
110087 TCTTTTCTTTTCTCTTC
1 TCTTTT-TTTTC-CTTC
110104 T
1 T
110105 TCTACTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.36
15 5 0.18
16 3 0.11
17 7 0.25
18 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTTTTTTTTCCTTC
Found at i:110081 original size:14 final size:15
Alignment explanation
Indices: 110057--110092 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
110047 TTCTTCTTGT
110057 TCTTCTTTTTCCTT-C
1 TCTT-TTTTTCCTTCC
110072 TCTTTTTTTCCTTCC
1 TCTTTTTTTCCTTCC
110087 TCTTTT
1 TCTTTT
110093 CTTTTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTTTTTTTCCTTCC
Found at i:110086 original size:18 final size:20
Alignment explanation
Indices: 110065--110112 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
110055 GTTCTTCTTT
110065 TTCCTTCTCTTT-TTTTC-C
1 TTCCTTCTCTTTCTTTTCTC
110083 TTCC-TCT-TTTCTTTTCTC
1 TTCCTTCTCTTTCTTTTCTC
110101 TT-CTTCTACTTT
1 TTCCTTCT-CTTT
110113 AATACCCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.12
17 9 0.36
18 10 0.40
20 3 0.12
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCCTTCTCTTTCTTTTCTC
Found at i:124316 original size:19 final size:21
Alignment explanation
Indices: 124292--124335 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
124282 TCAGTCACTT
124292 GAAAAACAA-AAA-AAAATGA
1 GAAAAACAAGAAAGAAAATGA
*
124311 GAAAAAGAAGAAAGAAAATGA
1 GAAAAACAAGAAAGAAAATGA
124332 -AAAA
1 GAAAA
124336 GAATAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 7 0.32
21 7 0.32
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (21 bp):
GAAAAACAAGAAAGAAAATGA
Found at i:125978 original size:44 final size:45
Alignment explanation
Indices: 125920--126021 Score: 172
Period size: 44 Copynumber: 2.3 Consensus size: 45
125910 AATCTAACAT
*
125920 ATTGCACTGACATCAATACTCACATTACACTTAATTTCAATATTG
1 ATTGCACTGACATCAATACTCACATTACACTCAATTTCAATATTG
125965 ATTGC-CTGACATCAATACTCACATTACACTCAATTTCAATATTG
1 ATTGCACTGACATCAATACTCACATTACACTCAATTTCAATATTG
126009 ATTGCTAC-GACAT
1 ATTGC-ACTGACAT
126022 TTAGACATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
44 43 0.80
45 10 0.19
46 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (45 bp):
ATTGCACTGACATCAATACTCACATTACACTCAATTTCAATATTG
Found at i:128317 original size:18 final size:17
Alignment explanation
Indices: 128296--128340 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
128286 AGCATGTGAT
128296 TGCATCTGATTATATGAC
1 TGCATCTGATTATAT-AC
* *
128314 TGCATCTAAGTATATAC
1 TGCATCTGATTATATAC
*
128331 TGTATCTGAT
1 TGCATCTGAT
128341 CAGGTTGCGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (17 bp):
TGCATCTGATTATATAC
Found at i:135477 original size:21 final size:20
Alignment explanation
Indices: 135453--135525 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
135443 AAATTACAAA
*
135453 AAAAATATCAAACTAATTTTC
1 AAAAAT-TCAAAATAATTTTC
*
135474 AAAAATTGAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* ** *
135493 TAAAATAAAAAATAATTAT-
1 AAAAATTCAAAATAATTTTC
135512 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
135526 TTGTATTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
19 20 0.48
20 16 0.38
21 6 0.14
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:135489 original size:20 final size:19
Alignment explanation
Indices: 135466--135518 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
135456 AATATCAAAC
*
135466 TAATTTTCAAAAATTGAAAA
1 TAATTTT-AAAAATTAAAAA
* *
135486 TAATTTTTAAAATAAAAAA
1 TAATTTTAAAAATTAAAAA
*
135505 TAATTATAAAAATT
1 TAATTTTAAAAATT
135519 CTAAAATTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATTTTAAAAATTAAAAA
Found at i:147066 original size:20 final size:21
Alignment explanation
Indices: 147038--147076 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
147028 CATTTTTCTA
147038 TTTACTTTTAT-TTGTTTCACT
1 TTTACTTTT-TGTTGTTTCACT
147059 TTTA-TTTTTGTTGTTTCA
1 TTTACTTTTTGTTGTTTCA
147077 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 12 0.71
21 4 0.24
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTACTTTTTGTTGTTTCACT
Found at i:148803 original size:12 final size:12
Alignment explanation
Indices: 148773--148814 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
148763 ATGAGTAGTT
148773 GAAGGAA-AAG-
1 GAAGGAAGAAGA
148783 GAA-GAAGAAGA
1 GAAGGAAGAAGA
148794 GAAGGAAGAAGA
1 GAAGGAAGAAGA
*
148806 GAATGAAGA
1 GAAGGAAGA
148815 GAAGGACCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 6 0.21
11 3 0.11
12 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (12 bp):
GAAGGAAGAAGA
Found at i:149275 original size:17 final size:18
Alignment explanation
Indices: 149253--149294 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
149243 ATAGTTTTCA
149253 TGCATTCT-TATTGTCAC
1 TGCATTCTGTATTGTCAC
* *
149270 TGCATTTTGTTTTGTCAC
1 TGCATTCTGTATTGTCAC
149288 TGCATTC
1 TGCATTC
149295 CTTCTGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (18 bp):
TGCATTCTGTATTGTCAC
Found at i:155313 original size:17 final size:17
Alignment explanation
Indices: 155291--155327 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
155281 CTGTAGTATA
* *
155291 ATTGTCCCTACATTTTT
1 ATTGTCACTACAATTTT
155308 ATTGTCACTACAATTTT
1 ATTGTCACTACAATTTT
155325 ATT
1 ATT
155328 TTTGCTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTGTCACTACAATTTT
Found at i:158337 original size:3 final size:3
Alignment explanation
Indices: 158331--158409 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
158321 AAAAAAGGGA
158331 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
158379 -AT AAT AAC AAC AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
158410 CTAAAAAATC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:159110 original size:30 final size:29
Alignment explanation
Indices: 159071--159327 Score: 186
Period size: 30 Copynumber: 8.6 Consensus size: 29
159061 TGCATAACTT
*
159071 AAAATTACATTTTGACCTCTGAACTTCCTC
1 AAAATTACATTTTGACC-CTAAACTTCCTC
*
159101 AAGATTACATTTTGACCCTTAAACTTTCC-C
1 AAAATTACATTTTGACCC-TAAAC-TTCCTC
* * *
159131 AAAATCATATTTTGACCTCCTAAACTTCTTC
1 AAAATTACATTTTGA-C-CCTAAACTTCCTC
*
159162 AAAATTACATTTTAACACCTAAACTTTCC-C
1 AAAATTACATTTTGAC-CCTAAAC-TTCCTC
* *
159192 AAAATCACATTTTGACCCCAAAACTTTCCT-
1 AAAATTACATTTTGA-CCCTAAAC-TTCCTC
* * * *
159222 AAAATCAAATTTTGACCCCCGAACCTTCC-C
1 AAAATTACATTTTGA--CCCTAAACTTCCTC
*
159252 AAAATCACATTTTGACCCTTAAACTTACCT-
1 AAAATTACATTTTGACCC-TAAACTT-CCTC
* *
159282 -AAATTACATTTTGACCCATGAACTT-CTGT
1 AAAATTACATTTTGACCC-TAAACTTCCT-C
*
159311 AAAATTATATTTTGACC
1 AAAATTACATTTTGACC
159328 TCAAATTCTC
Statistics
Matches: 187, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.01
28 3 0.02
29 28 0.15
30 118 0.63
31 34 0.18
32 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAACTTCCTC
Found at i:159226 original size:91 final size:88
Alignment explanation
Indices: 159071--159329 Score: 270
Period size: 91 Copynumber: 2.9 Consensus size: 88
159061 TGCATAACTT
* * ** *
159071 AAAATTACATTTTGACCTCTGAACTTCCTCAAGATTACATTTTGACCCTTAAACTTTCCCAAAAT
1 AAAATTACATTTTGACC-CTAAACTTCC-CAAAATTACATTTTGACCCCAAAACTTTCCTAAAAT
* *
159136 CATATTTTGACCTCCTAAACTTCTTC
64 CATATTTTGACCTCCGAAACTTC-CC
* *
159162 AAAATTACATTTTAACACCTAAACTTTCCCAAAATCACATTTTGACCCCAAAACTTTCCTAAAAT
1 AAAATTACATTTTGAC-CCTAAAC-TTCCCAAAATTACATTTTGACCCCAAAACTTTCCTAAAAT
* * *
159227 CAAATTTTGACCCCCGAACCTTCCC
64 CATATTTTGACCTCCGAAACTTCCC
* * * * *
159252 AAAATCACATTTTGACCCTTAAACTTACCTAAATTACATTTTGA-CCCATGAAC-TTCTGTAAAA
1 AAAATTACATTTTGACCC-TAAACTTCCCAAAATTACATTTTGACCCCA-AAACTTTC-CTAAAA
*
159315 TTATATTTTGACCTC
63 TCATATTTTGACCTC
159330 AAATTCTCTA
Statistics
Matches: 141, Mismatches: 22, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
88 7 0.05
89 39 0.28
90 20 0.14
91 70 0.50
92 5 0.04
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (88 bp):
AAAATTACATTTTGACCCTAAACTTCCCAAAATTACATTTTGACCCCAAAACTTTCCTAAAATCA
TATTTTGACCTCCGAAACTTCCC
Found at i:159251 original size:60 final size:60
Alignment explanation
Indices: 159071--159298 Score: 237
Period size: 60 Copynumber: 3.8 Consensus size: 60
159061 TGCATAACTT
* * * * ** *
159071 AAAATTACATTTTGACCTCTGAAC-TTCCTCAAGATTACATTTTGACCCTTAAACTTTCCC
1 AAAATCACATTTTGACCCCTAAACTTTCCT-AAAATTACATTTTGACCCCCAAACCTTCCC
* * * * * *
159131 AAAATCATATTTTGACCTCCTAAAC-TTCTTCAAAATTACATTTTAACACCTAAACTTTCCC
1 AAAATCACATTTTGACC-CCTAAACTTTCCT-AAAATTACATTTTGACCCCCAAACCTTCCC
* * * *
159192 AAAATCACATTTTGACCCCAAAACTTTCCTAAAATCAAATTTTGACCCCCGAACCTTCCC
1 AAAATCACATTTTGACCCCTAAACTTTCCTAAAATTACATTTTGACCCCCAAACCTTCCC
* *
159252 AAAATCACATTTTGACCCTTAAACTTACCT-AAATTACATTTTGACCC
1 AAAATCACATTTTGACCCCTAAACTTTCCTAAAATTACATTTTGACCC
159299 ATGAACTTCT
Statistics
Matches: 142, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
59 15 0.11
60 71 0.50
61 56 0.39
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.33
Consensus pattern (60 bp):
AAAATCACATTTTGACCCCTAAACTTTCCTAAAATTACATTTTGACCCCCAAACCTTCCC
Found at i:164080 original size:4 final size:4
Alignment explanation
Indices: 164071--164109 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
164061 AAAAAGAGGA
*
164071 AAAG AAAG AAAG AAAG AAAG GAA- AAAG AAAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAA
164110 AAGAAAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 25 0.81
5 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:164090 original size:24 final size:24
Alignment explanation
Indices: 164058--164109 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
164048 AAGACGTTAG
164058 AAGAAA-AAGAGG-AAAAG-AAAGA
1 AAGAAAGAA-AGGAAAAAGAAAAGA
164080 AAGAAAGAAAGGAAAAAGAAAAGA
1 AAGAAAGAAAGGAAAAAGAAAAGA
164104 AAGAAA
1 AAGAAA
164110 AAGAAAAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.33
23 7 0.26
24 11 0.41
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAAGGAAAAAGAAAAGA
Found at i:164116 original size:15 final size:15
Alignment explanation
Indices: 164069--164117 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
164059 AGAAAAAGAG
164069 GAAAAGAAAG--AAA
1 GAAAAGAAAGAAAAA
164082 G-AAAGAAAGGAAAAA
1 GAAAAGAAA-GAAAAA
164097 GAAAAGAAAGAAAAA
1 GAAAAGAAAGAAAAA
164112 GAAAAG
1 GAAAAG
164118 GGTTGAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.22
13 2 0.06
15 16 0.50
16 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAGAAAAA
Found at i:164116 original size:20 final size:18
Alignment explanation
Indices: 164069--164117 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
164059 AGAAAAAGAG
164069 GAAAAG-AAAGAAAGAAA
1 GAAAAGAAAAGAAAGAAA
*
164086 GAAAGGAAAAAGAAAAGAAA
1 GAAAAG-AAAAG-AAAGAAA
164106 GAAAAAGAAAAG
1 G-AAAAGAAAAG
164118 GGTTGAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
19 4 0.15
20 13 0.50
21 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAGAAAGAAA
Found at i:164213 original size:20 final size:20
Alignment explanation
Indices: 164166--164210 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
164156 TAAAACCTAA
164166 AAAAAGAAAAAAAGAAAAAG
1 AAAAAGAAAAAAAGAAAAAG
164186 AAAAAGAAAACCAAAG-AAAAG
1 AAAAAGAAAA--AAAGAAAAAG
164207 AAAA
1 AAAA
164211 GAAGGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAGAAAAAG
Found at i:165744 original size:49 final size:49
Alignment explanation
Indices: 165679--165892 Score: 153
Period size: 49 Copynumber: 4.4 Consensus size: 49
165669 CATAAGAATG
* * ** * * * *
165679 TGAAGGTAGAGATTGAAGTCGTAATGGCAAATCTTATATCTTAGAGATA
1 TGAAGGGAAAGATTGAAGTCACAACGGCAAACCTTATACCTTACAGATA
* * * *
165728 TGATGGGAAAGGTTGAAGTCACAACGGCAAACCTTATACCTTACCGATG
1 TGAAGGGAAAGATTGAAGTCACAACGGCAAACCTTATACCTTACAGATA
** * * * *
165777 TGAAGGGAAAGATTGAAACCACAACGGCGAATCTTATACCCTAAAGATGA
1 TGAAGGGAAAGATTGAAGTCACAACGGCAAACCTTATACCTTACAGAT-A
* * * * * * * *
165827 AG-AGGGAAATG-TGGAAGCCACAACGACGAACCTTATACCCTACACATG
1 TGAAGGGAAA-GATTGAAGTCACAACGGCAAACCTTATACCTTACAGATA
*
165875 TGAAGGGAAAGATCGAAG
1 TGAAGGGAAAGATTGAAG
165893 CCGCACTGGT
Statistics
Matches: 129, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
48 2 0.02
49 125 0.97
50 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (49 bp):
TGAAGGGAAAGATTGAAGTCACAACGGCAAACCTTATACCTTACAGATA
Found at i:165810 original size:98 final size:98
Alignment explanation
Indices: 165732--165923 Score: 244
Period size: 98 Copynumber: 2.0 Consensus size: 98
165722 GAGATATGAT
* * * *
165732 GGGAAAGGTTGAAGTCACAACGGCAAACCTTATACCTTAC-CGATGTGAAGGGAAAGATTGAAAC
1 GGGAAAGGTGGAAGCCACAACGACAAACCTTATACCCTACAC-ATGTGAAGGGAAAGATTGAAAC
165796 CACAACGGCGAATCTTATACCCTAAAGATGAAGA
65 CACAACGGCGAATCTTATACCCTAAAGATGAAGA
* * * *
165830 GGGAAATGTGGAAGCCACAACGACGAACCTTATACCCTACACATGTGAAGGGAAAGATCGAAGCC
1 GGGAAAGGTGGAAGCCACAACGACAAACCTTATACCCTACACATGTGAAGGGAAAGATTGAAACC
* * * *
165895 GC-ACTGGTGACTCTTATACCCTGAAGATG
66 ACAAC-GGCGAATCTTATACCCTAAAGATG
165924 TAAAAAAGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
97 2 0.03
98 77 0.96
99 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (98 bp):
GGGAAAGGTGGAAGCCACAACGACAAACCTTATACCCTACACATGTGAAGGGAAAGATTGAAACC
ACAACGGCGAATCTTATACCCTAAAGATGAAGA
Found at i:165893 original size:49 final size:49
Alignment explanation
Indices: 165732--165894 Score: 170
Period size: 49 Copynumber: 3.3 Consensus size: 49
165722 GAGATATGAT
* * * *
165732 GGGAAAGGTTGAAGTCACAACGGCAAACCTTATACCTTAC-CGATGTGAA
1 GGGAAAGATTGAAGCCACAACGGCGAACCTTATACCCTACAC-ATGTGAA
* * * * *
165781 GGGAAAGATTGAAACCACAACGGCGAATCTTATACCCTAAAGATG-AAGA
1 GGGAAAGATTGAAGCCACAACGGCGAACCTTATACCCTACACATGTGA-A
* *
165830 GGGAAATG-TGGAAGCCACAACGACGAACCTTATACCCTACACATGTGAA
1 GGGAAA-GATTGAAGCCACAACGGCGAACCTTATACCCTACACATGTGAA
*
165879 GGGAAAGATCGAAGCC
1 GGGAAAGATTGAAGCC
165895 GCACTGGTGA
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
48 2 0.02
49 88 0.96
50 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCACAACGGCGAACCTTATACCCTACACATGTGAA
Found at i:165942 original size:98 final size:96
Alignment explanation
Indices: 165740--165947 Score: 222
Period size: 98 Copynumber: 2.1 Consensus size: 96
165730 ATGGGAAAGG
* * * *
165740 TTGAAGTCACAACGGCAAACCTTATACCTTACCGATGTGAAGGGAAAGATTGAAACCACAACGGC
1 TTGAAGCCACAACGACAAACCTTATACCCTACCGATGTGAAGGGAAAGATCGAAACCACAACGGC
* **
165805 GAATCTTATACCCTAAAGATGAAGAGGGAAA
66 GAATCTTATACCCTAAAGATGAAAAAAGAAA
* * *
165836 TGTGGAAGCCACAACGACGAACCTTATACCCTACAC-ATGTGAAGGGAAAGATCGAAGCCGC-AC
1 T-T-GAAGCCACAACGACAAACCTTATACCCTAC-CGATGTGAAGGGAAAGATCGAAACCACAAC
* * *
165899 TGGTGACTCTTATACCCTGAAGATGTAAAAAAGAAGA
63 -GGCGAATCTTATACCCTAAAGATG-AAAAAAGAA-A
*
165936 TTGAAGCTACAA
1 TTGAAGCCACAA
165948 TGGCAAATCT
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
96 1 0.01
97 3 0.03
98 78 0.85
99 8 0.09
100 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (96 bp):
TTGAAGCCACAACGACAAACCTTATACCCTACCGATGTGAAGGGAAAGATCGAAACCACAACGGC
GAATCTTATACCCTAAAGATGAAAAAAGAAA
Found at i:166270 original size:45 final size:46
Alignment explanation
Indices: 166207--166382 Score: 180
Period size: 45 Copynumber: 3.9 Consensus size: 46
166197 ACCATGGGGC
* * * **
166207 AGATCGAAGCCATC-TTCCAATTTTTTACCCCTATTCAAGAAGGTT
1 AGATTGAAGCCATCATTCCAATCTTTTACCCCTAATCAAGAAGGGA
* * *
166252 AGATGGAAGCCA-CATTCCAATCATTTACCCCGAATCAAGAAGGGA
1 AGATTGAAGCCATCATTCCAATCTTTTACCCCTAATCAAGAAGGGA
* * * * * *
166297 AGATTAAAGCCA-CATTCCTATCTTCTACCCCTAGTCAAGAGGGGC
1 AGATTGAAGCCATCATTCCAATCTTTTACCCCTAATCAAGAAGGGA
*
166342 AGATTGAAGCCATCA-TCCAATCTTTTACCCTTAAGTCAAGA
1 AGATTGAAGCCATCATTCCAATCTTTTACCCCTAA-TCAAGA
166383 GGACCAAATT
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 98 0.92
46 8 0.07
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (46 bp):
AGATTGAAGCCATCATTCCAATCTTTTACCCCTAATCAAGAAGGGA
Found at i:166395 original size:46 final size:45
Alignment explanation
Indices: 166212--166412 Score: 135
Period size: 45 Copynumber: 4.5 Consensus size: 45
166202 GGGGCAGATC
* * * ** * *
166212 GAAGCCATCTTCCAATTTTTTACCCCTATTCAAGAAGG-TTAGATG
1 GAAGCCATCATCCAATCTTTTACCCCTAGTCAAG-AGGACCAAATT
* * * *
166257 GAAGCCA-CATTCCAATCATTTACCCCGAATCAAGAAGGGA--AGATT
1 GAAGCCATCA-TCCAATCTTTTACCCCTAGTCAAG-A-GGACCAAATT
* * * ** *
166302 AAAGCCA-CATTCCTATCTTCTACCCCTAGTCAAGAGGGGCAGATT
1 GAAGCCATCA-TCCAATCTTTTACCCCTAGTCAAGAGGACCAAATT
*
166347 GAAGCCATCATCCAATCTTTTACCCTTAAGTCAAGAGGACCAAATT
1 GAAGCCATCATCCAATCTTTTACCCCT-AGTCAAGAGGACCAAATT
*
166393 GAACCCATCATCCAA-CTTTT
1 GAAGCCATCATCCAATCTTTT
166413 TACTCCGACC
Statistics
Matches: 128, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 91 0.71
46 33 0.26
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
GAAGCCATCATCCAATCTTTTACCCCTAGTCAAGAGGACCAAATT
Found at i:166784 original size:85 final size:85
Alignment explanation
Indices: 166641--167054 Score: 242
Period size: 85 Copynumber: 4.9 Consensus size: 85
166631 CAAACCCCCA
* * ** *
166641 CCTTCTTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCCTGATGAGATAC
1 CCTTCCTAATGAGATACAGAGAAGTGGATCAAAGCAATAAACCGATCATCTTCCTGATGAGATAC
*
166706 TGAGAAGTGGACCAAGTCCG
66 AGAGAAGTGGACCAAGTCCG
* * * *
166726 CCTTCCTAATGAGATACAGAGAAGTGTATTAAATCAATGAACCGATCATCTTCCTGATGAGATAC
1 CCTTCCTAATGAGATACAGAGAAGTGGATCAAAGCAATAAACCGATCATCTTCCTGATGAGATAC
* * *
166791 AGAGAAGTGGATTAAATCAATGAAGCGG
66 AGAGAAGTGG-----ACCAA-G--TCCG
* * * * * * * *
166819 TTATCTTCCTAATGAGATACAGAGAAGTAGA-CAAAATCAATGAAGC-A-AAGC-T-C-AAT--G
1 ---CCTTCCTAATGAGATACAGAGAAGTGGATC-AAAGCAATAAACCGATCATCTTCCTGATGAG
* * * * ** *
166876 -TA-AGTGAAACT--TCAAACCCCA
62 ATACAGAG-AAGTGGACCAAGTCCG
* * * * * *
166897 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATCATCTTCCTAATGAGATAC
1 CCTTCCTAATGAGATACAGAGAAGTGGATCAAAGCAATAAACCGATCATCTTCCTGATGAGATAC
*
166962 AGAGAAGTGGACCAAATCCG
66 AGAGAAGTGGACCAAGTCCG
* * * * *
166982 CCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAA-CGATCATCTTCCTAATGAGATA
1 CCTTCCTAATGAGATACAGAGAAGTGGATCAAAGCAAT-AAACCGATCATCTTCCTGATGAGATA
*
167046 CAAAGAAGT
65 CAGAGAAGT
167055 AGATCAAATC
Statistics
Matches: 251, Mismatches: 52, Indels: 52
0.71 0.15 0.15
Matches are distributed among these distances:
75 35 0.14
76 2 0.01
77 2 0.01
78 2 0.01
79 1 0.00
80 3 0.01
81 2 0.01
82 1 0.00
83 5 0.02
84 3 0.01
85 132 0.53
86 3 0.01
87 3 0.01
88 5 0.02
89 1 0.00
90 4 0.02
91 3 0.01
92 1 0.00
93 3 0.01
94 2 0.01
95 1 0.00
96 37 0.15
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (85 bp):
CCTTCCTAATGAGATACAGAGAAGTGGATCAAAGCAATAAACCGATCATCTTCCTGATGAGATAC
AGAGAAGTGGACCAAGTCCG
Found at i:166798 original size:48 final size:48
Alignment explanation
Indices: 166727--166862 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
166717 CCAAGTCCGC
*
166727 CTTCCTAATGAGATACAGAGAAGTGTATTAAATCAATGAACCGATCAT
1 CTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAACCGATCAT
* * * *
166775 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTTAT
1 CTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAACCGATCAT
* **
166823 CTTCCTAATGAGATACAGAGAAGTAGACAAAATCAATGAA
1 CTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAA
166863 GCAAAGCTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (48 bp):
CTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAACCGATCAT
Found at i:166991 original size:208 final size:209
Alignment explanation
Indices: 166775--167185 Score: 673
Period size: 208 Copynumber: 2.0 Consensus size: 209
166765 AACCGATCAT
* * * *
166775 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTTATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAACGATCATCTTCCTAATGAGATACA
*
166840 GAGAAGTAGA-CAAAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAA-CCCCATCTTCC
66 AAGAAGTAGATC-AAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCCATCTTCC
*
166903 TGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATCATCTTCCTAATGAGATACAGAGAA
130 TGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAACGATCATCTTCCTAATGAGATACAGAGAA
*
166968 GTGGACCAAATCCGC
195 GTAGACCAAATCCGC
166983 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAACGATCATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAACGATCATCTTCCTAATGAGATACA
*
167048 AAGAAGTAGATCAAATCTATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCCATCTTCCT
66 AAGAAGTAGATCAAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCCATCTTCCT
* * * * * *
167113 GATGAGATATAGAGGAGTGGGTCAAAGCAATAAAATGGTCATCTTCCTGATGAGATACAGAGAAG
131 GATGAGATACAGAGAAGTGGGTCAAAGAAATAAAACGATCATCTTCCTAATGAGATACAGAGAAG
167178 TAGACCAA
196 TAGACCAA
167186 GTCAATGAAG
Statistics
Matches: 187, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
208 109 0.58
209 78 0.42
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (209 bp):
CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAACGATCATCTTCCTAATGAGATACA
AAGAAGTAGATCAAATCAATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCCATCTTCCT
GATGAGATACAGAGAAGTGGGTCAAAGAAATAAAACGATCATCTTCCTAATGAGATACAGAGAAG
TAGACCAAATCCGC
Found at i:167020 original size:256 final size:253
Alignment explanation
Indices: 166563--167072 Score: 747
Period size: 256 Copynumber: 2.0 Consensus size: 253
166553 AAACTTCAAA
*
166563 CGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAAACAATGAAATCCCAATGTAAGCAAAA
1 CGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAAACAATGAAAGCCCAATGTAAGCAAAA
* * * *
166628 CTTCAAACCCCCACCTTCTTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTT
66 CTTCAAACCCCCACCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATCATCTT
* * *
166693 CCTGATGAGATACTGAGAAGTGGACCAAGTCCGCCTTCCTAATGAGATACAGAGAAGTGTATTAA
131 CCTAATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAGAGAAGTGTATTAA
* * * * *
166758 ATCAATGAACCGATCATCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAG
196 ATCAATGAAACGATCATCTTCCTAATGAGATACAAAGAAGTAGATCAAATCAATGAAG
* * *
166816 CGGTTATCTTCCTAATGAGATACAGAGAAGTAGA-CAAAATCAATGAAGCAAAGCTCAATGTAAG
1 CGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAAA-CAAT---G-AAAGCCCAATGTAAG
** * *
166880 TGAAACTTCAAA-CCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATC
61 CAAAACTTCAAACCCCCACCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATC
*
166944 ATCTTCCTAATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTAG
126 ATCTTCCTAATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAGAGAAGT-G
*
167009 -ATTAAATCAATGAAACGATCATCTTCCTAATGAGATACAAAGAAGTAGATCAAATCTATGAAG
190 TATTAAATCAATGAAACGATCATCTTCCTAATGAGATACAAAGAAGTAGATCAAATCAATGAAG
167072 C
1 C
167073 AAAGCTCAAT
Statistics
Matches: 229, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
252 5 0.02
253 36 0.16
256 164 0.72
257 24 0.10
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (253 bp):
CGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAAACAATGAAAGCCCAATGTAAGCAAAA
CTTCAAACCCCCACCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATCATCTT
CCTAATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAGAGAAGTGTATTAA
ATCAATGAAACGATCATCTTCCTAATGAGATACAAAGAAGTAGATCAAATCAATGAAG
Found at i:167063 original size:85 final size:85
Alignment explanation
Indices: 166898--167064 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
166888 CAAACCCCAT
* *
166898 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGATCATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTAGATCAAAGAAATAAAGCGATCATCTTCCTAATGAGATACA
* *
166963 GAGAAGTGGACCAAATCCGC
66 AAGAAGTAGACCAAATCCGC
* **
166983 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAA-CGATCATCTTCCTAATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTAGATCAAAGAAAT-AAAGCGATCATCTTCCTAATGAGATAC
*
167047 AAAGAAGTAGATCAAATC
65 AAAGAAGTAGACCAAATC
167065 TATGAAGCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 70 0.96
86 3 0.04
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTAGATCAAAGAAATAAAGCGATCATCTTCCTAATGAGATACA
AAGAAGTAGACCAAATCCGC
Found at i:167208 original size:124 final size:124
Alignment explanation
Indices: 166983--167376 Score: 495
Period size: 124 Copynumber: 3.2 Consensus size: 124
166973 CCAAATCCGC
* * * * * * *
166983 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAACGATCATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTTCCTGATGAGATACA
* * * * *
167048 AAGAAGTAGATCAAATCTATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCCAT
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCCAT
* * *
167107 CTTCCTGATGAGATATAGAGGAGTGGGTCAAAGCAATAAAATGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTTCCTGATGAGATACA
* * * * *
167172 GAGAAGTAGACCAAGTCAATGAAGCGAAGCTTAATGTGAGTGAAACTTTAAACTCTCAT
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCCAT
* * *
167231 CTTCTTGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTTCCTGATGAGATACA
* * * * ** *
167296 GAGAAGTGGACCAAATCAATAAAGTGAAACTCAATACGAGTGAAACTTCAAA-CCGCAT
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCCAT
167354 CTTCCT-ATTGAGATACAGAGAAG
1 CTTCCTGA-TGAGATACAGAGAAG
167377 AGGACCAAAA
Statistics
Matches: 230, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
122 1 0.00
123 23 0.10
124 206 0.90
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (124 bp):
CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCCAT
Found at i:167298 original size:48 final size:48
Alignment explanation
Indices: 167227--167319 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
167217 CTTTAAACTC
* **
167227 TCATCTTCTTGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGG
1 TCATCTTCCTGATAAGATACAGAGAAGTGGACCAAAGCAATAAAGCGG
* *
167275 TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCAATAAAG
1 TCATCTTCCTGATAAGATACAGAGAAGTGGACCAAAGCAATAAAG
167320 TGAAACTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (48 bp):
TCATCTTCCTGATAAGATACAGAGAAGTGGACCAAAGCAATAAAGCGG
Found at i:168416 original size:3 final size:3
Alignment explanation
Indices: 168402--168445 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
168392 AAAAGGAAAC
*
168402 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
168446 CTAAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:169124 original size:30 final size:29
Alignment explanation
Indices: 169089--169463 Score: 226
Period size: 30 Copynumber: 12.6 Consensus size: 29
169079 TATTTTACTT
* *
169089 AAAATTATATTTTGACCACTAAACTTTTCT
1 AAAATTACATTTTGACC-CTAAACTTTTCC
169119 AAAATTACATTTTGACCTCTAAACTTTTCC
1 AAAATTACATTTTGACC-CTAAACTTTTCC
* * *
169149 AAAATCACATTTTGACCACTGAACTTCTCC
1 AAAATTACATTTTGACC-CTAAACTTTTCC
* * * *
169179 AAAATCACATTTTAACCACTGAACTTCTCC
1 AAAATTACATTTTGACC-CTAAACTTTTCC
*
169209 AAAATTACATTTTGACCCTTAAACTTCTCC
1 AAAATTACATTTTGACCC-TAAACTTTTCC
* *
169239 AAAATTACATTTTGACCTTTAAAC-TTCCC
1 AAAATTACATTTTGACC-CTAAACTTTTCC
** * * *
169268 AAAACCATATTTTAACCCTAAAAC-TTTCTT
1 AAAATTACATTTTGACCCT-AAACTTTTC-C
* *
169298 AAAATTATATTTTAACCCTTAAA-TTTTCC
1 AAAATTACATTTTGACCC-TAAACTTTTCC
* * * *
169327 TAAAATCACATTTTAACCCCCAAAATTTTCC
1 -AAAATTACATTTTGA-CCCTAAACTTTTCC
* * * *
169358 AAAA-GAAATTTTAACCCCCAAAC--TTCC
1 AAAATTACATTTTGA-CCCTAAACTTTTCC
* * * *
169385 CAAATTCACATTTTGACCCCCAAAC-TTACAT
1 AAAATT-ACATTTTGA-CCCTAAACTTTTC-C
* * *
169416 AAAATTACATTTT-AGCCCTCGAGCTTCTCC
1 AAAATTACATTTTGA-CCCT-AAACTTTTCC
*
169446 AAAATTACATTTTAACCC
1 AAAATTACATTTTGACCC
169464 CATATTCTCC
Statistics
Matches: 285, Mismatches: 44, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
27 7 0.02
28 1 0.00
29 60 0.21
30 199 0.70
31 18 0.06
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAACTTTTCC
Found at i:169161 original size:60 final size:59
Alignment explanation
Indices: 169097--169429 Score: 257
Period size: 60 Copynumber: 5.6 Consensus size: 59
169087 TTAAAATTAT
* *
169097 ATTTTGACCACTAAACTTTTCTAAAATTACATTTTGACCTCTAAACTTTTCCAAAATCAC
1 ATTTTGACC-CTAAACTTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATCAC
* * * * * * *
169157 ATTTTGACCACTGAACTTCTCCAAAATCACATTTTAACCACTGAACTTCTCCAAAATTAC
1 ATTTTGACC-CTAAACTTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATCAC
* * * * * *
169217 ATTTTGACCCTTAAACTTCTCCAAAATTACATTTTGACCTTTAAAC-TTCCCAAAACCAT
1 ATTTTGACCC-TAAACTTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATCAC
* * *
169276 ATTTTAACCCTAAAAC-TTTCTTAAAATTATATTTTAACC-CTTAAA-TTTTCCTAAAATCAC
1 ATTTTGACCCT-AAACTTTTC-CAAAATTACATTTTAACCTC-TAAACTTTTCC-AAAATCAC
* * * * * * * * *
169336 ATTTTAACCCCCAAAATTTTCCAAAA-GAAATTTTAACCCCCAAAC-TTCCCAAATTCAC
1 ATTTTGA-CCCTAAACTTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATCAC
* * *
169394 ATTTTGACCCCCAAAC-TTACATAAAATTACATTTTA
1 ATTTTGA-CCCTAAACTTTTC-CAAAATTACATTTTA
169430 GCCCTCGAGC
Statistics
Matches: 218, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
57 3 0.01
58 29 0.13
59 69 0.32
60 110 0.50
61 7 0.03
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (59 bp):
ATTTTGACCCTAAACTTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATCAC
Found at i:169388 original size:28 final size:29
Alignment explanation
Indices: 169336--169411 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
169326 CTAAAATCAC
* * *
169336 ATTTTAACCCCCAAAATTTTCCAAA-AGAA
1 ATTTTAACCCCC-AAACTTCCCAAATACAA
* *
169365 ATTTTAACCCCCAAACTTCCCAAATTCAC
1 ATTTTAACCCCCAAACTTCCCAAATACAA
*
169394 ATTTTGACCCCCAAACTT
1 ATTTTAACCCCCAAACTT
169412 ACATAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 10 0.25
29 30 0.75
ACGTcount: A:0.37, C:0.32, G:0.03, T:0.29
Consensus pattern (29 bp):
ATTTTAACCCCCAAACTTCCCAAATACAA
Found at i:172620 original size:17 final size:19
Alignment explanation
Indices: 172592--172630 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
172582 TTATTCACTG
172592 TTTGAGATAA-TTTTTATT
1 TTTGAGATAATTTTTTATT
172610 TTTGA-ATAATTTTTTATT
1 TTTGAGATAATTTTTTATT
172628 TTT
1 TTT
172631 ATTTTAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTGAGATAATTTTTTATT
Found at i:195474 original size:21 final size:22
Alignment explanation
Indices: 195445--195485 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
195435 AATTTAATAA
*
195445 AATTGTGTAAAATTA-ACACAT
1 AATTATGTAAAATTACACACAT
195466 AATTATGTAAAATTACACAC
1 AATTATGTAAAATTACACAC
195486 TTTACTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (22 bp):
AATTATGTAAAATTACACACAT
Found at i:200330 original size:42 final size:42
Alignment explanation
Indices: 200224--200928 Score: 843
Period size: 42 Copynumber: 16.9 Consensus size: 42
200214 AGAATAAATG
* ** * *
200224 AATGGACCTCTATGCCTAGGCCTCTAAATGCAATAAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
200266 AATGGGGGCCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTA
1 AAT--GGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
200310 AATGGGCCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
200352 AATGGACCTCCACACCTGGGTCTCTGAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
200394 AATGGGCCTCCACACTTGGGCCTCTAAATGAAAAGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
** * *
200436 AATATAGCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
** *
200478 AATGGGTCACCACACCTGGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
200520 AATGGGCTTCCACACCTGGACCTCTGAATGGGAA-GAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAAT-GCAATGAAAAGTA
** * * *
200562 AATAAACCTCCACACCTAGACC-CTTGAATG-AGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTC-TAAATGCA-ATGAAAAGTA
* *
200604 AATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
200646 AATGGACCTCCACACCTGAGCCT-T---T-AAATG-AAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
200682 AATAGACCTCCACGCCTGGGTCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
200724 AATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
200766 AATGGATCTCCACACTTGGACCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
200808 AATGGACCTCCATACCTAGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
200850 AATGGGCCTCCACACCTAGGCCTTTGAATGCGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
200892 AATGAACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
200929 TGCTTTCCTT
Statistics
Matches: 570, Mismatches: 79, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
36 25 0.04
37 4 0.01
38 1 0.00
40 2 0.00
41 8 0.01
42 489 0.86
43 4 0.01
44 37 0.06
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
Found at i:201366 original size:20 final size:20
Alignment explanation
Indices: 201341--201379 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
201331 TTTCTATTTT
*
201341 TTTTTTTTCTTTTTTTTCTC
1 TTTTTTTTCTATTTTTTCTC
*
201361 TTTTTTTTGTATTTTTTCT
1 TTTTTTTTCTATTTTTTCT
201380 TGATTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTTTTCTATTTTTTCTC
Found at i:201377 original size:11 final size:11
Alignment explanation
Indices: 201339--201368 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
201329 TCTTTCTATT
*
201339 TTTTTTTTTTC
1 TTTTTTTTCTC
201350 TTTTTTTTCTC
1 TTTTTTTTCTC
201361 TTTTTTTT
1 TTTTTTTT
201369 GTATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:209542 original size:4 final size:4
Alignment explanation
Indices: 209535--209567 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
209525 ACAAATGAGC
209535 GAAT GAAT GAAT GAAT GAAT G--T GAAT GAAT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
209568 ATTGGGGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.07
4 25 0.93
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:214614 original size:148 final size:147
Alignment explanation
Indices: 214382--215163 Score: 977
Period size: 148 Copynumber: 5.3 Consensus size: 147
214372 TGATTAAACA
* * * *
214382 AAAATCACTACTTTACTTAAAAATCCAAATTTTTATTTCGAAATAGTTTA-AAAAATCAAGATTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAG-TTAGAAAAATCAAAACTT
* * *
214446 TGTTAAAACTTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAACAATCTA
65 TGTTAAAAATTTAAA-TTTTTCTTTAAAATAACTAAAAAACAAATTTTTATTTTTTAAAAATCTA
* *
214511 AAATTTCTCTTTTTTAATG
129 AACTTTCTCTTTTTTAAAG
* * * *
214530 AAAATCACTATTTTGCTTAAAAATTCAAATTTTTATTTCGAAATAGTTAGAAAAATAAAAACTTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAATCAAAACTTT
* *
214595 GTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTTTTTAAAAATATA
66 GTTAAAAATTT-AAATTTTTCTTTAAAATAACT-AAAAAACAAATTTTTATTTTTTAAAAATCTA
*
214660 AACTTTCTTTTTTTTTCAAAG
129 AACTTTC-TCTTTTTT-AAAG
*
214681 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAAT-GATTGAAGAAAGATCAAAAC
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAG-TT--AGAAAAATCAAAAC
* * * *
214745 TTTGTTAAAAAGTTGAACTTTTTCTTTAGAATAATTAAAAAACAAATTTTTA-TTTTTAAAAATC
63 TTTGTTAAAAA-TTTAAATTTTTCTTTAAAATAACTAAAAAACAAATTTTTATTTTTTAAAAATC
214809 TAAACTTT-T-TTTTTTAAAG
127 TAAACTTTCTCTTTTTTAAAG
* *
214828 AAAATCACTATTTTGCTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAAAAATCAAAA
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT----AGAAAAATCAAAA
* * *
214893 CTTTGTTAAAAATTTAAATTTTTCTTTAAAATAAATAAAAAAACAGATTTTTATTTTTTTAAAAT
62 CTTTGTTAAAAATTTAAATTTTTCTTTAAAATAACT-AAAAAACAAATTTTTATTTTTTAAAAAT
*
214958 CTAAACATTCTCTTTTTTAAAG
126 CTAAACTTTCTCTTTTTTAAAG
* *
214980 AAAATCACTATTTTGCTTAAAAATCCAAACTTTTATTTCAAAATAGTTAGAAAAAAT-AAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAG-AAAAATCAAAACTT
* *
215044 TGTTTAAAAATTTAAA--CTT-TTT----TAA--AAGAAACAAATTTTTA-TTTTTAAAAATCTA
65 TG-TTAAAAATTTAAATTTTTCTTTAAAATAACTAAAAAACAAATTTTTATTTTTTAAAAATCTA
215099 AACTTTCTCTTTTTTAAAG
129 AACTTTCTCTTTTTTAAAG
*
215118 AAAAAATCAATATTTTACTTAAAAAT-CAAAGCTTTTATTTCGAAAT
1 --AAAATCACTATTTTACTTAAAAATCCAAA-CTTTTATTTCGAAAT
215164 TGTTTTAAAA
Statistics
Matches: 568, Mismatches: 45, Indels: 50
0.86 0.07 0.08
Matches are distributed among these distances:
138 31 0.05
139 18 0.03
140 36 0.06
142 3 0.01
146 3 0.01
147 54 0.10
148 120 0.21
149 96 0.17
150 26 0.05
151 66 0.12
152 72 0.13
153 41 0.07
154 2 0.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (147 bp):
AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAGAAAAATCAAAACTTT
GTTAAAAATTTAAATTTTTCTTTAAAATAACTAAAAAACAAATTTTTATTTTTTAAAAATCTAAA
CTTTCTCTTTTTTAAAG
Found at i:214803 original size:21 final size:22
Alignment explanation
Indices: 214779--214826 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
214769 TTTAGAATAA
214779 TTAAAAAAC-AAA-TTTTTATTT
1 TTAAAAAACTAAACTTTTT-TTT
*
214800 TTAAAAATCTAAACTTTTTTTT
1 TTAAAAAACTAAACTTTTTTTT
214822 TTAAA
1 TTAAA
214827 GAAAATCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAAAACTAAACTTTTTTTT
Found at i:215052 original size:18 final size:18
Alignment explanation
Indices: 215030--215070 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
215020 AAATAGTTAG
*
215030 AAAAAATAAAACTTTGTTT
1 AAAAATTAAAACTTT-TTT
*
215049 AAAAATTTAAACTTTTTT
1 AAAAATTAAAACTTTTTT
215067 AAAA
1 AAAA
215071 GAAACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAATTAAAACTTTTTT
Found at i:215635 original size:6 final size:6
Alignment explanation
Indices: 215612--215664 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
215602 ACCCTAAATA
* * * * *
215612 ATAATA ATAATA ATAATG ATAATG ATGATG ATGATG ATGATG ATAATG
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
215660 ATAAT
1 ATAAT
215665 AATTTGGGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
ATAATG
Found at i:215639 original size:3 final size:3
Alignment explanation
Indices: 215627--215661 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
215617 AATAATAATA
* *
215627 ATG ATA ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
215662 AATAATTTGG
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:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:216058 original size:224 final size:225
Alignment explanation
Indices: 215667--216116 Score: 884
Period size: 224 Copynumber: 2.0 Consensus size: 225
215657 ATGATAATAA
*
215667 TTTGGGCCGATACAAGCCCAAAAAGGAAAGAAAAATAAAAAAAAATAAAAACTTCTATTTAACCC
1 TTTGGGCCCATACAAGCCCAAAAAGGAAAGAAAAATAAAAAAAAATAAAAACTTCTATTTAACCC
215732 AAAATTGAGTGGACTTTCGACGGGCCTAAGAGAGAACAAATGGGCCTCCAACAAGGCTCAGACAA
66 AAAATTGAGTGGACTTTCGACGGGCCTAAGAGAGAACAAATGGGCCTCCAACAAGGCTCAGACAA
215797 AATCGGGTGTCTATAACATTCATTCCAAAATAACTCAAACAAGGCTACAACAAATCATCTCAAGT
131 AATCGGGTGTCTATAACATTCATTCCAAAATAACTCAAACAAGGCTACAACAAATCATCTCAAGT
215862 CATACAACTCACTATAATCTAGCCAAACAT
196 CATACAACTCACTATAATCTAGCCAAACAT
215892 TTTGGGCCCATACAAGCCCAAAAAGGAAAGAAAAAT-AAAAAAAATAAAAACTTCTATTTAACCC
1 TTTGGGCCCATACAAGCCCAAAAAGGAAAGAAAAATAAAAAAAAATAAAAACTTCTATTTAACCC
215956 AAAATTGAGTGGACTTTCGACGGGCCTAAGAGAGAACAAATGGGCCTCCAACAAGGCTCAGACAA
66 AAAATTGAGTGGACTTTCGACGGGCCTAAGAGAGAACAAATGGGCCTCCAACAAGGCTCAGACAA
216021 AATCGGGTGTCTATAACATTCATTCCAAAATAACTCAAACAAGGCTACAACAAATCATCTCAAGT
131 AATCGGGTGTCTATAACATTCATTCCAAAATAACTCAAACAAGGCTACAACAAATCATCTCAAGT
216086 CATACAACTCACTATAATCTAGCCAAACAT
196 CATACAACTCACTATAATCTAGCCAAACAT
216116 T
1 T
216117 AGTAAGCATT
Statistics
Matches: 224, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
224 189 0.84
225 35 0.16
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.20
Consensus pattern (225 bp):
TTTGGGCCCATACAAGCCCAAAAAGGAAAGAAAAATAAAAAAAAATAAAAACTTCTATTTAACCC
AAAATTGAGTGGACTTTCGACGGGCCTAAGAGAGAACAAATGGGCCTCCAACAAGGCTCAGACAA
AATCGGGTGTCTATAACATTCATTCCAAAATAACTCAAACAAGGCTACAACAAATCATCTCAAGT
CATACAACTCACTATAATCTAGCCAAACAT
Found at i:218153 original size:20 final size:20
Alignment explanation
Indices: 218114--218182 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
218104 TTTTGAAACA
*
218114 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
218136 ATTTTAAACAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
** * * *
218156 ATTTCGATCAATTCAAAATC
1 ATTTTAAACAAGTCAAAATG
218176 ATTTTAA
1 ATTTTAA
218183 CACTTGAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 31 0.79
21 3 0.08
22 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:218930 original size:17 final size:16
Alignment explanation
Indices: 218900--218949 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
218890 TCTTGACCTC
218900 TCTTTCTT-TTTCTTT
1 TCTTTCTTGTTTCTTT
218915 TCTTTCTTAGTTTCTTGT
1 TCTTTCTT-GTTTCTT-T
218933 TC-TTCTTTGTTTCTTT
1 TCTTTC-TTGTTTCTTT
218949 T
1 T
218950 TTTTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.26
16 2 0.06
17 16 0.52
18 5 0.16
ACGTcount: A:0.02, C:0.18, G:0.06, T:0.74
Consensus pattern (16 bp):
TCTTTCTTGTTTCTTT
Found at i:223257 original size:18 final size:18
Alignment explanation
Indices: 223231--223265 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
223221 TTAAGTATTA
* *
223231 AAATGAATAATATAATAT
1 AAATAAATAAAATAATAT
223249 AAATAAATAAAATAATA
1 AAATAAATAAAATAATA
223266 ATAAGAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATAAATAAAATAATAT
Found at i:224268 original size:2 final size:2
Alignment explanation
Indices: 224261--224295 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
224251 TTTTGAAATA
* *
224261 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
224296 AGAACACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:224670 original size:15 final size:15
Alignment explanation
Indices: 224650--224679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
224640 TAGGTTTAAG
224650 TGGGTAAATTGGGTT
1 TGGGTAAATTGGGTT
*
224665 TGGGTAAGTTGGGTT
1 TGGGTAAATTGGGTT
224680 AATTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
TGGGTAAATTGGGTT
Found at i:228810 original size:163 final size:161
Alignment explanation
Indices: 228487--228791 Score: 380
Period size: 163 Copynumber: 1.9 Consensus size: 161
228477 AATGCCATCC
* * *
228487 TTTTTTGGCTTCTAGTTGTCATACTCATACCAGACTGAGAACAAAAATCAGAACCCAAATTAGAT
1 TTTTTTGGCTTCTAGTTCTCATACTCATACCAGACTAAGAACAAAAATCAAAACCCAAATTAGAT
* * *
228552 TTAAATAATTTGGAGTTAACATTAAAAAAATGTTTACAATATACCTATGATCCAGTTGTATTAGG
66 TAAAATAATTTGGAGTTAACATTAAAAAAATGTATACAATATACCTATGATCCAATTGTATTAGG
228617 CTAAATGCATGGCGGTGTTCTTTTATTTTTT
131 CTAAATGCATGGCGGTGTTCTTTTATTTTTT
* * *
228648 TTTTTTTGCTTCTAGTTC-CTATACTCGTACCA-AGCTAAGACCAAAAAATCAAAACCCAAAATT
1 TTTTTTGGCTTCTAGTTCTC-ATACTCATACCAGA-CTAAGAAC-AAAAATCAAAACCC-AAATT
* ** * * * * ** *
228711 AGATTAAAATATTTTTTATTTGACATTAAAATAGTGTATATGATATACCTGTGATCCAATTGTAT
62 AGATTAAAATAATTTGGAGTTAACATTAAAAAAATGTATACAATATACCTATGATCCAATTGTAT
*
228776 TAGGCTGAATGCATGG
127 TAGGCTAAATGCATGG
228792 TGTTATGTTG
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
160 2 0.02
161 33 0.28
162 13 0.11
163 72 0.60
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (161 bp):
TTTTTTGGCTTCTAGTTCTCATACTCATACCAGACTAAGAACAAAAATCAAAACCCAAATTAGAT
TAAAATAATTTGGAGTTAACATTAAAAAAATGTATACAATATACCTATGATCCAATTGTATTAGG
CTAAATGCATGGCGGTGTTCTTTTATTTTTT
Found at i:228893 original size:158 final size:160
Alignment explanation
Indices: 228487--228921 Score: 411
Period size: 158 Copynumber: 2.7 Consensus size: 160
228477 AATGCCATCC
* * * * *
228487 TTTTTT-GGCTTCTAGTT-GTCATACTCATACCAGACTGAGA--ACAAAAATCAGAACCCAAATT
1 TTTTTTGGGCTTCTAGTTCCT-ATACTCATACAAGACTAAGACCAAAAAAATCAGAACCAAAATT
* * * * * * *
228548 AGATTTAAATAATTTGGAGTTAACATTAAAAAAATGTTTACAATATACCTATGATCCAGTTGTAT
65 AGATTTAAATATTTTGGAATTGACATT-AAAAAGTGTTTACGATATACCTGTGATCCAATTGTAT
* * * *
228613 TAGGCTAAATGCATGGCGGTGTTCTTTTATTTTT
129 TAGGCTAAATGCAT-G-GGTGTTCATGTATGTTA
** * *
228647 TTTTTTTTGCTTCTAGTTCCTATACTCGTACCAAG-CTAAGACC-AAAAAATCAAAACCCAAAAT
1 TTTTTTGGGCTTCTAGTTCCTATACTCATA-CAAGACTAAGACCAAAAAAATCAGAA-CCAAAAT
* ** * * *
228710 TAGATTAAAATATTTTTTATTTGACATTAAAATAGTGTATATGATATACCTGTGATCCAATTGTA
64 TAGATTTAAATATTTTGGAATTGACATTAAAA-AGTGTTTACGATATACCTGTGATCCAATTGTA
*
228775 TTAGGCTGAATGCAT-GGTGTT-ATGT-TGTTA
128 TTAGGCTAAATGCATGGGTGTTCATGTATGTTA
* * * * *
228805 TTTTTTGGGCTTGTAGTTCTTGTACTCATACAAGACTAAGACCAAAAAAATTAGAACCGAAATTA
1 TTTTTTGGGCTTCTAGTTCCTATACTCATACAAGACTAAGACCAAAAAAATCAGAACCAAAATTA
** * *
228870 GATTTTTATATTTTGGAATTGACAATGAGAAAGTGTTTACGATATACCTGTG
66 GATTTAAATATTTTGGAATTGAC-ATTAAAAAGTGTTTACGATATACCTGTG
228922 TTCCCGTTGT
Statistics
Matches: 221, Mismatches: 44, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
157 4 0.02
158 79 0.36
159 17 0.08
160 12 0.05
161 23 0.10
162 18 0.08
163 68 0.31
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (160 bp):
TTTTTTGGGCTTCTAGTTCCTATACTCATACAAGACTAAGACCAAAAAAATCAGAACCAAAATTA
GATTTAAATATTTTGGAATTGACATTAAAAAGTGTTTACGATATACCTGTGATCCAATTGTATTA
GGCTAAATGCATGGGTGTTCATGTATGTTA
Found at i:232514 original size:24 final size:24
Alignment explanation
Indices: 232467--232515 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
232457 AAAAATTTCT
*
232467 TCCTTCTCTCCTTCTTCATTTTCC
1 TCCTTCTCTCCTTCTTCATCTTCC
*
232491 TCCTTCTCTTCTTCTTTC-TCTTCC
1 TCCTTCTCTCCTTC-TTCATCTTCC
232515 T
1 T
232516 TAATAGCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (24 bp):
TCCTTCTCTCCTTCTTCATCTTCC
Found at i:237466 original size:37 final size:37
Alignment explanation
Indices: 237416--237490 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
237406 TCCGTAATTA
237416 ATTCGTCCAGTACATCAATATGGTGACATTCCTCTTT
1 ATTCGTCCAGTACATCAATATGGTGACATTCCTCTTT
* *
237453 ATTCGTCCAGTACATTAATATGGTGACATTTCTCTTT
1 ATTCGTCCAGTACATCAATATGGTGACATTCCTCTTT
237490 A
1 A
237491 CTCTTGCAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (37 bp):
ATTCGTCCAGTACATCAATATGGTGACATTCCTCTTT
Found at i:243223 original size:24 final size:24
Alignment explanation
Indices: 243196--243264 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
243186 ACAACCTCAC
243196 CACCCTCACCTTCACCACCTTTAA
1 CACCCTCACCTTCACCACCTTTAA
* *
243220 CACCCTCACCATCACCACCTTTAT
1 CACCCTCACCTTCACCACCTTTAA
* * *
243244 CACCATCACCTTGACTACCTT
1 CACCCTCACCTTCACCACCTT
243265 CATTACCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.48, G:0.01, T:0.26
Consensus pattern (24 bp):
CACCCTCACCTTCACCACCTTTAA
Found at i:248539 original size:37 final size:37
Alignment explanation
Indices: 248498--248569 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
248488 TGTTTTGCTC
248498 GAACTT-AATTGCTTTATTGGTATTTTTAGATACAAAT
1 GAACTTGAA-TGCTTTATTGGTATTTTTAGATACAAAT
*
248535 GAACTTGAATGTTTTATTGGTATTTTTAGATACAA
1 GAACTTGAATGCTTTATTGGTATTTTTAGATACAA
248570 GTAATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (37 bp):
GAACTTGAATGCTTTATTGGTATTTTTAGATACAAAT
Found at i:249085 original size:20 final size:20
Alignment explanation
Indices: 249046--249105 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
249036 ATTTGAAACA
*
249046 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
249068 ATTTTAAACAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * *
249088 ATTTCAACCAAGTGAAAA
1 ATTTTAAACAAGTCAAAA
249106 CCATTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 26 0.76
21 3 0.09
22 5 0.15
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:255191 original size:6 final size:6
Alignment explanation
Indices: 255180--255210 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
255170 AAAGAAAGCT
255180 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA G
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA G
255211 TAATAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.16, G:0.19, T:0.00
Consensus pattern (6 bp):
GCAAAA
Found at i:263459 original size:175 final size:175
Alignment explanation
Indices: 263163--263513 Score: 558
Period size: 175 Copynumber: 2.0 Consensus size: 175
263153 CATGAGAGAA
263163 CAAAACACATTGATGTTCGGTATCATTTTGTGCATAATATTATTACTAGTGGGGATATTGTTGTG
1 CAAAACACATTGATGTTCGGTATCATTTTGTGCATAATATTATTACTAGTGGGGATATTGTTGTG
* * * *
263228 AGCAAAGTTAGTACTCATGAAAATCTTGTAGATATGATGACTAAGTGACTTCCCATAACTAAGTT
66 AGCAAAGTTAGTACTCATGAAAATCCTGCAGATATGATGACTAAGTCACTTCCCATAACCAAGTT
*
263293 TGAGTATTGCTTGGACTTGGTTGGTATTCATTATTAAAGAATACC
131 TGAGTATTACTTGGACTTGGTTGGTATTCATTATTAAAGAATACC
* * * * * * * *
263338 CAAAGCACATTGATGTTTGGTATCATTTTGTGCGTGATATTGTTGCTCGTGGGGATATTGTTTTG
1 CAAAACACATTGATGTTCGGTATCATTTTGTGCATAATATTATTACTAGTGGGGATATTGTTGTG
263403 AGCAAAGTTAGTACTCATGAAAATCCTGCAGATATGATGACTAAGTCACTTCCCATAACCAAGTT
66 AGCAAAGTTAGTACTCATGAAAATCCTGCAGATATGATGACTAAGTCACTTCCCATAACCAAGTT
* * *
263468 TGAGTATTACTTGGACTTGGTTGGTGTTCATTGTTGAAGAATACC
131 TGAGTATTACTTGGACTTGGTTGGTATTCATTATTAAAGAATACC
263513 C
1 C
263514 CTCAAGGGGT
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 160 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (175 bp):
CAAAACACATTGATGTTCGGTATCATTTTGTGCATAATATTATTACTAGTGGGGATATTGTTGTG
AGCAAAGTTAGTACTCATGAAAATCCTGCAGATATGATGACTAAGTCACTTCCCATAACCAAGTT
TGAGTATTACTTGGACTTGGTTGGTATTCATTATTAAAGAATACC
Found at i:263648 original size:41 final size:41
Alignment explanation
Indices: 263555--263650 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
263545 TTGTTCGTAG
*
263555 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
263596 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
*
263637 AGAGTTCTTGTTAA
1 AGAATTCTTGTTAA
263651 AATAAAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.36
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
Found at i:265873 original size:46 final size:46
Alignment explanation
Indices: 265820--265907 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
265810 AAGCGAATTG
* ** *
265820 ATGATAACTACAATATTTTCCAAGTGCATAACTAGTATTACACCAC
1 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACACCAC
265866 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACA
1 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACA
265908 AATTAGTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (46 bp):
ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACACCAC
Found at i:270495 original size:6 final size:6
Alignment explanation
Indices: 270484--270520 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
270474 TGCAATGAAT
270484 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA G
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA G
270521 AACGTTTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:271590 original size:23 final size:24
Alignment explanation
Indices: 271555--271603 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
271545 TAAATTTCAT
**
271555 AACTTTTTCAATATA-TAATATTA
1 AACTTTTGAAATATATTAATATTA
*
271578 AACTTTTGAAATATATTTATATTA
1 AACTTTTGAAATATATTAATATTA
271602 AA
1 AA
271604 AAACCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (24 bp):
AACTTTTGAAATATATTAATATTA
Found at i:273442 original size:2 final size:2
Alignment explanation
Indices: 273435--273468 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
273425 GTATTCTATT
273435 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
273469 TATATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:273494 original size:16 final size:16
Alignment explanation
Indices: 273469--273511 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
273459 CACACACACA
*
273469 TATATATTATTTACTT
1 TATATTTTATTTACTT
*
273485 TATATTTTATTTATTT
1 TATATTTTATTTACTT
*
273501 TATATTATATT
1 TATATTTTATT
273512 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATTTTATTTACTT
Found at i:286897 original size:50 final size:49
Alignment explanation
Indices: 286779--286957 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 49
286769 ATCATTCACT
* * *
286779 ATCTTATACCCCTAAAGCTTTAGAGGGGCAGATTAAAGCCGCAATGGCGA
1 ATCTTATA-CCCTAAAGCTATAGAGGGGCAGATTAAAGCCACAAGGGCGA
* *
286829 ATCTCAAACACCTAAAGCTATAGAGGGGCAGATTGAAA-CCACAAGGGCGA
1 ATCTTATAC-CCTAAAGCTATAGAGGGGCAGATT-AAAGCCACAAGGGCGA
* * * * * * * * *
286879 ATCTTATACCCTTGAAGCTGA-AAATGGGTAAATTAAAGCTATAAGAGCAA
1 ATCTTATACCC-TAAAGCT-ATAGAGGGGCAGATTAAAGCCACAAGGGCGA
*
286929 ATCTTATACCCCTAAAGTTATAGAGGGGC
1 ATCTTATA-CCCTAAAGCTATAGAGGGGC
286958 GAAATAAAAC
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
49 7 0.07
50 87 0.86
51 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (49 bp):
ATCTTATACCCTAAAGCTATAGAGGGGCAGATTAAAGCCACAAGGGCGA
Found at i:287144 original size:50 final size:51
Alignment explanation
Indices: 287086--287268 Score: 130
Period size: 50 Copynumber: 3.6 Consensus size: 51
287076 CCTTATCTCG
287086 CTGAAGTTGCAGTGGAGTAGGA-TGAAGCTACAAAACCAAATCTTATACCC
1 CTGAAGTTGCAGTGGAGTAGGATTGAAGCTACAAAACCAAATCTTATACCC
* * * ** *
287136 CTGAAGTTGTAGTGG-GTCA-GATTAAAG-T-CGTGAAAGTAAATCTT-TATCTCT
1 CTGAAGTTGCAGTGGAGT-AGGATTGAAGCTAC--AAAACCAAATCTTATA-C-CC
* * * * * *
287187 TTGAAGTTGCAATGGAGTAAGA-TGAAGCTACAACATCAAATCTTATATCC
1 CTGAAGTTGCAGTGGAGTAGGATTGAAGCTACAAAACCAAATCTTATACCC
* * *
287237 CTGAAGTTACAGT-GAATTGGATTGAAGCTACA
1 CTGAAGTTGCAGTGGAGTAGGATTGAAGCTACA
287269 TTTGCAAGTC
Statistics
Matches: 99, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
48 1 0.01
49 12 0.12
50 51 0.52
51 27 0.27
52 7 0.07
53 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
CTGAAGTTGCAGTGGAGTAGGATTGAAGCTACAAAACCAAATCTTATACCC
Done.