Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014103.1 Kokia drynarioides strain JFW-HI SEQ_129134, 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: 150115
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 65 characters in sequence are not A, C, G, or T
Found at i:141 original size:2 final size:2
Alignment explanation
Indices: 134--163 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
124 TAACATGTAA
134 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
164 ATATATNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:731 original size:21 final size:19
Alignment explanation
Indices: 692--754 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 19
682 TCGAAAAAAA
692 GTCAACGATCAAAGTCAACG
1 GTCAACGATC-AAGTCAACG
* *
712 GTTAACGATCAACGGTCAACA
1 GTCAACGATCAA--GTCAACG
733 GTCAACGATCAAGTCAACG
1 GTCAACGATCAAGTCAACG
752 GTC
1 GTC
755 GGTCAACGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.30
20 9 0.24
21 17 0.46
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (19 bp):
GTCAACGATCAAGTCAACG
Found at i:737 original size:14 final size:13
Alignment explanation
Indices: 689--754 Score: 71
Period size: 14 Copynumber: 5.0 Consensus size: 13
679 TTTTCGAAAA
*
689 AAAGTCAACGATC
1 AAAGTCAACGGTC
*
702 AAAGTCAACGGTT
1 AAAGTCAACGGTC
*
715 AACGATCAACGGTC
1 AAAG-TCAACGGTC
*
729 AACAGTCAACGATC
1 AA-AGTCAACGGTC
743 -AAGTCAACGGTC
1 AAAGTCAACGGTC
755 GGTCAACGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
12 10 0.23
13 15 0.34
14 18 0.41
15 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:780 original size:11 final size:11
Alignment explanation
Indices: 731--782 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
721 CAACGGTCAA
731 CAGTCAACGAT
1 CAGTCAACGAT
*
742 CAAGTCAACGGT
1 C-AGTCAACGAT
* *
754 CGGTCAACG-G
1 CAGTCAACGAT
764 CTAGTCAACGAT
1 C-AGTCAACGAT
776 CAGTCAA
1 CAGTCAA
783 TGATTGGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 1 0.03
11 21 0.64
12 11 0.33
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (11 bp):
CAGTCAACGAT
Found at i:792 original size:33 final size:34
Alignment explanation
Indices: 732--806 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
722 AACGGTCAAC
*
732 AGTCAACGATCAAGTCAACGGTCGGTCAACGGCT
1 AGTCAACGATCAAGTCAACGATCGGTCAACGGCT
* * *
766 AGTCAACGATC-AGTCAATGATTGGTCAATGGCT
1 AGTCAACGATCAAGTCAACGATCGGTCAACGGCT
799 AGTCAACG
1 AGTCAACG
807 GTTTGACTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 26 0.70
34 11 0.30
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (34 bp):
AGTCAACGATCAAGTCAACGATCGGTCAACGGCT
Found at i:9210 original size:18 final size:18
Alignment explanation
Indices: 9167--9210 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
9157 AATTTTAATT
*
9167 TAATTAAAAATGAGTGTG
1 TAATTAAAAATGAATGTG
*
9185 TAAATTAAATATGAATGTG
1 T-AATTAAAAATGAATGTG
9204 TAATTAA
1 TAATTAA
9211 TGGCGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (18 bp):
TAATTAAAAATGAATGTG
Found at i:9525 original size:90 final size:89
Alignment explanation
Indices: 9422--9712 Score: 329
Period size: 89 Copynumber: 3.2 Consensus size: 89
9412 TTTCGAAGAA
* * * * *
9422 TTTGGGGTCAAAATGTAATTTTGGAAAAATTTAAAGGTGAAAATGTAATTTTAGGTAAGTTTGGG
1 TTTGGGGTTAAAATGTAATTTTGGAAAAATTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTAGG
*
9487 GGTTAAAATGTAATTTTAGGAAGG
66 GGTTAAAATGTAATTTTAGGAAAG
* * *
9511 TTTGGGGGTTAAAATGTCATTTTAGG-AAAATTT-AGGGTTAAAATATGATTTTAGGAAAGTTTA
1 TTT-GGGGTTAAAATGTAATTTT-GGAAAAATTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9574 GGGGTTAAAATATGATTTTAGGAAAG
64 GGGGTTAAAATGTAATTTTAGGAAAG
* * * * * *
9600 TTTAAGGGTTAAAATGTGATTTT-GAGAAAGTTTAGGGGTTAAAATGTGATTTTTA-GAAAATTT
1 TTT-GGGGTTAAAATGTAATTTTGGA-AAAATTTAAGGGTTAAAATGT-AATTTTAGGAAAGTTT
* *
9663 AAGGGTTAAAATGTAATTTTTGGAAAG
63 AGGGGTTAAAATGTAATTTTAGGAAAG
9690 TTTGGGGTTCAAAATGTAATTTT
1 TTTGGGGTT-AAAATGTAATTTT
9713 TTAAACAAAA
Statistics
Matches: 169, Mismatches: 26, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
87 1 0.01
89 81 0.48
90 80 0.47
91 7 0.04
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.38
Consensus pattern (89 bp):
TTTGGGGTTAAAATGTAATTTTGGAAAAATTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTAGG
GGTTAAAATGTAATTTTAGGAAAG
Found at i:9713 original size:30 final size:30
Alignment explanation
Indices: 9425--9712 Score: 316
Period size: 30 Copynumber: 9.6 Consensus size: 30
9415 CGAAGAATTT
* *
9425 GGGGTCAAAATGTAATTTT-GGAAAAATTTA
1 GGGGTTAAAATGTAATTTTAGG-AAAGTTTA
** * * *
9455 AAGGTGAAAATGTAATTTTAGGTAAGTTTG
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9485 GGGGTTAAAATGTAATTTTAGGAAGGTTTG
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9515 GGGGTTAAAATGTCATTTTAGGAAAATTTA
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9545 -GGGTTAAAATATGATTTTAGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9574 GGGGTTAAAATATGATTTTAGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
* *
9604 AGGGTTAAAATGTGATTTT-GAGAAAGTTTA
1 GGGGTTAAAATGTAATTTTAG-GAAAGTTTA
* *
9634 GGGGTTAAAATGTGATTTTTA-GAAAATTTA
1 GGGGTTAAAATGT-AATTTTAGGAAAGTTTA
* *
9664 AGGGTTAAAATGTAATTTTTGGAAAGTTT-
1 GGGGTTAAAATGTAATTTTAGGAAAGTTTA
9693 GGGGTTCAAAATGTAATTTT
1 GGGGTT-AAAATGTAATTTT
9713 TTAAACAAAA
Statistics
Matches: 222, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
29 37 0.17
30 179 0.81
31 6 0.03
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTAGGAAAGTTTA
Found at i:10554 original size:22 final size:23
Alignment explanation
Indices: 10529--10571 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10519 AGTTTTGACC
* *
10529 TTTTTTTGTATT-TTTTTTAAAA
1 TTTTTTTATATTATATTTTAAAA
10551 TTTTTTTATATTATATTTTAA
1 TTTTTTTATATTATATTTTAA
10572 TGTTTGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTTTATATTATATTTTAAAA
Found at i:11932 original size:123 final size:123
Alignment explanation
Indices: 11706--11973 Score: 371
Period size: 123 Copynumber: 2.2 Consensus size: 123
11696 CATCTCTTGG
** * * *
11706 TCCACTTCTCTATATCTCATCAGGAAGATTGGGTTTGAAGTTTCACTCGTATTGAGTTTCGCTTC
1 TCCACTTCTCTATATCTCATCAGGAAGATTGGGTTTGAAGTTTCACTCACAGTGAGTTTCACTTA
* ***
11771 TTCGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTGA
66 TTCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTATTTTGA
**
11829 TCTGCTTCTCTATATCTCATCAGGAAGA-TGGAGTTTGAAGTTTCACTCACAGTGA-TCTTCACT
1 TCCACTTCTCTATATCTCATCAGGAAGATTGG-GTTTGAAGTTTCACTCACAGTGAGT-TTCACT
* *
11892 TAATT-GATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGTTTTTA
64 T-ATTCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTATTTTGA
11952 TCCACTTCTCTATATCTCATCA
1 TCCACTTCTCTATATCTCATCA
11974 AAAAGATGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
122 4 0.03
123 121 0.95
124 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (123 bp):
TCCACTTCTCTATATCTCATCAGGAAGATTGGGTTTGAAGTTTCACTCACAGTGAGTTTCACTTA
TTCGATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTATTTTGA
Found at i:12028 original size:48 final size:48
Alignment explanation
Indices: 11907--12029 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 48
11897 GATTTGGTCT
* * *
11907 ACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGTTTTTATCC
1 ACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGCTTTGACCC
* * * * *
11955 ACTTCTCTATATCTCATCAAAAAGATGATCGATTTATTGCTTTGACCC
1 ACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGCTTTGACCC
*
12003 ACTTCTCTGTATCTCATCAGGAAGATG
1 ACTTCTCTGTATCTCATCAGAAAGATG
12030 GGGGTTTGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGCTTTGACCC
Found at i:12097 original size:172 final size:171
Alignment explanation
Indices: 11833--12145 Score: 500
Period size: 172 Copynumber: 1.8 Consensus size: 171
11823 TTTTGATCTG
*
11833 CTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACAGTGATCTTCACTTAATTG
1 CTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACAGTGAGCTTCACTTAATTG
*
11898 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGTTTTTATCCACTTCTCT
66 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGATTTTATCCACTTCTCT
11963 ATATCTCATCAAAAAGATGATCGATTTATTGCTTTGACCCA
131 ATATCTCATCAAAAAGATGATCGATTTATTGCTTTGACCCA
* * * ** *
12004 CTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATT
1 CTTCTCTATATCTCATCAGGAAGAT-GGAGTTTGAAGTTTCACTCACAGTGAGCTTCACTTAATT
* ** *
12069 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTTATCCACTTCTG
65 GATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGATTTTATCCACTTCTC
*
12134 TGTATCTCATCA
130 TATATCTCATCA
12146 GGAAGGCGGA
Statistics
Matches: 128, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
171 24 0.19
172 104 0.81
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (171 bp):
CTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACAGTGAGCTTCACTTAATTG
ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCAATTCATTGATTTTATCCACTTCTCT
ATATCTCATCAAAAAGATGATCGATTTATTGCTTTGACCCA
Found at i:12191 original size:209 final size:209
Alignment explanation
Indices: 11952--12769 Score: 1226
Period size: 209 Copynumber: 4.0 Consensus size: 209
11942 ATTGTTTTTA
* * *
11952 TCCACTTCTCTATATCTCATCAAAAAGATGATCGATTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
12017 CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
66 CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
*
12082 TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTT-ATCCACTTCTGTGTATCTCATCA
131 TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTG-TTTTGATCCACTTCTCTGTATCTCATCA
12146 GGAAGGCGGATTTGG
195 GGAAGGCGGATTTGG
* *
12161 TCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
*
12226 CATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
66 CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
* * ** * *
12291 TCTCTATATCTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTCTATATCTCATC-G
131 TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAG
*
12355 AGAAGGCAGATTTGG
196 -GAAGGCGGATTTGG
* * * * *
12370 TCTACTTCTCTATATATCATCAGGAATATTACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
* * *
12435 CATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATGGAGC-TTGCTTCATTGATTTGGACTACT
66 CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
* * *
12499 TCTATGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATTCACTTCTTTGTATCTCATCAG
131 TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAG
12564 GAAGGCGGATTTGG
196 GAAGGCGGATTTGG
* * * *
12578 TCCACTTTTCTGTATCTTATCAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
1 TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
* * *
12643 CATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTAAGCTTTG-------GATTTGGTTTACT
66 CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
* *
12701 TCTTTGTATCTTA-CTAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCA
131 TCTCTGTATCTCATC-AGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCA
12765 GGAAG
195 GGAAG
12770 ATGACCGCTT
Statistics
Matches: 553, Mismatches: 51, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
201 1 0.00
202 74 0.13
208 188 0.34
209 290 0.52
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (209 bp):
TCCACTTCTCTATATCTCATCAAGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTATCT
CATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACT
TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAG
GAAGGCGGATTTGG
Found at i:12214 original size:85 final size:85
Alignment explanation
Indices: 12069--12235 Score: 255
Period size: 85 Copynumber: 2.0 Consensus size: 85
12059 TTGCTTCATT
* * * * *
12069 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTTATCCACTTCTG
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTGACCCACTTCTC
*
12134 TGTATCTCATCAGGAAGGCG
66 TGTATCTCATCAAGAAGGCG
*
12154 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATT-ACTTTGACCCACTTCT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGA-TTTGACCCACTTCT
12218 CTGTATCTCATCAAGAAG
65 CTGTATCTCATCAAGAAG
12236 ATGGGGGTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTGACCCACTTCTC
TGTATCTCATCAAGAAGGCG
Found at i:12423 original size:85 final size:84
Alignment explanation
Indices: 12278--12442 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 84
12268 TTGCTTCATT
* *
12278 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTATATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
12343 TATATCTCATCGAGAAGGCA
66 TATATCTCATC-AGAAGGCA
* * * * ** *
12363 GATTTGGTCTACTTCTCTATATATCATCAGGAATATTACCGCTTTATTGCTTTGACCCACTTCTC
1 GATTTGGTCTACTTCTCTATATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
*
12428 TGTATCTCATCAGAA
66 TATATCTCATCAGAA
12443 AGATGGGGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 4 0.06
85 66 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (84 bp):
GATTTGGTCTACTTCTCTATATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
TATATCTCATCAGAAGGCA
Found at i:12549 original size:48 final size:48
Alignment explanation
Indices: 12478--12655 Score: 146
Period size: 48 Copynumber: 3.9 Consensus size: 48
12468 CATGGAGCTT
* * *
12478 GCTTCATTGATTTGGA-CTACTTCTATGTATCTCATCAGGAAGATGACC
1 GCTTCATTG-TTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACC
** *
12526 GCTTCATTGTTTTGATTCACTTCTTTGTATCTCATCAGGAAG--G--C
1 GCTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACC
* ** * *
12570 G-------GATTTGGTCCACTTTTCTGTATCTTATCAGGAAGATGACC
1 GCTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACC
* *
12611 GCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATG
1 GCTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGATG
12656 GAGGTTTGAA
Statistics
Matches: 103, Mismatches: 15, Indels: 24
0.73 0.11 0.17
Matches are distributed among these distances:
37 28 0.27
39 1 0.01
41 2 0.02
44 2 0.02
46 1 0.01
47 5 0.05
48 64 0.62
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (48 bp):
GCTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACC
Found at i:12769 original size:48 final size:48
Alignment explanation
Indices: 12698--12820 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 48
12688 GATTTGGTTT
* * ** *
12698 ACTTCTTTGTATCTTA-CTAGGAAGATGACCGCTTCATTGTTTTGATCC
1 ACTTCTCTGTATCTCATC-AGGAAGATGACCGCTTCATTACTTTGACCC
*
12746 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCC
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTACTTTGACCC
*
12794 ACTTCTCTGTATCTCATCAAGAAGATG
1 ACTTCTCTGTATCTCATCAGGAAGATG
12821 GGGGTTTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 66 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTACTTTGACCC
Found at i:13063 original size:376 final size:373
Alignment explanation
Indices: 12373--13063 Score: 1062
Period size: 376 Copynumber: 1.8 Consensus size: 373
12363 GATTTGGTCT
* * *
12373 ACTTCTCTATATATCATCAGGAATATTACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTATATATCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCTCAT
12438 CAGAAAGATGGGGGTTTGAAGTTTCACTCACATGGAGCTTGCTTCATTGATTTGGACTACTTCTA
66 CAGAAAGATGGGGGTTTGAAGTTTCACTCACATGGAGCTTGCTTCATTGATTTGGACTACTTCTA
* * * * *
12503 TGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATTCACTTCTTTGTATCTCATCAGGAAG
131 TGTATCTCATCAAGAAGATGACCACTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAG
* * * *
12568 GCGGATTTGGTCCACTTTTCTGTATCTTATCAGGAAGATGACCGCTTTATTGCTTTGACCCACTT
196 GCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTGACCCACTT
*
12633 CTCTGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTAAGCTTTGGATTTGGTTT
261 CTCTATATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTAAGCTTTGGATTTGGTTT
12698 ACTTCTTTGTATCTTACTAGGAAGATGACCGCTTCATTGTTTTGATCC
326 ACTTCTTTGTATCTTACTAGGAAGATGACCGCTTCATTGTTTTGATCC
* *
12746 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTATATATCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCTCAT
* * * **
12811 CA-AGAAGATGGGGGTTTGAAGTTTCACTCACATTGTGCTTTGCTTCATTTATTTGGTTTTTACT
66 CAGA-AAGATGGGGGTTTGAAGTTTCACTCACATGGAGC-TTGCTTCATTGATTTGG--ACTACT
* * *
12875 TTTTTGTATCTCATCAAGAAGATGATCACTTCATTGATTTGATCCACTTCTCTGTATCTCATCAG
127 TCTATGTATCTCATCAAGAAGATGACCACTTCATTGATTTGATCCACTTCTCTGTATCTCATCAG
* *
12940 GAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTTCTTTGACCC
192 GAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTGACCC
* * * *
13005 ACTTCTCTATATCTTATTAGGAAGATAGG-GGTTTGAAGTTTCACTCATATTGAGCTTTG
257 ACTTCTCTATATCTCATCAGGAAGAT-GGAGGTTTGAAGTTTCACTCACATTAAGCTTTG
13064 CTTCATTGAT
Statistics
Matches: 284, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
372 1 0.00
373 94 0.33
374 16 0.06
376 171 0.60
377 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (373 bp):
ACTTCTCTATATATCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCTCAT
CAGAAAGATGGGGGTTTGAAGTTTCACTCACATGGAGCTTGCTTCATTGATTTGGACTACTTCTA
TGTATCTCATCAAGAAGATGACCACTTCATTGATTTGATCCACTTCTCTGTATCTCATCAGGAAG
GCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTGACCCACTT
CTCTATATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTAAGCTTTGGATTTGGTTT
ACTTCTTTGTATCTTACTAGGAAGATGACCGCTTCATTGTTTTGATCC
Found at i:13181 original size:209 final size:209
Alignment explanation
Indices: 12738--14079 Score: 1792
Period size: 209 Copynumber: 6.4 Consensus size: 209
12728 GCTTCATTGT
*
12738 TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* * *
12803 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGTGCTTTGCTTCATTTATTTGGT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG-
* * * * * * *
12868 TTTTACTTTTTTGTATCTCATCAAGAAGATGATCACTTCATTGATTTGATCCACTTCTCTGTATC
130 -TCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATC
12933 TCATCAGGAAGGCGAA
194 TCATCAGGAAGGCGAA
* * * *
12949 TTTGGTCCACTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTTCTTTGACCCACTTCTCTA
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* * * * *
13014 TATCTTATTAGGAAGATAGGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCATTGATATGGT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
* * *** * *
13079 TTACTTCTCTATATCTCATCAGGAAGATGATTGCCTCATTGATTTAATTCACTTCTCTATATCTC
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATCTC
*
13144 ATCAAGAAGGCGAA
196 ATCAGGAAGGCGAA
* * *
13158 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTTATTGCTTTGACCCACTT-TGTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCT-CT
*
13222 GTATCTCATCAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
65 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
* **
13287 TCTACTTCACTGTATCTCATCAGGAAGATGACCACCTCATCAATTTAATCCACTTCTCTGTATCT
130 TCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATCT
* * *
13352 CATCAAGAAGGTGGA
195 CATCAGGAAGGCGAA
* * * * *
13367 TTTGGTCCACTTCTCTGTATCTCATCAGAAAGATTACCACTTTATTGCTTTGACCCACATCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* *
13432 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGC-TTGCTTCATTGATTTAGA
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
* * * * *
13496 CTACTTCTATGTATCTCATCAGGAAGATAACCACTTCATTG-TCTTGATCCACTTCTTTGTATCT
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGAT-TTAATCCACTTCTCTGTATCT
*
13560 TATCAGGAAGGCGAA
195 CATCAGGAAGGCGAA
* * * * * * *
13575 TTTGGTCCACTTTTTTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTAACTCACTTTTTTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* ** * * * *
13640 TATCTCATAAAAAATATGGGGGTTTGAAGCTTCACTCACATTAAGCTTTGCTTCATTGATTTGTT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
* * * ** * ** *
13705 CTACTTCTCTGTACCTAATCAGGAAGACGACTGCCTCATTAATTTAATTAACTTCTCTATATCTC
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATCTC
*
13770 ATCAGGAAGGCGGA
196 ATCAGGAAGGCGAA
* * * *
13784 TTTGGTCTACTTCTCTATATCTCATGAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* *
13849 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCAGTCACATTGAGCTTTGCTTCATTGATTTGGT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
* * *
13914 CTACTTCTCTGTATCTCATCAGGAAGATGACC-GCTCATTGATTTAATTCACTTCTTTGTATCTC
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATCTC
* *
13978 ATCAGGAAGGTGGA
196 ATCAGGAAGGCGAA
* * * * * *
13992 TTTTGTTCACTTCTCTATATCTCATTAGGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
14057 TATCTCATCAGGAAGATGGGGGT
66 TATCTCATCAGGAAGATGGGGGT
14080 ACATGAATCT
Statistics
Matches: 986, Mismatches: 140, Indels: 13
0.87 0.12 0.01
Matches are distributed among these distances:
207 1 0.00
208 295 0.30
209 572 0.58
210 2 0.00
211 116 0.12
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (209 bp):
TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTGATTTAATCCACTTCTCTGTATCTC
ATCAGGAAGGCGAA
Found at i:13430 original size:85 final size:85
Alignment explanation
Indices: 13280--13446 Score: 217
Period size: 85 Copynumber: 2.0 Consensus size: 85
13270 TTGCTTCATT
* * * *
13280 GATTTGGTCTACTTCACTGTATCTCATCAGGAAGATGACCACCTCATCAATTTAATCCACTTCTC
1 GATTTGGTCCACTTCACTGTATCTCATCAGAAAGATGACCACCTCATCAATTTAACCCACATCTC
13345 TGTATCTCATCAAGAAGGTG
66 TGTATCTCATCAAGAAGGTG
* * * * *** *
13365 GATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATTACCACTTTATTGCTTTGACCCACATCTC
1 GATTTGGTCCACTTCACTGTATCTCATCAGAAAGATGACCACCTCATCAATTTAACCCACATCTC
*
13430 TGTATCTCATCAGGAAG
66 TGTATCTCATCAAGAAG
13447 ATGGGGGTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (85 bp):
GATTTGGTCCACTTCACTGTATCTCATCAGAAAGATGACCACCTCATCAATTTAACCCACATCTC
TGTATCTCATCAAGAAGGTG
Found at i:13681 original size:417 final size:417
Alignment explanation
Indices: 12738--14079 Score: 1862
Period size: 417 Copynumber: 3.2 Consensus size: 417
12728 GCTTCATTGT
*
12738 TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* *
12803 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGTGCTTTGCTTCATTTATTTGGT
66 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG-
* * * * * * * *
12868 TTTTACTTTTTTGTATCTCATCAAGAAGATGATCACTTCATTGATTTGATCCACTTCTCTGTATC
130 -TCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTAATTTAATCCACTTCTCTGTATC
* * *
12933 TCATCAGGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTTCT
194 TCATCAGGAAGGCGGATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCT
* * * * *
12998 TTGACCCACTTCTCTATATCTTATTAGGAAGATAGGGGTTTGAAGTTTCACTCATATTGAGCTTT
259 TTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTT
* * * **
13063 GCTTCATTGATATGGTTTACTTCTCTATATCTCATCAGGAAGATGATTGCCTCATTGATTTAATT
324 GCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCG-CTCATTGATTTAATT
* * *
13128 CACTTCTCTATATCTCATCAAGAAGGCGAA
388 CACTTCTTTGTATCTCATCAGGAAGGCGAA
* * *
13158 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTTATTGCTTTGACCCACTT-TGTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCT-CT
* *
13222 GTATCTCATCAGGAAGATAGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
65 GTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
* *
13287 TCTACTTCACTGTATCTCATCAGGAAGATGACCACCTCATCAATTTAATCCACTTCTCTGTATCT
130 TCTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTAATTTAATCCACTTCTCTGTATCT
* * * * * *
13352 CATCAAGAAGGTGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATTACCACTTTATTGCTT
195 CATCAGGAAGGCGGATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTT
*
13417 TGACCCACATCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGC-TTG
260 TGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTG
* * * * * * *
13481 CTTCATTGATTTAGACTACTTCTATGTATCTCATCAGGAAGATAACCACTTCATTG-TCTTGATC
325 CTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGC-TCATTGAT-TTAATT
*
13545 CACTTCTTTGTATCTTATCAGGAAGGCGAA
388 CACTTCTTTGTATCTCATCAGGAAGGCGAA
* * * * * * *
13575 TTTGGTCCACTTTTTTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTAACTCACTTTTTTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* * * * * *
13640 TATCTCATAAAAAATATGGGGGTTTGAAGCTTCACTCACATTAAGCTTTGCTTCATTGATTTGTT
66 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
* * * ** ** *
13705 CTACTTCTCTGTACCTAATCAGGAAGACGACTGCCTCATTAATTTAATTAACTTCTCTATATCTC
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTAATTTAATCCACTTCTCTGTATCTC
* *
13770 ATCAGGAAGGCGGATTTGGTCTACTTCTCTATATCTCATGAGGAAGATGACCGCTTTATTGCTTT
196 ATCAGGAAGGCGGATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTT
* *
13835 GACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCAGTCACATTGAGCTTTGC
261 GACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGC
13900 TTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTCATTGATTTAATTCAC
326 TTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTCATTGATTTAATTCAC
* *
13965 TTCTTTGTATCTCATCAGGAAGGTGGA
391 TTCTTTGTATCTCATCAGGAAGGCGAA
* * * * * *
13992 TTTTGTTCACTTCTCTATATCTCATTAGGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
*
14057 TATCTCATCAGGAAGATGGGGGT
66 TATCTCATCAAGAAGATGGGGGT
14080 ACATGAATCT
Statistics
Matches: 806, Mismatches: 110, Indels: 15
0.87 0.12 0.02
Matches are distributed among these distances:
416 2 0.00
417 469 0.58
418 215 0.27
419 1 0.00
420 119 0.15
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (417 bp):
TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGT
CTACTTCTCTGTATCTCATCAGGAAGATGACCACCTCATTAATTTAATCCACTTCTCTGTATCTC
ATCAGGAAGGCGGATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTT
GACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGC
TTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTCATTGATTTAATTCAC
TTCTTTGTATCTCATCAGGAAGGCGAA
Found at i:13689 original size:626 final size:627
Alignment explanation
Indices: 12738--14079 Score: 1983
Period size: 626 Copynumber: 2.1 Consensus size: 627
12728 GCTTCATTGT
*
12738 TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
* * * *
12803 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGTGCTTTGCTTCATTTATTTGGT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTAG-
** * * * *
12868 TTTTACTTTTTTGTATCTCATCAAGAAGATGATCACTTCATTGATTTGATCCACTTCTCTGTATC
130 TACTACTTCTATGTATCTCATCAAGAAGATAACCACTTCATTGATTTGATCCACTTCTCTGTATC
* *
12933 TCATCAGGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGATCGCTTTATTTCT
195 TCATCAGGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTACT
* * * ** * * *
12998 TTGACCCACTTCTCTATATCTTATTAGGAAGATAGGGGTTTGAAGTTTCACTCATATTGAGCTTT
260 TTAACCCACTTCTCTATATCTCATAAAAAAGATAGGGGTTTGAAGCTTCACTCACATTAAGCTTT
* * * * *
13063 GCTTCATTGATATGGTT-TACTTCTCTATATCTCATCAGGAAGATGATTGCCTCATTGATTTAAT
325 GCTTCATTGAT-TGGTTCTACTTCTCTATACCTAATCAGGAAGACGACTGCCTCATTAATTTAAT
* *
13127 TCACTTCTCTATATCTCATCAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGAT
389 TAACTTCTCTATATCTCATCAAGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGAT
* * *
13192 GACTGCTTTATTGCTTTGACCCACTT-TGTTGTATCTCATCAGGAAGATAGGGGTTTGAAGTTTC
454 GACCGCTTTATTGCTTTGACCCACTTCT-CTGTATCTCATCAAGAAGATAGGGGTTTGAAGTTTC
13256 ACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCACTGTATCTCATCAGGAAGATGACCA
518 ACTCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCACTGTATCTCATCAGGAAGATGACC-
13321 CCTCATCAATTTAATCCACTTCTCTGTATCTCATCAAGAAGGTGGA
582 CCTCATCAATTTAATCCACTTCTCTGTATCTCATCAAGAAGGTGGA
* * * * *
13367 TTTGGTCCACTTCTCTGTATCTCATCAGAAAGATTACCACTTTATTGCTTTGACCCACATCTCTG
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
13432 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGC-TTGCTTCATTGATTTAG-
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTAGT
* *
13495 ACTACTTCTATGTATCTCATCAGGAAGATAACCACTTCATTG-TCTTGATCCACTTCTTTGTATC
131 ACTACTTCTATGTATCTCATCAAGAAGATAACCACTTCATTGAT-TTGATCCACTTCTCTGTATC
* * * *
13559 TTATCAGGAAGGCGAATTTGGTCCACTTTTTTGTATCTCATCAGGAAGATGACCGCTTTATTACT
195 TCATCAGGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTACT
* * * * * *
13624 TTAACTCACTTTTTTTTATCTCATAAAAAATATGGGGGTTTGAAGCTTCACTCACATTAAGCTTT
260 TTAACCCACTTCTCTATATCTCATAAAAAAGATAGGGGTTTGAAGCTTCACTCACATTAAGCTTT
* *
13689 GCTTCATTGATTTGTTCTACTTCTCTGTACCTAATCAGGAAGACGACTGCCTCATTAATTTAATT
325 GCTTCATTGATTGGTTCTACTTCTCTATACCTAATCAGGAAGACGACTGCCTCATTAATTTAATT
* * * *
13754 AACTTCTCTATATCTCATCAGGAAGGCGGATTTGGTCTACTTCTCTATATCTCATGAGGAAGATG
390 AACTTCTCTATATCTCATCAAGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATG
* *
13819 ACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCAG
455 ACCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATAGGGGTTTGAAGTTTCAC
* *
13884 TCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCT
520 TCACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCACTGTATCTCATCAGGAAGATGACCCCT
** * * *
13949 CATTGATTTAATTCACTTCTTTGTATCTCATCAGGAAGGTGGA
585 CATCAATTTAATCCACTTCTCTGTATCTCATCAAGAAGGTGGA
* * * * * *
13992 TTTTGTTCACTTCTCTATATCTCATTAGGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTT
1 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
14057 TATCTCATCAGGAAGATGGGGGT
66 TATCTCATCAGGAAGATGGGGGT
14080 ACATGAATCT
Statistics
Matches: 636, Mismatches: 74, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
625 122 0.19
626 395 0.62
627 1 0.00
628 15 0.02
629 103 0.16
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (627 bp):
TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTG
TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTAGT
ACTACTTCTATGTATCTCATCAAGAAGATAACCACTTCATTGATTTGATCCACTTCTCTGTATCT
CATCAGGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTACTT
TAACCCACTTCTCTATATCTCATAAAAAAGATAGGGGTTTGAAGCTTCACTCACATTAAGCTTTG
CTTCATTGATTGGTTCTACTTCTCTATACCTAATCAGGAAGACGACTGCCTCATTAATTTAATTA
ACTTCTCTATATCTCATCAAGAAGGCGAATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGA
CCGCTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATAGGGGTTTGAAGTTTCACT
CACATTGAGCTTTGCTTCATTGATTTGGTCTACTTCACTGTATCTCATCAGGAAGATGACCCCTC
ATCAATTTAATCCACTTCTCTGTATCTCATCAAGAAGGTGGA
Found at i:20142 original size:22 final size:22
Alignment explanation
Indices: 20111--20164 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
20101 ATACTACACT
20111 AAAGAGCACCGAAGA-GCTAAAC
1 AAAGAGCACCGAA-ATGCTAAAC
* *
20133 AGAGATCACCGAAATGCTAAAC
1 AAAGAGCACCGAAATGCTAAAC
20155 AAAGAGCACC
1 AAAGAGCACC
20165 AGAGTGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.07
Consensus pattern (22 bp):
AAAGAGCACCGAAATGCTAAAC
Found at i:20682 original size:20 final size:20
Alignment explanation
Indices: 20657--20698 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
20647 ACATTTACTT
*
20657 ATATGCATATTCCATTTTAA
1 ATATGCATATGCCATTTTAA
20677 ATATGCATATGCCATTTTAA
1 ATATGCATATGCCATTTTAA
20697 AT
1 AT
20699 TTTCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATGCATATGCCATTTTAA
Found at i:23346 original size:31 final size:31
Alignment explanation
Indices: 23291--23358 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
23281 CAAGTTAAAT
* * *
23291 CTTGAACTTGGCAATTGATTCCACATTGGGG
1 CTTGAACTTGACAATTGATTCCACATTAGAG
*
23322 CTTGAACTTGACAATT-TTTCCCACATTAGAG
1 CTTGAACTTGACAATTGATT-CCACATTAGAG
23353 CTTGAA
1 CTTGAA
23359 AATTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (31 bp):
CTTGAACTTGACAATTGATTCCACATTAGAG
Found at i:23422 original size:31 final size:30
Alignment explanation
Indices: 23384--23445 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
23374 AGTTAAACCT
23384 TAAACTTAATAATTGTTCTCACATTGAGAGC
1 TAAACTTAATAATTGTTCTCACATT-AGAGC
* *
23415 TAAACTTAATAATTGTTTTCATATTAGAGC
1 TAAACTTAATAATTGTTCTCACATTAGAGC
23445 T
1 T
23446 TGATTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (30 bp):
TAAACTTAATAATTGTTCTCACATTAGAGC
Found at i:27668 original size:18 final size:17
Alignment explanation
Indices: 27645--27678 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27635 TATATTAATC
27645 ATATTTTATTAACTAAAA
1 ATATTTTATTAA-TAAAA
*
27663 ATATTTTTTTAATAAA
1 ATATTTTATTAATAAA
27679 TGAAATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTTATTAATAAAA
Found at i:36763 original size:18 final size:18
Alignment explanation
Indices: 36728--36764 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36718 TGAGTTTTCG
* *
36728 AATTCGAATAACTTGAAT
1 AATTCGAATAAATCGAAT
36746 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
36764 A
1 A
36765 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:41554 original size:28 final size:28
Alignment explanation
Indices: 41476--41614 Score: 154
Period size: 28 Copynumber: 4.9 Consensus size: 28
41466 TAATTACCGA
*
41476 AAAGTGAGCCTTTATGGCTGAATCTGTT
1 AAAGTGAGCCTTTATGGCTGATTCTGTT
* *
41504 AAATGTGAGCCTTTTTGGCTGATTTTGTT
1 AAA-GTGAGCCTTTATGGCTGATTCTGTT
* * *
41533 AAAGAGAGTCTTTATGGTTGATTCTGTT
1 AAAGTGAGCCTTTATGGCTGATTCTGTT
* * * *
41561 AAA-TAGAACCTTTGTGACTGATTCTATT
1 AAAGT-GAGCCTTTATGGCTGATTCTGTT
*
41589 AAAGTGAGCCTTTTTGGCTGATTCTG
1 AAAGTGAGCCTTTATGGCTGATTCTG
41615 CAAAGGATGC
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
28 63 0.71
29 26 0.29
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (28 bp):
AAAGTGAGCCTTTATGGCTGATTCTGTT
Found at i:41611 original size:56 final size:57
Alignment explanation
Indices: 41476--41614 Score: 172
Period size: 56 Copynumber: 2.5 Consensus size: 57
41466 TAATTACCGA
* * * * * * *
41476 AAAGTGAGCCTTTATGGCTGAATCTGTTAAATGTGAGCCTTTTTGGCTGATTTTGTT
1 AAAGTGAGCCTTTATGGCTGATTCTGTTAAATGAGAACCTTTGTGACTGATTCTATT
* * *
41533 AAAGAGAGTCTTTATGGTTGATTCTGTTAAAT-AGAACCTTTGTGACTGATTCTATT
1 AAAGTGAGCCTTTATGGCTGATTCTGTTAAATGAGAACCTTTGTGACTGATTCTATT
*
41589 AAAGTGAGCCTTTTTGGCTGATTCTG
1 AAAGTGAGCCTTTATGGCTGATTCTG
41615 CAAAGGATGC
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 40 0.59
57 28 0.41
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (57 bp):
AAAGTGAGCCTTTATGGCTGATTCTGTTAAATGAGAACCTTTGTGACTGATTCTATT
Found at i:41655 original size:29 final size:29
Alignment explanation
Indices: 41618--41737 Score: 132
Period size: 29 Copynumber: 4.1 Consensus size: 29
41608 GATTCTGCAA
*
41618 AGGATGCCTTCGTGGCAATCTATTGTTTG
1 AGGATGCCTTCGTGGCTATCTATTGTTTG
* ** *
41647 AGGACGCCTTTATGGCTATATATTGTTTG
1 AGGATGCCTTCGTGGCTATCTATTGTTTG
* * *
41676 AGGATGCCTTCGTGGTTATCAATTGTTAG
1 AGGATGCCTTCGTGGCTATCTATTGTTTG
* * * *
41705 AGGATGCTTTCGTGGTTATTTATTGTTTA
1 AGGATGCCTTCGTGGCTATCTATTGTTTG
41734 AGGA
1 AGGA
41738 CACCTCTATG
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (29 bp):
AGGATGCCTTCGTGGCTATCTATTGTTTG
Found at i:44996 original size:15 final size:16
Alignment explanation
Indices: 44976--45013 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44966 TGGCTTTCTT
44976 AATAATA-AAAAAAAC
1 AATAATATAAAAAAAC
*
44991 AATAATATATAAAAAC
1 AATAATATAAAAAAAC
45007 ATATAAT
1 A-ATAAT
45014 TGAATAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAATATAAAAAAAC
Found at i:46913 original size:140 final size:140
Alignment explanation
Indices: 46661--46936 Score: 507
Period size: 140 Copynumber: 2.0 Consensus size: 140
46651 ACTACCTCTA
46661 AAATGTCATCATGTCGGCCATCATAAGTTCTACTATGTAGATTTTGTGGAATGGGGTGCCTACTC
1 AAATGTCATCATGTCGGCCATCATAAGTTCTACTATGTAGATTTTGTGGAATGGGGTGCCTACTC
* * *
46726 AAAAGTTCAGGCCCGTTAGGGGCATCAGGCAAGGGTATCCTTTGTCACCTTATCTGTTTGTTCTT
66 AAAAGTCCAGACCCGTTAGGGGCATCAGGCAAGGGTATCCTTTGTCACCTTATCTATTTGTTCTT
46791 TGTATGTCTG
131 TGTATGTCTG
*
46801 AAATGTCATCATGTCGGCCATCATAAGTTCTACTGTGTAGATTTTGTGGAATGGGGTGCCTACTC
1 AAATGTCATCATGTCGGCCATCATAAGTTCTACTATGTAGATTTTGTGGAATGGGGTGCCTACTC
*
46866 AAAAGTCCAGACCCGTTAGGGGCATCAGGCAAGGGTGTCCTTTGTCACCTTATCTATTTGTTCTT
66 AAAAGTCCAGACCCGTTAGGGGCATCAGGCAAGGGTATCCTTTGTCACCTTATCTATTTGTTCTT
46931 TGTATG
131 TGTATG
46937 AAATGATTGG
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 131 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (140 bp):
AAATGTCATCATGTCGGCCATCATAAGTTCTACTATGTAGATTTTGTGGAATGGGGTGCCTACTC
AAAAGTCCAGACCCGTTAGGGGCATCAGGCAAGGGTATCCTTTGTCACCTTATCTATTTGTTCTT
TGTATGTCTG
Found at i:50473 original size:34 final size:34
Alignment explanation
Indices: 50419--50483 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
50409 TATGCACAGA
*
50419 CTTTAACTTCACCACTTAGCTTTCTTTGTATTGG
1 CTTTAACTTCACCACATAGCTTTCTTTGTATTGG
* *
50453 CTTTTACTTCTCCACATAGCTTTCTTTGTAT
1 CTTTAACTTCACCACATAGCTTTCTTTGTAT
50484 GCATAATAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.17, C:0.25, G:0.09, T:0.49
Consensus pattern (34 bp):
CTTTAACTTCACCACATAGCTTTCTTTGTATTGG
Found at i:51396 original size:21 final size:21
Alignment explanation
Indices: 51346--51396 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
51336 GTAAGACATC
*
51346 TACCAATAAAAGTCATGCTTT
1 TACCAATACAAGTCATGCTTT
*
51367 TACCGATACAAGTCATGCTTT
1 TACCAATACAAGTCATGCTTT
*
51388 TATCAATAC
1 TACCAATAC
51397 TAAAAACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (21 bp):
TACCAATACAAGTCATGCTTT
Found at i:54084 original size:17 final size:17
Alignment explanation
Indices: 54064--54100 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
54054 ACTACAATGC
54064 AAATGTACTAACAAATA
1 AAATGTACTAACAAATA
* *
54081 AAATGTAGTGACAAATA
1 AAATGTACTAACAAATA
54098 AAA
1 AAA
54101 ATGCAATGAC
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:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (17 bp):
AAATGTACTAACAAATA
Found at i:54103 original size:18 final size:18
Alignment explanation
Indices: 54064--54117 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
54054 ACTACAATGC
* *
54064 AAATGTACTAACAAAT-A
1 AAATGTAATGACAAATAA
*
54081 AAATGTAGTGACAAATAA
1 AAATGTAATGACAAATAA
* *
54099 AAATGCAATGACAACTAA
1 AAATGTAATGACAAATAA
54117 A
1 A
54118 TGACATGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.20
Consensus pattern (18 bp):
AAATGTAATGACAAATAA
Found at i:65715 original size:44 final size:43
Alignment explanation
Indices: 65585--65717 Score: 203
Period size: 44 Copynumber: 3.0 Consensus size: 43
65575 ATTTCAATGA
* *
65585 TCGATATATGATTTACTCCCTGTTGACCCAAAGGTCATGCCTAT
1 TCGATATCTGATTTACT-CCTGTTGACCCAAAGGTCATGCCTGT
*
65629 TTGATATCTGATTTACTCCTTGTTGACCCAAAGGTCATGCCTGT
1 TCGATATCTGATTTACTCC-TGTTGACCCAAAGGTCATGCCTGT
*
65673 TCGATATCTGATTTACTCTCTGTTGACCCAATGGTCATGCCTGT
1 TCGATATCTGATTTACTC-CTGTTGACCCAAAGGTCATGCCTGT
65717 T
1 T
65718 ACCAGTATAC
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
43 2 0.02
44 79 0.96
45 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (43 bp):
TCGATATCTGATTTACTCCTGTTGACCCAAAGGTCATGCCTGT
Found at i:67648 original size:22 final size:19
Alignment explanation
Indices: 67615--67654 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
67605 TGCTTATACT
67615 AAATTTTAATTCAATAATTA
1 AAATTTTAATTCAA-AATTA
67635 AAATTCTTCAATTCAAAATT
1 AAATT-TT-AATTCAAAATT
67655 CCATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTAATTCAAAATTA
Found at i:68535 original size:28 final size:28
Alignment explanation
Indices: 68482--68535 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
68472 GAAGTCCTCC
* *
68482 TTTAATAGAGTTAGCCACGAAAGCTTTT
1 TTTAATAGAGATAACCACGAAAGCTTTT
* *
68510 TTTAATAGAGATAACCATGAAGGCTT
1 TTTAATAGAGATAACCACGAAAGCTT
68536 CCTCTAGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (28 bp):
TTTAATAGAGATAACCACGAAAGCTTTT
Found at i:69395 original size:26 final size:26
Alignment explanation
Indices: 69366--69420 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
69356 CACCTAGGAA
*
69366 TGTCATTGCATGAACATGTACAAAAT
1 TGTCACTGCATGAACATGTACAAAAT
* *
69392 TGTCACTGCATGAACGTGTCCAAAAT
1 TGTCACTGCATGAACATGTACAAAAT
69418 TGT
1 TGT
69421 GCCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
TGTCACTGCATGAACATGTACAAAAT
Found at i:69742 original size:25 final size:25
Alignment explanation
Indices: 69708--69766 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
69698 TACTCTTGAC
69708 GAGGAGCATCCTAAATGCGACGCAA
1 GAGGAGCATCCTAAATGCGACGCAA
69733 GAGGAGCATCCTAAATGCGACGCAA
1 GAGGAGCATCCTAAATGCGACGCAA
69758 GAGGAGCAT
1 GAGGAGCAT
69767 TTATGGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.31, T:0.12
Consensus pattern (25 bp):
GAGGAGCATCCTAAATGCGACGCAA
Found at i:74562 original size:24 final size:24
Alignment explanation
Indices: 74535--74583 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
74525 TATATTGAGA
74535 TATACAATCCAAAAAGATATGGGT
1 TATACAATCCAAAAAGATATGGGT
74559 TATACAATCCAAAAAGATATGGGT
1 TATACAATCCAAAAAGATATGGGT
74583 T
1 T
74584 GACTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (24 bp):
TATACAATCCAAAAAGATATGGGT
Found at i:75735 original size:65 final size:68
Alignment explanation
Indices: 75655--75808 Score: 190
Period size: 69 Copynumber: 2.3 Consensus size: 68
75645 ATTAAAATTT
* * **
75655 CCTCTTCACGTCTCTACAA-TCCCTGT-TGCTA-TTTTTT-TGGCAACTGCTTTGCTGGACAATT
1 CCTCTTCACGTCTCTACAACCCCCT-TCTGCTATTTTTTTCTAGCAACTGCTTTGCCAGACAATT
*
75716 GTTG
65 GCTG
* **
75720 CCTCTTCACGTCTCTACAACCCCCTTCTGCTATTTTTTTTCTATCAACTGCTTTGCCATTCAATT
1 CCTCTTCACGTCTCTACAACCCCCTTCTGCTA-TTTTTTTCTAGCAACTGCTTTGCCAGACAATT
75785 GCTG
65 GCTG
75789 CCTCTTCACGTCTCTACAAC
1 CCTCTTCACGTCTCTACAAC
75809 TGCTCCCCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
65 20 0.26
66 9 0.12
68 6 0.08
69 41 0.54
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (68 bp):
CCTCTTCACGTCTCTACAACCCCCTTCTGCTATTTTTTTCTAGCAACTGCTTTGCCAGACAATTG
CTG
Found at i:78931 original size:12 final size:12
Alignment explanation
Indices: 78905--78937 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78895 AAACAATTCA
*
78905 TTCTCTCT-TTT
1 TTCTCTCTAGTT
78916 TTCTCTCTAGTT
1 TTCTCTCTAGTT
78928 TTCTCTCTAG
1 TTCTCTCTAG
78938 CCTTCCATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.06, C:0.27, G:0.06, T:0.61
Consensus pattern (12 bp):
TTCTCTCTAGTT
Found at i:83953 original size:30 final size:30
Alignment explanation
Indices: 83914--83995 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
83904 CAAATTATTT
* *
83914 TAAATTTATTAAAATTATTTTTTTAAAAT-A
1 TAAAATTATTAAAATTA-ATTTTTAAAATAA
*
83944 TAAAATTATTAAAATTAATTTTTGAAATAA
1 TAAAATTATTAAAATTAATTTTTAAAATAA
* *
83974 TAAAATTATGAAAAATAATTTT
1 TAAAATTATTAAAATTAATTTT
83996 AATTTCTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 9 0.20
30 37 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TAAAATTATTAAAATTAATTTTTAAAATAA
Found at i:84869 original size:30 final size:30
Alignment explanation
Indices: 84812--84888 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 30
84802 AATTAAAATT
84812 ATTTAATAATTTTAATTATTTCAAAAAAAAA
1 ATTTAATAATTTTAATTATTT-AAAAAAAAA
*
84843 ATTTGAATAATTTTATATT-TTTAAAAAATAA
1 ATTT-AATAATTTTA-ATTATTTAAAAAAAAA
*
84874 TTTTAATAATTTTAA
1 ATTTAATAATTTTAA
84889 AATAATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 1 0.02
30 10 0.24
31 15 0.36
32 13 0.31
33 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTTAATAATTTTAATTATTTAAAAAAAAA
Found at i:84872 original size:21 final size:22
Alignment explanation
Indices: 84848--84890 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
84838 AAAAAATTTG
*
84848 AATAATTTT-ATATTTTTAAAA
1 AATAATTTTAATAATTTTAAAA
84869 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
84891 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:84892 original size:20 final size:20
Alignment explanation
Indices: 84848--84896 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
84838 AAAAAATTTG
*
84848 AATAATTTTATATTTTTAAAA
1 AATAATTTTATAATTTT-AAA
84869 AATAATTTTAATAATTTT-AA
1 AATAATTTT-ATAATTTTAAA
84889 AATAATTT
1 AATAATTT
84897 ATTAACGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 9 0.35
22 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTATAATTTTAAA
Found at i:87281 original size:131 final size:130
Alignment explanation
Indices: 87046--87307 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 130
87036 ATCTTCACTG
87046 GAGTAGATCTTGAGGAGTGGCTGGCTTCCGCTTAGGATTTTTTTGAGTTCTACTAGATCGAAGAC
1 GAGTAGATCTTGAGGAGTGGCTGGCTTCCGCTTAGGATTTTTTTGAGTTCTACTAGATCGAAGAC
87111 CACCACTGTGACACCATGGCATCGTTTCGAATGGAAGGGCCGACGAAATGCTGGTATCGCTGGAT
66 CACCACTGTGACACCATGGCATCGTTTCGAATGGAAGGGCCGACGAAATGCTGGTATCGCTGGAT
87176 GNAGTAGATCTTGAGGAGTGGCTGGCTTCCGCTTAGGATTTTTTTGAGTTCTACTAGATCGAAGA
1 G-AGTAGATCTTGAGGAGTGGCTGGCTTCCGCTTAGGATTTTTTTGAGTTCTACTAGATCGAAGA
*
87241 CCACCACTGTGTCACCATGGCATCGTTTCGAATGGAAGGGCCGACGAAATGCTGGTATCGCTGGA
65 CCACCACTGTGACACCATGGCATCGTTTCGAATGGAAGGGCCGACGAAATGCTGGTATCGCTGGA
87306 T
130 T
87307 G
1 G
87308 CAACGACAAC
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
130 1 0.01
131 129 0.99
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (130 bp):
GAGTAGATCTTGAGGAGTGGCTGGCTTCCGCTTAGGATTTTTTTGAGTTCTACTAGATCGAAGAC
CACCACTGTGACACCATGGCATCGTTTCGAATGGAAGGGCCGACGAAATGCTGGTATCGCTGGAT
Found at i:94644 original size:12 final size:11
Alignment explanation
Indices: 94625--94655 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
94615 TGTATAATTT
94625 TTATTTTATTA
1 TTATTTTATTA
94636 TTAATTTTATTA
1 TT-ATTTTATTA
94648 TTATTTTA
1 TTATTTTA
94656 GAGGTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:97388 original size:23 final size:26
Alignment explanation
Indices: 97360--97414 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
97350 TTATAATAAT
*
97360 AAAAATATA-ATTTT-ATTA-TTTTA
1 AAAAATATATATTTTCATAATTTTTA
*
97383 ATAAAT-TATATTTTCATAATTTTTA
1 AAAAATATATATTTTCATAATTTTTA
97408 AAAAATA
1 AAAAATA
97415 AAATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 10 0.40
24 3 0.12
25 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
AAAAATATATATTTTCATAATTTTTA
Found at i:97404 original size:24 final size:24
Alignment explanation
Indices: 97337--97405 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 24
97327 AAGGTGAAAT
**
97337 TAAATTATAATTTTTATAATAATAA
1 TAAATTATAA-TTTTATAATTTTAA
*
97362 -AAA-TATAATTTTATTATTTTAA
1 TAAATTATAATTTTATAATTTTAA
97384 TAAATTAT-ATTTTCATAATTTT
1 TAAATTATAATTTT-ATAATTTT
97406 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 11 0.30
23 13 0.35
24 13 0.35
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATTATAATTTTATAATTTTAA
Found at i:97459 original size:30 final size:28
Alignment explanation
Indices: 97341--97467 Score: 84
Period size: 30 Copynumber: 4.5 Consensus size: 28
97331 TGAAATTAAA
* *
97341 TTATAATTTTTATAATAATAAAAATATAATT
1 TTATTATTTTTA-AAAAAT-AAAATA-AATT
* *
97372 TTATTA-TTTT----AATAAATTATATT
1 TTATTATTTTTAAAAAATAAAATAAATT
* *
97395 TTCATAATTTTTAAAAAATAAAATAAACTA
1 TT-ATTATTTTTAAAAAATAAAATAAA-TT
*
97425 TTATTATTTTTAAAAGATCAAAATATAATT
1 TTATTATTTTTAAAAAAT-AAAATA-AATT
*
97455 TTATTATTATTAA
1 TTATTATTTTTAA
97468 TTTAAAATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
23 5 0.07
24 8 0.11
25 7 0.09
29 23 0.30
30 26 0.34
31 7 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TTATTATTTTTAAAAAATAAAATAAATT
Found at i:97499 original size:16 final size:16
Alignment explanation
Indices: 97459--97510 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
97449 ATAATTTTAT
*
97459 TATTATTAATTTAAAA
1 TATTATAAATTTAAAA
*
97475 TTTTATAAATTATAAAA
1 TATTATAAATT-TAAAA
97492 TATT-TAAA--TAAAA
1 TATTATAAATTTAAAA
97505 TATTAT
1 TATTAT
97511 TCATTTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.29
14 1 0.03
16 13 0.42
17 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTATAAATTTAAAA
Found at i:97519 original size:82 final size:81
Alignment explanation
Indices: 97361--97517 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 81
97351 TATAATAATA
* * * *
97361 AAAATATAATTTTATTATTTTAATAAATTATATTTTCATAATTTTTAAAAAATAAAATAAACTAT
1 AAAATATAATTTTATTATTTTAAT--ATTAAATTTTCATAAATTATAAAAAATAAAATAAAATAT
97426 TATTATTTTTAAAAGATC
64 TATTATTTTTAAAAGATC
* *
97444 AAAATATAATTTTATTATTATTAAT-TTAAAATTTT-ATAAATTATAAAATATTTAAATAAAATA
1 AAAATATAATTTTATTATT-TTAATATT-AAATTTTCATAAATTATAAAA-AATAAAATAAAATA
97507 TTATTCATTTT
63 TTATT-ATTTT
97518 AAGATTTCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
81 13 0.20
82 22 0.34
83 24 0.38
84 5 0.08
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (81 bp):
AAAATATAATTTTATTATTTTAATATTAAATTTTCATAAATTATAAAAAATAAAATAAAATATTA
TTATTTTTAAAAGATC
Found at i:99506 original size:77 final size:78
Alignment explanation
Indices: 99379--99537 Score: 293
Period size: 77 Copynumber: 2.1 Consensus size: 78
99369 TAAGCTTCAG
99379 CTTGTAAACTAGAAAGATAAGAAAATCTTTAAGGTAATTTGTTTCGATTATTTTGATTCTATACT
1 CTTGTAAACTAGAAAGATAAGAAAATCTTTAAGGTAATTTGTTTCGATTATTTTGATTCTATACT
99444 TGGTTTAAACTT-
66 TGGTTTAAACTTA
* *
99456 CTTGTAAACTAGAAAGGTAAGAAAATCTTTAAGGTAATTTGTTTGGATTATTTTGATTCTATACT
1 CTTGTAAACTAGAAAGATAAGAAAATCTTTAAGGTAATTTGTTTCGATTATTTTGATTCTATACT
99521 TGGTTTAAACTTA
66 TGGTTTAAACTTA
99534 CTTG
1 CTTG
99538 ACACGATAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
77 75 0.95
78 4 0.05
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (78 bp):
CTTGTAAACTAGAAAGATAAGAAAATCTTTAAGGTAATTTGTTTCGATTATTTTGATTCTATACT
TGGTTTAAACTTA
Found at i:104528 original size:95 final size:95
Alignment explanation
Indices: 104364--104605 Score: 267
Period size: 95 Copynumber: 2.6 Consensus size: 95
104354 AAACTATAGC
* * * *
104364 CTTACACAATATAACCCTAT-TTTAACATCTTGATAGATTACCCCGTGTTTACACTCCCGACGAA
1 CTTACACAATATAACCCTATGTTTAACATCCTGACAGACTACCCCGTGTTTACACTCCAGACGAA
* *
104428 CTCCATATGCTAT-CATAGTCGAGTTATGGT
66 CTCCATATGCT-TCCATAATCGAGCTATGGT
* * ***
104458 CTTACACAATATAGCCCCATGTTTAACATCCTGACAGACTACCTTTTGTTTACTA-TCCTAG-CG
1 CTTACACAATATAACCCTATGTTTAACATCCTGACAGACTACCCCGTGTTTAC-ACTCC-AGACG
104521 AACTCCATATGCTTCCATAATCGAGCTATGGT
64 AACTCCATATGCTTCCATAATCGAGCTATGGT
* ** * * **
104553 CTTACACAACATAACCCTATGTTTAATGTTCTAATGGACTACCCCGTGTTTAC
1 CTTACACAATATAACCCTATGTTTAACATCCTGACAGACTACCCCGTGTTTAC
104606 TGTATCGACA
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
94 19 0.16
95 100 0.83
96 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (95 bp):
CTTACACAATATAACCCTATGTTTAACATCCTGACAGACTACCCCGTGTTTACACTCCAGACGAA
CTCCATATGCTTCCATAATCGAGCTATGGT
Found at i:104606 original size:95 final size:96
Alignment explanation
Indices: 104337--104606 Score: 244
Period size: 95 Copynumber: 2.8 Consensus size: 96
104327 CGGTGGACTA
* * * * * * * * * * *
104337 CATATACTATCATATTCAAACTATAGCCTTACACAATATAACCCTAT-TTTAACATCTTGATAGA
1 CATATGCTATCATAATCGAGCTATGGTCTTACACAACATAACCCCATGTTTAACATCCTAACAGA
* *
104401 TTACCCCGTGTTTAC-ACTCCCGACGAACTC
66 CTACCCCGTGTTTACTACTCCAGACGAACTC
* * * * *
104431 CATATGCTATCATAGTCGAGTTATGGTCTTACACAATATAGCCCCATGTTTAACATCCTGACAGA
1 CATATGCTATCATAATCGAGCTATGGTCTTACACAACATAACCCCATGTTTAACATCCTAACAGA
***
104496 CTACCTTTTGTTTACTA-TCCTAG-CGAACTC
66 CTACCCCGTGTTTACTACTCC-AGACGAACTC
* ** * **
104526 CATATGCT-TCCATAATCGAGCTATGGTCTTACACAACATAACCCTATGTTTAATGTTCTAATGG
1 CATATGCTAT-CATAATCGAGCTATGGTCTTACACAACATAACCCCATGTTTAACATCCTAACAG
104590 ACTACCCCGTGTTTACT
65 ACTACCCCGTGTTTACT
104607 GTATCGACAG
Statistics
Matches: 142, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
94 39 0.27
95 101 0.71
96 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (96 bp):
CATATGCTATCATAATCGAGCTATGGTCTTACACAACATAACCCCATGTTTAACATCCTAACAGA
CTACCCCGTGTTTACTACTCCAGACGAACTC
Found at i:107921 original size:18 final size:19
Alignment explanation
Indices: 107900--107937 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
107890 TAAGGATTCA
107900 TTGAAAT-ATAAAAGTTAT
1 TTGAAATAATAAAAGTTAT
107918 TTGAAATAATAAAAGTTAT
1 TTGAAATAATAAAAGTTAT
107937 T
1 T
107938 CGTTATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGAAATAATAAAAGTTAT
Found at i:127791 original size:47 final size:47
Alignment explanation
Indices: 127740--127849 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
127730 AAGGAGGAAG
* * * *
127740 AAGTGGCAGTTTATTTGTAAAAGTGGTGGCTTGTTCACAATATTACA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTGGCTTCTCCACAATATTACA
* *
127787 AAGTGACAGTTTATCTGCAAATGTGGTGGCTTCTCCACAATATTACA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTGGCTTCTCCACAATATTACA
*
127834 AAGTGGCAATTTATCT
1 AAGTGGCAGTTTATCT
127850 ACGTTACTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTGCAAAAGTGGTGGCTTCTCCACAATATTACA
Found at i:130889 original size:19 final size:19
Alignment explanation
Indices: 130865--130908 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
130855 AGATTCCCAA
130865 AATCTCAAAGTAAACCTCG
1 AATCTCAAAGTAAACCTCG
* *
130884 AATCTCGATGTAAACCTCG
1 AATCTCAAAGTAAACCTCG
130903 AATCTC
1 AATCTC
130909 TATCAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (19 bp):
AATCTCAAAGTAAACCTCG
Found at i:134772 original size:2 final size:2
Alignment explanation
Indices: 134718--134755 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
134708 TTTTAAGTCT
134718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
134756 ACTTTAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134891 original size:40 final size:40
Alignment explanation
Indices: 134841--135066 Score: 258
Period size: 40 Copynumber: 5.7 Consensus size: 40
134831 TACGTTGAAA
* * *
134841 AGAAGTCAAGCTTCGGCTTAGCAGGTTACGAGCCGATGAT
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGAT
* * * * *
134881 AGAATTCAAGCTTCGTCTTAGCAGGTTACAAGCTGGTGAT
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGAT
*
134921 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCAATGAT
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGAT
* *
134961 AGAATTCAAGCTTCGACTTAGCAAGCTACGAGCCGGTGAAT
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATG-AT
* * *
135002 A-AATTCAAGCTACGACTTAGCAAGCTACAAGCCGAT-ATT
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGA-T
* * **
135041 AAAATTCAAGCTACGGTTTAGCAGGC
1 AGAATTCAAGCTTCGACTTAGCAGGC
135067 CACAAGTCGG
Statistics
Matches: 163, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 157 0.96
41 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (40 bp):
AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGAT
Found at i:134981 original size:80 final size:80
Alignment explanation
Indices: 134841--135092 Score: 285
Period size: 80 Copynumber: 3.1 Consensus size: 80
134831 TACGTTGAAA
* * * *
134841 AGAAGTCAAGCTTCGGCTTAGCAGGTTACGAGCCGATGATAGAATTCAAGCTTCGTCTTAGCAGG
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGATAGAATTCAAGCTTCGACTTAGCAGG
*
134906 TTACAAGCTGGTGAT
66 CTACAAGCTGGTGAT
* *
134921 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCAATGATAGAATTCAAGCTTCGACTTAGCAAG
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGATAGAATTCAAGCTTCGACTTAGCAGG
* *
134986 CTACGAGCCGGTGAAT
66 CTACAAGCTGGTG-AT
* * * * * **
135002 A-AATTCAAGCTACGACTTAGCAAGCTACAAGCCGAT-ATTAAAATTCAAGCTACGGTTTAGCAG
1 AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGA-TAGAATTCAAGCTTCGACTTAGCAG
* *
135065 GCCACAAG-TCGGTGTT
65 GCTACAAGCT-GGTGAT
*
135081 AAAATTCAAGCT
1 AGAATTCAAGCT
135093 ATGGCTTAGC
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.02
80 140 0.96
81 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (80 bp):
AGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCGATGATAGAATTCAAGCTTCGACTTAGCAGG
CTACAAGCTGGTGAT
Found at i:135072 original size:40 final size:40
Alignment explanation
Indices: 134923--135106 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
134913 CTGGTGATAG
* * * * * * *
134923 AATTCAAGCTTCGACTTAGCAGGCTACGAGCCAATGA-TAG
1 AATTCAAGCTACGGCTTAGCAAGCCACAAGCCGAT-ATTAA
* * * * * *
134963 AATTCAAGCTTCGACTTAGCAAGCTACGAGCCGGTGAAT-A
1 AATTCAAGCTACGGCTTAGCAAGCCACAAGCCGAT-ATTAA
* *
135003 AATTCAAGCTACGACTTAGCAAGCTACAAGCCGATATTAA
1 AATTCAAGCTACGGCTTAGCAAGCCACAAGCCGATATTAA
* * * * *
135043 AATTCAAGCTACGGTTTAGCAGGCCACAAGTCGGTGTTAA
1 AATTCAAGCTACGGCTTAGCAAGCCACAAGCCGATATTAA
*
135083 AATTCAAGCTATGGCTTAGCAAGC
1 AATTCAAGCTACGGCTTAGCAAGC
135107 TATGAGTTGG
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 121 0.98
41 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AATTCAAGCTACGGCTTAGCAAGCCACAAGCCGATATTAA
Found at i:135087 original size:120 final size:120
Alignment explanation
Indices: 134846--135126 Score: 289
Period size: 120 Copynumber: 2.3 Consensus size: 120
134836 TGAAAAGAAG
* * * * * * *
134846 TCAAGCTTCGGCTTAGCAGGTTACGAGCCGATG-ATAGAATTCAAGCTTCGTCTTAGCAGGTTAC
1 TCAAGCTTCGGCTTAGCAAGCTACGAGCCGGTGAATA-AATTCAAGCTACGACTTAGCAAGCTAC
* * * * * * *
134910 AAGCTGGTGATAGAATTCAAGCTTCGACTTAGCAGGCTACGAGCCAATGATAGAAT
65 AAGCCGATGATAAAATTCAAGCTACGACTTAGCAGGCCACAAGCCAATGATAAAAT
*
134966 TCAAGCTTCGACTTAGCAAGCTACGAGCCGGTGAATAAATTCAAGCTACGACTTAGCAAGCTACA
1 TCAAGCTTCGGCTTAGCAAGCTACGAGCCGGTGAATAAATTCAAGCTACGACTTAGCAAGCTACA
** * ** *
135031 AGCCGAT-ATTAAAATTCAAGCTACGGTTTAGCAGGCCACAAGTCGGTGTTAAAAT
66 AGCCGATGA-TAAAATTCAAGCTACGACTTAGCAGGCCACAAGCCAATGATAAAAT
* ** *
135086 TCAAGCTAT-GGCTTAGCAAGCTATGAGTTGGTGAATTAATT
1 TCAAGCT-TCGGCTTAGCAAGCTACGAGCCGGTGAATAAATT
135127 AGTAACAAAG
Statistics
Matches: 132, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
119 1 0.01
120 127 0.96
121 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (120 bp):
TCAAGCTTCGGCTTAGCAAGCTACGAGCCGGTGAATAAATTCAAGCTACGACTTAGCAAGCTACA
AGCCGATGATAAAATTCAAGCTACGACTTAGCAGGCCACAAGCCAATGATAAAAT
Found at i:136933 original size:2 final size:2
Alignment explanation
Indices: 136926--136956 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
136916 TTTCCAATCT
136926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
136957 CTTTAGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:137126 original size:40 final size:39
Alignment explanation
Indices: 137048--137182 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
137038 AAAAGAAGTA
* * *
137048 AAGCTTC-ACTTAGCACA-CTACTAGCCAATGATAGAATTC
1 AAGCTTCGGCTTAGCA-AGCTACGAGCC-ATGATAAAATTC
*
137087 AAGCTTCGGCTT-GCCAGTCTACGAGCCGATGATAAAATTC
1 AAGCTTCGGCTTAGCAAG-CTACGAGCC-ATGATAAAATTC
*
137127 AAGCTTCGGCTTAGCAAGCTATGAGCCAGTGA-ATAAATTC
1 AAGCTTCGGCTTAGCAAGCTACGAGCCA-TGATA-AAATTC
*
137167 AAGCTACGGCTTAGCA
1 AAGCTTCGGCTTAGCA
137183 GACTACAAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
38 1 0.01
39 11 0.13
40 66 0.80
41 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (39 bp):
AAGCTTCGGCTTAGCAAGCTACGAGCCATGATAAAATTC
Found at i:137205 original size:40 final size:39
Alignment explanation
Indices: 137082--137263 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 39
137072 CCAATGATAG
* * * * *
137082 AATTCAAGCTTCGGCTT-GCCAGTCTACGAGCCGATGATAA
1 AATTCAAGCTACGGCTTAG-CAG-CTACAAGCTGGTGTTAA
* ** ** *
137122 AATTCAAGCTTCGGCTTAGCAAGCTATGAGCCAGTG-AATA
1 AATTCAAGCTACGGCTTAGC-AGCTACAAGCTGGTGTTA-A
*
137162 AATTCAAGCTACGGCTTAGCAGACTACAA-ATCGGTGTTAA
1 AATTCAAGCTACGGCTTAGCAG-CTACAAGCT-GGTGTTAA
* * *
137202 AATTAAAGCTACAGCTTAGCATGCTACGAGCTGGTGTTAA
1 AATTCAAGCTACGGCTTAGCA-GCTACAAGCTGGTGTTAA
* *
137242 AATTCCAGCTATGGCTTAGCAG
1 AATTCAAGCTACGGCTTAGCAG
137264 GCTATGAGTC
Statistics
Matches: 115, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
39 4 0.03
40 105 0.91
41 6 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (39 bp):
AATTCAAGCTACGGCTTAGCAGCTACAAGCTGGTGTTAA
Found at i:143857 original size:52 final size:52
Alignment explanation
Indices: 143725--143960 Score: 307
Period size: 52 Copynumber: 4.6 Consensus size: 52
143715 TTTTCATTTA
* * *
143725 ATACTCACGATG--ACATAGTCATCGGACCTCACAATCCGTAAAGGGTTCAG
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
143775 AT-CTCACGATGACACATAGTAATCAGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
143826 ATACTCATGATGACACATAATCATCGGACCTCATAATCTGTAAAGTATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * **
143878 ATACTCATGATGACACGTAGTCATCGAACCTCATGCTCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
143930 ATACTCACGATGACACGTAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
143961 TTTACATTTA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 9 0.06
50 2 0.01
51 34 0.21
52 116 0.72
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Done.