Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009111.1 Hibiscus syriacus cultivar Beakdansim tig00112585_pilon, 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: 76234
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:1417 original size:20 final size:20
Alignment explanation
Indices: 1392--1461 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
1382 CACAGGTTCC
**
1392 AAATCGCAACGCGAATATGT
1 AAATCGCAACGAAAATATGT
*
1412 AAATCGCAACGATAATATGT
1 AAATCGCAACGAAAATATGT
* *
1432 AAATCGCAAAGTAAATATGT
1 AAATCGCAACGAAAATATGT
1452 AAATCGCAAC
1 AAATCGCAAC
1462 ACAGAAGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGAAAATATGT
Found at i:1605 original size:20 final size:20
Alignment explanation
Indices: 1561--1616 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
1551 TCGCAACATG
* * *
1561 ATTTTGATTTCACAACTCGA
1 ATTTTGAATTCACAACACAA
*
1581 TTTTTGAATTCACAACACAA
1 ATTTTGAATTCACAACACAA
*
1601 ATTTT-AATTCGCAACA
1 ATTTTGAATTCACAACA
1617 GCTTTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (20 bp):
ATTTTGAATTCACAACACAA
Found at i:2407 original size:12 final size:12
Alignment explanation
Indices: 2386--2419 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2376 ACCACATTTC
*
2386 CAATACCAAACA
1 CAATATCAAACA
2398 CAATATCAAACA
1 CAATATCAAACA
*
2410 CAATCTCAAA
1 CAATATCAAA
2420 ACTCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:4892 original size:18 final size:18
Alignment explanation
Indices: 4858--4893 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4848 AAGCAAAAGG
**
4858 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
4876 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
4894 CAACCGACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:6847 original size:20 final size:20
Alignment explanation
Indices: 6784--6899 Score: 97
Period size: 21 Copynumber: 5.7 Consensus size: 20
6774 GTGAATCGGG
* * *
6784 CTCTTGAACGGTGGGAATGAC
1 CTCTTGAACGATGGG-AGGGC
* *
6805 CTATTGAACGATGGCAGGGGC
1 CTCTTGAACGATGGGA-GGGC
*
6826 CTCTTGAACGGTGGGAGGGC
1 CTCTTGAACGATGGGAGGGC
* **
6846 CTCTTGAATGATGATAGGGGC
1 CTCTTGAACGATGGGA-GGGC
* * *
6867 CTCTTGAATGATAGGAGAGC
1 CTCTTGAACGATGGGAGGGC
6887 CTCTTGAACGATG
1 CTCTTGAACGATG
6900 ACATGTGAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
20 31 0.41
21 44 0.59
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:6865 original size:41 final size:41
Alignment explanation
Indices: 6784--6902 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
6774 GTGAATCGGG
* * * *
6784 CTCTTGAACGGTGGGAATGACCTATTGAACGATGGCAGGGGC
1 CTCTTGAACGGTGGG-AGGGCCTCTTGAACGATGACAGGGGC
* *
6826 CTCTTGAACGGTGGGAGGGCCTCTTGAATGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAGGGGC
* * * *
6867 CTCTTGAATGATAGGAGAGCCTCTTGAACGATGACA
1 CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACA
6903 TGTGAATCGA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
41 50 0.77
42 15 0.23
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAGGGGC
Found at i:7270 original size:21 final size:21
Alignment explanation
Indices: 7217--7291 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
7207 GTAAAGTAGA
*
7217 TACCTCACCACGTAAAGCACCA
1 TACCTCACCACGTAAAG-ACCC
** *
7239 T-TGTCATCACGTAAA-ACCTC
1 TACCTCACCACGTAAAGACC-C
*
7259 TACCTCACCACGTAAAGACCG
1 TACCTCACCACGTAAAGACCC
*
7280 TACCTCATCACG
1 TACCTCACCACG
7292 CCATGCACCA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 33 0.80
22 4 0.10
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.20
Consensus pattern (21 bp):
TACCTCACCACGTAAAGACCC
Found at i:7563 original size:42 final size:42
Alignment explanation
Indices: 7473--7569 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
7463 GTGATGGAAT
* * * * * *
7473 AGGTGATGGCTCTCGTTGTGGAGGTGTATAATCAGCTCGATC
1 AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCAGCTCGAAC
* * *
7515 ATGTGATGGCTCTAGGTGTCGAGCTGTAGAATCGGGTCGAAC
1 AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCAGCTCGAAC
7557 AGGTGATGGCTCT
1 AGGTGATGGCTCT
7570 CGAAGTGGGG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.29
Consensus pattern (42 bp):
AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCAGCTCGAAC
Found at i:9066 original size:20 final size:20
Alignment explanation
Indices: 9009--9055 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
8999 CTAAAATCGG
9009 GTTGCGATTTTCATTTTCGC
1 GTTGCGATTTTCATTTTCGC
*
9029 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGC
9049 GTTGCGA
1 GTTGCGA
9056 ATTTAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGC
Found at i:9570 original size:19 final size:20
Alignment explanation
Indices: 9548--9585 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9538 AATATTGTGT
*
9548 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCAAAAATAAAA
*
9567 TTCGAGTTGCAAAAATAAA
1 TTCGAATTGCAAAAATAAA
9586 CGCGTTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCAAAAATAAAA
Found at i:9617 original size:20 final size:20
Alignment explanation
Indices: 9592--9634 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
9582 TAAACGCGTT
9592 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
9612 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
9632 TTG
1 TTG
9635 TGATTTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:9659 original size:20 final size:20
Alignment explanation
Indices: 9631--9738 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
9621 TGACTTCTGT
* *
9631 GTTGTGATTTACAAATTTGC
1 GTTGCGATTTACATATTTGC
*
9651 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTTGC
* * ** * *
9671 ATTGCAATTTTGGAAAATTGC
1 GTTGCGA-TTTACATATTTGC
*
9692 GTTGCGATTTACCTATTAT-C
1 GTTGCGATTTACATATT-TGC
*
9712 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTTGC
*
9732 ATTGCGA
1 GTTGCGA
9739 AATTGGAGTT
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
20 51 0.78
21 14 0.22
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACATATTTGC
Found at i:10363 original size:3 final size:3
Alignment explanation
Indices: 10355--10399 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10345 GTGTTATAGC
10355 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10400 AAGTTAAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10966 original size:2 final size:2
Alignment explanation
Indices: 10961--10999 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10951 GAGGGGTGTG
10961 TA TA TA TA 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 TA TA TA TA T
11000 CGAAGTCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12260 original size:35 final size:40
Alignment explanation
Indices: 12142--12291 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 40
12132 TTAAATTGAA
* * *
12142 AAAAAATAGAGGCCTTAATTATAAAGGTAGA-AATTGAGATTG
1 AAAAAATAGGGGCATCAATTATAAA---AGATAATTGAGATTG
* *
12184 AAAAAATAGTGGCCTCAATTATAAAAGTATAATTGAGATTG
1 AAAAAATAGGGGCATCAATTATAAAAG-ATAATTGAGATTG
12225 AAAAAATAGGGGCATCAATTATAAAAGTATAATTGAGATTG
1 AAAAAATAGGGGCATCAATTATAAAAG-ATAATTGAGATTG
* *
12266 AAAAACTTAGGGGCATCAACTATAAA
1 AAAAA-ATAGGGGCATCAATTATAAA
12292 GGTAAAGATT
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 55 0.56
42 41 0.41
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (40 bp):
AAAAAATAGGGGCATCAATTATAAAAGATAATTGAGATTG
Found at i:12406 original size:130 final size:130
Alignment explanation
Indices: 12161--12509 Score: 365
Period size: 130 Copynumber: 2.7 Consensus size: 130
12151 AGGCCTTAAT
* * * **
12161 TATAAAGGTAGAAATTGAGATTGAAAAAA--T-AGTGGCCTCAATTATAAAAGTA-TAATTGAGA
1 TATAAAGGTAGAAATTAAGATTGAAAAAACTTAAG-GGCCTCAATTATAAAGGTAGAAAGCGAGA
* * ** * ** * * * *
12222 TTGAAAAAA--T-AGGGGCATCAATTATAAAAGTATA-ATTGAGATTGAAAAACTTAGGGGCATC
65 TTGAAAAAACTTAAGAGTC-TCAATTATAAACTTAAAGAGCGGGGTT-AAAAAATTAGGGGCATA
12283 AAC
128 AAC
* * *
12286 TATAAAGGTA-AAGATTAAGATTTAAAAACCTTAAGGGCCTCAATTATAAAGGTAGAGAGCGAGA
1 TATAAAGGTAGAA-ATTAAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAGCGAGA
*
12350 TTGAAAAAACTTAAGAGTCTCAATTATAAACTTAAAGAGCGGGGTTAAAAAATTAGGGGCCTAAA
65 TTGAAAAAACTTAAGAGTCTCAATTATAAACTTAAAGAGCGGGGTTAAAAAATTAGGGGCATAAA
*
12415 T
130 C
* * *
12416 TATAAAGGTAGAAATTGAGATTGAAAAAACTTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGAT
1 TATAAAGGTAGAAATTAAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAGCGAGAT
* *
12481 TGAAAGAACTTAAGGGTCTCAATTATAAA
66 TGAAAAAACTTAAGAGTCTCAATTATAAA
12510 GGTAGAAAAT
Statistics
Matches: 185, Mismatches: 29, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
124 2 0.01
125 23 0.12
127 19 0.10
128 16 0.09
130 114 0.62
131 11 0.06
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (130 bp):
TATAAAGGTAGAAATTAAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAGCGAGAT
TGAAAAAACTTAAGAGTCTCAATTATAAACTTAAAGAGCGGGGTTAAAAAATTAGGGGCATAAAC
Found at i:12436 original size:86 final size:85
Alignment explanation
Indices: 12141--12517 Score: 304
Period size: 86 Copynumber: 4.4 Consensus size: 85
12131 ATTAAATTGA
* * *
12141 AAAAAAATAGAGGCCTTAATTATAAAGGTAGAAATTGAGATTGAAAAAA--TAGTGGCCTCAATT
1 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTAG-GGCCTCAATT
* * *
12204 ATAAAAGTATA-ATTGAGATT
65 ATAAAAGTAAAGATAGGGATT
* * * * *
12224 GAAAAAA-TAGGGGCATCAATTATAAAAGTA-TAATTGAGATTG-AAAAACTTAGGGGCATCAAC
1 -AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTA-GGGCCTCAAT
* *
12286 TATAAAGGTAAAGATTA-AGATTT
64 TATAAAAGTAAAGA-TAGGGA-TT
* * * ** * *
12309 AAAAACCTTAAGGGCCTCAATTATAAAGGTAGAGAGCGAGATTGAAAAAACTTAAGAGTCTCAAT
1 AAAAA-ATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAACTT-AGGGCCTCAAT
** ** *
12374 TATAAACTTAAAGAGCGGGGTT
64 TATAAAAGTAAAGATAGGGATT
*
12396 AAAAAATTAGGGGCCTAAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTAGGGGCCTCAATT
1 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTA-GGGCCTCAATT
* *
12461 ATAAAGGTAGAA-AGT-GAGATT
65 ATAAAAGTA-AAGA-TAGGGATT
* * *
12482 GAAAGAACTTAAGGGTCTCAATTATAAAGGTAGAAA
1 -AAA-AAATTAGGGGCCTCAATTATAAAGGTAGAAA
12518 ATATAGAAAG
Statistics
Matches: 231, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
81 5 0.02
82 11 0.05
83 38 0.16
84 16 0.07
85 4 0.02
86 82 0.35
87 20 0.09
88 54 0.23
89 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (85 bp):
AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTAGGGCCTCAATTA
TAAAAGTAAAGATAGGGATT
Found at i:12516 original size:44 final size:43
Alignment explanation
Indices: 12152--12517 Score: 334
Period size: 44 Copynumber: 8.5 Consensus size: 43
12142 AAAAAATAGA
* *
12152 GGCCTTAATTATAAAGGTAGAAATTGAGATTGAAAAA-AT-AG
1 GGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAG
* * * *
12193 TGGCCTCAATTATAAAAGTA-TAATTGAGATTGAAAAA-ATAGG
1 -GGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAG
* * * *
12235 GGCATCAATTATAAAAGTA-TAATTGAGATTGAAAAACTTAGG
1 GGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAG
* * * *
12277 GGCATCAACTATAAAGGTA-AAGATTAAGATTTAAAAACCTTAAG
1 GGCCTCAATTATAAAGGTAGAA-ATTGAGATTGAAAAA-CTTAAG
* **
12321 GGCCTCAATTATAAAGGTAGAGAGCGAGATTGAAAAAACTTAAG
1 GGCCTCAATTATAAAGGTAGAAATTGAGATTG-AAAAACTTAAG
* * ** ** * * * *
12365 AGTCTCAATTATAAACTTA-AAGAGCGGGGTT-AAAAAATTAGG
1 GGCCTCAATTATAAAGGTAGAA-ATTGAGATTGAAAAACTTAAG
* *
12407 GGCCTAAATTATAAAGGTAGAAATTGAGATTGAAAAAACTTAGG
1 GGCCTCAATTATAAAGGTAGAAATTGAGATTG-AAAAACTTAAG
*
12451 GGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAGAACTTAAG
1 GGCCTCAATTATAAAGGTAGAAATTGAGATTGAAA-AACTTAAG
*
12495 GGTCTCAATTATAAAGGTAGAAA
1 GGCCTCAATTATAAAGGTAGAAA
12518 ATATAGAAAG
Statistics
Matches: 271, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
41 53 0.20
42 68 0.25
43 19 0.07
44 125 0.46
45 6 0.02
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (43 bp):
GGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACTTAAG
Found at i:12675 original size:44 final size:42
Alignment explanation
Indices: 12553--12829 Score: 156
Period size: 43 Copynumber: 6.5 Consensus size: 42
12543 AAACCTTAAG
* * *
12553 AGCCTCAATTTTAAAGTTAAGAAGTGGGA-TAAAAAAATTAT
1 AGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTAT
* * * *
12594 GGGCTCAATTATAAAAG-TAGAAAGTGAAATTGAAAAAAATTGAT
1 AGCCTCAATTAT-AAAGTTAAAAAGTGAGATT-AAAAAAATT-AT
* * * *
12638 ATCCTCAATTATAGAGTTAAAAAGTGAGATTACAAAAA-TAGG
1 AGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTA-T
* * * * *
12680 AGCCTCAATTATAAAAGGTAAAAATTTAGATTAAAAATA-GAT
1 AGCCTCAATTAT-AAAGTTAAAAAGTGAGATTAAAAAAATTAT
* * * * ** *
12722 A-CTTCAATTATAAAGATAAAATGTGACATCGCATAAAATTA-
1 AGCCTCAATTATAAAGTTAAAAAGTGAGAT-TAAAAAAATTAT
* * *
12763 AGACCTCAATTATAAAGATATAAAGTAAGATTTAAAAAAA-TAT
1 AG-CCTCAATTATAAAGTTAAAAAGTGAGA-TTAAAAAAATTAT
**
12806 -GGGTCTAATTATAAAGATTAAAAA
1 AGCCTC-AATTATAAAG-TTAAAAA
12830 AAAAACTTAA
Statistics
Matches: 174, Mismatches: 47, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
40 13 0.07
41 34 0.20
42 32 0.18
43 71 0.41
44 24 0.14
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (42 bp):
AGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTAT
Found at i:12702 original size:43 final size:43
Alignment explanation
Indices: 12551--12735 Score: 118
Period size: 41 Copynumber: 4.4 Consensus size: 43
12541 AAAAACCTTA
* * * * *
12551 AGAGCCTCAATT-TTAAAGTTAAGAAGTGGGATAAAAAAATTATG
1 AGAGCCTCAATTATAAAAGGTAAAAAGTGAGATTAAAAAA-TA-G
* * *
12595 -G-G-CTCAATTATAAAA-GTAGAAAGTGAAATTGAAAAAAATTG
1 AGAGCCTCAATTATAAAAGGTAAAAAGTGAGATT--AAAAAATAG
* * * *
12636 ATATCCTCAATTAT-AGAGTTAAAAAGTGAGATTACAAAAATAG
1 AGAGCCTCAATTATAAAAGGTAAAAAGTGAGATTA-AAAAATAG
* *
12679 -GAGCCTCAATTATAAAAGGTAAAAATTTAGATT-AAAAATAG
1 AGAGCCTCAATTATAAAAGGTAAAAAGTGAGATTAAAAAATAG
* *
12720 ATA-CTTCAATTATAAA
1 AGAGCCTCAATTATAAA
12736 GATAAAATGT
Statistics
Matches: 108, Mismatches: 23, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
41 37 0.34
42 19 0.18
43 31 0.29
44 21 0.19
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.28
Consensus pattern (43 bp):
AGAGCCTCAATTATAAAAGGTAAAAAGTGAGATTAAAAAATAG
Found at i:13453 original size:27 final size:27
Alignment explanation
Indices: 13423--13515 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
13413 GCTCAATTTT
13423 TCATGATTTATTTATTTATTTAATCCA
1 TCATGATTTATTTATTTATTTAATCCA
13450 TCATGATTTATTTATTTATTTATTTATTTAATCCA
1 TCATG--------ATTTATTTATTTATTTAATCCA
*
13485 TCATGATTTATTTATTTATTCAATCCA
1 TCATGATTTATTTATTTATTTAATCCA
13512 TCAT
1 TCAT
13516 TCATTTGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
27 30 0.53
35 27 0.47
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (27 bp):
TCATGATTTATTTATTTATTTAATCCA
Found at i:13474 original size:35 final size:35
Alignment explanation
Indices: 13428--13504 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
13418 ATTTTTCATG
13428 ATTTATTTATTTATTTAATCCATCATGATTTATTT
1 ATTTATTTATTTATTTAATCCATCATGATTTATTT
13463 ATTTATTTATTTATTTAATCCATCATGATTTATTT
1 ATTTATTTATTTATTTAATCCATCATGATTTATTT
13498 ATTTATT
1 ATTTATT
13505 CAATCCATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (35 bp):
ATTTATTTATTTATTTAATCCATCATGATTTATTT
Found at i:13499 original size:4 final size:4
Alignment explanation
Indices: 13455--13479 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13445 ATCCATCATG
13455 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
13480 ATCCATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:13974 original size:29 final size:29
Alignment explanation
Indices: 13928--13988 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
13918 CAACTTGAAT
13928 TACTATAAATAATCATAATTAAATTTGTA
1 TACTATAAATAATCATAATTAAATTTGTA
* *
13957 TACTATAAATAATTATAATTAGATTTGTA
1 TACTATAAATAATCATAATTAAATTTGTA
13986 TAC
1 TAC
13989 CACGTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (29 bp):
TACTATAAATAATCATAATTAAATTTGTA
Found at i:14238 original size:23 final size:21
Alignment explanation
Indices: 14198--14240 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
14188 TTTTAAGTAT
*
14198 AATTTACTCCTTATAAAAATA
1 AATTTACTCCTTACAAAAATA
14219 AATTTACTCAACTTACAAAAAT
1 AATTTACTC--CTTACAAAAAT
14241 TAAGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTTACTCCTTACAAAAATA
Found at i:16203 original size:19 final size:19
Alignment explanation
Indices: 16179--16217 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16169 AATATGGGCC
16179 TCAATTATAAAAGTATAAT
1 TCAATTATAAAAGTATAAT
16198 TCAATTATAAAAGTATAAT
1 TCAATTATAAAAGTATAAT
16217 T
1 T
16218 GAGATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TCAATTATAAAAGTATAAT
Found at i:16256 original size:18 final size:18
Alignment explanation
Indices: 16230--16264 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16220 GATTGAAAAA
*
16230 CTTAGGGGCATCAATTAC
1 CTTAAGGGCATCAATTAC
*
16248 CTTAAGGGCCTCAATTA
1 CTTAAGGGCATCAATTA
16265 TAAAGGTAGA
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:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
CTTAAGGGCATCAATTAC
Found at i:16311 original size:44 final size:44
Alignment explanation
Indices: 16248--16649 Score: 351
Period size: 44 Copynumber: 9.0 Consensus size: 44
16238 CATCAATTAC
* *
16248 CTTAAGGGCCTCAATTATAAAGGTAGAGAGTGGGATTGAAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
**
16292 CTTAAGGGCCTCAATTATAAACTTA-AAGAGTGAGATT-AAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAA-AGTGAGATTGAAAAAA
* * * *
16335 -TTAGGGGCCTAAATTATAAAGGAAGAAATTGAGATTGAAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
* *
16378 CTTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAGAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
*
16422 CTTAAGGGTCTCAATTATAAAGGTAGAAAATGTAGAAAGTGAGATTGAAAAAAAAAAA
1 CTTAAGGGCCTCAATTAT-AA---AG-----GTAGAAAGTGAGATTG-----AAAAAA
* *
16480 CTTAAGGGCCTCAATT-TAAAGTTA-AGAAGTGGGA-T-AAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGA-AAGTGAGATTGAAAAAA
* * *
16521 ATTATGGGCCTCAATTATAAAAGTAGAAAGTGAGATTGAAAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG-AAAAAA
* * * *
16566 CTTGATGGCCTCAATTATAAAGTTAAAAAGTGAGATT-AAAAAA
1 CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
* * *
16609 -AT-AGGAGCCTCAATTATAAAGGTAAAAAAT-AGATT-AAAAAA
1 CTTAAGG-GCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
16650 TAGATACTTT
Statistics
Matches: 297, Mismatches: 36, Indels: 53
0.77 0.09 0.14
Matches are distributed among these distances:
41 33 0.11
42 63 0.21
43 23 0.08
44 86 0.29
45 38 0.13
47 2 0.01
48 11 0.04
53 18 0.06
56 2 0.01
57 1 0.00
58 20 0.07
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTAAGGGCCTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAA
Found at i:16371 original size:86 final size:87
Alignment explanation
Indices: 16253--16630 Score: 379
Period size: 86 Copynumber: 4.2 Consensus size: 87
16243 ATTACCTTAA
* * * *
16253 GGGCCTCAATTATAAAGGTAGAGAGTGGGATTG-AAAAAACTTAAGGGCCTCAATTATAAACTTA
1 GGGCCTCAATTATAAAGGAAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTATAAAGTTA
16317 AAGAGTGAGATTAAAAAATTAG
66 AAGAGTGAGATTAAAAAATTAG
* * * *
16339 GGGCCTAAATTATAAAGGAAGAAATTGAGATTG-AAAAAACTTAGGGGCCTCAATTATAAAGGTA
1 GGGCCTCAATTATAAAGGAAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTATAAAGTTA
* *
16403 GAA-AGTGAGATTGAAAGAACTTAA
66 -AAGAGTGAGATT-AAA-AAATTAG
*
16427 GGGTCTCAATTATAAAGGTAGAAAATGTAGAAAGTGAGATTGAAAAAAAAAAACTTAAGGGCCTC
1 GGGCCTCAATTATAAA-G--G---A---AGAAAGTGAGATTG----AAAAAAACTTAAGGGCCTC
* * *
16492 AATT-TAAAGTT-AAGAAGTGGGATAAAAAAATTAT
53 AATTATAAAGTTAAAG-AGTGAGATTAAAAAATTAG
* * * *
16526 GGGCCTCAATTATAAAAGTAGAAAGTGAGATTGAAAAAAACTTGATGGCCTCAATTATAAAGTTA
1 GGGCCTCAATTATAAAGGAAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTATAAAGTTA
* *
16591 AAAAGTGAGATTAAAAAAATAG
66 AAGAGTGAGATTAAAAAATTAG
*
16613 GAGCCTCAATTATAAAGG
1 GGGCCTCAATTATAAAGG
16631 TAAAAAATAG
Statistics
Matches: 240, Mismatches: 31, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
86 86 0.36
87 43 0.18
88 21 0.09
89 1 0.00
90 14 0.06
91 1 0.00
94 1 0.00
96 1 0.00
97 13 0.05
99 22 0.09
100 3 0.01
101 13 0.05
102 21 0.09
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (87 bp):
GGGCCTCAATTATAAAGGAAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTATAAAGTTA
AAGAGTGAGATTAAAAAATTAG
Found at i:16552 original size:42 final size:43
Alignment explanation
Indices: 16473--16649 Score: 183
Period size: 42 Copynumber: 4.1 Consensus size: 43
16463 AGATTGAAAA
* *
16473 AAAAAAACTTAAGGGCCTCAATT-TAAAGTTAAGAAGTGGGA-T
1 AAAAAAACTTATGGGCCTCAATTATAAAGTTAA-AAGTGAGATT
16515 AAAAAAA-TTATGGGCCTCAATTATAAAAG-TAGAAAGTGAGATT
1 AAAAAAACTTATGGGCCTCAATTAT-AAAGTTA-AAAGTGAGATT
16558 GAAAAAAACTTGAT-GGCCTCAATTATAAAGTTAAAAAGTGAGATT
1 -AAAAAAACTT-ATGGGCCTCAATTATAAAGTT-AAAAGTGAGATT
* *
16603 AAAAAAA--TA-GGAGCCTCAATTATAAAGGTAAAAAAT-AGATT
1 AAAAAAACTTATGG-GCCTCAATTATAAA-GTTAAAAGTGAGATT
16644 AAAAAA
1 AAAAAA
16650 TAGATACTTT
Statistics
Matches: 119, Mismatches: 4, Indels: 25
0.80 0.03 0.17
Matches are distributed among these distances:
41 27 0.23
42 37 0.31
43 8 0.07
44 18 0.15
45 26 0.22
46 3 0.03
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (43 bp):
AAAAAAACTTATGGGCCTCAATTATAAAGTTAAAAGTGAGATT
Found at i:16619 original size:87 final size:86
Alignment explanation
Indices: 16448--16649 Score: 241
Period size: 87 Copynumber: 2.3 Consensus size: 86
16438 ATAAAGGTAG
* *
16448 AAAATGTAGAAAGTGAGATTGAAAAAAAAAAACTTAAGGGCCTCAATTTAAAGTTAAGAAGTGGG
1 AAAA-GTAGAAAGTGAGATTG----AAAAAAACTTAAGGGCCTCAATTTAAAGTTAAAAAGTGAG
16513 ATAAAAAAATTATGGGCCTCAATTAT
61 ATAAAAAAATTATGGGCCTCAATTAT
* *
16539 AAAAGTAGAAAGTGAGATTGAAAAAAACTTGATGGCCTCAATTATAAAGTTAAAAAGTGAGATTA
1 AAAAGTAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATT-TAAAGTTAAAAAGTGAGA-TA
16604 AAAAAA-TA-GGAGCCTCAATTAT
64 AAAAAATTATGG-GCCTCAATTAT
* * *
16626 AAAGGTAAAAAAT-AGATT-AAAAAA
1 AAAAGTAGAAAGTGAGATTGAAAAAA
16650 TAGATACTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
85 6 0.06
86 28 0.28
87 39 0.39
88 8 0.08
90 16 0.16
91 4 0.04
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.23
Consensus pattern (86 bp):
AAAAGTAGAAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTTAAAGTTAAAAAGTGAGATAAA
AAAATTATGGGCCTCAATTAT
Found at i:16649 original size:86 final size:85
Alignment explanation
Indices: 16486--16763 Score: 241
Period size: 87 Copynumber: 3.3 Consensus size: 85
16476 AAAACTTAAG
* * * *
16486 GGCCTCAATT-TAAAGTTAAGAAGTGGGA-TAAAAAAATTATGG-GCCTCAATTATAAAAGTAGA
1 GGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAA-TA-GGAGCCTCAATTATAAAGGTAAA
* *
16548 AAGTGAGATTGAAAAAAACTTGAT
64 AAATAAGATT-AAAAAAA-TTGAT
16572 GGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATAGGAGCCTCAATTATAAAGGTAAAAA
1 GGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATAGGAGCCTCAATTATAAAGGTAAAAA
*
16637 AT-AGATT-AAAAAATAGAT
66 ATAAGATTAAAAAAATTGAT
* * * * * * * * * * * *
16655 -ACTTTAATTATAAAGATAAAATGTGACATCGCAAAAAATTAAGA-TCTCAATTATAAAGATATA
1 GGCCTCAATTATAAAGTTAAAAAGTGAGAT--TAAAAAAATAGGAGCCTCAATTATAAAGGTAAA
16718 AAATAAGATTTAAAAAAATT-AT
64 AAATAAGA-TTAAAAAAATTGAT
16740 GGGCCT-AATTATAAAGATTAAAAA
1 -GGCCTCAATTATAAAG-TTAAAAA
16764 AATAAAACCC
Statistics
Matches: 158, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
82 23 0.15
83 24 0.15
84 19 0.12
85 4 0.03
86 34 0.22
87 46 0.29
88 8 0.05
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.27
Consensus pattern (85 bp):
GGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATAGGAGCCTCAATTATAAAGGTAAAAA
ATAAGATTAAAAAAATTGAT
Found at i:16664 original size:40 final size:42
Alignment explanation
Indices: 16574--16764 Score: 133
Period size: 43 Copynumber: 4.5 Consensus size: 42
16564 AACTTGATGG
* * *
16574 CCTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATAGGAG
1 CCTCAATTATAAAGATAAAAAATGAGATTAAAAAAATAGGAA
*
16616 CCTCAATTATAAAGGTAAAAAAT-AGATT-AAAAAATA-GATA
1 CCTCAATTATAAAGATAAAAAATGAGATTAAAAAAATAGGA-A
* * ** * * * *
16656 CTTTAATTATAAAGATAAAATGTGACATCGCAAAAAATTAAG-A
1 CCTCAATTATAAAGATAAAAAATGAGAT--TAAAAAAATAGGAA
* * * *
16699 TCTCAATTATAAAGATATAAAATAAGATTTAAAAAAATTATGG-G
1 CCTCAATTATAAAGATAAAAAATGAGA-TTAAAAAAA-TA-GGAA
16743 CCT-AATTATAAAGATTAAAAAA
1 CCTCAATTATAAAGA-TAAAAAA
16765 ATAAAACCCT
Statistics
Matches: 114, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
39 2 0.02
40 26 0.23
41 8 0.07
42 27 0.24
43 33 0.29
44 17 0.15
45 1 0.01
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (42 bp):
CCTCAATTATAAAGATAAAAAATGAGATTAAAAAAATAGGAA
Found at i:18064 original size:27 final size:27
Alignment explanation
Indices: 18034--18086 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
18024 TGATTTATTT
18034 ATTTATTTATTTATTCAATCCATCATG
1 ATTTATTTATTTATTCAATCCATCATG
18061 ATTTATTTATTTATTCAATCCATCAT
1 ATTTATTTATTTATTCAATCCATCAT
18087 TCATTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTATTTATTTATTCAATCCATCATG
Found at i:18547 original size:29 final size:29
Alignment explanation
Indices: 18480--18536 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
18470 TTGAATTACT
*
18480 ATAAATAATCATAATTAAATTTGTATACC
1 ATAAATAATTATAATTAAATTTGTATACC
*
18509 ATAAATAATTATAATTAAATTTTTATAC
1 ATAAATAATTATAATTAAATTTGTATAC
18537 AACATCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (29 bp):
ATAAATAATTATAATTAAATTTGTATACC
Found at i:19605 original size:68 final size:68
Alignment explanation
Indices: 19486--19613 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 68
19476 CCAAAATTTG
* * * *
19486 TTCGGTTCGGTTAATGATTTTCAAATAAATTTCGGTTTGATTAATGATTAAAGAAAAAAACTGTT
1 TTCGGTTCGATTAATAATTTTCAAATAAATTTCGGTTTGAATAACGATTAAAGAAAAAAACTGTT
19551 TAA
66 TAA
*
19554 TTCGGTTCGATTAATAATTTTCAAATAAATTTCGGTTTGAATAACGGTTAAAGAAAAAAA
1 TTCGGTTCGATTAATAATTTTCAAATAAATTTCGGTTTGAATAACGATTAAAGAAAAAAA
19614 TTCAGTTCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.38
Consensus pattern (68 bp):
TTCGGTTCGATTAATAATTTTCAAATAAATTTCGGTTTGAATAACGATTAAAGAAAAAAACTGTT
TAA
Found at i:19663 original size:30 final size:29
Alignment explanation
Indices: 19629--19685 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19619 TTCGCTTAAT
*
19629 CGAACCAAAATTTATTTGAAAATTATTATC
1 CGAACC-AAATTAATTTGAAAATTATTATC
* *
19659 CGAACCGAATTAATTTTAAAATTATTA
1 CGAACCAAATTAATTTGAAAATTATTA
19686 ACCAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
CGAACCAAATTAATTTGAAAATTATTATC
Found at i:19786 original size:132 final size:127
Alignment explanation
Indices: 19627--19935 Score: 323
Period size: 132 Copynumber: 2.3 Consensus size: 127
19617 AGTTCGCTTA
* *
19627 ATCGAACCAAAATTTATTTGAAAATTATTATCCGAACCGAATTAA-TTTTAAAATTATTAACCAA
1 ATCGAACC-AAATTAATTTGAAAATTATTAACCGAACCGAATTAATTTTTAAAATTATTAACCAA
* * * * * * *
19691 ATTAATTGAAGCAAAAATTCGGTTAATTTGGTTTGGTTAATTGAACTAAAATTTATTTGAAAATT
65 ATTAATCGAAGAAAAAATTC-----AGTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATT
*
19756 ATT
125 ACT
* ** ** **
19759 AGTCGAACCAAATTAATTTGAACATTATTAACTAAATTGAATTAACCAATTTTTTTAATTATTAA
1 A-TCGAACCAAATTAATTTGAAAATTATTAACCGAACCGAATT----AATTTTTAAAATTATTAA
*
19824 CCGAATTAATCGAAGAAAAAATTCAGTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTA
61 CCAAATTAATCGAAGAAAAAATTCAGTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTA
19889 CT
126 CT
* *
19891 AACTGAACCGAATTAATTTGAAAATTATTAACCGAACCGAATTAA
1 ATC-GAACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAA
19936 CCAAATTTTT
Statistics
Matches: 145, Mismatches: 25, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
128 2 0.01
131 1 0.01
132 99 0.68
133 7 0.05
136 2 0.01
137 34 0.23
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (127 bp):
ATCGAACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAATTTTTAAAATTATTAACCAAA
TTAATCGAAGAAAAAATTCAGTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTACT
Found at i:19909 original size:29 final size:29
Alignment explanation
Indices: 19872--19935 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
19862 ATCGAACCAA
* *
19872 AATTTATTTGAAAATTACTAACTGAACCG
1 AATTAATTTGAAAATTACTAACCGAACCG
*
19901 AATTAATTTGAAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTACTAACCGAACCG
19930 AATTAA
1 AATTAA
19936 CCAAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (29 bp):
AATTAATTTGAAAATTACTAACCGAACCG
Found at i:25315 original size:18 final size:18
Alignment explanation
Indices: 25280--25315 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25270 GTCACGTTGA
* *
25280 TAATTAAATTTAATTAAT
1 TAATTAAATTAAAATAAT
25298 TAATTAAATTAAAATAAT
1 TAATTAAATTAAAATAAT
25316 GACTAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTAAAATAAT
Found at i:26840 original size:10 final size:11
Alignment explanation
Indices: 26827--26866 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
26817 TTCAAAGAAA
26827 TTAAAATTA-T
1 TTAAAATTATT
*
26837 TTAAATTTATT
1 TTAAAATTATT
26848 TTAAAATATATT
1 TTAAAAT-TATT
26860 TTAAAAT
1 TTAAAAT
26867 ATGAATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 8 0.31
11 7 0.27
12 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:26881 original size:22 final size:22
Alignment explanation
Indices: 26856--26990 Score: 161
Period size: 22 Copynumber: 6.1 Consensus size: 22
26846 TTTTAAAATA
26856 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGAATTGATT
26878 TATTTTAAAATAT-AGATTGATT
1 TATTTTAAAATATGA-ATTGATT
** *
26900 TATTTTAAAATATGGAA-AAAAT
1 TATTTTAAAATAT-GAATTGATT
26922 TATTTTAAAATATTG-ATTGATT
1 TATTTTAAAATA-TGAATTGATT
26944 TATTTTAAAATAT-AGATTGATT
1 TATTTTAAAATATGA-ATTGATT
* *
26966 TATTTTAAAATATGGACTGATT
1 TATTTTAAAATATGAATTGATT
26988 TAT
1 TAT
26991 GTTGAAAACA
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.03
22 91 0.94
23 2 0.02
24 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (22 bp):
TATTTTAAAATATGAATTGATT
Found at i:26904 original size:44 final size:44
Alignment explanation
Indices: 26856--26990 Score: 184
Period size: 44 Copynumber: 3.1 Consensus size: 44
26846 TTTTAAAATA
26856 TATTTTAAAATATGAATTGATTTATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGAATTGATTTATTTTAAAATATAGATTGATT
** * *
26900 TATTTTAAAATATGGAA-AAAATTATTTTAAAATATTGATTGATT
1 TATTTTAAAATAT-GAATTGATTTATTTTAAAATATAGATTGATT
* *
26944 TATTTTAAAATAT-AGATTGATTTATTTTAAAATATGGACTGATT
1 TATTTTAAAATATGA-ATTGATTTATTTTAAAATATAGATTGATT
26988 TAT
1 TAT
26991 GTTGAAAACA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 74 0.94
45 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (44 bp):
TATTTTAAAATATGAATTGATTTATTTTAAAATATAGATTGATT
Found at i:26926 original size:66 final size:67
Alignment explanation
Indices: 26850--26981 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 67
26840 AATTTATTTT
26850 AAAATATATTTTAAAATA-TGAATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATG
1 AAAATATATTTTAAAATATTG-ATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATG
26914 GAA
65 GAA
26917 AAAAT-TATTTTAAAATATTGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGG
1 AAAATATATTTTAAAATATTGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGG
26981 A
66 A
26982 CTGATTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
66 57 0.89
67 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (67 bp):
AAAATATATTTTAAAATATTGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGG
AA
Found at i:28034 original size:22 final size:22
Alignment explanation
Indices: 28006--28150 Score: 245
Period size: 22 Copynumber: 6.6 Consensus size: 22
27996 TAACTTAACA
28006 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
28028 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
28050 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
28072 ATTTATTTTAAAACATGGAAAA
1 ATTTATTTTAAAATATGGATTG
28094 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
28116 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
28138 ATTTATTTTAAAA
1 ATTTATTTTAAAA
28151 AAATTATTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 113 1.00
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:28231 original size:31 final size:31
Alignment explanation
Indices: 28174--28232 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
28164 AGTTGTATGG
* *
28174 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTAAGTATTACAAAACTAAA
*
28205 ATTATTTAAATTTAAGTATTGCAAAACT
1 ATTATTTAAATTTAAGTATTACAAAACT
28233 TTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTAAGTATTACAAAACTAAA
Found at i:34276 original size:939 final size:936
Alignment explanation
Indices: 30602--35274 Score: 7905
Period size: 931 Copynumber: 5.0 Consensus size: 936
30592 GACATAACTG
30602 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
1 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
30667 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
66 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
* *
30732 TACTTATTAGGCACCGTTTCTGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTT-AGGTT
131 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTTAAGG-T
30796 GATATTTGTGTAAAAACACCAAAAAACAATTTCCAACCTAAAGATGCTGGGATTTCCAACAAGGT
195 GATATTTGTGTAAAAACACCAAAAAA-AATTTCCAACCTAAAGATGC-GGGATTTCCAACAAGGT
* * * * * *
30861 GGGAAAAAACGCCGAGATGTCCCATGCAGGCATGCAACACTGTAGATAACACCCTATTTAGGGAA
258 GGGAAAAGACGCCGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAA
* *
30926 ATAATAATCGAATTGCATTATTTGGGAAAAAAATAATCCCCCAATACATTATTCTGGCTATTTTG
323 ATAATAATCGAACTGCATTATTTGGG--AAAAATAATCCCCCAATACATTATTCCGGCTATTTTG
*
30991 ACCAAATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAA
386 CCCAAATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAA
* *
31056 AATGAATTTTATTTTTAAAGTGTAAAAATTAATGTGTTTAGAAAATCGAATAAATTTTAAAATCA
451 AATGAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCA
*
31121 GAGTTGCCATCGAACTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAAT
516 GAGTTGCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAAT
** *
31186 AAAGGT-AAAAACATTTTTTAAACAAATTGATCTACGTTCACCACAAATTCATTTTTAGGAATCG
581 AAATATAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCG
*
31250 GAAGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGTGCCCAAAATCAAGAGTTATCTAAG
646 GAAGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAG
*
31315 GATTAGTTTATCACTTATTAATTAATTCGTTTCAAACTAAAAGAATATTTTCTATTTTAAGAAAA
711 GATTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAA
*
31380 GATCACGAGATTTGTACGTCCTCTAACAGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAA
776 GATCACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAA
*
31445 TATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATATAAAATAAAAAAATGA
841 TATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGA
*
31510 AGCAACATATAAAAATGAATACATGCATGGT
906 AGCAACATATAAAAATGAATAAATGCATGGT
*
31541 TATTGTGTAATTTCATGCAAAAACTAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
1 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
31606 TAAAGATTTTAGT--A-AAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
66 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
* * * * * *
31668 TGATTATTAGACACCGTTTCAGAAACTTTTACGAATCTAGCAAGTAATTAATTTTTGTTAGGGTG
131 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTTAAGGTG
* * *
31733 CTATTTGTGTTAAAACACC-AAAAAAATTTCCAACCTAAAGATGCCAGGATTTCCAACAAGGTGG
196 ATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAAAGATG-CGGGATTTCCAACAAGGTGG
* * *
31797 GAAAAGATGCCGAGATATCCCATGCA-AGCATGCAACACTATAGATATCACCTCATTTGGGGAAA
260 GAAAAGACGCCGAGATATCCCATGCAGA-CATGCAACACTGTAGATATCACCCCATTTGGGGAAA
* *
31861 TAATAATCGAACTGCATTATTTGAGAAAAAATAATCCCTCAATACATTATTCCGGCTATTTTGCC
324 TAATAATCGAACTGCATTATTTG-GGAAAAATAATCCCCCAATACATTATTCCGGCTATTTTGCC
*
31926 CAAATGGATCAAATCTCATAAGCATATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAA
388 CAAATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAA
*
31991 TGAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCGGA
453 TGAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCAGA
* * *
32056 GTTACCATCGACCTTTGTGTTAGGTAAGTTGAACACCTAAAAGATTCTAAAAATAATTTAAATAA
518 GTTGCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAA
*
32121 ATATAAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGA
583 ATAT-AAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGG
32186 AAGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGG
647 AAGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGG
32251 ATTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAG
712 ATTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAG
*
32316 ATCACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATTTATCTCTTCCCTATACGAGAAT
777 ATCACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAAT
* *
32381 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATATAAAATAAAAAAATAAA
842 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAA
32446 GCAACATATAAAAATGAAT--A--CATGGT
907 GCAACATATAAAAATGAATAAATGCATGGT
*
32472 TATTGTGTAATTTCATGCAAAAATCAAAATTTGT-GAGTTATAAAATAATTTGCAAAAGCATATT
1 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
*
32536 TAAAGATTTTAGTGAAGAAAAAAATTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
66 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
* * * *
32601 TGTTTATTAGGCACCTTTTCAGAAAATTTTACGAATCTAGTAAGCAATTAATTTCTGTTATGGTG
131 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTTAAGGTG
32666 ATATTTGTGTAAAAACACCAAAAAAAATTT-CAACCTAAAGATGCCGGGATTTCCAACAAGGTGG
196 ATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAAAGATG-CGGGATTTCCAACAAGGTGG
* * ***
32730 GAAAAGACGCCGAGATAT--CA-G--G-CATGCAACAATATAGATATCAAATCATTTGGGGAAAT
260 GAAAAGACGCCGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAAAT
* * *
32789 AATAATCGAACTGCATTATTTGGGAAAAATAATCTCCCAATATATTATTCCGACTATTTTGCCCA
325 AATAATCGAACTGCATTATTTGGGAAAAATAATCCCCCAATACATTATTCCGGCTATTTTGCCCA
* *
32854 AATAGATCAAATCTCATAAGCACATTTTTAATTGTCGTAATGTTTATTTTTTCAAAATGAAAATG
390 AATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAATG
*
32919 AATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCGGAGT
455 AATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCAGAGT
*
32984 TGTCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAAAT
520 TGCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAAAT
33049 ATAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGGAAG
585 ATAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGGAAG
33114 TCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGGATT
650 TCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGGATT
*
33179 AGTTTATCACTTATTAATTAATCCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAGATC
715 AGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAGATC
*
33244 ACGAGATTTGTATGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAATATT
780 ACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAATATT
33309 ACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAAGCA
845 ACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAAGCA
* *
33374 ACATATAAAATTGAATACATGCATGGT
910 ACATATAAAAATGAATAAATGCATGGT
* * *
33401 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTTGAGTTTTAAAATAATTTGCAAAAGCGTATT
1 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
33466 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
66 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
* * ** *
33531 TTCTTATTAAGCACTATTTCTGAAAATTTTAC-AGATCTAGTAAGTAATTAATTTCTGTTAAGGT
131 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGA-ATCTAGTAAGTAATTAATTTCTGTTAAGGT
* *
33595 GATATTTGTATAAAAACACCAAAAACAATTTCCAACCTAAAGATGTCGGGATTTCCAACAAGGTG
195 GATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAAAGATG-CGGGATTTCCAACAAGGTG
* * *
33660 AGAAAAGATGCTGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAAA
259 GGAAAAGACGCCGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAAA
**
33725 TAATAATCGAACTATATTATTTGGGAAAAATAATCCCCCAATACATTATTCCGGCTATTTTGCCC
324 TAATAATCGAACTGCATTATTTGGGAAAAATAATCCCCCAATACATTATTCCGGCTATTTTGCCC
**
33790 AAATGGATCAAATCTCATAAGCACATTTTTAATTGTTGTAATGTTTATTTTTTCAAAATGAAAAT
389 AAATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAAT
*
33855 GAATTTTATTTTTAAAATGTAAAAATTAATGTGTTTAGAAAATCGAATAAATTTTAAAATCAGAG
454 GAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCAGAG
* *
33920 TTGCCATCGACCTTTGTGTTTGGTAAGTCGAACACTTAAAAGCTTCTAAAAATAATTTAAATAAA
519 TTGCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAAA
33985 TATAAAAAAACATTTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGG
584 TAT-AAAAAACA-TTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGG
* *
34050 AAGTCGGTTACACGTAGGGAACGGTAATCACCACCACAGCGCCCAAAATCAAGAGTTATATAAGG
647 AAGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGG
34115 ATTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAG
712 ATTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAG
*
34180 ATCACGAGATTTGTACGTCCTCTAACTGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAAT
777 ATCACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAAT
34245 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATG--T---AT--AAAAT-AAAAAATGAA
842 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAA
*
34302 GCAACATATAAAAGTGAATAAATGCATGGT
907 GCAACATATAAAAATGAATAAATGCATGGT
*
34332 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTACAAAAGCATATT
1 TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
* * *
34397 TAAAGATTTTAGCGACGAAAAAAAGTTGGCGTTTTTACATAAATATCACCCTAACATAAATTAAT
66 TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
* *
34462 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGGATCTAGTAAGTAATTAATTTCTGTTAGGGTG
131 TGCTTATTAGGCACCGTTTCAGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTTAAGGTG
*
34527 ATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAGAGATGCGGGGATTTCCAACAAGGTGG
196 ATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAAAGATGC-GGGATTTCCAACAAGGTGG
*
34592 GAAAAGACGCCGAGATATCCCATGCAGGCATGCAACACTGTAGATATCACCCCATTTGGGGAAAT
260 GAAAAGACGCCGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAAAT
* * *
34657 AATATTTGAATTGCATTATTTGGGAAAATATAATCCCCCAATACATTATTCCGGCTATTTTGCCC
325 AATAATCGAACTGCATTATTTGGGAAAA-ATAATCCCCCAATACATTATTCCGGCTATTTTGCCC
*
34722 AAATGGATCAAATCTCATAAGCACATTTTTAATTG-CGTAATGTTTAATTTTTCAAAATGAAAAT
389 AAATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAAT
**
34786 GAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATTAAATAAATTTTAAAATC-GAA
454 GAATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCAG-A
* *
34850 GTTGCCATCGACTTTTGTGTTAGGTAAGTTGAACACCTAAAAGCTTCTAAAAATAATTTAAATAA
518 GTTGCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAA
* *
34915 ATATAAAAACCATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGAA
583 ATATAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGGA
* *
34980 AGTCAGTTACACGTAGGGAACGGTAAGCACCACCACATCGCCCAAAATCAAGAGTTATCTAAGGA
648 AGTCGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGGA
*
35045 TTAGTTTATCACTTATTAATTAATTTGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAGA
713 TTAGTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAGA
* * *
35110 TCCCGAGATTTGTAGGTCCTCTAACGGGAATGTTATCCCATCTATCT-TATCCCTATACGAAAAT
778 TCACGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCT-TCCCTATACGAGAAT
*
35174 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATGAAAAAATGAA
842 ATTACTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAA
*
35239 GCAACATATAAAAGTGAATAAATGCATGGT
907 GCAACATATAAAAATGAATAAATGCATGGT
35269 TATTGT
1 TATTGT
35275 AGACACTAAG
Statistics
Matches: 3527, Mismatches: 168, Indels: 80
0.93 0.04 0.02
Matches are distributed among these distances:
925 332 0.09
926 228 0.06
927 57 0.02
928 1 0.00
929 314 0.09
930 228 0.06
931 602 0.17
932 77 0.02
933 399 0.11
934 128 0.04
935 338 0.10
936 125 0.04
937 332 0.09
938 8 0.00
939 358 0.10
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (936 bp):
TATTGTGTAATTTCATGCAAAAACCAAAATTTGTCGAGTTATAAAATAATTTGCAAAAGCATATT
TAAAGATTTTAGTGAAGAAAAAAAGTTGGTGTTTTTACATAAATATCACCCTAACATAAATTAAT
TGCTTATTAGGCACCGTTTCAGAAAATTTTACGAATCTAGTAAGTAATTAATTTCTGTTAAGGTG
ATATTTGTGTAAAAACACCAAAAAAAATTTCCAACCTAAAGATGCGGGATTTCCAACAAGGTGGG
AAAAGACGCCGAGATATCCCATGCAGACATGCAACACTGTAGATATCACCCCATTTGGGGAAATA
ATAATCGAACTGCATTATTTGGGAAAAATAATCCCCCAATACATTATTCCGGCTATTTTGCCCAA
ATGGATCAAATCTCATAAGCACATTTTTAATTGCCGTAATGTTTATTTTTTCAAAATGAAAATGA
ATTTTATTTTTAAAATGTAAAAATTAATGCGTTTAGAAAATCGAATAAATTTTAAAATCAGAGTT
GCCATCGACCTTTGTGTTAGGTAAGTCGAACACCTAAAAGCTTCTAAAAATAATTTAAATAAATA
TAAAAAACATTTTTTAAACAAATTGATCTACGTTCACCATAAATTCATTTTTAGGAATCGGAAGT
CGGTTACACGTAGGGAACGGTAAGCACCACCACAGCGCCCAAAATCAAGAGTTATCTAAGGATTA
GTTTATCACTTATTAATTAATTCGTTTCGAACTAAAAGAATATTTTCTATTTTAAGAAAAGATCA
CGAGATTTGTACGTCCTCTAACGGGAATGTTATCCCATCTATCTCTTCCCTATACGAGAATATTA
CTTCTTTATTTATTTGGGATCTCATATTAATCATGTATAAAATAAAAAATAAAAAAATGAAGCAA
CATATAAAAATGAATAAATGCATGGT
Found at i:35304 original size:3 final size:3
Alignment explanation
Indices: 35296--35336 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
35286 TTTGCCCCTT
*
35296 TTA TTA TTA TTA TTA TTA TTA TTG TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35337 AATAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36109 original size:22 final size:23
Alignment explanation
Indices: 36060--36109 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
36050 TGGTATTTTT
* *
36060 CGGTCACCGTGAATAGTGACTGA
1 CGGTGACCGTGAATAGTGACGGA
36083 CGGTGACCG-GAATAGTGATCGGA
1 CGGTGACCGTGAATAGTGA-CGGA
36106 -GGTG
1 CGGTG
36110 GTCGAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (23 bp):
CGGTGACCGTGAATAGTGACGGA
Found at i:36411 original size:2 final size:2
Alignment explanation
Indices: 36404--36457 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
36394 TCACTAATTA
36404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36446 AT AT AT AT AT AT
1 AT AT AT AT AT AT
36458 TTAAGGTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36779 original size:67 final size:67
Alignment explanation
Indices: 36708--36840 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
36698 TTTAATACTC
*
36708 TAATTATTATTCTTCATTTTATCTTTATTTAATTTTAATTACATTAATATATATATATATATATA
1 TAATTATTATTCTTCATTTTATCTTTATTTAATTTTAATCACATTAATATATATATATATATATA
36773 TA
66 TA
*
36775 TAATTATTATTCTTCATTTTATCTTTATTTAATTTTAGTCACATTAATATATATATATATATATA
1 TAATTATTATTCTTCATTTTATCTTTATTTAATTTTAATCACATTAATATATATATATATATATA
36840 T
66 T
36841 TAAAAATTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (67 bp):
TAATTATTATTCTTCATTTTATCTTTATTTAATTTTAATCACATTAATATATATATATATATATA
TA
Found at i:38199 original size:2 final size:2
Alignment explanation
Indices: 38192--38220 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38182 TTGGGCCACC
38192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38221 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38778 original size:12 final size:12
Alignment explanation
Indices: 38745--38772 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38735 ACCACATTTC
38745 CAATACCAAACA
1 CAATACCAAACA
38757 CAATACCAAACA
1 CAATACCAAACA
38769 CAAT
1 CAAT
38773 CTCAAAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (12 bp):
CAATACCAAACA
Found at i:38944 original size:24 final size:24
Alignment explanation
Indices: 38899--38945 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
38889 AGTCAGTATT
*
38899 CAAAATTTGATCTTGGTCAATACC
1 CAAAATTTGATCTTGGGCAATACC
* * *
38923 CAAACTTTTATCTTGGGGAATAC
1 CAAAATTTGATCTTGGGCAATAC
38946 TCGGATTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (24 bp):
CAAAATTTGATCTTGGGCAATACC
Found at i:39149 original size:12 final size:12
Alignment explanation
Indices: 39132--39156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39122 ATATAACCCT
39132 GAAGAAGAAAAA
1 GAAGAAGAAAAA
39144 GAAGAAGAAAAA
1 GAAGAAGAAAAA
39156 G
1 G
39157 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:41241 original size:18 final size:18
Alignment explanation
Indices: 41218--41253 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
41208 AAGTAAAAGG
*
41218 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
41236 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
41254 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:41568 original size:20 final size:20
Alignment explanation
Indices: 41539--41578 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
41529 ATGTTGCAAT
*
41539 CAACGTGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
41559 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
41579 TAAACAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:43038 original size:21 final size:21
Alignment explanation
Indices: 43014--43111 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
43004 GCGGGTAGGA
*
43014 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
43035 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
43056 CTTCTTCG-ATGATGAGA-GGG
1 CCTCTT-GAACGATGAGAGGGG
* *
43076 CCTCTTGAACGATAAGAGGCG
1 CCTCTTGAACGATGAGAGGGG
*
43097 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
43112 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.02
20 15 0.25
21 44 0.72
22 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:43109 original size:41 final size:42
Alignment explanation
Indices: 43014--43111 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 42
43004 GCGGGTAGGA
* * ** *
43014 CCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAGAGGCG
* *
43056 CTTCTTCG-ATGATGAGA-GGGCCTCTTGAACGATAAGAGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACGATAAGAGGCG
43097 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
43112 TAGGTGCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.02
41 32 0.70
42 12 0.26
43 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAAGAGGCG
Found at i:43287 original size:4 final size:4
Alignment explanation
Indices: 43255--43300 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
43245 GGGCCGCTGA
* * * *
43255 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
43301 TGCCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:45764 original size:20 final size:20
Alignment explanation
Indices: 45739--45787 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
45729 GCGTAAAAAC
45739 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
45759 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
45779 ATTTGACTT
1 ATTTGACTT
45788 CTGTGTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:45795 original size:20 final size:20
Alignment explanation
Indices: 45739--45795 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
45729 GCGTAAAAAC
45739 ATTTGACTT-TCGCGTTGCGA
1 ATTTGACTTCT-GCGTTGCGA
45759 ATTTGACTATC-GCGTTGCGA
1 ATTTGACT-TCTGCGTTGCGA
*
45779 ATTTGACTTCTGTGTTG
1 ATTTGACTTCTGCGTTG
45796 TGATTTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.42
Consensus pattern (20 bp):
ATTTGACTTCTGCGTTGCGA
Found at i:46007 original size:9 final size:9
Alignment explanation
Indices: 45989--46020 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
45979 CAAAATAGAC
*
45989 CATTTCTCT
1 CATTTATCT
45998 CATTTATCT
1 CATTTATCT
46007 CATTTATCT
1 CATTTATCT
46016 CATTT
1 CATTT
46021 CACTCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (9 bp):
CATTTATCT
Found at i:46618 original size:84 final size:84
Alignment explanation
Indices: 46471--46638 Score: 293
Period size: 84 Copynumber: 2.0 Consensus size: 84
46461 GCAACTTTCG
*
46471 TAGGCGAACTACACTTTTTGTACTAAAAACTTATAAATCATTTTGGAACATAGCTCCATCCATTA
1 TAGGCGAACTACACTTTTTGTACTAAAAACCTATAAATCATTTTGGAACATAGCTCCATCCATTA
46536 TCAACTAACTCACTCTTCA
66 TCAACTAACTCACTCTTCA
* *
46555 TAGGCGAACTGCATTTTTTGTACTAAAAACCTATAAATCATTTTGGAACATAGCTCC-TCCCATT
1 TAGGCGAACTACACTTTTTGTACTAAAAACCTATAAATCATTTTGGAACATAGCTCCAT-CCATT
46619 ATCAACTAACTCACTCTTCA
65 ATCAACTAACTCACTCTTCA
46639 AGCACTTAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
83 1 0.01
84 79 0.99
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (84 bp):
TAGGCGAACTACACTTTTTGTACTAAAAACCTATAAATCATTTTGGAACATAGCTCCATCCATTA
TCAACTAACTCACTCTTCA
Found at i:48389 original size:12 final size:12
Alignment explanation
Indices: 48372--48401 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48362 TAATTAGATG
48372 AAATCAATCATT
1 AAATCAATCATT
48384 AAATCAATCATT
1 AAATCAATCATT
48396 AAATCA
1 AAATCA
48402 TTATAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATCAATCATT
Found at i:53999 original size:20 final size:20
Alignment explanation
Indices: 53905--54273 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
53895 GATTTTCCAT
* ** *
53905 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
53925 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
53945 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
53965 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
53985 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
54005 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54025 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
54045 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
54065 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
54085 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54105 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
54125 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54145 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
54165 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54185 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
54205 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
54225 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
54245 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
54265 AATCACAAC
1 AATCGCAAC
54274 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:54986 original size:24 final size:24
Alignment explanation
Indices: 54947--54993 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
54937 AAATTTGGTC
54947 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
54971 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
54994 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:55184 original size:12 final size:12
Alignment explanation
Indices: 55167--55191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55157 ATATAATCCT
55167 GAAGAAGAAAAA
1 GAAGAAGAAAAA
55179 GAAGAAGAAAAA
1 GAAGAAGAAAAA
55191 G
1 G
55192 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:57584 original size:33 final size:34
Alignment explanation
Indices: 57497--57821 Score: 319
Period size: 33 Copynumber: 9.2 Consensus size: 34
57487 CGGAAAATAC
* *
57497 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
57530 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
57564 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
57602 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
57635 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
57668 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
57706 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
57744 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
57776 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
57815 AATCGCA
1 AATCGCA
57822 TCGAGATAAT
Statistics
Matches: 256, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 90 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:57758 original size:161 final size:157
Alignment explanation
Indices: 57525--57844 Score: 543
Period size: 161 Copynumber: 2.0 Consensus size: 157
57515 AAATCCCAAC
*
57525 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
57590 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
57655 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
57682 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
57746 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
* *
57811 TGAAAATCGCATCGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
57843 AT
1 AT
57845 TATAAACGCA
Statistics
Matches: 153, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 119 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:57854 original size:19 final size:19
Alignment explanation
Indices: 57497--57844 Score: 405
Period size: 19 Copynumber: 19.8 Consensus size: 19
57487 CGGAAAATAC
*
57497 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57516 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
57530 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
57550 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
57564 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57583 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57602 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
57616 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57635 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57654 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
57668 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57687 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
57706 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
57725 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57744 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57763 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
57777 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57796 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57815 AATCGC-AT-CG--A-GAT
1 AATCGCAATGCGAAATGAA
57829 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
57845 TATAAACGCA
Statistics
Matches: 285, Mismatches: 13, Indels: 62
0.79 0.04 0.17
Matches are distributed among these distances:
14 58 0.20
15 6 0.02
16 15 0.05
17 14 0.05
18 7 0.02
19 172 0.60
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:57860 original size:52 final size:52
Alignment explanation
Indices: 57525--57844 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
57515 AAATCCCAAC
57525 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
57578 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
57630 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
57682 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
57739 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
57791 ATGAAAATCGCAATGCGAAATGAAAATCGCATCGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
57843 AT
1 AT
57845 TATAAACGCA
Statistics
Matches: 254, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 183 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:57959 original size:19 final size:19
Alignment explanation
Indices: 57851--57951 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
57841 AAATTATAAA
57851 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57870 CCGCATTGCGA-TTTCATTT
1 -CGCATTGCGATTTTCATTT
*
57889 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
57905 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57922 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57941 CGCATTGCGAT
1 CGCATTGCGAT
57952 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
18 10 0.14
19 34 0.46
20 10 0.14
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:57959 original size:38 final size:37
Alignment explanation
Indices: 57851--57951 Score: 140
Period size: 33 Copynumber: 2.8 Consensus size: 37
57841 AAATTATAAA
57851 CGCATTGCGATTTTCATTTCCGCATTGCGATTTCATTT
1 CGCATTGCGATTTTCATTT-CGCATTGCGATTTCATTT
*
57889 CGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATTT
57922 CGCATTGCGATTTTCATTTCGCATTGCGAT
1 CGCATTGCGATTTTCATTTCGCATTGCGAT
57952 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
32 6 0.11
33 18 0.33
34 2 0.04
35 5 0.09
36 7 0.13
37 1 0.02
38 16 0.29
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (37 bp):
CGCATTGCGATTTTCATTTCGCATTGCGATTTCATTT
Found at i:58077 original size:14 final size:14
Alignment explanation
Indices: 58058--58094 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
58048 CATCAATTAC
58058 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
58072 ACAAATCATCTTTT
1 ACAAATCAACTTTT
58086 ACAAATCAA
1 ACAAATCAA
58095 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:58106 original size:12 final size:12
Alignment explanation
Indices: 58089--58161 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
58079 ATCTTTTACA
58089 AATCAATTAAAC
1 AATCAATTAAAC
*
58101 AATCAA--AAATTG
1 AATCAATTAAA--C
**
58113 AATCAACTTTTAC
1 AATCAA-TTAAAC
58126 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
58139 AATCAA-AAAAC
1 AATCAATTAAAC
58150 AATCAATTAAAC
1 AATCAATTAAAC
58162 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:58123 original size:38 final size:38
Alignment explanation
Indices: 58075--58147 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
58065 AACTTTTACA
*
58075 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
58113 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
58148 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:60003 original size:19 final size:19
Alignment explanation
Indices: 59963--60097 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
59953 TAGTTTACTT
* *
59963 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
59983 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
60002 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
60021 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
60035 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
60054 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
60068 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
60087 TCGCAATGCGA
1 TCGCAACGCGA
60098 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:60038 original size:14 final size:14
Alignment explanation
Indices: 60019--60075 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
60009 GCGAAATGAA
*
60019 AATCGCAACGACAG
1 AATCGCAACGAAAG
60033 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
60050 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
60066 AATCGCAACG
1 AATCGCAACG
60076 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:60042 original size:33 final size:33
Alignment explanation
Indices: 60000--60092 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
59990 GCGAAACCAA
*
60000 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
60033 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
60066 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
60093 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:60089 original size:52 final size:54
Alignment explanation
Indices: 59963--60097 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
59953 TAGTTTACTT
*
59963 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
60021 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
60068 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
60098 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:60115 original size:19 final size:19
Alignment explanation
Indices: 60093--60221 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
60083 AAAATCGCAA
60093 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
60112 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
60126 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
60145 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
60159 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
60178 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
60197 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
60217 TGCGA
1 TGCGA
60222 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:60135 original size:33 final size:33
Alignment explanation
Indices: 60093--60184 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
60083 AAAATCGCAA
60093 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
60126 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
60159 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
60185 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:60384 original size:93 final size:93
Alignment explanation
Indices: 60264--60641 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
60254 TTGAATGGAT
60264 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
60329 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
60357 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
60422 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
60450 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
60512 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
60540 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
60605 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
60633 AAATTTACT
1 AAATTTACT
60642 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
90 87 0.31
91 3 0.01
92 3 0.01
93 188 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:60575 original size:183 final size:186
Alignment explanation
Indices: 60264--60641 Score: 726
Period size: 183 Copynumber: 2.0 Consensus size: 186
60254 TTGAATGGAT
60264 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
60329 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
60394 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
60450 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
60512 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
60577 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
60633 AAATTTACT
1 AAATTTACT
60642 AAGCAATCTA
Statistics
Matches: 191, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
183 154 0.81
184 1 0.01
185 2 0.01
186 34 0.18
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:62360 original size:14 final size:14
Alignment explanation
Indices: 62341--62430 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
62331 TTGAAATGAA
62341 AATCGCAACGAGAG
1 AATCGCAACGAGAG
62355 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
62372 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
62388 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
62407 AATCGCAACGAGAG
1 AATCGCAACGAGAG
62421 AATCGCAACG
1 AATCGCAACG
62431 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:62378 original size:33 final size:33
Alignment explanation
Indices: 62333--62447 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
62323 TCTTTTGGTT
62333 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
62366 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
62399 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
62432 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
62448 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:62379 original size:19 final size:18
Alignment explanation
Indices: 62340--62452 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
62330 GTTGAAATGA
62340 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
62355 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
62372 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
62388 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
62405 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
62421 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
62438 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
62453 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:62483 original size:14 final size:14
Alignment explanation
Indices: 62464--62518 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
62454 TTTGGTTTCG
62464 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
62478 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
62497 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
62511 CGTTGCGA
1 CGTTGCGA
62519 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:62681 original size:33 final size:33
Alignment explanation
Indices: 62639--62709 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
62629 AATACTAACT
*
62639 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
62672 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
62705 TGAAA
1 TGAAA
62710 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:62943 original size:22 final size:22
Alignment explanation
Indices: 62891--62945 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
62881 TGGTTGTGAG
**
62891 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
62913 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
62935 GGATTTCTTCG
1 GGATTTCTTCG
62946 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:63116 original size:20 final size:20
Alignment explanation
Indices: 63091--63284 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
63081 CTTTAAATAT
63091 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
63111 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
63133 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
63152 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
63172 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
63192 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
63212 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
63232 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
63252 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
63272 CGCGTTGCGATTT
1 CGCGTTGCGATTT
63285 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:63278 original size:60 final size:60
Alignment explanation
Indices: 63091--63284 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
63081 CTTTAAATAT
**
63091 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
63152 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
63212 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
63272 CGCGTTGCGATTT
1 CGCGTTGCGATTT
63285 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:63301 original size:21 final size:20
Alignment explanation
Indices: 63277--63353 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
63267 ATATTCGCGT
63277 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
63298 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
63318 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
63340 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
63354 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:63364 original size:20 final size:20
Alignment explanation
Indices: 63339--63390 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
63329 AAGAATCGCG
*
63339 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
63359 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
63379 TTGCGATTCTGG
1 TTGCGATTCTGG
63391 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:64182 original size:22 final size:23
Alignment explanation
Indices: 64152--64198 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
64142 AAAATATATT
*
64152 TATTAATATTTCTATTAATATAA
1 TATTAATATTTCTAATAATATAA
* *
64175 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
64197 TA
1 TA
64199 AAATAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:64212 original size:32 final size:32
Alignment explanation
Indices: 64146--64225 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
64136 ATATTTAAAA
* * *
64146 TATATTTATTAATATTTCTATTAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
64178 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
64210 TATATTATAATAATAT
1 TATATT-TATTAATAT
64226 AAAATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 12 0.31
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.13
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:64234 original size:23 final size:23
Alignment explanation
Indices: 64188--64238 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
64178 TATATTTTTA
*
64188 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATAAATT
*
64211 ATATTATAATAATATAA-AATATT
1 ATATTATAATAAAATAATAA-ATT
64234 ATATT
1 ATATT
64239 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAATAAATT
Found at i:64267 original size:29 final size:29
Alignment explanation
Indices: 64173--64261 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
64163 CTATTAATAT
* * *
64173 AATATTATATTTTTAATATTAT-A-ATAA
1 AATAATATATTTTTATTATAATAATATAA
*
64200 AATAATCA-A-TTATATTATAATAATATAA
1 AATAAT-ATATTTTTATTATAATAATATAA
* * *
64228 AATATTATATTTTTATTTTAATAATATAT
1 AATAATATATTTTTATTATAATAATATAA
64257 AATAA
1 AATAA
64262 ATTATTAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 9 0.19
27 8 0.17
28 11 0.23
29 20 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAATATATTTTTATTATAATAATATAA
Found at i:64288 original size:45 final size:44
Alignment explanation
Indices: 64224--64314 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 44
64214 TTATAATAAT
64224 ATAAAATATTATATTTTTATTTTAA-TAATATATAATAA-ATTATTA
1 ATAAAATATTATATTTTTA--TTAAGTAATATA-AATAATATTATTA
64269 ATAAAAT-TTATATTATTTATTAAGTTAATATAAATAATATTATTA
1 ATAAAATATTATATT-TTTATTAAG-TAATATAAATAATATTATTA
64314 A
1 A
64315 ATTATTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
43 4 0.10
44 12 0.29
45 26 0.62
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (44 bp):
ATAAAATATTATATTTTTATTAAGTAATATAAATAATATTATTA
Found at i:64331 original size:27 final size:26
Alignment explanation
Indices: 64164--64339 Score: 88
Period size: 27 Copynumber: 6.8 Consensus size: 26
64154 TTAATATTTC
*
64164 TATTAAT-ATAATATTATATTTTTAATAT
1 TATTAATAATAATA--ATATTATTAA-AT
*
64192 TA-TAATAA-AATAATCA--ATTATAT
1 TATTAATAATAATAAT-ATTATTAAAT
* *
64215 TA-TAATAAT-ATAA-AATATTATAT
1 TATTAATAATAATAATATTATTAAAT
* ** *
64238 T-TTTATTTTAATAATATATAATAAAT
1 TATTAATAATAATAATAT-TATTAAAT
* *
64264 TATTAATAA-AATTTATATTATT-TAT
1 TATTAATAATAA-TAATATTATTAAAT
64289 TAAGTTAAT-ATAAATAATATTATTAAAT
1 T-A-TTAATAAT-AATAATATTATTAAAT
64317 TATTAATAATGAATAATATTATT
1 TATTAATAAT-AATAATATTATT
64340 TATATATTTA
Statistics
Matches: 114, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
21 1 0.01
23 26 0.23
24 7 0.06
25 6 0.05
26 20 0.18
27 46 0.40
28 8 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TATTAATAATAATAATATTATTAAAT
Found at i:64347 original size:27 final size:28
Alignment explanation
Indices: 64278--64352 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
64268 AATAAAATTT
64278 ATATTATTTAT-TAAGTTAAT-ATAAATA
1 ATATTATTTATAT-AGTTAATAATAAATA
* *
64305 ATATTA-TTAAATTA-TTAATAATGAATA
1 ATATTATTTATA-TAGTTAATAATAAATA
*
64332 ATATTATTTATATATTTAATA
1 ATATTATTTATATAGTTAATA
64353 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 8 0.20
27 21 0.52
28 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
ATATTATTTATATAGTTAATAATAAATA
Found at i:64524 original size:31 final size:33
Alignment explanation
Indices: 64458--64526 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 33
64448 ATATAATTTA
* *
64458 TAATATTTTTATTTCAATAAAATATACTAATAT
1 TAATATTTTTATTTCAATAAAATATACAAAAAT
64491 TAATATTTTTA-TT-AATAAAATTATA-AAAAAT
1 TAATATTTTTATTTCAATAAAA-TATACAAAAAT
64522 TAATA
1 TAATA
64527 AGAGATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 16 0.48
32 6 0.18
33 11 0.33
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATTTTTATTTCAATAAAATATACAAAAAT
Found at i:74416 original size:12 final size:12
Alignment explanation
Indices: 74401--74427 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
74391 ACTGACCTTC
74401 CAACTGATCCTA
1 CAACTGATCCTA
74413 CAACTGATCCTA
1 CAACTGATCCTA
74425 CAA
1 CAA
74428 GAATCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (12 bp):
CAACTGATCCTA
Done.