Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 96 of 311
Found at i:31867910 original size:24 final size:25
Alignment explanation
Indices: 31867883--31867936 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
31867873 GCAGCAGCTA
* * *
31867883 ATTAATT-TGTTCTAATCTAGACAC
1 ATTAATTATGTCCTAAACCAGACAC
*
31867907 ATTAATTATGTCCTAAACCAGACAT
1 ATTAATTATGTCCTAAACCAGACAC
31867932 ATTAA
1 ATTAA
31867937 AACACATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (25 bp):
ATTAATTATGTCCTAAACCAGACAC
Found at i:31871315 original size:42 final size:42
Alignment explanation
Indices: 31871267--31871480 Score: 179
Period size: 42 Copynumber: 5.0 Consensus size: 42
31871257 CGATGCCTCA
* *
31871267 GTCCCAGACAGGGTCTTACACGAAATTAGATACAATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATTAGATACGATGCCGAT
* *
31871309 GTCCCAGACATGGTCTTATACGTAAATTTCA-AT-CGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACG-AAA-TT-AGATACGATGCC-GAT
* * * * * *
31871352 GTCCTAGATAGGGTCTCACACGAAATCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATTAGATACGATGCCGAT
* * *
31871394 GTCCCAAACATGGTCTTATACGTAAATCTCA-AT-CGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACG-AAAT-T-AGATACGATGCC-GAT
* *
31871437 GTCCCAGGCATGGTCTTACACGAAATCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATTAGATACGATGCCGAT
31871479 GT
1 GT
31871481 TCAGCCGAAT
Statistics
Matches: 132, Mismatches: 26, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
40 2 0.02
41 6 0.05
42 59 0.45
43 56 0.42
44 7 0.05
45 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATTAGATACGATGCCGAT
Found at i:31871365 original size:85 final size:85
Alignment explanation
Indices: 31871216--31871480 Score: 345
Period size: 85 Copynumber: 3.1 Consensus size: 85
31871206 ATCAAGTATA
* * * * * **
31871216 ATGCCAATGTCCCAAACGTGGTCTTACATGT-AA-CTCATTATCGATGCCTCAGTCCCAGACAGG
1 ATGCCGATGTCCCAAACATGGTCTTATACGTAAATCTCA--ATCGAGGCCTGTGTCCCAGACAGG
* *
31871279 GTCTTACACGAAATTAGATACA
64 GTCTTACACGAAATCAGATACG
* * * *
31871301 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCTGTGTCCTAGATAGGGT
1 ATGCCGATGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACAGGGT
*
31871366 CTCACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * *
31871386 ATGCCAATGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGGCATGGT
1 ATGCCGATGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACAGGGT
31871451 CTTACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
31871471 ATGCCGATGT
1 ATGCCGATGT
31871481 TCAGCCGAAT
Statistics
Matches: 155, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
85 150 0.97
86 2 0.01
87 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
ATGCCGATGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACAGGGT
CTTACACGAAATCAGATACG
Found at i:31871449 original size:43 final size:42
Alignment explanation
Indices: 31871223--31871463 Score: 161
Period size: 43 Copynumber: 5.7 Consensus size: 42
31871213 ATAATGCCAA
* * * * * *
31871223 TGTCCCAAACGTGGTCTTACATGTAA-CTCATTATCGATGCCTC
1 TGTCCCAGACATGGTCTTACACGAAATCTCA--ATCGAGGCCTG
* * * *
31871266 AGTCCCAGACAGGGTCTTACACGAAAT-T-AGATACAATGCC-G
1 TGTCCCAGACATGGTCTTACACGAAATCTCA-AT-CGAGGCCTG
* *
31871307 ATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCTG
1 -TGTCCCAGACATGGTCTTACACG-AAATCTCAATCGAGGCCTG
* * * * * **
31871351 TGTCCTAGATAGGGTCTCACACGAAA--TCAGATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCA-AT-CGAGGCCTG
* *
31871393 TGTCCCAAACATGGTCTTATACGTAAATCTCAATCGAGGCCTG
1 TGTCCCAGACATGGTCTTACACG-AAATCTCAATCGAGGCCTG
*
31871436 TGTCCCAGGCATGGTCTTACACGAAATC
1 TGTCCCAGACATGGTCTTACACGAAATC
31871464 AGATACGATG
Statistics
Matches: 152, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.02
41 4 0.03
42 58 0.38
43 77 0.51
44 6 0.04
45 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAATCGAGGCCTG
Found at i:31873931 original size:6 final size:6
Alignment explanation
Indices: 31873920--31873958 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
31873910 GGTTAGAAAA
31873920 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAG
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAG
31873959 GTCGAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.67, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:31874532 original size:6 final size:6
Alignment explanation
Indices: 31874530--31874643 Score: 56
Period size: 6 Copynumber: 18.3 Consensus size: 6
31874520 GTTGAAAAAG
* * *
31874530 AAAGAA AAA-AA AAAGAAA AAAGAA ATGAGAA AAAGAA AGAAAAA AATAGCA
1 AAAGAA AAAGAA AAAG-AA AAAGAA A-AAGAA AAAGAA A-AAGAA AA-AGAA
* * * *
31874581 AAAG-- AAAGAA AAGAGAA AATGAGA GAAGAAA ACAAGAA AATGAA AATGAA
1 AAAGAA AAAGAA AA-AGAA AAAGA-A AAAG-AA A-AAGAA AAAGAA AAAGAA
*
31874631 AATG-A AAAGAA AA
1 AAAGAA AAAGAA AA
31874644 GTTTCATTGC
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.05
5 9 0.11
6 35 0.41
7 33 0.39
8 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:31874548 original size:20 final size:21
Alignment explanation
Indices: 31874525--31874594 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 21
31874515 ATGAAGTTGA
*
31874525 AAAAGAAAGA-AAAAAAAAAG
1 AAAAGAAAGAGAAAAAGAAAG
31874545 AAAAAAGAAATGAGAAAAAGAAAG
1 --AAAAGAAA-GAGAAAAAGAAAG
* *
31874569 AAAA-AAATAGCAAAAGAAAG
1 AAAAGAAAGAGAAAAAGAAAG
31874589 AAAAGA
1 AAAAGA
31874595 GAAAATGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.36
21 4 0.10
22 12 0.29
23 2 0.05
24 9 0.21
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAAGAAAGAGAAAAAGAAAG
Found at i:31874549 original size:12 final size:12
Alignment explanation
Indices: 31874524--31874575 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
31874514 AATGAAGTTG
*
31874524 AAAAAGAAAG-A
1 AAAAAAAAAGAA
31874535 AAAAAAAAAGAA
1 AAAAAAAAAGAA
* * *
31874547 AAAAGAAATGAG
1 AAAAAAAAAGAA
*
31874559 AAAAAGAAAGAA
1 AAAAAAAAAGAA
31874571 AAAAA
1 AAAAA
31874576 TAGCAAAAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:31876261 original size:12 final size:13
Alignment explanation
Indices: 31876233--31876261 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31876223 TGCCAAGATT
31876233 ATACCATAAATAC
1 ATACCATAAATAC
31876246 ATACCATAAA-AC
1 ATACCATAAATAC
31876258 ATAC
1 ATAC
31876262 TTTCCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (13 bp):
ATACCATAAATAC
Found at i:31878964 original size:43 final size:43
Alignment explanation
Indices: 31878892--31878995 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
31878882 AATAAACTCA
* * *
31878892 CACACTTAGTGTGCTAATTAATTAACCGAAGCTATAATTGTATCG
1 CACACTTA--GTGCCAATTAATTAACCGAAGATATAATTGTACCG
*
31878937 CACACTTAGTGCCAATTAATTAGCCGAAGATATAATTGTACCG
1 CACACTTAGTGCCAATTAATTAACCGAAGATATAATTGTACCG
31878980 CACACTTAGTGCCAAT
1 CACACTTAGTGCCAAT
31878996 AGATTAAACC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 47 0.85
45 8 0.15
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
CACACTTAGTGCCAATTAATTAACCGAAGATATAATTGTACCG
Found at i:31881109 original size:25 final size:25
Alignment explanation
Indices: 31881072--31881128 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
31881062 GTAATGAGGG
*
31881072 GATAA-GGGAGAAGATTTAGGAGTT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
31881096 GATAAGGGGAGAAGTTTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
31881121 GATTAGGG
1 GATAAGGG
31881129 AGGGAAGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.25
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:31882565 original size:27 final size:26
Alignment explanation
Indices: 31882525--31882630 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 26
31882515 AGGAAGCATC
*
31882525 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
31882552 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
31882579 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
31882607 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
31882631 TCCTGGCAGC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
26 2 0.03
27 52 0.73
28 17 0.24
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:31882629 original size:54 final size:54
Alignment explanation
Indices: 31882523--31882645 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
31882513 GGAGGAAGCA
*
31882523 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTG
* * * *
31882577 TTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTG
**
31882631 TCCTGGCAGCTATGC
1 TCCTGGTGGCTATGC
31882646 TGCATATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 41 0.69
55 18 0.31
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTG
Found at i:31892517 original size:24 final size:24
Alignment explanation
Indices: 31892490--31892549 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
31892480 GTAAGGAGGG
31892490 GATAAGGGAGAAGATTTAGGAGAT
1 GATAAGGGAGAAGATTTAGGAGAT
* *
31892514 GATAAGGGGAGAAGTTTTAGGAGCT
1 GATAA-GGGAGAAGATTTAGGAGAT
*
31892539 GATTAGGGAGA
1 GATAAGGGAGA
31892550 GCAGTGTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.37, C:0.02, G:0.40, T:0.22
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGAT
Found at i:31893984 original size:27 final size:26
Alignment explanation
Indices: 31893944--31894048 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
31893934 AGGAAGCGTC
*
31893944 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
31893971 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
31893998 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
31894026 CTGGTGACTCTGTCATATTATCT
1 CTGGTGGCTCTGCCACATTATCT
31894049 ATCCTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 49 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:31899592 original size:43 final size:43
Alignment explanation
Indices: 31899529--31899627 Score: 180
Period size: 43 Copynumber: 2.3 Consensus size: 43
31899519 TTCAATAAAC
* *
31899529 TCGCACACTTAGTGCTAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCAAATTAACTAGCCGAAGCTATAATTGTA
31899572 TCGCACACTTAGTGCAAATTAACTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCAAATTAACTAGCCGAAGCTATAATTGTA
31899615 TCGCACACTTAGT
1 TCGCACACTTAGT
31899628 ACCAATAGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (43 bp):
TCGCACACTTAGTGCAAATTAACTAGCCGAAGCTATAATTGTA
Found at i:31905091 original size:17 final size:17
Alignment explanation
Indices: 31905071--31905126 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
31905061 AGAAGAGACC
31905071 TAGTGTGGATGAGGGGT
1 TAGTGTGGATGAGGGGT
* * ***
31905088 TAGTGCGTGAAGA-GACC
1 TAGTGTG-GATGAGGGGT
31905105 TAGTGTGGATGAGGGGT
1 TAGTGTGGATGAGGGGT
31905122 TAGTG
1 TAGTG
31905127 CGTGACTTCT
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.46, T:0.27
Consensus pattern (17 bp):
TAGTGTGGATGAGGGGT
Found at i:31905105 original size:34 final size:34
Alignment explanation
Indices: 31905062--31905131 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
31905052 TGTTTTGTGA
31905062 GAAGAGACCTAGTGTGGATGAGGGGTTAGTGCGT
1 GAAGAGACCTAGTGTGGATGAGGGGTTAGTGCGT
31905096 GAAGAGACCTAGTGTGGATGAGGGGTTAGTGCGT
1 GAAGAGACCTAGTGTGGATGAGGGGTTAGTGCGT
31905130 GA
1 GA
31905132 CTTCTATGCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.23
Consensus pattern (34 bp):
GAAGAGACCTAGTGTGGATGAGGGGTTAGTGCGT
Found at i:31909448 original size:21 final size:20
Alignment explanation
Indices: 31909412--31909461 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
31909402 ATCAGCTCAC
*
31909412 TTGAGCTCATTTTAGCTCGT
1 TTGAGCTCAATTTAGCTCGT
31909432 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTC-AATTTAGCTCGT
*
31909453 TTCAGCTCA
1 TTGAGCTCA
31909462 TTCCTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGAGCTCAATTTAGCTCGT
Found at i:31909703 original size:13 final size:13
Alignment explanation
Indices: 31909685--31909709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31909675 AATAGTTGTG
31909685 TGTTATTTAATTA
1 TGTTATTTAATTA
31909698 TGTTATTTAATT
1 TGTTATTTAATT
31909710 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:31911887 original size:19 final size:20
Alignment explanation
Indices: 31911855--31911895 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
31911845 GAATGAAATC
31911855 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
31911875 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
31911894 GA
1 GA
31911896 AAATGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:31914036 original size:20 final size:21
Alignment explanation
Indices: 31914007--31914062 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
31913997 AGTTCCCATC
* *
31914007 AGCTCATTTGAGCTCG-TTTT
1 AGCTCGTTTGAGCTCGAATTT
31914027 AGCTCGTTTGAGCTCGAATTT
1 AGCTCGTTTGAGCTCGAATTT
*
31914048 AGCTCGTTTCAGCTC
1 AGCTCGTTTGAGCTC
31914063 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (21 bp):
AGCTCGTTTGAGCTCGAATTT
Found at i:31919827 original size:11 final size:11
Alignment explanation
Indices: 31919811--31919850 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
31919801 CATAAATCAC
31919811 TTTTTTTCGAT
1 TTTTTTTCGAT
* *
31919822 TTTTTTTTGAA
1 TTTTTTTCGAT
31919833 TTTTTTTCGAT
1 TTTTTTTCGAT
31919844 TTTTTTT
1 TTTTTTT
31919851 TAACTTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTTCGAT
Found at i:31920245 original size:14 final size:14
Alignment explanation
Indices: 31920228--31920267 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31920218 CGAATGGAAT
*
31920228 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
31920242 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
31920256 GATATGAACAAA
1 GGTAGGAACAAA
31920268 TTGGTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:31925379 original size:26 final size:26
Alignment explanation
Indices: 31925349--31925425 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
31925339 GCCAATACAC
31925349 TAATATCGTAGCAAAGCTGCCAGTAA
1 TAATATCGTAGCAAAGCTGCCAGTAA
* * *
31925375 TAATATCGTAGAAAAGTTGCTAGTAA
1 TAATATCGTAGCAAAGCTGCCAGTAA
* * * * *
31925401 CAGTAACGCAACAAAGCTGCCAGTA
1 TAATATCGTAGCAAAGCTGCCAGTA
31925426 TCAGTATATG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (26 bp):
TAATATCGTAGCAAAGCTGCCAGTAA
Found at i:31925484 original size:20 final size:20
Alignment explanation
Indices: 31925434--31925525 Score: 112
Period size: 20 Copynumber: 4.6 Consensus size: 20
31925424 TATCAGTATA
* *
31925434 TGGCACGAAGCCATCAATGG
1 TGGCACAAAGCCATCAATAG
* * *
31925454 CGGTACCAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
** *
31925474 TGGCACAAAGCTGTCAATAA
1 TGGCACAAAGCCATCAATAG
31925494 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
31925514 TGGCACAAAGCC
1 TGGCACAAAGCC
31925526 TTAAATATCA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:31940797 original size:24 final size:25
Alignment explanation
Indices: 31940714--31940807 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
31940704 CTCTTTTAAT
*
31940714 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
31940739 AACTGGGGAAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
31940764 AACTGCGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
31940789 AACT-GGGCAGAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
31940808 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
24 11 0.18
25 51 0.82
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:31941059 original size:27 final size:27
Alignment explanation
Indices: 31941010--31941173 Score: 229
Period size: 27 Copynumber: 6.0 Consensus size: 27
31941000 GGGGCAAAAT
* * * *
31941010 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
31941038 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
31941065 GGTATTTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31941092 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31941119 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31941146 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31941173 G
1 G
31941174 ATATTTTACA
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
27 115 0.96
28 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31941085 original size:54 final size:54
Alignment explanation
Indices: 31941014--31941180 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
31941004 CAAAATGGTA
* * *
31941014 ATTTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
31941068 ATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * * *
31941122 AATTCTACCTTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
1 ATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
31941176 ATTTT
1 ATTTT
31941181 ACAAATCGAG
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (54 bp):
ATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:31941222 original size:27 final size:26
Alignment explanation
Indices: 31941164--31941224 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
31941154 TACCCTACAG
* *
31941164 GGGTATTTCGATATTTTACAAATCGA
1 GGGTATTTCAATATTTCACAAATCGA
*
31941190 GAGTATTTCAATAATTTCACAAATC-A
1 GGGTATTTCAAT-ATTTCACAAATCGA
31941216 TGGGTATTT
1 -GGGTATTT
31941225 TGGTAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
GGGTATTTCAATATTTCACAAATCGA
Found at i:31941287 original size:81 final size:81
Alignment explanation
Indices: 31941176--31941367 Score: 224
Period size: 81 Copynumber: 2.4 Consensus size: 81
31941166 GTATTTCGAT
* * * * * * *
31941176 ATTTTACAAATCGAGAGTATTTCAATAATTTCACAAATCATGGGTATTTTGGTAATTTTAC-AAG
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACTAAG
*
31941240 CCAGTGGTATTTTGGTA
66 CCAG-GATATTTTGGTA
* * * *
31941257 ATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGAT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACTAAG
*
31941322 CGAGGATATTTTGGTA
66 CCAGGATATTTTGGTA
** *
31941338 ATTTTGTAAACCAAGGGTATTTTGGTAATT
1 ATTTTACAAACCAAGGGTATTTTAGTAATT
31941368 CTATAAATCG
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 89 0.96
82 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACTAAG
CCAGGATATTTTGGTA
Found at i:31941374 original size:27 final size:27
Alignment explanation
Indices: 31941201--31941367 Score: 192
Period size: 27 Copynumber: 6.2 Consensus size: 27
31941191 AGTATTTCAA
* * *
31941201 TAATTTCACAAATCATGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
*
31941228 TAATTTTACAAGCC-AGTGGTATTTTGG
1 TAATTTTACAAACCAAG-GGTATTTTGG
* *
31941255 TAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAACCAAGGGTATTTTGG
*
31941282 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
** * * *
31941309 TAATTTTACTGATCGAGGATATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
**
31941336 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
31941363 TAATT
1 TAATT
31941368 CTATAAATCG
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAACCAAGGGTATTTTGG
Found at i:31941394 original size:81 final size:81
Alignment explanation
Indices: 31941320--31941569 Score: 212
Period size: 81 Copynumber: 3.1 Consensus size: 81
31941310 AATTTTACTG
31941320 ATCGAGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTCTATAAATCGAGGGTAA
1 ATCGAGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTCTATAAATCGAGGGTAA
31941385 AACGATAATTCTATAA
66 AACGATAATTCTATAA
* ***** *** ***
31941401 ATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAA
1 ATCGAGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTCTATAAATCGAGGGTAA
* **
31941466 AATGGCAATTCTATAA
66 AACGATAATTCTATAA
* **** * * * * **** *
31941482 ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTCTATAAATCGAGGGTAA
* * *
31941547 AATGGTAATTCTGTAA
66 AACGATAATTCTATAA
31941563 ATCGAGG
1 ATCGAGG
31941570 GTAAAATGGT
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
ATCGAGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTCTATAAATCGAGGGTAA
AACGATAATTCTATAA
Found at i:31941626 original size:27 final size:27
Alignment explanation
Indices: 31941361--31941610 Score: 383
Period size: 27 Copynumber: 9.3 Consensus size: 27
31941351 AGGGTATTTT
31941361 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
31941388 GATAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
* * * * *
31941415 AGTAATTTTGTAAATTGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
31941442 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
31941469 GGCAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
31941496 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
* *
31941523 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
* *
31941550 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
31941577 GGTAATTCTATAAATCAAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
31941604 GGTAATT
1 GGTAATT
31941611 TTACAAATTG
Statistics
Matches: 204, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 204 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAATTCTATAAATCGAGGGTAAAAC
Found at i:31943877 original size:33 final size:33
Alignment explanation
Indices: 31943835--31943898 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
31943825 TAGCAATGTT
31943835 GAATTTAACCCAAACAGACCAATGATACTTTTC
1 GAATTTAACCCAAACAGACCAATGATACTTTTC
31943868 GAATTTAACCCAAACAGACCAATGATACTTT
1 GAATTTAACCCAAACAGACCAATGATACTTT
31943899 CATCTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (33 bp):
GAATTTAACCCAAACAGACCAATGATACTTTTC
Found at i:31951181 original size:13 final size:13
Alignment explanation
Indices: 31951163--31951187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31951153 AGGATGTTAC
31951163 AAATCACATATCA
1 AAATCACATATCA
31951176 AAATCACATATC
1 AAATCACATATC
31951188 GATGCCAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATCACATATCA
Found at i:31951279 original size:55 final size:56
Alignment explanation
Indices: 31951176--31951284 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 56
31951166 TCACATATCA
31951176 AAATCACATATCGATGCCAAAGTATTAAACGTGGTCTTACTCGCACACATATATTG
1 AAATCACATATCGATGCCAAAGTATTAAACGTGGTCTTACTCGCACACATATATTG
* * *
31951232 AAATCACATATCGATGCCAATG-ATTAAACGTGGTCTTTCTCGTACACATATAT
1 AAATCACATATCGATGCCAAAGTATTAAACGTGGTCTTACTCGCACACATATAT
31951285 CGAAGCCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 29 0.58
56 21 0.42
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (56 bp):
AAATCACATATCGATGCCAAAGTATTAAACGTGGTCTTACTCGCACACATATATTG
Found at i:31951880 original size:15 final size:15
Alignment explanation
Indices: 31951857--31951887 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31951847 TCAAAAATTC
31951857 CAATACAAAACATAT
1 CAATACAAAACATAT
*
31951872 CAATCCAAAACATAT
1 CAATACAAAACATAT
31951887 C
1 C
31951888 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:31954051 original size:43 final size:43
Alignment explanation
Indices: 31953881--31954052 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
31953871 ACATAGGATC
*
31953881 CGATATGTG-TTATCGTGTAAGACCACGTCT-GAGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTAG-GACGTTGGCAT
* *
31953924 CGACT-TATGATTTACGTGTAAGACCACGTCTAGGATGTTGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * *
31953968 CG-TATTTGATTTCGTGTAAGATCCTA--TCTGGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGA-CC-ACGTCTAGGA-CGTTGGCAT
* * *
31954010 CGATATTTGATTACATGTAAGGCCATGTCTAGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
31954053 TGTATGAGCT
Statistics
Matches: 106, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
41 1 0.01
42 29 0.27
43 41 0.39
44 31 0.29
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:31954183 original size:19 final size:19
Alignment explanation
Indices: 31954159--31954198 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
31954149 CTCAGGTACG
*
31954159 TTTGAATTGTATACTATGT
1 TTTGAATTGTATACCATGT
31954178 TTTGAATTGTATACCATGT
1 TTTGAATTGTATACCATGT
31954197 TT
1 TT
31954199 GAGAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (19 bp):
TTTGAATTGTATACCATGT
Found at i:31957911 original size:67 final size:64
Alignment explanation
Indices: 31957777--31957959 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
31957767 TACAGTTCGA
* * * * * * *
31957777 CTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCGCCCATGTGACCTAGCCA-ATTTATCTCGTA
1 CTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCGTA
31957839 G
64 G
* * *
31957840 CTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCGT
1 CTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGT
31957905 AG
63 AG
* *
31957907 CTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 CTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
31957960 CATAATGTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.17
64 29 0.29
66 22 0.22
67 31 0.31
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (64 bp):
CTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAG
Found at i:31958715 original size:30 final size:30
Alignment explanation
Indices: 31958681--31958741 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31958671 TATTCAACTC
31958681 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31958711 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31958741 A
1 A
31958742 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31967189 original size:42 final size:42
Alignment explanation
Indices: 31967114--31967212 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 42
31967104 AATTTGTGGT
31967114 TTACATGTAAGACCGTGTCTGGGACATCGGCATCGTATA-TGA
1 TTACATGTAAGACCGTGTCTGGGACATCGGCATCG-ATAGTGA
* * * *
31967156 TTTCGTGTAAGACCTTGTCTGGGACAGT-TGCATCGATAGTTGA
1 TTACATGTAAGACCGTGTCTGGGACA-TCGGCATCGATAG-TGA
31967199 TTACATGTAAGACC
1 TTACATGTAAGACC
31967213 ACGTATGGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
41 3 0.06
42 29 0.60
43 16 0.33
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCGTGTCTGGGACATCGGCATCGATAGTGA
Found at i:31970212 original size:40 final size:40
Alignment explanation
Indices: 31970142--31970359 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
31970132 AAGCCAAGTA
* * * * *
31970142 CCTTCGGGATTTA-ACCAGATATAG-ATACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATG
*
31970181 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31970221 CCTTCGGGACTTATCCCGGATATAGTAACTCGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31970261 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
31970301 CCTTCGGGACTTAGCCTGGA-ACTAGTCACTAGCGCAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31970341 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31970360 TTATCATCCA
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.08
40 144 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31976357 original size:40 final size:40
Alignment explanation
Indices: 31976312--31976408 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
31976302 ATCATGAATA
* *
31976312 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTAGCACAAACG
* * *
31976352 CCTTCGGGACTTAGCTCGGAACTAGTCACTAGCGCAAACG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAACG
31976392 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
31976409 AGTTATCATC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAACG
Found at i:31980102 original size:68 final size:65
Alignment explanation
Indices: 31979891--31980117 Score: 166
Period size: 68 Copynumber: 3.5 Consensus size: 65
31979881 CACTCAGTAC
* * * * * * *
31979891 CACC-CATGTGACCTAGCCA-AT-TTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 CACCACATGTGACCTAGCTACATCATATCTCGTAGCTCTCTTGTCTACATGATG---TACACATA
31979953 GAG
63 GAG
* *
31979956 C-CACGCATGTGACCTAGCTACAT-ATATCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGT
1 CAC-CACATGTGACCTAGCTACATCATATCTCGTAGCTCTCTTGTCTACATGATGTACACATAG-
*
31980019 AT
64 AG
* * *
31980021 CACCA-ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCAC-T
1 CACCACATGTGACCTAGCTACATCAT-A--TCTCGTAGCTCTCTTGT-CTACATGATGTACACAT
31980083 A-AG
62 AGAG
*
31980086 CACCATACATGTGACCTAGCTACATCCTATCT
1 CACC--ACATGTGACCTAGCTACATCATATCT
31980118 GTATCATCCA
Statistics
Matches: 134, Mismatches: 15, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
64 23 0.17
65 15 0.11
66 16 0.12
67 34 0.25
68 45 0.34
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (65 bp):
CACCACATGTGACCTAGCTACATCATATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGAG
Found at i:31982357 original size:119 final size:120
Alignment explanation
Indices: 31982208--31982447 Score: 428
Period size: 119 Copynumber: 2.0 Consensus size: 120
31982198 TTTATCTCAA
31982208 GATTTTCATGCCAAGTCAAGAGTTATATATCCATTGAATCTTTGAAATCCTGATGAAGGCCCAAG
1 GATTTTCATGCCAAGTCAAGAGTTATATATCCATTGAATCTTTGAAATCCTGATGAAGGCCCAAG
**
31982273 TAGTACACTCAAGATATATGATTTGTAACACCCC-AACTTGGCCTAGACATTAGG
66 TAGTACACTCAAGATATATGATTTGTAACACCCCAAACCCGGCCTAGACATTAGG
* *
31982327 GATTTTTATGCCAAGTCAAGAGTTATATATCCATTGAATCTTTGAAATCCTGATGAAGGCTCAAG
1 GATTTTCATGCCAAGTCAAGAGTTATATATCCATTGAATCTTTGAAATCCTGATGAAGGCCCAAG
*
31982392 TAGTACACTCAAGGTATATGATTTGTAACACCCCAAACCCGGCCTAGACATTAGG
66 TAGTACACTCAAGATATATGATTTGTAACACCCCAAACCCGGCCTAGACATTAGG
31982447 G
1 G
31982448 CCGCATTTGT
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 96 0.83
120 19 0.17
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (120 bp):
GATTTTCATGCCAAGTCAAGAGTTATATATCCATTGAATCTTTGAAATCCTGATGAAGGCCCAAG
TAGTACACTCAAGATATATGATTTGTAACACCCCAAACCCGGCCTAGACATTAGG
Found at i:31985264 original size:6 final size:6
Alignment explanation
Indices: 31985246--31985379 Score: 105
Period size: 6 Copynumber: 21.8 Consensus size: 6
31985236 AAGAAACATT
* *
31985246 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
31985295 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
31985344 ATCAGGTA A-CAGA ATCAAA ATCAGT ATCAGT ATCAG
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
31985380 GTAACAGAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 6 0.06
6 85 0.82
7 10 0.10
8 3 0.03
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:31985295 original size:37 final size:37
Alignment explanation
Indices: 31985248--31985348 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
31985238 GAAACATTAT
* *
31985248 CAGAACTAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAGGTAA
*
31985285 CAGAATTAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
31985322 CAGAATCAAAATCAGAATCAGTATCAG
1 CAGAATTAGAATCAGAATCAGAATCAG
31985349 GTAACAGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATTAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:31985296 original size:31 final size:31
Alignment explanation
Indices: 31985255--31985402 Score: 161
Period size: 31 Copynumber: 4.5 Consensus size: 31
31985245 TATCAGAACT
* *
31985255 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAAAATCAGAATCAGAATCAGGT-----AA-C
* *
31985292 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
31985323 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
31985354 AGAATCAAAATCAGTATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
31985385 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
31985403 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
31 65 0.62
32 12 0.12
37 27 0.26
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:31985605 original size:26 final size:27
Alignment explanation
Indices: 31985542--31985615 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
31985532 GCTCAGTTAT
* *
31985542 CAGATATTGT-GACAGAGTCACTAGATA
1 CAGATATTGTGGA-AGAGCCACCAGATA
31985569 CAGATATTGTGGAAGAGCCACCAGA-A
1 CAGATATTGTGGAAGAGCCACCAGATA
*
31985595 CAGATAATGTGGCAA-AGCCAC
1 CAGATATTGTGG-AAGAGCCAC
31985616 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 18 0.43
27 22 0.52
28 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGAAGAGCCACCAGATA
Found at i:31985802 original size:22 final size:22
Alignment explanation
Indices: 31985774--31985838 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
31985764 GCAAATACGT
31985774 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
*
31985796 TTGGCACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
* *
31985818 TTGACACAAAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
31985839 AAGGCTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:31986458 original size:27 final size:27
Alignment explanation
Indices: 31986283--31986459 Score: 246
Period size: 27 Copynumber: 6.6 Consensus size: 27
31986273 TACCCCAAAA
* *
31986283 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
31986310 GGTATTTTAGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
31986337 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
31986364 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
31986391 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
31986418 GGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
31986445 TGTATTTTGGTAATT
1 GGTATTTCGGTAATT
31986460 TTGTAAATCG
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:31986566 original size:27 final size:26
Alignment explanation
Indices: 31986446--31986836 Score: 336
Period size: 27 Copynumber: 14.6 Consensus size: 26
31986436 CCCTATAGGT
** *
31986446 GTATTTTGGTAATTTTGTAAATCGAGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
*** * *
31986473 GTAAAATGGTAATTCTATAAATCAAGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
* * *
31986500 GTACTTTGGTAATTTTACAAGTCGAGG
1 GTATTTTGGTAATTTTACAA-ACAAGG
*** * *
31986527 GTATTTCCATAATTTTACAAGTCGAGG
1 GTATTTTGGTAATTTTACAA-ACAAGG
* *
31986554 GTATTTTAGTAATTTCACAAATC-AGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
*
31986580 TTTATTTTGGTAATTTTACAAACTAAGG
1 -GTATTTTGGTAATTTTACAAAC-AAGG
* * *
31986608 GTATTCTGATAATTTTACAAACCAGG
1 GTATTTTGGTAATTTTACAAACAAGG
* *
31986634 AGTATTTTGG-AATTTTACAAACCAGTC
1 -GTATTTTGGTAATTTTACAAACAAG-G
*
31986661 GTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTTACAAAC-AAGG
* *
31986688 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
**
31986715 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
*
31986742 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAAC-AAGG
* *
31986769 GTATTTTGGTGATTTTATAAACCAAGG
1 GTATTTTGGTAATTTTACAAA-CAAGG
* *
31986796 GTATTTTAGTAATTTTACAAACCAGG
1 GTATTTTGGTAATTTTACAAACAAGG
31986822 GTATTTTGGTAATTT
1 GTATTTTGGTAATTT
31986837 GGTAAACTAA
Statistics
Matches: 299, Mismatches: 53, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
26 50 0.17
27 242 0.81
28 7 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GTATTTTGGTAATTTTACAAACAAGG
Found at i:31991317 original size:40 final size:41
Alignment explanation
Indices: 31991257--31991476 Score: 260
Period size: 40 Copynumber: 5.6 Consensus size: 41
31991247 TATTCGAATG
* *
31991257 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
31991297 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
31991337 ATATCCGGGCTAAGA-ACCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
31991377 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * *
31991417 ATATCCGGGCTAA-AACCCGAAGGC-CTTGTGCGAGTGGCT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
31991456 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
31991477 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 14 0.09
39 17 0.11
40 122 0.78
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31994537 original size:17 final size:17
Alignment explanation
Indices: 31994511--31994543 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31994501 TATATAATTG
*
31994511 AAATATGTTATAATATT
1 AAATAAGTTATAATATT
31994528 AAATAAGTTATAATAT
1 AAATAAGTTATAATAT
31994544 ATTAAGTGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAAGTTATAATATT
Found at i:31995844 original size:27 final size:27
Alignment explanation
Indices: 31995814--31995986 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
31995804 ATAACCAAAG
* * * *
31995814 TACCCCCGACTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
31995841 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
31995868 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
31995895 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
31995922 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
31995949 TACCCT-TAGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTACAGAATTACCATTT
*
31995976 TACCCTTGATT
1 TACCCTCGATT
31995987 GTGAAATTAC
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:31996048 original size:27 final size:27
Alignment explanation
Indices: 31996018--31996114 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
31996008 TGTAGGATAG
*
31996018 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
31996045 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* **
31996072 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
31996099 AATTACAAAAATACCC
1 AATTACCAAAATACCC
31996115 TTGACTTTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:31996059 original size:54 final size:54
Alignment explanation
Indices: 31995976--31996114 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 54
31995966 ATTATCGTTT
* ** * *
31995976 TACCCTTGA-TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACAAAAATACCCCTAATAGG-TAAAATTACCAAAA
* * **
31996029 TACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACAAAAATACCCCTAATAGGTAAAATTACCAAAA
* **
31996083 TACCCCTGATTTACAAAATTACAAAAATACCC
1 TACCCTTGATTTGTAAAATTACAAAAATACCC
31996115 TTGACTTTCT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 8 0.11
54 61 0.86
55 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTTGATTTGTAAAATTACAAAAATACCCCTAATAGGTAAAATTACCAAAA
Found at i:31996227 original size:27 final size:27
Alignment explanation
Indices: 31996195--31996246 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
31996185 GACTAAAATA
31996195 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
31996222 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
31996247 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:31997116 original size:25 final size:24
Alignment explanation
Indices: 31997078--31997147 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
31997068 AGGAAGTGCT
* *
31997078 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
31997102 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
31997127 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
31997148 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:31997160 original size:24 final size:23
Alignment explanation
Indices: 31997078--31997174 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
31997068 AGGAAGTGCT
* * *
31997078 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
31997102 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
31997127 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
31997151 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
31997175 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:31997404 original size:31 final size:31
Alignment explanation
Indices: 31997366--31997444 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
31997356 CTGTTTACTG
31997366 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
31997397 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
*
31997428 TAAGGCTTTGGCCCAGT
1 TAAGGCTTCGGCCCAGT
31997445 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (31 bp):
TAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:31999291 original size:24 final size:24
Alignment explanation
Indices: 31999259--31999399 Score: 180
Period size: 24 Copynumber: 5.9 Consensus size: 24
31999249 GAAATGACAT
31999259 TGGCACTATGTGTGCGGATTTAAA
1 TGGCACTATGTGTGCGGATTTAAA
*
31999283 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
*
31999307 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
*
31999331 TGGCACTACGTGTGCGGA-TTAGCAA
1 TGGCACTATGTGTGCGGATTTA--AA
* *
31999356 -GGCACTATGTGTGCGG-GTTAGCA
1 TGGCACTATGTGTGCGGATTTA-AA
*
31999379 TGGCACTATGTGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
31999400 CCTTGACCGA
Statistics
Matches: 104, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.03
24 97 0.93
25 4 0.04
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTAAA
Found at i:31999382 original size:72 final size:72
Alignment explanation
Indices: 31999259--31999399 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 72
31999249 GAAATGACAT
* * *
31999259 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGG
1 TGGCACTACGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGCGA
31999324 ATTTGAA
66 ATTTGAA
* *
31999331 TGGCACTACGTGTGCGGA-TTAGCAA-GGCACTATGTGTGCGGGTTAGCATGGCACTATGTGTGC
1 TGGCACTACGTGTGCGGATTTA--AATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGC
31999394 GAATTT
64 GAATTT
31999400 CCTTGACCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 3 0.05
72 57 0.92
73 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (72 bp):
TGGCACTACGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTAGAATGGCACTATGTGTGCGA
ATTTGAA
Found at i:32009789 original size:26 final size:26
Alignment explanation
Indices: 32009753--32009862 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
32009743 CATGAAATCC
32009753 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
32009779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32009805 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
32009831 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32009857 TTATCA
1 TTATCA
32009863 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32013417 original size:30 final size:31
Alignment explanation
Indices: 32013333--32013417 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 31
32013323 TCCTTTTGTT
* * *
32013333 TCAATTTCTTTTTCATTT-TCCTCTTCACTC
1 TCAATTTCTTTTTCATTTCTCTTTTTCAATC
*
32013363 TCAAATTCTTTTTCA-TTCTCTTTTTCAATC
1 TCAATTTCTTTTTCATTTCTCTTTTTCAATC
*
32013393 TCATTTTCTTTTTCATTTCT-TTTTT
1 TCAATTTCTTTTTCATTTCTCTTTTT
32013418 GTTGTCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.04
30 41 0.87
31 4 0.09
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (31 bp):
TCAATTTCTTTTTCATTTCTCTTTTTCAATC
Found at i:32013537 original size:15 final size:14
Alignment explanation
Indices: 32013497--32013542 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
32013487 CTCTTGCCGC
*
32013497 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
32013512 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
32013527 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
32013542 T
1 T
32013543 TTCATTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:32014535 original size:27 final size:27
Alignment explanation
Indices: 32014482--32014536 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
32014472 CATAAACACC
*
32014482 TCTTTTTTATTTTTTTTGAATTCTTTT
1 TCTTTTTTATTTTTTTCGAATTCTTTT
* *
32014509 TCTTTTTTATTTTTTTCGGATTTTTTT
1 TCTTTTTTATTTTTTTCGAATTCTTTT
32014536 T
1 T
32014537 AATATACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.78
Consensus pattern (27 bp):
TCTTTTTTATTTTTTTCGAATTCTTTT
Found at i:32015502 original size:13 final size:13
Alignment explanation
Indices: 32015484--32015508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32015474 TGGTCATCAT
32015484 GGTGTGAACACAA
1 GGTGTGAACACAA
32015497 GGTGTGAACACA
1 GGTGTGAACACA
32015509 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:32016009 original size:30 final size:30
Alignment explanation
Indices: 32015911--32016011 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
32015901 AGTTTAAACT
*
32015911 AAAATGAGCTAAGCTTTAGCTCGTGAGCT-
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
* * * * * * *
32015940 AAAGTTGAGCTGAGGCTAAACTCCTAAGCTG
1 AAA-ATGAGCTAAGGTTTAGCTCGTGAGCTG
** *
32015971 AAGTTGAGCTAAGGTTTAGCTCGTGAGTTG
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
32016001 AAAATGAGCTA
1 AAAATGAGCTA
32016012 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
29 3 0.06
30 47 0.90
31 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
Found at i:32026016 original size:46 final size:46
Alignment explanation
Indices: 32025949--32026077 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
32025939 TGTAACCCGC
* * *
32025949 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32025995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32026041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32026078 TGCTCAACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32026096 original size:46 final size:45
Alignment explanation
Indices: 32025954--32026096 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
32025944 CCCGCCCATA
* ** * *
32025954 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
32025999 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
32026045 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
32026092 AGTGA
1 AGTGA
32026097 CATGTCACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 82 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:32026535 original size:30 final size:30
Alignment explanation
Indices: 32026501--32026560 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
32026491 ATTTAATACG
32026501 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
32026531 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
32026561 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:32034497 original size:28 final size:28
Alignment explanation
Indices: 32034453--32034511 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
32034443 CACACATAAG
*
32034453 AATGAGTTGAACCAGGATCAATCAATGC
1 AATGAGTCGAACCAGGATCAATCAATGC
*
32034481 AATGAGTCGAACTAGGATCAATCAATGC
1 AATGAGTCGAACCAGGATCAATCAATGC
32034509 AAT
1 AAT
32034512 TACACTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (28 bp):
AATGAGTCGAACCAGGATCAATCAATGC
Found at i:32039680 original size:14 final size:14
Alignment explanation
Indices: 32039658--32039705 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32039648 ACCTAAACTG
* *
32039658 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
32039672 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
32039686 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
32039700 ACCATT
1 ACCATT
32039706 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:32040099 original size:19 final size:19
Alignment explanation
Indices: 32040075--32040128 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
32040065 ATACAAGTTA
32040075 AAAAAATCAAAAAAAAATT
1 AAAAAATCAAAAAAAAATT
*
32040094 CGAAAAAA--ATAAAAAAATT
1 --AAAAAATCAAAAAAAAATT
32040113 AAAAAATCGAAAAAAA
1 AAAAAATC-AAAAAAA
32040129 GAGTGATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 6 0.21
19 10 0.36
20 6 0.21
21 6 0.21
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAATCAAAAAAAAATT
Found at i:32046599 original size:14 final size:14
Alignment explanation
Indices: 32046577--32046624 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32046567 ACCTAAACCG
*
32046577 ACCAATTTGTTCAT
1 ACCATTTTGTTCAT
*
32046591 ACCATTTTGTTCCT
1 ACCATTTTGTTCAT
* *
32046605 ACCCTTTCGTTCAT
1 ACCATTTTGTTCAT
32046619 ACCATT
1 ACCATT
32046625 CCATTCGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCAT
Found at i:32048576 original size:38 final size:38
Alignment explanation
Indices: 32048534--32048634 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 38
32048524 AGACTCGCAG
** *
32048534 GCTTCGTGCTGGTAAAATATTCGGGTTAAATCCCACAA
1 GCTTCGTGCTGGTATTATATTCGGGATAAATCCCACAA
* * * *
32048572 GCTTCTTACTGGTATTATA-TCAGGGATAAATCCCGCAG
1 GCTTCGTGCTGGTATTATATTC-GGGATAAATCCCACAA
* *
32048610 GCCTAGTGCTGGTATTATATTCGGG
1 GCTTCGTGCTGGTATTATATTCGGG
32048635 CCTTCATGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 2 0.04
38 46 0.92
39 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
GCTTCGTGCTGGTATTATATTCGGGATAAATCCCACAA
Found at i:32048680 original size:43 final size:43
Alignment explanation
Indices: 32048628--32048753 Score: 200
Period size: 42 Copynumber: 3.0 Consensus size: 43
32048618 CTGGTATTAT
*
32048628 ATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGC
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGC
* * *
32048671 ATTTGGGCCTTCGTGCCTAGCAGGC-TCGTGCCAGTGATGTGT
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGC
*
32048713 ATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGT
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGT
32048754 ATATTCGTGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 38 0.51
43 37 0.49
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.29
Consensus pattern (43 bp):
ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGC
Found at i:32048722 original size:42 final size:43
Alignment explanation
Indices: 32048627--32048760 Score: 207
Period size: 43 Copynumber: 3.1 Consensus size: 43
32048617 GCTGGTATTA
*
32048627 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
32048670 CATTTGGGCCTTCGTGCCTAGCAGGC-TCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
32048712 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
32048755 TATTCG
1 TATTCG
32048761 TGTAGGCTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 38 0.47
43 42 0.52
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:32048781 original size:73 final size:72
Alignment explanation
Indices: 32048692--32048833 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 72
32048682 CGTGCCTAGC
*
32048692 AGGCTCGTGCCAGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATA
1 AGGCTCGTGCCAGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTATA
32048757 TTCGTGT
66 TTCGTGT
* ** *
32048764 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTTT
1 AGGC-TCGTGCCAGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTAT
32048829 ATTCG
65 ATTCG
32048834 GGCCTTCGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 4 0.06
73 60 0.94
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (72 bp):
AGGCTCGTGCCAGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTATA
TTCGTGT
Found at i:32048865 original size:116 final size:115
Alignment explanation
Indices: 32048649--32048876 Score: 402
Period size: 116 Copynumber: 2.0 Consensus size: 115
32048639 CATGCCTAGC
32048649 AGGCTTCGTGCCGGTGATGTGCATTTGGGCCTTCGTGCCTAGCAGGCTCGTGCCAGTGATGTGTA
1 AGGCTTCGTGCCGGTGATGTGCATTTGGGCCTTCGTGCCTAGCAGGCTCGTGCCAGTGATGTGTA
32048714 TTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCGTGT
66 TTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCGTGT
* *
32048764 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTTT
1 AGGCTTCGTGCCGGTGATGTGCATTTGGGCCTTCGTGCCTAGCAGGC-TCGTGCCAGTGATGTGT
* * *
32048829 ATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGTCGGTGATGTATATTCG
65 ATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCG
32048877 GGCCTTCGTG
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 46 0.43
116 61 0.57
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (115 bp):
AGGCTTCGTGCCGGTGATGTGCATTTGGGCCTTCGTGCCTAGCAGGCTCGTGCCAGTGATGTGTA
TTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATTCGTGT
Found at i:32049081 original size:43 final size:43
Alignment explanation
Indices: 32048764--32049068 Score: 493
Period size: 43 Copynumber: 7.1 Consensus size: 43
32048754 ATATTCGTGT
*
32048764 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* * *
32048807 AGGCTTCGTGCCAGTGATGTTTATTCGGGCCTTCGTGCCTAGT
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* * *
32048850 AGGCTTCGTGTCGGTGATGTATATTCGGGCCTTCGTGGCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
*
32048893 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
32048936 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTTGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
32048979 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
** *
32049022 AGGCTTTATGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
32049065 AGGC
1 AGGC
32049069 GTAATGTCGG
Statistics
Matches: 243, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 243 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
Found at i:32053691 original size:14 final size:15
Alignment explanation
Indices: 32053672--32053700 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32053662 GCACGAAAAT
32053672 TTCACACA-AATAAA
1 TTCACACATAATAAA
32053686 TTCACACATAATAAA
1 TTCACACATAATAAA
32053701 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:32056393 original size:16 final size:16
Alignment explanation
Indices: 32056374--32056404 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32056364 CTTATTTACT
32056374 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32056390 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32056405 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:32056410 original size:20 final size:20
Alignment explanation
Indices: 32056370--32056410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32056360 TAAACTTATT
* *
32056370 TACTTACTCACTTACTTAAA
1 TACTTACTCACTTAATCAAA
*
32056390 TACTTACTTACTTAATCAAA
1 TACTTACTCACTTAATCAAA
32056410 T
1 T
32056411 TTATTAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (20 bp):
TACTTACTCACTTAATCAAA
Found at i:32056837 original size:55 final size:54
Alignment explanation
Indices: 32056597--32056851 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
32056587 ACACGGGTAC
* *
32056597 CTTACC-ATTGCCATGACTT-ATCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
32056646 CTTA-CTATTGCTATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* ** * *
32056699 CTCACCAA-TGCCATGCCTTGGTATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * *
32056754 CTTATCAA-TGTCATGTCTCGACAAGGTCTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
32056807 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
32056852 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 29, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 1 0.01
52 4 0.02
53 39 0.24
54 13 0.08
55 67 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:32058062 original size:29 final size:29
Alignment explanation
Indices: 32058029--32058088 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
32058019 AAGGATTCAA
*
32058029 AGATGGGTTTATGGATATGAA-TTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTT-TGT
32058058 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTTTGT
32058087 AG
1 AG
32058089 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTTTGT
Found at i:32060533 original size:12 final size:13
Alignment explanation
Indices: 32060518--32060551 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
32060508 AAAAAAATGG
32060518 AAAAAAATT-TCA
1 AAAAAAATTCTCA
*
32060530 AAAAAAATTCTGA
1 AAAAAAATTCTCA
32060543 AAAAAAATT
1 AAAAAAATT
32060552 AAAAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAAAATTCTCA
Found at i:32061189 original size:19 final size:19
Alignment explanation
Indices: 32061165--32061204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32061155 AGCTCCCATG
32061165 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
32061184 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
32061203 TA
1 TA
32061205 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:32063206 original size:93 final size:93
Alignment explanation
Indices: 32063093--32063263 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
32063083 GCCCATAAGC
*
32063093 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
32063157 ACGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
* *
32063186 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
32063251 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32063264 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:32063259 original size:46 final size:47
Alignment explanation
Indices: 32063085--32063260 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 47
32063075 TGTAACCCGC
* * *
32063085 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
32063131 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
32063181 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
32063224 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32063261 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.54
47 31 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:32069921 original size:93 final size:93
Alignment explanation
Indices: 32069813--32069984 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
32069803 CGCCCATAAG
* * *
32069813 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCAGATTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
32069877 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
32069906 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
32069971 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
32069985 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:32069981 original size:46 final size:46
Alignment explanation
Indices: 32069806--32069981 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
32069796 TGTAACCCGC
* *
32069806 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * * *
32069852 CCATAAGTGAACTCAGATTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
32069902 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
32069945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
32069982 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32071951 original size:14 final size:14
Alignment explanation
Indices: 32071929--32071973 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
32071919 ACCTAAACCG
* *
32071929 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
32071943 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
32071957 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
32071971 ACC
1 ACC
32071974 TTCCATTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:32072828 original size:30 final size:28
Alignment explanation
Indices: 32072794--32072850 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
32072784 AGTCGAAACA
* * *
32072794 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAAAGAGTGAGCAA-AAAG-AAAGTT
32072824 GAAAAAAAGAGTGAGCAAAAAGAAAGT
1 GAAAAAAAGAGTGAGCAAAAAGAAAGT
32072851 GTGGAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 4 0.17
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.28, T:0.14
Consensus pattern (28 bp):
GAAAAAAAGAGTGAGCAAAAAGAAAGTT
Found at i:32075206 original size:14 final size:14
Alignment explanation
Indices: 32075189--32075228 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32075179 CGAATGGAAT
*
32075189 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
32075203 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
32075217 GATATGAACAAA
1 GGTAGGAACAAA
32075229 TTGGTCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:32082476 original size:14 final size:14
Alignment explanation
Indices: 32082454--32082493 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
32082444 TATACAAGTT
32082454 TGAAAAAAAAATTTC
1 TGAAAAAAAAA-TTC
32082469 TGAAAAAAAAATTC
1 TGAAAAAAAAATTC
32082483 TGAAAAAAAAA
1 TGAAAAAAAAA
32082494 GTGATTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (14 bp):
TGAAAAAAAAATTC
Found at i:32086757 original size:13 final size:13
Alignment explanation
Indices: 32086739--32086782 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
32086729 AACTCATCTT
*
32086739 AGTTTATTAAATG
1 AGTTTATTTAATG
*
32086752 AGTTTATTTGATG
1 AGTTTATTTAATG
*
32086765 AATTTAATTTAATG
1 AGTTT-ATTTAATG
32086779 AGTT
1 AGTT
32086783 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (13 bp):
AGTTTATTTAATG
Found at i:32087779 original size:29 final size:29
Alignment explanation
Indices: 32087746--32087805 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
32087736 ATAACCAAAC
*
32087746 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
32087775 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
32087804 CT
1 CT
32087806 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:32087798 original size:15 final size:15
Alignment explanation
Indices: 32087752--32087799 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32087742 AAACCTACAA
*
32087752 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
32087767 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
32087781 AAACTTCATATCCAT
1 AAACTTCATATCCAT
32087796 AAAC
1 AAAC
32087800 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:32089339 original size:16 final size:17
Alignment explanation
Indices: 32089318--32089352 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32089308 GTTGCTGTTA
*
32089318 GTTTTAATAGTT-ATTT
1 GTTTTAATAATTAATTT
32089334 GTTTTAATAATTAATTT
1 GTTTTAATAATTAATTT
32089351 GT
1 GT
32089353 CATAATCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (17 bp):
GTTTTAATAATTAATTT
Found at i:32090621 original size:19 final size:20
Alignment explanation
Indices: 32090597--32090634 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32090587 GGTACCACCA
32090597 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
32090616 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
32090635 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:32090973 original size:93 final size:93
Alignment explanation
Indices: 32090863--32091033 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
32090853 GCCCCTAAGT
* *
32090863 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
32090928 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
32090956 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
32091021 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32091034 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32091030 original size:46 final size:46
Alignment explanation
Indices: 32090858--32091030 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
32090848 AACCCGCCCC
* * * *
32090858 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
32090904 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
32090952 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
32090997 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32091031 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:32097835 original size:19 final size:20
Alignment explanation
Indices: 32097811--32097848 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32097801 GGTACCACCA
32097811 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
32097830 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
32097849 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:32098144 original size:46 final size:46
Alignment explanation
Indices: 32098077--32098245 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 46
32098067 CGCCCCTAAG
* *
32098077 TGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAA
* * * * * **
32098123 TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCATCCAT-AAA
* * * * *
32098170 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAA
32098216 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
32098246 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 63 0.65
47 34 0.35
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCATAAA
Found at i:32098187 original size:93 final size:93
Alignment explanation
Indices: 32098078--32098248 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
32098068 GCCCCTAAGT
* *
32098078 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
32098143 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
32098171 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
32098236 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32098249 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32098702 original size:30 final size:30
Alignment explanation
Indices: 32098668--32098727 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32098658 ATTTAATACG
*
32098668 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** *
32098698 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
32098728 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:32103500 original size:12 final size:12
Alignment explanation
Indices: 32103485--32103514 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32103475 TTTTTTTTTA
32103485 TTTTTTTCGAAT
1 TTTTTTTCGAAT
*
32103497 TTTTTTTTGAAT
1 TTTTTTTCGAAT
32103509 TTTTTT
1 TTTTTT
32103515 AACTTGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:32103902 original size:14 final size:14
Alignment explanation
Indices: 32103885--32103924 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32103875 CGAATGGAAT
*
32103885 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
32103899 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
32103913 GATATGAACAAA
1 GGTAGGAACAAA
32103925 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:32110242 original size:23 final size:22
Alignment explanation
Indices: 32110190--32110242 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
32110180 TCCACGTCTT
*
32110190 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
32110212 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
32110235 TTTCTTTT
1 TTTCTTTT
32110243 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:32113730 original size:28 final size:28
Alignment explanation
Indices: 32113658--32113736 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
32113648 GAATCATTTG
*
32113658 ATATTTTGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTGCCATCCTCA
* ** *
32113686 ATATCTCACACATTAAGTGCCATCCTCA
1 ATATTTTGCACACTAAGTGCCATCCTCA
*
32113714 ATATTTTGTACACTAAGTGCCAT
1 ATATTTTGCACACTAAGTGCCAT
32113737 ATTTGATGTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTTGCACACTAAGTGCCATCCTCA
Found at i:32114638 original size:7 final size:8
Alignment explanation
Indices: 32114613--32114637 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32114603 TTAACTTTAA
32114613 TTACCTTT
1 TTACCTTT
32114621 TTACCTTT
1 TTACCTTT
32114629 TTACCTTT
1 TTACCTTT
32114637 T
1 T
32114638 AAAAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (8 bp):
TTACCTTT
Found at i:32115714 original size:43 final size:43
Alignment explanation
Indices: 32115668--32115815 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
32115658 TATCGAGATG
*
32115668 TGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTATTA
* * * * * *
32115711 TGATTACGTGTAAAACCATGTCTAGGACATTGACATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTATTA
* *** * * * *
32115754 TGATTTCGCATAAGACCTTGTTTGGGATAGTGGCATTG-ATATA
1 TGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTAT-TA
*
32115797 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
32115816 ATCTAGGATA
Statistics
Matches: 80, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 2 0.03
43 78 0.98
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACACTGGCATTGTATTA
Found at i:32120896 original size:20 final size:20
Alignment explanation
Indices: 32120873--32120919 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32120863 AGGTTAAGAT
*
32120873 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
32120893 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
32120913 TGAGCTG
1 TGAGCTG
32120920 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:32125380 original size:20 final size:20
Alignment explanation
Indices: 32125357--32125403 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32125347 AGGTTAAGAT
*
32125357 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
32125377 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
32125397 TGAGCTG
1 TGAGCTG
32125404 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:32128149 original size:50 final size:48
Alignment explanation
Indices: 32128089--32128267 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 48
32128079 ATGAAGGTAT
* * *
32128089 GCACAAATGTGATATTATATTTGAAT-TTGTATATTCAGCCATATAAGTAA
1 GCACATATGTGATATTAAATTTG-ATCTTGCATATTC-GCCATAT-AGTAA
* * *
32128139 GTACATATGTGATGTTAAATTTGATCTTGCAAATTCGTCCATATAGCTAA
1 GCACATATGTGATATTAAATTTGATCTTGCATATTCG-CCATATAG-TAA
* *
32128189 GCACATATGTGATATTAAATTTGGTCTTGCATATTCGGCCATATGGGTAA
1 GCACATATGTGATATTAAATTTGATCTTGCATATTC-GCCATAT-AGTAA
* *
32128239 CCACATATGTGATATTATATTTGATCTTG
1 GCACATATGTGATATTAAATTTGATCTTG
32128268 TATGTAATAC
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
49 5 0.05
50 103 0.94
51 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (48 bp):
GCACATATGTGATATTAAATTTGATCTTGCATATTCGCCATATAGTAA
Found at i:32128193 original size:100 final size:100
Alignment explanation
Indices: 32128014--32128267 Score: 280
Period size: 100 Copynumber: 2.5 Consensus size: 100
32128004 GCTAAATGAC
* * * * * *
32128014 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTCTTGGATCTTGAATATTTGGCC
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGGCC
* * *
32128079 ATGAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ATGAAGCTAAGCACAAATGTGATATTAAATTTG-AT
* * * *
32128115 -TTGTATATTCAGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCAA-ATTCGTC
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTG-AATATTCGGC
* *
32128178 CAT-ATAGCTAAGCACATATGTGATATTAAATTTGGT
65 CATGA-AGCTAAGCACAAATGTGATATTAAATTTGAT
* * ** *
32128214 CTTGCATATTCGGCCATATGGGTAACCACATATGTGATATTATATTTGATCTTG
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTG
32128268 TATGTAATAC
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
99 2 0.02
100 123 0.97
101 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (100 bp):
CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGGCC
ATGAAGCTAAGCACAAATGTGATATTAAATTTGAT
Done.