Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 59 of 147
Found at i:11334964 original size:21 final size:22
Alignment explanation
Indices: 11334930--11334974 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
11334920 TTTCTCAGAA
11334930 TCCCTTCTCCTTTTCTCTCCCT
1 TCCCTTCTCCTTTTCTCTCCCT
*
11334952 TCCCTTCT-TTTTTCTCTCCCT
1 TCCCTTCTCCTTTTCTCTCCCT
11334973 TC
1 TC
11334975 TCTCTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (22 bp):
TCCCTTCTCCTTTTCTCTCCCT
Found at i:11335514 original size:4 final size:4
Alignment explanation
Indices: 11335507--11335663 Score: 60
Period size: 4 Copynumber: 39.8 Consensus size: 4
11335497 AGAAAAGAAA
* * * * *
11335507 AAAT AAAT AAAT AAAT AATAT AAA- AAAG ATAAT ATAT TAAT TAAT AGAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
* * * *
11335556 AAA- AAAT -AAT TAAC AGAT AAAT -AAT AACAT --AT AAAT AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
* * * * * * *
11335600 AAAT ATAT AAAT ATAT TAAC AGAT AAA- AACAT ACAT TAAT AAAT AGTAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT A--AAT
11335650 -AAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAA
11335664 ATGATAAATA
Statistics
Matches: 111, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
2 2 0.02
3 17 0.15
4 79 0.71
5 10 0.09
6 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:11335567 original size:18 final size:18
Alignment explanation
Indices: 11335544--11335582 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11335534 GATAATATAT
*
11335544 TAATTAATAGATAAAAAA
1 TAATTAACAGATAAAAAA
*
11335562 TAATTAACAGATAAATAA
1 TAATTAACAGATAAAAAA
11335580 TAA
1 TAA
11335583 CATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
TAATTAACAGATAAAAAA
Found at i:11335583 original size:14 final size:14
Alignment explanation
Indices: 11335559--11335597 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
11335549 AATAGATAAA
11335559 AAATAATTAACAGAT
1 AAATAA-TAACAGAT
*
11335574 AAATAATAACATAT
1 AAATAATAACAGAT
11335588 AAATAGATAA
1 AAATA-ATAA
11335598 ATAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (14 bp):
AAATAATAACAGAT
Found at i:11335624 original size:28 final size:26
Alignment explanation
Indices: 11335572--11335626 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 26
11335562 TAATTAACAG
*
11335572 ATAAATAATAACATATAAATAGATAA
1 ATAAATAATAACATATAAACAGATAA
11335598 ATAAATATATAA-ATATATTAACAGATAA
1 ATAAATA-ATAACATATA--AACAGATAA
11335626 A
1 A
11335627 AACATACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 4 0.16
28 9 0.36
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
ATAAATAATAACATATAAACAGATAA
Found at i:11335651 original size:50 final size:48
Alignment explanation
Indices: 11335549--11335662 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 48
11335539 TATATTAATT
*
11335549 AATAGATAAA-AAATAATTAACAGATAAATAATAACATATAAATAGATA
1 AATA-ATAAATAAATAATTAACAGATAAAAAATAACATATAAATAGATA
*
11335597 AATAAATATATAAATATATTAACAGATAAAAACAT-ACATTAATAAATAG-T-
1 AAT-AATAAATAAATA-ATTAACAGATAAAAA-ATAACA-T-ATAAATAGATA
11335647 AATAATAAATAAATAA
1 AATAATAAATAAATAA
11335663 AATGATAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
48 8 0.14
49 17 0.30
50 20 0.35
51 4 0.07
52 8 0.14
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (48 bp):
AATAATAAATAAATAATTAACAGATAAAAAATAACATATAAATAGATA
Found at i:11335672 original size:16 final size:16
Alignment explanation
Indices: 11335637--11335686 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
11335627 AACATACATT
* *
11335637 AATAAATAGTAATAATA
1 AATAAATA-AAATGATA
11335654 AATAAATAAAATGATA
1 AATAAATAAAATGATA
*
11335670 AATACATAAAA-GATA
1 AATAAATAAAATGATA
11335685 AA
1 AA
11335687 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 6 0.20
16 16 0.53
17 8 0.27
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (16 bp):
AATAAATAAAATGATA
Found at i:11336938 original size:24 final size:21
Alignment explanation
Indices: 11336904--11336946 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
11336894 TTCTAAACCC
*
11336904 CTTAAAGTCAATTAACAAAACA
1 CTTAAAGTCAA-CAACAAAACA
11336926 CTTATAAGATCAACAACAAAA
1 CTTA-AAG-TCAACAACAAAA
11336947 TAAAGTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.21
Consensus pattern (21 bp):
CTTAAAGTCAACAACAAAACA
Found at i:11338783 original size:31 final size:28
Alignment explanation
Indices: 11338748--11338819 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
11338738 GTTATTATTA
*
11338748 TTATTTTTTATTTTATGTATATCCTATATAT
1 TTATTTTTTATTTTAT-TAT-TACTA-ATAT
*
11338779 TTATTATTTA-TTTATTATTACTAATAT
1 TTATTTTTTATTTTATTATTACTAATAT
*
11338806 ATATTTTTTATTTT
1 TTATTTTTTATTTT
11338820 TATCTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.33
28 7 0.19
29 3 0.08
30 5 0.14
31 9 0.25
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (28 bp):
TTATTTTTTATTTTATTATTACTAATAT
Found at i:11338805 original size:27 final size:29
Alignment explanation
Indices: 11338748--11338878 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 29
11338738 GTTATTATTA
*
11338748 TTATTTTTTATTTTATGTATATCCTATATAT
1 TTATTTTTTA-TTTAT-TATATACTATATAT
*
11338779 TTATTATTTATTTATTAT-TACTA-ATAT
1 TTATTTTTTATTTATTATATACTATATAT
* * ** *
11338806 ATATTTTTTATTT-TTATCTTTTATTTTAT
1 TTATTTTTTATTTATTATATACTA-TATAT
* *
11338835 TTATTTTCGTATTT-TTATATATCT-GATA-
1 TTATTTT-TTATTTATTATATA-CTATATAT
11338863 TTATTTTTTTATTTAT
1 TTA-TTTTTTATTTAT
11338879 CCTATAATAT
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
26 4 0.05
27 18 0.23
28 12 0.15
29 19 0.24
30 15 0.19
31 10 0.13
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (29 bp):
TTATTTTTTATTTATTATATACTATATAT
Found at i:11338874 original size:22 final size:21
Alignment explanation
Indices: 11338846--11338903 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
11338836 TATTTTCGTA
* *
11338846 TTTTTATATATCTGATATTATT
1 TTTTTATTTATCT-ATAATATT
11338868 TTTTTATTTATCCTATAATATT
1 TTTTTATTTAT-CTATAATATT
11338890 TTTTTGATTTATCT
1 TTTTT-ATTTATCT
11338904 TTTCTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTTTATTTATCTATAATATT
Found at i:11339500 original size:18 final size:18
Alignment explanation
Indices: 11339477--11339514 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11339467 AGAGAGAAGG
11339477 GAGAGAAAAAGGGAAGAA
1 GAGAGAAAAAGGGAAGAA
* *
11339495 GAGAGAGAAAGGGGAGAA
1 GAGAGAAAAAGGGAAGAA
11339513 GA
1 GA
11339515 TTTTTGCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (18 bp):
GAGAGAAAAAGGGAAGAA
Found at i:11339731 original size:5 final size:5
Alignment explanation
Indices: 11339721--11339764 Score: 70
Period size: 5 Copynumber: 8.4 Consensus size: 5
11339711 TTTTCGCCCT
11339721 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGATAGC CGAGC CG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CG--AGC CGAGC CG
11339765 CTCCAGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 32 0.86
7 5 0.14
ACGTcount: A:0.20, C:0.39, G:0.39, T:0.02
Consensus pattern (5 bp):
CGAGC
Found at i:11339895 original size:21 final size:21
Alignment explanation
Indices: 11339836--11339900 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
11339826 TATTTAATAT
* *
11339836 TTTTTATCTTTATCTTATTTTTA
1 TTTTTATTTTTAT-TT-TCTTTA
* *
11339859 TTTTT-GTTTCACTTTTCTTTA
1 TTTTTATTTTTA-TTTTCTTTA
11339880 TTTTTATTTTTATTTTCTTTA
1 TTTTTATTTTTATTTTCTTTA
11339901 AATAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 19 0.56
22 9 0.26
23 6 0.18
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTATTTTCTTTA
Found at i:11340074 original size:57 final size:59
Alignment explanation
Indices: 11339922--11340084 Score: 267
Period size: 61 Copynumber: 2.8 Consensus size: 59
11339912 AAAATTTCCA
*
11339922 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
1 AAAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
11339981 AAAAAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
1 --AAAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
* *
11340042 -CAAAAAAAGGA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
11340085 AAGTTGAAAG
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
57 32 0.32
58 9 0.09
61 58 0.59
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.31
Consensus pattern (59 bp):
AAAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
Found at i:11340088 original size:22 final size:22
Alignment explanation
Indices: 11340063--11340106 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11340053 TTTTAGGGAA
11340063 AAGTTGAAAGTATCAATTTTCC
1 AAGTTGAAAGTATCAATTTTCC
11340085 AAGTTGAAAGTATCAATTTTCC
1 AAGTTGAAAGTATCAATTTTCC
11340107 TTGAAAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (22 bp):
AAGTTGAAAGTATCAATTTTCC
Found at i:11340096 original size:79 final size:80
Alignment explanation
Indices: 11340006--11340165 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 80
11339996 TTTTAGGGAA
11340006 AAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTTCAAAAAAAGGA-TTTTAGGGAAAAGTTG
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAA-GATTTTTAGGGAAAAGTTG
11340069 AAAGTATCAATTTTCC
65 AAAGTATCAATTTTCC
* * *
11340085 AAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTG
1 AAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCAAAAAAAGATTTTTAGGGAAAAGTTG
11340150 AAAGTATCAATTTTCC
65 AAAGTATCAATTTTCC
11340166 TTGAAAATCG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
79 29 0.39
80 1 0.01
81 45 0.60
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (80 bp):
AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAGATTTTTAGGGAAAAGTTGA
AAGTATCAATTTTCC
Found at i:11340151 original size:59 final size:58
Alignment explanation
Indices: 11340085--11340516 Score: 545
Period size: 59 Copynumber: 7.3 Consensus size: 58
11340075 TCAATTTTCC
*
11340085 AAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTCCAAAAAATATTTTTAGGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCAAAAAATATTTTTAGGGAA
* * *
11340144 AAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCAAAAAAAAATATTCTTAAGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTC--CAAAAAATATTTTTAGGGAA
* *
11340205 AAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTTCAAAAAAAGGA-TTTTAGGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAA-TATTTTTAGGGAA
11340262 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTT-GGGAAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCC-AAAAAATATTTTTAGGG-AA
* * *
11340322 AAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAGGATTTTT-GAGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAA-TATTTTTAG-GGAA
* * *
11340380 AAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTT-CAAAAAAAATATTTTAGGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA-TTTCCAAAAAATAT-TTTTAGGGAA
* * * * *
11340439 AAATTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCTAAAAAAACATTTTTGGGGAA
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTC-CAAAAAATATTTTTAGGGAA
11340497 AAGTTGAAAGTATCAATTTT
1 AAGTTGAAAGTATCAATTTT
11340517 TCCTACACAA
Statistics
Matches: 332, Mismatches: 25, Indels: 33
0.85 0.06 0.08
Matches are distributed among these distances:
57 54 0.16
58 77 0.23
59 109 0.33
60 45 0.14
61 47 0.14
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAATATTTTTAGGGAA
Found at i:11340255 original size:199 final size:175
Alignment explanation
Indices: 11340085--11340516 Score: 640
Period size: 177 Copynumber: 2.5 Consensus size: 175
11340075 TCAATTTTCC
*
11340085 AAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTCC-AAAAAATATTTTTAGGGAAAAGTT
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTT
11340149 GAAAGTATCAATTTTCCTTGAAAATCGAAATTTCAAAAAAAAATATTCTTAAGGAAAAGTTGAAA
66 GAAAGTATCAATTTTCCTTGAAAAT--AAATTTCAAAAAAAAATATT-TTAAGGAAAAGTTGAAA
11340214 GTATCAATTTTCCTTGAAAATAAATTTCAAAAAAAGGATTTTAGGGAA
128 GTATCAATTTTCCTTGAAAATAAATTTCAAAAAAAGGATTTTAGGGAA
11340262 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTT-GGGAAAAAGT
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTAGGG-AAAAGT
* ** *
11340326 TGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGAT-TTTTGAGGAAAAGTTGAAAG
65 TGAAAGTATCAATTTTCCTTGAAAATAAA-TTTCAAAAAAAAATATTTTAAGGAAAAGTTGAAAG
* * **
11340390 TATCAATTTTTCTTGGAAATCAAAGTTTCAAAAAAAATATTTTAGGGAA
129 TATCAATTTTCCTTGAAAAT-AAA-TTTCAAAAAAAGGATTTTAGGGAA
* * * * *
11340439 AAATTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTCTAAAAAAACATTTTTGGGGAAAAGTT
1 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTT
11340502 GAAAGTATCAATTTT
66 GAAAGTATCAATTTT
11340517 TCCTACACAA
Statistics
Matches: 236, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
175 77 0.33
176 11 0.05
177 104 0.44
178 44 0.19
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (175 bp):
AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTT
GAAAGTATCAATTTTCCTTGAAAATAAATTTCAAAAAAAAATATTTTAAGGAAAAGTTGAAAGTA
TCAATTTTCCTTGAAAATAAATTTCAAAAAAAGGATTTTAGGGAA
Found at i:11340351 original size:117 final size:117
Alignment explanation
Indices: 11340085--11340516 Score: 629
Period size: 118 Copynumber: 3.7 Consensus size: 117
11340075 TCAATTTTCC
* * * *
11340085 AAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTG
1 AAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTCAAAAAAAGATTTTTAGGGAAAAGTTG
* *
11340150 AAAGTATCAATTTTCCTTGAAAATCGAAATTTCAAAAAAAAATATTCTTAAGG-AA
64 AAAGTATCAATTTTCCTTGAAAATCAAAATTTC-AAAAAAAATATT-TTAGGGAAA
*
11340205 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTCAAAAAAAGGA-TTTTAGGGAAAAGTTGA
1 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAA-GATTTTTAGGGAAAAGTTGA
* *
11340269 AAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTGGGAAA
65 AAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAATATTTTAGGGAAA
*
11340322 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGATTTTT-GAGGAAAAGTTG
1 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCAAAAAAAGATTTTTAG-GGAAAAGTTG
* * *
11340386 AAAGTATCAATTTTTCTTGGAAATCAAAGTTTCAAAAAAAATATTTTAGGGAAA
64 AAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAATATTTTAGGGAAA
* *
11340440 AA-TTGAAAGTATCAATTTTCCTTAAAAATAAATTTCTAAAAAAACATTTTTGGGGAAAAGTTGA
1 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC-AAAAAAAGATTTTTAGGGAAAAGTTGA
11340504 AAGTATCAATTTT
65 AAGTATCAATTTT
11340517 TCCTACACAA
Statistics
Matches: 289, Mismatches: 16, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
116 8 0.03
117 114 0.39
118 137 0.47
119 1 0.00
120 29 0.10
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (117 bp):
AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAGATTTTTAGGGAAAAGTTGAA
AGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAATATTTTAGGGAAA
Found at i:11351835 original size:27 final size:25
Alignment explanation
Indices: 11351780--11351839 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
11351770 TTATTTTTAT
* * *
11351780 TATATTTTATATAAAAAATTAATAT
1 TATATTTTATATAAAAAAATAAAAA
11351805 TATATTTATATATAAAAAAATACAAAA
1 TATATTT-TATATAAAAAAATA-AAAA
11351832 TATATTTT
1 TATATTTT
11351840 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.23
26 14 0.47
27 9 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TATATTTTATATAAAAAAATAAAAA
Found at i:11351906 original size:10 final size:11
Alignment explanation
Indices: 11351883--11351915 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
11351873 AAATTTTAAA
*
11351883 TTATGTTATTT
1 TTATATTATTT
11351894 TTATATT-TTT
1 TTATATTATTT
11351904 TTATATTATTT
1 TTATATTATTT
11351915 T
1 T
11351916 CGTATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (11 bp):
TTATATTATTT
Found at i:11354766 original size:93 final size:93
Alignment explanation
Indices: 11354659--11354846 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
11354649 AAATTGCAAT
11354659 TTGGCAAATAAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATAAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
11354724 TCTCTATAAATAATATCATCCCCGTCAA
66 TCTCTATAAATAATATCATCCCCGTCAA
* *
11354752 TTGGCAAATCAATCACAGAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
1 TTGGCAAATAAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
11354817 TCTCTATAAATAATATCATCCCCGTCAA
66 TCTCTATAAATAATATCATCCCCGTCAA
11354845 TT
1 TT
11354847 ACAGCATTTA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (93 bp):
TTGGCAAATAAATCACAAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAA
TCTCTATAAATAATATCATCCCCGTCAA
Found at i:11362591 original size:14 final size:14
Alignment explanation
Indices: 11362568--11362611 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11362558 TAATTTTTTC
11362568 ATAAATATATATTA
1 ATAAATATATATTA
*
11362582 ATATATATAT-TTCA
1 ATAAATATATATT-A
*
11362596 ATAAAAATATATTA
1 ATAAATATATATTA
11362610 AT
1 AT
11362612 TCTAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAATATATATTA
Found at i:11364579 original size:17 final size:17
Alignment explanation
Indices: 11364557--11364609 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
11364547 AGGCAACATT
*
11364557 ATTTTTTTTTTTGCAAA
1 ATTTTTATTTTTGCAAA
11364574 ATTTTTCATTTTT-CAAA
1 ATTTTT-ATTTTTGCAAA
* *
11364591 ATTTTTGTTTTTGAAAA
1 ATTTTTATTTTTGCAAA
11364608 AT
1 AT
11364610 AGAATAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 5 0.16
17 21 0.68
18 5 0.16
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
ATTTTTATTTTTGCAAA
Found at i:11364866 original size:18 final size:20
Alignment explanation
Indices: 11364845--11364882 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11364835 AATTATTTTT
11364845 TTAA-TAAAAATT-TTAAAA
1 TTAATTAAAAATTATTAAAA
*
11364863 TTAATTAAAACTTATTAAAA
1 TTAATTAAAAATTATTAAAA
11364883 ATATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAATTAAAAATTATTAAAA
Found at i:11370951 original size:18 final size:19
Alignment explanation
Indices: 11370910--11370952 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11370900 TTTATTAAGG
11370910 AAATATAAAAAATTAAAGTT
1 AAAT-TAAAAAATTAAAGTT
*
11370930 -AATTAAAAAA-TAAATTT
1 AAATTAAAAAATTAAAGTT
11370947 AAATTA
1 AAATTA
11370953 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAAAAAATTAAAGTT
Found at i:11372710 original size:20 final size:20
Alignment explanation
Indices: 11372687--11372738 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
11372677 CCTTTTTTTC
* *
11372687 TTTTCTTTTTTTTTCCTTCT
1 TTTTCTTTTTTTTTCCTACA
*
11372707 TTTTC-TTTTTCTTCCTACA
1 TTTTCTTTTTTTTTCCTACA
11372726 TTTTCTTCTTTTT
1 TTTTCTT-TTTTT
11372739 CTTTTCTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.62
20 6 0.23
21 4 0.15
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTTTTTTCCTACA
Found at i:11379657 original size:22 final size:22
Alignment explanation
Indices: 11379632--11379712 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 22
11379622 TTCAAATGAC
11379632 TAAAAAAAAAATAAAATAATTT
1 TAAAAAAAAAATAAAATAATTT
11379654 TAAAATATAAAAAT-AAA-AATTT
1 TAAAA-A-AAAAATAAAATAATTT
* *
11379676 TAGATAAAAAAAGAAAATAATTT
1 TA-AAAAAAAAATAAAATAATTT
11379699 CCATAAAAAAAAAA
1 ---TAAAAAAAAAA
11379713 AAAGGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.10
22 16 0.33
23 11 0.23
24 6 0.12
25 8 0.17
26 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAAAAAAAATAAAATAATTT
Found at i:11381241 original size:9 final size:9
Alignment explanation
Indices: 11381227--11381251 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11381217 AAAACAAAAT
11381227 AGAAAGCCA
1 AGAAAGCCA
11381236 AGAAAGCCA
1 AGAAAGCCA
11381245 AGAAAGC
1 AGAAAGC
11381252 AAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAAAGCCA
Found at i:11382023 original size:23 final size:22
Alignment explanation
Indices: 11381958--11382025 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
11381948 AAATTTTGAT
* *
11381958 TTTAATATATTTAATATTAAAT
1 TTTAATATTTTTAATATTAAAA
* *
11381980 TTTAATTTTTTATAAAATTAAAA
1 TTTAATATTTT-TAATATTAAAA
*
11382003 TTTAATAATTTTTAATGTTAAAA
1 TTTAAT-ATTTTTAATATTAAAA
11382026 AAAAAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.24
23 24 0.65
24 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTAATATTTTTAATATTAAAA
Found at i:11382089 original size:23 final size:24
Alignment explanation
Indices: 11382028--11382079 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
11382018 TGTTAAAAAA
*
11382028 AAAAAATAAAAACATAAAGTAATTTT
1 AAAATATAAAAA-ATAAAG-AATTTT
11382054 AAAATATAAAAAATAAA-AATTTT
1 AAAATATAAAAAATAAAGAATTTT
11382077 AAA
1 AAA
11382080 TGTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
25 5 0.20
26 11 0.44
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATATAAAAAATAAAGAATTTT
Found at i:11384733 original size:40 final size:41
Alignment explanation
Indices: 11384666--11384743 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
11384656 TATGCATTTT
* ***
11384666 ATTATTTCTCTCACATGTTTGTGTTAAT-TTTTTTTTGAAG
1 ATTATTTCTCACACATGTTTACATTAATATTTTTTTTGAAG
*
11384706 ATTATTTCTCACATATGTTTACATTAATGATTTTTTTT
1 ATTATTTCTCACACATGTTTACATTAAT-ATTTTTTTT
11384744 ATTTTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 23 0.74
42 8 0.26
ACGTcount: A:0.23, C:0.10, G:0.09, T:0.58
Consensus pattern (41 bp):
ATTATTTCTCACACATGTTTACATTAATATTTTTTTTGAAG
Found at i:11387091 original size:25 final size:25
Alignment explanation
Indices: 11387063--11387119 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
11387053 AATTAGAATA
11387063 AATATATTTTTATTAAAAAATATCT
1 AATATATTTTTATTAAAAAATATCT
** * *
11387088 AATAGGTATTTATTAAAAATTATCT
1 AATATATTTTTATTAAAAAATATCT
11387113 -ATATATT
1 AATATATT
11387120 CAAATTTAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
AATATATTTTTATTAAAAAATATCT
Found at i:11387216 original size:6 final size:6
Alignment explanation
Indices: 11387205--11387282 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
11387195 TTAAATATTT
* * * * *
11387205 ATAAAA ATAAAA ATAAAT TTAAAA TATTTAAAT ATAAAA ATAAAT AT-AAT
1 ATAAAA ATAAAA ATAAAA ATAAAA -A--TAAAA ATAAAA ATAAAA ATAAAA
*
11387255 ATAAAA CTATATAA ATAAAA ATAAAA AT
1 ATAAAA --ATAAAA ATAAAA ATAAAA AT
11387283 TATTTTATCT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.09
6 41 0.73
8 6 0.11
9 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (6 bp):
ATAAAA
Found at i:11387242 original size:15 final size:15
Alignment explanation
Indices: 11387217--11387277 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
11387207 AAAAATAAAA
*
11387217 ATAAATTTAAAATAT
1 ATAAATATAAAATAT
* *
11387232 TTAAATATAAAAATAA
1 ATAAATAT-AAAATAT
11387248 ATATAATATAAAACTAT
1 ATA-AATATAAAA-TAT
11387265 ATAAATA-AAAATA
1 ATAAATATAAAATA
11387278 AAAATTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 16 0.42
17 10 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAAAATAT
Found at i:11387246 original size:33 final size:32
Alignment explanation
Indices: 11387204--11387282 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
11387194 ATTAAATATT
* *
11387204 TATAAAAATAAAAATAAATTTAAAA-TATTTAAA
1 TATAAAAATAAAAAT-AATATAAAACTATAT-AA
*
11387237 TATAAAAATAAATATAATATAAAACTATATAA
1 TATAAAAATAAAAATAATATAAAACTATATAA
11387269 -ATAAAAATAAAAAT
1 TATAAAAATAAAAAT
11387283 TATTTTATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.32
32 10 0.24
33 18 0.44
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAAAATAAAAATAATATAAAACTATATAA
Found at i:11390219 original size:18 final size:17
Alignment explanation
Indices: 11390173--11390226 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
11390163 TTTTTAGGAC
* *
11390173 TTTGGATTTTAAGAGGT
1 TTTGGATTTTTAGGGGT
*
11390190 TTT-GAATTTTAGGGGAT
1 TTTGGATTTTTAGGGG-T
11390207 TTTGGATTTTTAGGGGT
1 TTTGGATTTTTAGGGGT
11390224 TTT
1 TTT
11390227 AAAAACTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 9 0.29
17 11 0.35
18 11 0.35
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (17 bp):
TTTGGATTTTTAGGGGT
Found at i:11390645 original size:14 final size:16
Alignment explanation
Indices: 11390622--11390658 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
11390612 TTTATCATGC
*
11390622 ATAAATATAA-AATA-
1 ATAAAAATAATAATAT
11390636 ATAAAAATAATAATAT
1 ATAAAAATAATAATAT
11390652 ATAAAAA
1 ATAAAAA
11390659 ATTAGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAATAATAATAT
Found at i:11391678 original size:23 final size:23
Alignment explanation
Indices: 11391639--11391683 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11391629 AGGGGGCGTC
11391639 AGGGGGCTAGTCAGGAGGCTGAT
1 AGGGGGCTAGTCAGGAGGCTGAT
*
11391662 AGGGGGC-AGGTCGGGAGGCTGA
1 AGGGGGCTA-GTCAGGAGGCTGA
11391684 CAAGGGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.20, C:0.13, G:0.53, T:0.13
Consensus pattern (23 bp):
AGGGGGCTAGTCAGGAGGCTGAT
Found at i:11391790 original size:18 final size:19
Alignment explanation
Indices: 11391746--11391791 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
11391736 CTCTTTTTTT
11391746 TTATAATTTTTTAATTTAA
1 TTATAATTTTTTAATTTAA
11391765 TT-TAATTTTTTAA-TT-A
1 TTATAATTTTTTAATTTAA
11391781 TTATATATTTT
1 TTATA-ATTTT
11391792 AAATATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 4 0.16
18 16 0.64
19 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATAATTTTTTAATTTAA
Found at i:11391815 original size:31 final size:32
Alignment explanation
Indices: 11391764--11391824 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
11391754 TTTTAATTTA
11391764 ATTTAATTTTTTAATTATTATATATT-TTAAAT
1 ATTTAATTTTTTAATTATTAT-TATTATTAAAT
11391796 ATTT-ATTTATTT-ATTATTATTATTATTAA
1 ATTTAATTT-TTTAATTATTATTATTATTAA
11391825 TATAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 4 0.15
31 16 0.59
32 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
ATTTAATTTTTTAATTATTATTATTATTAAAT
Found at i:11392344 original size:17 final size:18
Alignment explanation
Indices: 11392308--11392347 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11392298 TTCTTTTGAC
11392308 TTATTTTTTATAATTATT
1 TTATTTTTTATAATTATT
* *
11392326 TTATTTTTT-TATTTTTT
1 TTATTTTTTATAATTATT
11392343 TTATT
1 TTATT
11392348 CATAGTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTATTTTTTATAATTATT
Found at i:11396789 original size:8 final size:9
Alignment explanation
Indices: 11396775--11396801 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11396765 AAAAAGATGC
11396775 AAAAAAAAG
1 AAAAAAAAG
11396784 AAAAAAAAG
1 AAAAAAAAG
11396793 AAAAAAAAG
1 AAAAAAAAG
11396802 GGAGATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:11397929 original size:36 final size:36
Alignment explanation
Indices: 11397889--11397964 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
11397879 GTCATTATTT
* *
11397889 TCTTGAGTCGTGGTTTAGTCCCAGTCGTCTTTATCC
1 TCTTGACTCGTGGTTCAGTCCCAGTCGTCTTTATCC
* * *
11397925 TCTTGACTCGTGGTTCAGTCCCGGTTGTCTTTATCT
1 TCTTGACTCGTGGTTCAGTCCCAGTCGTCTTTATCC
11397961 TCTT
1 TCTT
11397965 AACTTGTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.45
Consensus pattern (36 bp):
TCTTGACTCGTGGTTCAGTCCCAGTCGTCTTTATCC
Found at i:11397977 original size:36 final size:36
Alignment explanation
Indices: 11397896--11397986 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 36
11397886 TTTTCTTGAG
* * *
11397896 TCGTGGTTTAGTCCCAGTCGTCTTTATCCTCTTGAC
1 TCGTAGTTCAGTCCCAGTCGTCTTTATCCTCTTAAC
* * * *
11397932 TCGTGGTTCAGTCCCGGTTGTCTTTATCTTCTTAAC
1 TCGTAGTTCAGTCCCAGTCGTCTTTATCCTCTTAAC
* **
11397968 TTGTAGTTCAACCCCAGTC
1 TCGTAGTTCAGTCCCAGTC
11397987 ATTGTGATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (36 bp):
TCGTAGTTCAGTCCCAGTCGTCTTTATCCTCTTAAC
Found at i:11398234 original size:104 final size:104
Alignment explanation
Indices: 11398105--11398312 Score: 260
Period size: 104 Copynumber: 2.0 Consensus size: 104
11398095 CTCATTAATC
* * *
11398105 CTTGACTCGTGGTTCAATCCTGATCTTTTTACTTCTAAGTCATGGCTTAAT-TCTGATCC-CTAT
1 CTTGACTCGTAGTTCAATCCTGATCTCTTTACTTCTAAGTCATGGCTTAATCTC-AATCCTC-AT
* * *
11398168 TATTTCTCTGACTTGCGGTTTAATCCCAGTCTCTTTATTTT
64 TATTTCTCTAACTTACGATTTAATCCCAGTCTCTTTATTTT
* *
11398209 CTTGACTCGTAGTTCAAT-CTCGATCTCTTTACTTCTAAGTCGTGGTTTAATCTCAATCCTCATT
1 CTTGACTCGTAGTTCAATCCT-GATCTCTTTACTTCTAAGTCATGGCTTAATCTCAATCCTCATT
* * **
11398273 ATTTCTTTAAGTTACGATTTAATCTTAGTCTCTTTATTTT
65 ATTTCTCTAACTTACGATTTAATCCCAGTCTCTTTATTTT
11398313 TGGACTTGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 2 0.02
104 84 0.94
105 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (104 bp):
CTTGACTCGTAGTTCAATCCTGATCTCTTTACTTCTAAGTCATGGCTTAATCTCAATCCTCATTA
TTTCTCTAACTTACGATTTAATCCCAGTCTCTTTATTTT
Found at i:11398797 original size:20 final size:21
Alignment explanation
Indices: 11398756--11398797 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11398746 TTTAATATTT
*
11398756 ATTAATTAAACAAAAATTACA
1 ATTAATTAAACAAAAATGACA
11398777 ATTAATTAATA-AAAAA-GACA
1 ATTAATTAA-ACAAAAATGACA
11398797 A
1 A
11398798 AAAATAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 14 0.74
22 1 0.05
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (21 bp):
ATTAATTAAACAAAAATGACA
Found at i:11399224 original size:8 final size:9
Alignment explanation
Indices: 11399206--11399234 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
11399196 ATAGATCCAT
11399206 AAAAATAAA
1 AAAAATAAA
11399215 AAAAATAAA
1 AAAAATAAA
11399224 AAAAATAAA
1 AAAAATAAA
11399233 AA
1 AA
11399235 CACAGTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:11400000 original size:20 final size:20
Alignment explanation
Indices: 11399975--11400013 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11399965 GTAATAATTA
* *
11399975 ACAATAATAATAATTAAATG
1 ACAATAACAATAATAAAATG
11399995 ACAATAACAATAATAAAAT
1 ACAATAACAATAATAAAAT
11400014 TCAAATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
ACAATAACAATAATAAAATG
Found at i:11400109 original size:3 final size:3
Alignment explanation
Indices: 11400096--11400141 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
11400086 ATAAAATATG
11400096 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11400142 CTTTTCCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11401768 original size:13 final size:13
Alignment explanation
Indices: 11401750--11401783 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11401740 CCAATTCTAA
*
11401750 CTTTATTTATTTT
1 CTTTATTCATTTT
11401763 CTTTATTCATTTT
1 CTTTATTCATTTT
11401776 CATTTATT
1 C-TTTATT
11401784 AATTATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTCATTTT
Found at i:11402403 original size:32 final size:32
Alignment explanation
Indices: 11402339--11402403 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
11402329 TTTTATATTG
* *
11402339 TAATTTATATAGTTTTAGTTTTTATATTATTT
1 TAATTTATATAATTTTAGTTTTTATATAATTT
11402371 TAATTTA-ATAATTTTAGTTTATTCAT-TAATTT
1 TAATTTATATAATTTTAGTTT-TT-ATATAATTT
11402403 T
1 T
11402404 GTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 12 0.41
32 15 0.52
33 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (32 bp):
TAATTTATATAATTTTAGTTTTTATATAATTT
Found at i:11402590 original size:31 final size:31
Alignment explanation
Indices: 11402536--11402634 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 31
11402526 ATTATACAAA
11402536 TAATTTTTATATTAAAATAAAATTTAAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
* ** * *
11402567 TAATTTTTGTATTAGCATGAAATTTGAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
** * ** *
11402598 TAATTCATATACTCTAATAAAATTTGAAATT
1 TAATTTTTATATTAAAATAAAATTTAAAATT
11402629 TAATTT
1 TAATTT
11402635 CTCTAAGATA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (31 bp):
TAATTTTTATATTAAAATAAAATTTAAAATT
Found at i:11402984 original size:22 final size:21
Alignment explanation
Indices: 11402950--11402991 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
11402940 TGAAGAAAAA
*
11402950 AAAAATTTACACAAATTTATT
1 AAAAATCTACACAAATTTATT
11402971 AAAAATCTATCACAAATTTAT
1 AAAAATCTA-CACAAATTTAT
11402992 CAATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATCTACACAAATTTATT
Found at i:11402987 original size:11 final size:11
Alignment explanation
Indices: 11402952--11403014 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
11402942 AAGAAAAAAA
11402952 AAATTTA-CAC
1 AAATTTATCAC
* *
11402962 AAATTTATTAA
1 AAATTTATCAC
*
11402973 AAATCTATCAC
1 AAATTTATCAC
11402984 AAATTTATCA-
1 AAATTTATCAC
* *
11402994 ATATATAAT-AC
1 AAAT-TTATCAC
11403005 AAATTTATCA
1 AAATTTATCA
11403015 TTAACTAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
10 14 0.36
11 25 0.64
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTTATCAC
Found at i:11403476 original size:17 final size:18
Alignment explanation
Indices: 11403444--11403481 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11403434 GGGTATTTAT
*
11403444 TTTATTTTTGTTTATTCA
1 TTTATTGTTGTTTATTCA
*
11403462 TTTATTGTT-TTTATTTA
1 TTTATTGTTGTTTATTCA
11403479 TTT
1 TTT
11403482 GTGTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTATTGTTGTTTATTCA
Found at i:11404570 original size:7 final size:7
Alignment explanation
Indices: 11404558--11404632 Score: 114
Period size: 7 Copynumber: 10.7 Consensus size: 7
11404548 CCTTTTCTTA
11404558 GGAGTTG
1 GGAGTTG
11404565 GGAGTTG
1 GGAGTTG
11404572 GGAGTTG
1 GGAGTTG
*
11404579 GGAGATG
1 GGAGTTG
*
11404586 GGAGATG
1 GGAGTTG
*
11404593 GGAGATG
1 GGAGTTG
11404600 GGAGTTG
1 GGAGTTG
11404607 GGAGTTG
1 GGAGTTG
11404614 GGAGTTG
1 GGAGTTG
*
11404621 GGAGATG
1 GGAGTTG
11404628 GGAGT
1 GGAGT
11404633 AATGACTTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 64 1.00
ACGTcount: A:0.20, C:0.00, G:0.57, T:0.23
Consensus pattern (7 bp):
GGAGTTG
Found at i:11410783 original size:13 final size:14
Alignment explanation
Indices: 11410765--11410802 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
11410755 TGGCTGGCAA
*
11410765 AAGAGAAAAGGA-G
1 AAGAGAAAAGAAGG
11410778 AAGAGAAAAGAAGG
1 AAGAGAAAAGAAGG
11410792 AAGAGAAAAGA
1 AAGAGAAAAGA
11410803 GGTGACGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAGAAGG
Found at i:11410899 original size:18 final size:19
Alignment explanation
Indices: 11410876--11410929 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
11410866 AAGAAATAAG
11410876 GAAAAAGAAGGAGAA-AAA
1 GAAAAAGAAGGAGAAGAAA
* *
11410894 GAAAAAGGAGAAGAAGAAA
1 GAAAAAGAAGGAGAAGAAA
* *
11410913 CAAAAAAAGAGGAGAAG
1 GAAAAAGA-AGGAGAAG
11410930 CTTTGGAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 13 0.46
19 8 0.29
20 7 0.25
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (19 bp):
GAAAAAGAAGGAGAAGAAA
Found at i:11410903 original size:15 final size:15
Alignment explanation
Indices: 11410883--11410912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11410873 AAGGAAAAAG
11410883 AAGGAGAAAAAGAAA
1 AAGGAGAAAAAGAAA
*
11410898 AAGGAGAAGAAGAAA
1 AAGGAGAAAAAGAAA
11410913 CAAAAAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAGGAGAAAAAGAAA
Found at i:11419365 original size:16 final size:16
Alignment explanation
Indices: 11419346--11419378 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11419336 TCTTTTTATC
11419346 TTTTTAAATATATAAT
1 TTTTTAAATATATAAT
11419362 TTTTTAAATATATAAT
1 TTTTTAAATATATAAT
11419378 T
1 T
11419379 ATCTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAAATATATAAT
Found at i:11419592 original size:2 final size:2
Alignment explanation
Indices: 11419585--11419624 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11419575 TTTCCTAATA
*
11419585 AT AT AT AT GT 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
11419625 CTATCCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11422354 original size:19 final size:18
Alignment explanation
Indices: 11422332--11422390 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
11422322 CAATTTGGAC
11422332 AAAAAAGGAAAAAGAGAGA
1 AAAAAAGGAAAAAGAGA-A
*
11422351 AAAAAA-GAGGAAAGAGAA
1 AAAAAAGGA-AAAAGAGAA
11422369 AAAAAA--AAAAAG-GAA
1 AAAAAAGGAAAAAGAGAA
11422384 AAAAAAG
1 AAAAAAG
11422391 ATAAGAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 9 0.25
16 4 0.11
17 1 0.03
18 9 0.25
19 13 0.36
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AAAAAAGGAAAAAGAGAA
Found at i:11422356 original size:21 final size:21
Alignment explanation
Indices: 11422332--11422412 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
11422322 CAATTTGGAC
* *
11422332 AAAAAAGGAAAAAGAGAGAAA
1 AAAAAAGGAAAAAGAAAAAAA
* *
11422353 AAAAGAGGAAAGAGAAAAAAA
1 AAAAAAGGAAAAAGAAAAAAA
* *
11422374 AAAAAAGGAAAAA-AAAGATA
1 AAAAAAGGAAAAAGAAAAAAA
*
11422394 AGAAAA-G-AAAAGAAAAAAA
1 AAAAAAGGAAAAAGAAAAAAA
11422413 GGAAAAGGGA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
18 4 0.08
19 6 0.12
20 10 0.21
21 28 0.58
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (21 bp):
AAAAAAGGAAAAAGAAAAAAA
Found at i:11422377 original size:5 final size:5
Alignment explanation
Indices: 11422360--11422419 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
11422350 AAAAAAAGAG
* *
11422360 GAAAGA GAAAA -AAAA AAAAA GGAAAA -AAAA GATAA GAAAA GAAAA GAAAA
1 GAAA-A GAAAA GAAAA GAAAA -GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
*
11422410 -AAAG GAAAA G
1 GAAAA GAAAA G
11422420 GGAACCATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
4 11 0.24
5 26 0.58
6 8 0.18
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:11430804 original size:18 final size:21
Alignment explanation
Indices: 11430733--11430795 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
11430723 AAAAATAACG
* * *
11430733 ATAATGATGAAATTAATTATT
1 ATAATAATAAAATTAAATATT
11430754 ATAATAATAAAATTAAATATT
1 ATAATAATAAAATTAAATATT
11430775 ATAATAATAAAATTAAA-ATT
1 ATAATAATAAAATTAAATATT
11430795 A
1 A
11430796 ATGATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:11431331 original size:24 final size:24
Alignment explanation
Indices: 11431296--11431359 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
11431286 GCGATCGAAA
11431296 ATAA-TAATAAAAATTATTATAATT
1 ATAATTAA-AAAAATTATTATAATT
11431320 ATAATTAAAAAAATTATTATAATT
1 ATAATTAAAAAAATTATTATAATT
**
11431344 ATTTTTTAAAAAAATT
1 A-TAATTAAAAAAATT
11431360 TATATAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 21 0.58
25 15 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATTAAAAAAATTATTATAATT
Found at i:11431370 original size:11 final size:11
Alignment explanation
Indices: 11431354--11431380 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11431344 ATTTTTTAAA
11431354 AAAATTTATAT
1 AAAATTTATAT
11431365 AAAATTTATAT
1 AAAATTTATAT
11431376 AAAAT
1 AAAAT
11431381 AAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATTTATAT
Found at i:11431378 original size:25 final size:25
Alignment explanation
Indices: 11431325--11431401 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
11431315 TAATTATAAT
* *
11431325 TAAAAAAA-TTATTATAATTATTT-TT
1 TAAAAAAATTTA-TATAA-AATTTATA
11431350 TAAAAAAATTTATATAAAATTTATA
1 TAAAAAAATTTATATAAAATTTATA
*
11431375 TAAAATAAATTT-TATTAAAATTAATA
1 TAAAA-AAATTTATA-TAAAATTTATA
11431401 T
1 T
11431402 TTAAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 4 0.09
25 21 0.47
26 20 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAAAAAATTTATATAAAATTTATA
Found at i:11431404 original size:16 final size:17
Alignment explanation
Indices: 11431363--11431404 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
11431353 AAAAATTTAT
11431363 ATAAA-ATTTATATAAA
1 ATAAATATTTATATAAA
11431379 ATAAAT-TTTAT-TAAA
1 ATAAATATTTATATAAA
*
11431394 ATTAATATTTA
1 ATAAATATTTA
11431405 AATTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAATATTTATATAAA
Found at i:11431446 original size:20 final size:21
Alignment explanation
Indices: 11431405--11431447 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11431395 TTAATATTTA
*
11431405 AATTTAATTAATAATACAATG
1 AATTTAATTAACAATACAATG
*
11431426 AATTTAATT-ACAATACGATG
1 AATTTAATTAACAATACAATG
11431446 AA
1 AA
11431448 AGTGCGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
AATTTAATTAACAATACAATG
Found at i:11432545 original size:5 final size:5
Alignment explanation
Indices: 11432531--11432595 Score: 57
Period size: 5 Copynumber: 13.2 Consensus size: 5
11432521 TATTTTTAGT
*
11432531 TTTTA TTTTTA TTTT- TTTCTC TTTT- TATTTA TTTTA TTTTA TTTT-
1 TTTTA -TTTTA TTTTA TTT-TA TTTTA T-TTTA TTTTA TTTTA TTTTA
*
11432576 TGTTA TTTTA TTTT- TTTTA T
1 TTTTA TTTTA TTTTA TTTTA T
11432596 CCATGCGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
4 11 0.22
5 31 0.61
6 9 0.18
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:11432547 original size:14 final size:14
Alignment explanation
Indices: 11432521--11432592 Score: 69
Period size: 14 Copynumber: 5.1 Consensus size: 14
11432511 TTTGACTAGC
*
11432521 TATTTTTA-GTTTT
1 TATTTTTATTTTTT
11432534 TATTTTTATTTTTTT
1 TATTTTTA-TTTTTT
*
11432549 CTCTTTTTATTTATTT
1 -TATTTTTATTT-TTT
11432565 TA-TTTTATTTTTGT
1 TATTTTTATTTTT-T
11432579 TA-TTTTATTTTTT
1 TATTTTTATTTTTT
11432592 T
1 T
11432593 TATCCATGCG
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
13 12 0.24
14 21 0.41
15 8 0.16
16 10 0.20
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:11432565 original size:9 final size:9
Alignment explanation
Indices: 11432532--11432595 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
11432522 ATTTTTAGTT
11432532 TTTATTTTTA
1 TTTA-TTTTA
*
11432542 TTT-TTTTC
1 TTTATTTTA
*
11432550 TCT-TTTTA
1 TTTATTTTA
11432558 TTTATTTTA
1 TTTATTTTA
11432567 TTTTATTTT-
1 -TTTATTTTA
11432576 TGTTATTTTA
1 T-TTATTTTA
*
11432586 TTTTTTTTA
1 TTTATTTTA
11432595 T
1 T
11432596 CCATGCGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
8 13 0.29
9 20 0.44
10 12 0.27
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11432595 original size:14 final size:14
Alignment explanation
Indices: 11432530--11432595 Score: 78
Period size: 14 Copynumber: 4.5 Consensus size: 14
11432520 CTATTTTTAG
11432530 TTTTTATTTTTATTT
1 TTTTTA-TTTTATTT
*
11432545 TTTTCTCTTTTTATTT
1 TTTT-T-ATTTTATTT
*
11432561 ATTTTATTTTATTT
1 TTTTTATTTTATTT
*
11432575 TTGTTATTTTATTT
1 TTTTTATTTTATTT
11432589 TTTTTAT
1 TTTTTAT
11432596 CCATGCGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
14 26 0.60
15 5 0.12
16 12 0.28
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:11435374 original size:83 final size:83
Alignment explanation
Indices: 11435245--11435401 Score: 278
Period size: 83 Copynumber: 1.9 Consensus size: 83
11435235 CAACTGCCTG
*
11435245 CTTTGCTTGAATCTTTTAAAACTATAACTAAGAAATTGAAGCCTTTCTATTGATGGTTCAGTTTA
1 CTTTGCTTGAATCTTTTAAAACTATAACTAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTA
11435310 GAATAGAGTCTTGACTAT
66 GAATAGAGTCTTGACTAT
***
11435328 CTTTGCTTGAATCTTTTATTTCTATAACTAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTA
1 CTTTGCTTGAATCTTTTAAAACTATAACTAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTA
11435393 GAATAGAGT
66 GAATAGAGT
11435402 TAAGAAATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 70 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (83 bp):
CTTTGCTTGAATCTTTTAAAACTATAACTAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTA
GAATAGAGTCTTGACTAT
Found at i:11435423 original size:46 final size:46
Alignment explanation
Indices: 11435356--11435447 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
11435346 TTTCTATAAC
11435356 TAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTAGAATAGAGT
1 TAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTAGAATAGAGT
11435402 TAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTAGAATAGAGT
1 TAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTAGAATAGAGT
11435448 CTTGACTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (46 bp):
TAAGAAATTGAAGACTTTCTATTGATGGTTCAGTTTAGAATAGAGT
Found at i:11436190 original size:126 final size:126
Alignment explanation
Indices: 11435961--11436212 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 126
11435951 CAACATATTA
11435961 TTTCAAAATTTTCAATTTAATACAAATATATTAACCACAGAACTTCCATGGCCGATCGACTAACC
1 TTTCAAAATTTTCAATTTAATACAAATATATTAACCACAGAACTTCCATGGCCGATCGACTAACC
*
11436026 CCTGGGTCTTGGATAAACAATAAGGTCAAAGTTAGGGTGGTAGAGCAAGAATTCTATAGTT
66 CCTGGGTCTTGGATAAACAATAAGGTCAAAGTTAGGGTGGTAGAGCAAGAATTATATAGTT
11436087 TTTCAAAATTTTCAATTTAATACAAATATATTAACCACAGAACTTCCATGGCCGATCGACTAACC
1 TTTCAAAATTTTCAATTTAATACAAATATATTAACCACAGAACTTCCATGGCCGATCGACTAACC
*
11436152 CCTGGGTCTTGGATAAACAATAAGGTCAAAGTTGGGGTGGTAGAGCAAGAATTATATAGTT
66 CCTGGGTCTTGGATAAACAATAAGGTCAAAGTTAGGGTGGTAGAGCAAGAATTATATAGTT
11436213 AGTGCTCACA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTCAAAATTTTCAATTTAATACAAATATATTAACCACAGAACTTCCATGGCCGATCGACTAACC
CCTGGGTCTTGGATAAACAATAAGGTCAAAGTTAGGGTGGTAGAGCAAGAATTATATAGTT
Found at i:11436991 original size:24 final size:24
Alignment explanation
Indices: 11436959--11437009 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
11436949 AAAAAAAGCC
11436959 GAAGCGTGATGTTTGATGATATCT
1 GAAGCGTGATGTTTGATGATATCT
11436983 GAAGCGTGATGTTTGATGATATCT
1 GAAGCGTGATGTTTGATGATATCT
11437007 GAA
1 GAA
11437010 TGGGAGGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (24 bp):
GAAGCGTGATGTTTGATGATATCT
Found at i:11437552 original size:17 final size:17
Alignment explanation
Indices: 11437530--11437564 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11437520 AACGTATGAA
11437530 CCAATTAAGCTAAGCTT
1 CCAATTAAGCTAAGCTT
11437547 CCAATTAAGCTAAGCTT
1 CCAATTAAGCTAAGCTT
11437564 C
1 C
11437565 AAGTGTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (17 bp):
CCAATTAAGCTAAGCTT
Found at i:11442951 original size:20 final size:20
Alignment explanation
Indices: 11442902--11442951 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11442892 TAAATACAAA
* *
11442902 ATAATTTTTTTTTATTTTTT
1 ATAATTTTTATATATTTTTT
*
11442922 ATCAA-GTTTATATATTTTTT
1 AT-AATTTTTATATATTTTTT
11442942 ATAATTTTTA
1 ATAATTTTTA
11442952 AATTATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
ATAATTTTTATATATTTTTT
Found at i:11443867 original size:15 final size:14
Alignment explanation
Indices: 11443847--11443876 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11443837 TTAAAATAAT
11443847 ATTTTAAATATTTAA
1 ATTTTAAAT-TTTAA
11443862 ATTTTAAATTTTAA
1 ATTTTAAATTTTAA
11443876 A
1 A
11443877 AATCGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTAAATTTTAA
Found at i:11443869 original size:7 final size:7
Alignment explanation
Indices: 11443847--11443876 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
11443837 TTAAAATAAT
11443847 ATTTTAA
1 ATTTTAA
11443854 ATATTTAA
1 AT-TTTAA
11443862 ATTTTAA
1 ATTTTAA
11443869 ATTTTAA
1 ATTTTAA
11443876 A
1 A
11443877 AATCGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATTTTAA
Found at i:11443869 original size:40 final size:40
Alignment explanation
Indices: 11443798--11443873 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
11443788 TTATAAAATA
11443798 AAAATAATTATTTTATATATAAATATATTAAAATTTTTATT
1 AAAATAATTATTTTATATATAAATATATT-AAATTTTTATT
*
11443839 AAAATAA-TATTTTAAATATTTAAAT-T-TTAAATTTT
1 AAAATAATTATTTT--ATATATAAATATATTAAATTTT
11443874 AAAAATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 7 0.22
40 8 0.25
41 8 0.25
42 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
AAAATAATTATTTTATATATAAATATATTAAATTTTTATT
Found at i:11444714 original size:63 final size:63
Alignment explanation
Indices: 11444596--11444726 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 63
11444586 TTTTGTGTTA
* * * *
11444596 ATATTTTTATAAAATGATTATTTAAGACATTTCTATATAGAAAACACATTGAATAATTTTTTT
1 ATATTTTTACAAAATGATTATTTAAGACATTTCTATACAAAAAACACATTAAATAATTTTTTT
* * *
11444659 ATATTTTTAC-AAATAGATTATTTAA-AGCATTTTTATACAAAAAATACCTTAAATAATTTTTTT
1 ATATTTTTACAAAAT-GATTATTTAAGA-CATTTCTATACAAAAAACACATTAAATAATTTTTTT
11444722 ATATT
1 ATATT
11444727 AAGGTATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 5 0.08
63 54 0.92
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (63 bp):
ATATTTTTACAAAATGATTATTTAAGACATTTCTATACAAAAAACACATTAAATAATTTTTTT
Found at i:11444846 original size:193 final size:196
Alignment explanation
Indices: 11444550--11444911 Score: 527
Period size: 193 Copynumber: 1.9 Consensus size: 196
11444540 TGTTTGACAT
* * * *
11444550 AAAAAATACCTTAAATAATCTTTTTATATTTTAGGATTTTGTGTTAATATTTTTATAAAATGATT
1 AAAAAATACCTTAAATAATCTTTTTATATTTTAGGATTTAGGGTTAATAATTTTATAAAAAGATT
* * * *
11444615 ATTTAAGACATTTCTATATAGAAAACACATTGAATAATTTTTTTATATTTTTACAAATAGATTAT
66 ATTTAAGACATTTCTATACAAAAAACACATTAAATAATTATTTTATATTTTTACAAATAGATTAT
* *
11444680 TTAA-AGCATTTTT-AT-ACAAAAAATACCTTAAATAATTTTTTTATATTAAGGTATTTTTTGTA
131 TTAAGACCATTTTTGATAAAAAAAAATACCTTAAATAATTTTTTTATATTAAGGTATTTTTTGTA
11444742 C
196 C
*
11444743 AAAAAATATCTTAAATAATCTTTTTATATTTTAAGG-TTTAGGGTTAATAATTTTATAAAAAGAT
1 AAAAAATACCTTAAATAATCTTTTTATATTTT-AGGATTTAGGGTTAATAATTTTATAAAAAGAT
* * * *
11444807 TATTTAAGA-AGTTTTTATACAAAAAATACCTTAAATAATTATTTTATATTTTTATAAATAGATT
65 TATTTAAGACA-TTTCTATACAAAAAACACATTAAATAATTATTTTATATTTTTACAAATAGATT
*
11444871 ATTTAAGACCTTTTTTGATAAAAAAAAATACCTTAAATAAT
129 ATTTAAGACCATTTTTGATAAAAAAAAATACCTTAAATAAT
11444912 ATTAAAAAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
192 1 0.01
193 115 0.78
194 10 0.07
195 2 0.01
196 20 0.14
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (196 bp):
AAAAAATACCTTAAATAATCTTTTTATATTTTAGGATTTAGGGTTAATAATTTTATAAAAAGATT
ATTTAAGACATTTCTATACAAAAAACACATTAAATAATTATTTTATATTTTTACAAATAGATTAT
TTAAGACCATTTTTGATAAAAAAAAATACCTTAAATAATTTTTTTATATTAAGGTATTTTTTGTA
C
Found at i:11444989 original size:62 final size:61
Alignment explanation
Indices: 11444923--11445054 Score: 151
Period size: 62 Copynumber: 2.1 Consensus size: 61
11444913 TTAAAAAAAA
* * *
11444923 TTTTAAAG-GCATTATTTAAAGCTTTTTTTTAT-CAAAAATATTTTAAATAATTCCCTCATATT
1 TTTTAAAGTG-ATTATTT-AAGATATTTTTTATCCAAAAATATCTTAAATAA-TCCCTCATATT
* ** *
11444985 TTTTAACAGTGATTATTTAAGATATTTTTTGTCCAAAAATATCTTAAATAATCTTTCATTTT
1 TTTTAA-AGTGATTATTTAAGATATTTTTTATCCAAAAATATCTTAAATAATCCCTCATATT
11445047 TTTTAAAG
1 TTTTAAAG
11445055 AGGCTATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
61 2 0.03
62 31 0.52
63 26 0.43
64 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (61 bp):
TTTTAAAGTGATTATTTAAGATATTTTTTATCCAAAAATATCTTAAATAATCCCTCATATT
Found at i:11445373 original size:22 final size:24
Alignment explanation
Indices: 11445327--11445376 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11445317 AAAAATTAAT
*
11445327 AAAAAATTATCATCATATATGTCA
1 AAAAAATTATAATCATATATGTCA
*
11445351 AAAAAATTATAATGAT-TAT-TCA
1 AAAAAATTATAATCATATATGTCA
11445373 AAAA
1 AAAA
11445377 TTAACATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 3 0.12
24 14 0.58
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAATTATAATCATATATGTCA
Found at i:11445867 original size:18 final size:17
Alignment explanation
Indices: 11445844--11445893 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
11445834 GGATAAAATA
11445844 TTTTATTTTATTTTAGTT
1 TTTTATTTTATTTT-GTT
* *
11445862 TTTTATATTATATTGTT
1 TTTTATTTTATTTTGTT
11445879 TTTGTATTTATATTT
1 TTT-TATTT-TATTT
11445894 AATAGATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 16 0.62
19 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTATTTTATTTTGTT
Found at i:11445879 original size:17 final size:17
Alignment explanation
Indices: 11445844--11445892 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
11445834 GGATAAAATA
*
11445844 TTTTATTTTATTTTAGTT
1 TTTTA-TTTATATTAGTT
11445862 TTTTATATTATATT-GTT
1 TTTTAT-TTATATTAGTT
11445879 TTTGTATTTATATT
1 TTT-TATTTATATT
11445893 TAATAGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTATTTATATTAGTT
Found at i:11447497 original size:12 final size:12
Alignment explanation
Indices: 11447477--11447506 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11447467 ATTTAACAGC
*
11447477 AAAAATTTTATT
1 AAAATTTTTATT
11447489 AAAATTTTTATT
1 AAAATTTTTATT
11447501 AAAATT
1 AAAATT
11447507 GTCTATCTAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAAATTTTTATT
Found at i:11450140 original size:22 final size:23
Alignment explanation
Indices: 11450115--11450162 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
11450105 ATTTTAAAGT
11450115 TTTAATAAAAA-TTAAATATACA
1 TTTAATAAAAATTTAAATATACA
*
11450137 TTTAATAAAAATTTAAATATATA
1 TTTAATAAAAATTTAAATATACA
11450160 TTT
1 TTT
11450163 TATATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAATAAAAATTTAAATATACA
Found at i:11450421 original size:11 final size:11
Alignment explanation
Indices: 11450405--11450442 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11450395 AATATAATTT
11450405 AAAATTTAATA
1 AAAATTTAATA
11450416 AAAA-TTATATA
1 AAAATTTA-ATA
*
11450427 TAAATTTAATA
1 AAAATTTAATA
11450438 AAAAT
1 AAAAT
11450443 AAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTAATA
Found at i:11451646 original size:7 final size:7
Alignment explanation
Indices: 11451634--11451667 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
11451624 ACCCATTAGA
11451634 GCAAAAG
1 GCAAAAG
11451641 GCAAAAG
1 GCAAAAG
11451648 GCAAAAG
1 GCAAAAG
11451655 GCAAAAG
1 GCAAAAG
11451662 GCAAAA
1 GCAAAA
11451668 AGCTCATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.15, G:0.26, T:0.00
Consensus pattern (7 bp):
GCAAAAG
Found at i:11454060 original size:23 final size:23
Alignment explanation
Indices: 11454033--11454084 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
11454023 GAAGTTGCAA
*
11454033 AAAAAAGAATAGAGCTTTTTACC
1 AAAAAAGAAGAGAGCTTTTTACC
*
11454056 TAAAAAGAAGAGAGCTTTTTACC
1 AAAAAAGAAGAGAGCTTTTTACC
11454079 AAAAAA
1 AAAAAA
11454085 AAAAAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.13, T:0.23
Consensus pattern (23 bp):
AAAAAAGAAGAGAGCTTTTTACC
Found at i:11454772 original size:10 final size:9
Alignment explanation
Indices: 11454754--11454803 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
11454744 CAGGTAAAAA
11454754 ATTTA-TTT
1 ATTTATTTT
11454762 ATTTATATTT
1 ATTTAT-TTT
11454772 ATTTATTCTT
1 ATTTATT-TT
11454782 ATTT-TTTAT
1 ATTTATTT-T
11454791 ATATTATTTT
1 AT-TTATTTT
11454801 ATT
1 ATT
11454804 AATATTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 6 0.17
9 7 0.19
10 20 0.56
11 3 0.08
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTATTTT
Found at i:11454773 original size:14 final size:14
Alignment explanation
Indices: 11454754--11454812 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
11454744 CAGGTAAAAA
11454754 ATTTATTTATTTAT
1 ATTTATTTATTTAT
11454768 ATTTATTTATTCT-T
1 ATTTATTTATT-TAT
11454782 ATTT-TTTA--TAT
1 ATTTATTTATTTAT
*
11454793 A-TTATTTTATTAAT
1 ATTTA-TTTATTTAT
11454807 ATTTAT
1 ATTTAT
11454813 GCATATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 4 0.11
13 4 0.11
14 20 0.54
15 4 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTATTTATTTAT
Found at i:11454809 original size:25 final size:24
Alignment explanation
Indices: 11454757--11454812 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
11454747 GTAAAAAATT
**
11454757 TATTTATTTATATTTATTTATTCT
1 TATTTATTTATATTTATTTATTAA
11454781 TATTT-TTTATATATTATTTTATTAA
1 TATTTATTTATAT-TTA-TTTATTAA
11454806 TATTTAT
1 TATTTAT
11454813 GCATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 8 0.30
25 11 0.41
26 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTATTTATATTTATTTATTAA
Found at i:11454915 original size:23 final size:24
Alignment explanation
Indices: 11454880--11454924 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
11454870 GTTAATTTTT
*
11454880 AAAATGAACTTTAAAAATAAAATA
1 AAAATGAAATTTAAAAATAAAATA
**
11454904 AAAAT-AAATTTAGTAATAAAA
1 AAAATGAAATTTAAAAATAAAA
11454925 AATAATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAATGAAATTTAAAAATAAAATA
Found at i:11455343 original size:19 final size:19
Alignment explanation
Indices: 11455319--11455366 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
11455309 CATTTCTTTT
11455319 AAATAAGAATAATAATAAA
1 AAATAAGAATAATAATAAA
* * *
11455338 AAATAATAA-AATTATCAA
1 AAATAAGAATAATAATAAA
11455356 AAA-AAGAATAA
1 AAATAAGAATAA
11455367 AATGTGTGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 12 0.50
19 8 0.33
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAGAATAATAATAAA
Found at i:11467179 original size:97 final size:98
Alignment explanation
Indices: 11467064--11468614 Score: 1460
Period size: 97 Copynumber: 15.9 Consensus size: 98
11467054 ATGAGATTGA
* * *
11467064 TTTTAAAGTTGATGAGCCTCTACTGAGATGAGCTTTTTCAAGATAAGATTTTTAAAGTTGTTAAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
* * * * *
11467129 CCTCTGCTAAGAGGAGCTTTTCCAAGAT-AAAA
66 CCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
* * * *
11467161 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGTTTTTTCAAGATGAGA-TTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
*
11467225 CCTCTGCTGAGAGGAGCTTTTTCAAGATG-GAAT
66 CCTCTACTGAGAGGAGCTTTTTCAAGATGAG-AT
* * * * * * *
11467258 TTTTAAAGGTATTGAGCCACTGCTAAGAGGAACTTTTTTCAAGAT-A-ATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTTCAAGATGAGATTTTTAAAGTTGTTGA
*
11467321 GCCTCTATTGAGAGGAGCTTTTT-AAGATGAGAT
65 GCCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
* * * *
11467354 TTTTAAAGTCGTTGAGCTTTTACTAAGA-GAAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AG-CTTTTTCAAGATGAG-ATTTTTAAAGTTGTT
* * * * * *
11467418 GAGTCTTTACTAAGA-TAGCGCTTTTCAAGATGAAAT
63 GAGCCTCTACTGAGAGGAGC-TTTTTCAAGATGAGAT
*
11467454 TTTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAA-ATGAGA-TTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
** * * *
11467517 CCTCTGTTGAGAGAAACCCTTTTCAAGATGAGAT
66 CCTCTACTGAGAG-GAGCTTTTTCAAGATGAGAT
* * * * *
11467551 TTTTAAAGTTGTTGAGCTTCTATTGAGATAAACTTTTTCAAGA-GA-A-TTTTAAAGTTGTTAAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
* * *
11467613 CCTCTACTGAAAGAAGCCTTTTTTC-AGATGA-AA
66 CCTCTACTGAGAGGAG-C-TTTTTCAAGATGAGAT
* * * * *
11467646 TTTTAAAGTTGTTGAGCCTCTGCTAAGAAGAGCCCTTTTCAAAATGAGA-TTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAG-CTTTTTCAAGATGAGATTTTTAAAGTTGTTGA
* * *
11467710 GCCGCTGCTAAGAGGAGCTTTTTTCAAGAT--GAT
65 GCCTCTACTGAGAGGAGC-TTTTTCAAGATGAGAT
* * * *
11467743 TTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTT-AAGATGAGATTTTTAAAGTCGGTGAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
* * * *
11467807 CTTTTACTAAGAGAAGCCTTTTTCAAGATGAGAAT
66 CCTCTACTGAGAGGAG-CTTTTTCAAGATGAG-AT
* * * * *
11467842 TTTTAAAGTTGTTGAGTCTCTACTAAGATTAGCCCTTTTCAAGATGAAATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAG-CTTTTTCAAGATGAGATTTTTAAAGTTGTTGA
* *
11467907 GCCTATACTGAGATGAGCTTTTTCAA-ATGAGA-
65 GCCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
* * * *
11467939 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAACCCTTTTCAAGATGAGATTTTTAAAATTGTTG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG--AGCTTTTTCAAGATGAGATTTTTAAAGTTGTTG
* * ** **
11468003 AGCTTCTATTGAGATTAATTTTTTCAAGA-GA-A-
64 AGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
* * ** * * *
11468035 TTTTAAAGTTGTTAAGCCTCTACTGAAAAAAACTTTTTTTC-AGAT-AAAATTTTAAAGTTGTTG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC--TTTTTCAAGATGAGATTTTTAAAGTTGTTG
* *
11468098 AGCCTCTGCTGAGAGGAGCTTTTTCAATATG-GA-
64 AGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
* * * * *
11468131 TTTTAAAGTTGTTGAACCTCCATTGAGATGAGCTTTTTTAAGA-GA-ATTTTTAAAGTTGTTGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
** * *
11468194 CCTCTGTTGAGATGAGCCATTTTCAAGATGAGAT
66 CCTCTACTGAGAGGAG-CTTTTTCAAGATGAGAT
* * * * * *
11468228 TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAG-TGAAATTTTTAAAGTTGTTA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAG--CTTTTTCAAGATGAGATTTTTAAAGTTGTTG
* * *
11468292 AGCCTCTGCTGAGAAGAGCCCTTTTCAAGATGAGAT
64 AGCCTCTACTGAGAGGAG-CTTTTTCAAGATGAGAT
* * * * * *
11468328 TTTTAAAGTTATTGAGCCTCTGCTGAGATAAACTCTTTTCAAGATAAGATTTTTAAAGTCGTTGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCT-TTTTCAAGATGAGATTTTTAAAGTTGTTGA
*
11468393 GCCTCTACTGAGAGGAACTTTTTTCAAGATGAGAAT
65 GCCTCTACTGAGAGGAGC-TTTTTCAAGATGAG-AT
* *
11468429 TTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTT-AAGATGAGATTTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
* ** *
11468493 CCTCTA-TTAGGATTAGCCCTTTTCAAGATGAGAT
66 CCTCTACTGA-GAGGAG-CTTTTTCAAGATGAGAT
* * * * * * *
11468527 TTTTAAAGTTGTTAAACGTCTACTGAGATGAGCTTTTTTCAGGATAAAATTTTTAAAGTTATTGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTTCAAGATGAGATTTTTAAAGTTGTTGA
* * *
11468592 GCCTTTACTGAGATGAGTTTTTT
65 GCCTCTACTGAGAGGAGCTTTTT
11468615 TTTCATATTT
Statistics
Matches: 1199, Mismatches: 199, Indels: 110
0.80 0.13 0.07
Matches are distributed among these distances:
94 35 0.03
95 90 0.08
96 248 0.21
97 316 0.26
98 91 0.08
99 146 0.12
100 204 0.17
101 69 0.06
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (98 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
CCTCTACTGAGAGGAGCTTTTTCAAGATGAGAT
Found at i:11468014 original size:438 final size:434
Alignment explanation
Indices: 11467062--11468498 Score: 1864
Period size: 438 Copynumber: 3.3 Consensus size: 434
11467052 ATATGAGATT
* * * * *
11467062 GATTTTAAAGTTGATGAGCCTCTACTGAGATG--AGCTTTTTCAAGATAAGATTTTTAAAGTTGT
1 GATTTTAAAGTTGTTGAGCCTCTACTGAGA-GAAACCCTTTTCAAGATGAGATTTTTAAAATTGT
* * * * * * * * * * *
11467125 TAAGCCTCTGCTAAGAGGAGCTTTTCCAAGATAAAATTTTAAAGTTGTTGAGCCTTTGCTGAGAG
65 TGAGCCTCTACTGAGATGAACTTTTTCAAG--AGAATTTTAAAGTTGTTAAGCCTCTACTGAAAG
* * *
11467190 GAG-TTTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
128 AAGCTTTTTTC-AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATG
* * * *
11467254 GAATTTTTAAAGGTATTGAGCCACTGCTAAGAGGAACTTTTTTCAAGATAATTTTTAAAGTTGTT
192 G-A-TTTTAAAGTTGTTGAGCCACTGCTAAGAGGAGCTTTTTTCAAGATGATTTTTAAAGTTGTT
11467319 GAGCCTCTATTGAGAGGAGCTTTTTAAGATGAGATTTTTAAAGTCGTTGAGCTTTTACTAAGAGA
255 GAGCCTCTATTGAGAGGAGCTTTTTAAGATGAGATTTTTAAAGTCGTTGAGCTTTTACTAAGAGA
* *
11467384 AGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTTTACTAAGATAGCGCTTTTCAAGAT
320 AGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTCTACTAAGATAGCCCTTTTCAAGAT
11467449 GAAATTTTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAAATGA
385 GAAATTTTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAAATGA
** *
11467499 GATTTTAAAGTTGTTGAGCCTCTGTTGAGAGAAACCCTTTTCAAGATGAGATTTTTAAAGTTGTT
1 GATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAACCCTTTTCAAGATGAGATTTTTAAAATTGTT
* * *
11467564 GAGCTTCTATTGAGATAAACTTTTTCAAGAGAATTTTAAAGTTGTTAAGCCTCTACTGAAAGAAG
66 GAGCCTCTACTGAGATGAACTTTTTCAAGAGAATTTTAAAGTTGTTAAGCCTCTACTGAAAGAAG
* * *
11467629 CCTTTTTTCAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAAGAGCCCTTTTCAAAATGAG
131 -CTTTTTTCAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAAATG-G
*
11467694 ATTTTAAAGTTGTTGAGCCGCTGCTAAGAGGAGCTTTTTTCAAGATGATTTTTAAAGTTGTTGAG
193 ATTTTAAAGTTGTTGAGCCACTGCTAAGAGGAGCTTTTTTCAAGATGATTTTTAAAGTTGTTGAG
*
11467759 CCTCTATTGAGAGGAGCTTTTTAAGATGAGATTTTTAAAGTCGGTGAGCTTTTACTAAGAGAAGC
258 CCTCTATTGAGAGGAGCTTTTTAAGATGAGATTTTTAAAGTCGTTGAGCTTTTACTAAGAGAAGC
11467824 CTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTCTACTAAGATTAGCCCTTTTCAAGATGA
323 CTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTCTACTAAGA-TAGCCCTTTTCAAGATGA
11467889 AATTTTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAAATGA
387 AATTTTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAAATGA
*
11467937 GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACCCTTTTCAAGATGAGATTTTTAAAATTGTT
1 GATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAACCCTTTTCAAGATGAGATTTTTAAAATTGTT
* * * * * *
11468002 GAGCTTCTATTGAGATTAATTTTTTCAAGAGAATTTTAAAGTTGTTAAGCCTCTACTGAAAAAAA
66 GAGCCTCTACTGAGATGAACTTTTTCAAGAGAATTTTAAAGTTGTTAAGCCTCTACTGAAAGAAG
* *
11468067 CTTTTTTTCAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAATATGGAT
131 C-TTTTTTCAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGAT
* * *** * * *
11468132 TTTAAAGTTGTTGAACCTCCATTGAGATGAGCTTTTTT-AAGA-GAATTTTTAAAGTTGTTGAAC
195 TTTAAAGTTGTTGAGCCACTGCTAAGAGGAGCTTTTTTCAAGATG-ATTTTTAAAGTTGTTGAGC
* * * * * * * * * *
11468195 CTCTGTTGAGATGAGCCATTTTCAAGATGAGATTTTTAAAATTGTTGAGCCTCTGCTGAGAGGAG
259 CTCTATTGAGAGGAG-C-TTTTTAAGATGAGATTTTTAAAGTCGTTGAGCTTTTACTAAGAGAAG
* * * * * *
11468260 CCCTTTTCCAAG-TGA-AATTTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGAT
322 -CCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTCTACTAAG-ATAGCCCTTTTCAAGAT
* * * * * * *
11468323 GAGATTTTTAAAGTTATTGAGCCTCTGCTGAGATAAACTCTTTTCAAGATAA
385 GAAATTTTTAAAGTTGTTGAGCCTATACTGAGATGAGCT-TTTTCAA-ATGA
* * **
11468375 GATTTTTAAAGTCGTTGAGCCTCTACTGAGAGGAACTTTTTTCAAGATGAGAATTTTTAAAATTG
1 GA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGAAACCCTTTTCAAGATGAG-ATTTTTAAAATTG
* * *
11468440 TTGAGCCTCTGCTGAGATGAGCTTTTT-AAGATGAGATTTTTAAAGTTGTTGAGCCTCTA
64 TTGAGCCTCTACTGAGATGAACTTTTTCAAGA-GA-A-TTTTAAAGTTGTTAAGCCTCTA
11468499 TTAGGATTAG
Statistics
Matches: 891, Mismatches: 89, Indels: 35
0.88 0.09 0.03
Matches are distributed among these distances:
434 1 0.00
435 35 0.04
436 140 0.16
437 293 0.33
438 316 0.35
439 48 0.05
440 36 0.04
441 1 0.00
442 21 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (434 bp):
GATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAACCCTTTTCAAGATGAGATTTTTAAAATTGTT
GAGCCTCTACTGAGATGAACTTTTTCAAGAGAATTTTAAAGTTGTTAAGCCTCTACTGAAAGAAG
CTTTTTTCAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGATT
TTAAAGTTGTTGAGCCACTGCTAAGAGGAGCTTTTTTCAAGATGATTTTTAAAGTTGTTGAGCCT
CTATTGAGAGGAGCTTTTTAAGATGAGATTTTTAAAGTCGTTGAGCTTTTACTAAGAGAAGCCTT
TTTCAAGATGAGAATTTTTAAAGTTGTTGAGTCTCTACTAAGATAGCCCTTTTCAAGATGAAATT
TTTAAAGTTGTTGAGCCTATACTGAGATGAGCTTTTTCAAATGA
Found at i:11468606 original size:50 final size:50
Alignment explanation
Indices: 11467064--11468615 Score: 1431
Period size: 50 Copynumber: 31.8 Consensus size: 50
11467054 ATGAGATTGA
* *
11467064 TTTTAAAGTTGATGAGCCTCTACTGAGATGAGC-TTTTTCAAGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * * * * *
11467113 TTTTAAAGTTGTTAAGCCTCTGCTAAGAGGAGC-TTTTCCAAGAT-AAAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * *
11467161 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAG-TTTTTTCAAGATGAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* *
11467209 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGATG-GAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAG-AT
* * * * * * *
11467258 TTTTAAAGGTATTGAGCCACTGCTAAGAGGAACTTTTTTCAAGAT-A-AT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* *
11467306 TTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGC-TTTTT-AAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * * *
11467354 TTTTAAAGTCGTTGAGCTTTTACTAAGA-GAAGCCTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AGCTTTTTTCAAGATGAG-AT
* * * ** *
11467405 TTTTAAAGTTGTTGAGTCTTTACTAAGAT-AGCGCTTTTCAAGATGAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
*
11467454 TTTTAAAGTTGTTGAGCCTATACTGAGATGAGC-TTTTTCAA-ATGAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
** * **
11467501 TTTTAAAGTTGTTGAGCCTCTGTTGAGA-GAAACCCTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AGCTTTTTTCAAGATGAGAT
* * * *
11467551 TTTTAAAGTTGTTGAGCTTCTATTGAGATAAAC-TTTTTCAAGA-GA-A-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * *
11467597 TTTTAAAGTTGTTAAGCCTCTACTGA-AAGAAGCCTTTTTTC-AGATGA-AA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AG-CTTTTTTCAAGATGAGAT
* * * ** *
11467646 TTTTAAAGTTGTTGAGCCTCTGCTAAGAAGAGCCCTTTTCAAAATGAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * *
11467695 TTTTAAAGTTGTTGAGCCGCTGCTAAGAGGAGCTTTTTTCAAGAT--GAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* *
11467743 TTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGC-TTTTT-AAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * * * *
11467791 TTTTAAAGTCGGTGAGCTTTTACTAAGA-GAAGCCTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AGCTTTTTTCAAGATGAG-AT
* * * ** *
11467842 TTTTAAAGTTGTTGAGTCTCTACTAAGATTAGCCCTTTTCAAGATGAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
*
11467892 TTTTAAAGTTGTTGAGCCTATACTGAGATGAGC-TTTTTCAA-ATGAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * **
11467939 TTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAACCCTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATG-AGCTTTTTTCAAGATGAGAT
* * * * *
11467989 TTTTAAAATTGTTGAGCTTCTATTGAGATTA-ATTTTTTCAAGA-GA-A-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * ** * * *
11468035 TTTTAAAGTTGTTAAGCCTCTACTGAAAAAAACTTTTTTTC-AGAT-AAAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTTTCAAGATGAGAT
* * *
11468084 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAATATG-GA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * *
11468131 TTTTAAAGTTGTTGAACCTCCATTGAGATGAGCTTTTTT-AAGA-GA-AT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* ** **
11468178 TTTTAAAGTTGTTGAACCTCTGTTGAGATGAGCCATTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * * * *
11468228 TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAG-TGAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAG-CTTTTTTCAAGATGAGAT
* * * **
11468278 TTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCCCTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * * * * *
11468328 TTTTAAAGTTATTGAGCCTCTGCTGAGATAAACTCTTTTCAAGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * *
11468378 TTTTAAAGTCGTTGAGCCTCTACTGAGAGGAACTTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAG-AT
* *
11468429 TTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC-TTTTT-AAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * **
11468477 TTTTAAAGTTGTTGAGCCTCTA-TTAGGATTAGCCCTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGA-GATGAGCTTTTTTCAAGATGAGAT
* * * * * *
11468527 TTTTAAAGTTGTTAAACGTCTACTGAGATGAGCTTTTTTCAGGATAAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
* * *
11468577 TTTTAAAGTTATTGAGCCTTTACTGAGATGAGTTTTTTT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTT
11468616 TTCATATTTT
Statistics
Matches: 1259, Mismatches: 183, Indels: 121
0.81 0.12 0.08
Matches are distributed among these distances:
45 1 0.00
46 62 0.05
47 155 0.12
48 290 0.23
49 270 0.21
50 372 0.30
51 109 0.09
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
Found at i:11469625 original size:115 final size:115
Alignment explanation
Indices: 11469492--11469820 Score: 439
Period size: 115 Copynumber: 2.9 Consensus size: 115
11469482 TTTTATGTAG
* * *
11469492 GAAAAATTGATACTTTCAACTTTTTC-CCAAAACATTTTTTAAAAATTTTAATTTCGAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTTCTCCAAAA-ATTTTTTAGAAAGTTTATTTTCGAGGAAAAT
* * *
11469556 TGATACTTTCAATTTTTCCTCAAAAATCTATTTTT-GAAAACTTATTTTTAA
65 TGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAGAAAACTTATTTTCAA
* * * *
11469607 GGAAAATTTATACTTTCAAC-TTTTCTCCAAAAATATTTTTAGAAAGTTTATTTTCAAGGAAAAG
1 GAAAAATTGATACTTTCAACTTTTTCTCCAAAAAT-TTTTTAGAAAGTTTATTTTCGAGGAAAAT
* * *
11469671 TGATACTTTCAACTGTTCCTTAAAAATATTTTTTAGAAAGCTTATTTTCAA
65 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
** * * *
11469722 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAGCTTATTTTAGAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTTCTCCAAAA-ATTTTTTAGAAAGTTTATTTTCGAGGAAAAT
11469787 TGATACTTTCAACTTTTCCTCAAAAATATTTTTT
65 TGATACTTTCAACTTTTCCTCAAAAATATTTTTT
11469821 TTGAATTTTA
Statistics
Matches: 185, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
114 12 0.06
115 105 0.57
116 66 0.36
117 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTTCTCCAAAAATTTTTTAGAAAGTTTATTTTCGAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:11469832 original size:58 final size:57
Alignment explanation
Indices: 11469492--11469820 Score: 380
Period size: 58 Copynumber: 5.7 Consensus size: 57
11469482 TTTTATGTAG
* * ** **
11469492 GAAAAATTGATACTTTCAACTTTTTCC-C-AAAACATTTTTTAAAAATTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAGCTT-ATTTTAA
* * * *
11469549 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATCTATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAGAAAGCTTA-TTTTAA
* * *
11469607 GGAAAATTTATACTTTCAACTTTT-CTCCAAAAATA-TTTTTAGAAAGTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTAGAAAGCTTATTTT-AA
* * * *
11469664 GGAAAAGTGATACTTTCAACTGTTCCTTAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT-AA
* *
11469722 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAGCTTATTTTAGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTA-A
11469780 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
11469821 TTGAATTTTA
Statistics
Matches: 237, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
56 15 0.06
57 60 0.25
58 157 0.66
59 5 0.02
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTAA
Found at i:11469848 original size:5 final size:5
Alignment explanation
Indices: 11469838--11469906 Score: 72
Period size: 5 Copynumber: 13.6 Consensus size: 5
11469828 TTATTGAAAG
*
11469838 AAAAT AAAAT AAAAT --AAT AAAAT AAAAT AAAAT AAAAAT AAAGA- AAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT
11469887 AAAAT AAAAAT AAAAAT AAA
1 AAAAT -AAAAT -AAAAT AAA
11469907 TGAATATTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.05
5 36 0.64
6 17 0.30
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:11469861 original size:18 final size:18
Alignment explanation
Indices: 11469838--11469872 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11469828 TTATTGAAAG
11469838 AAAATAAAATAAAATAAT
1 AAAATAAAATAAAATAAT
11469856 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
11469873 AAATAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATAAAATAAAATAAT
Found at i:11469877 original size:6 final size:6
Alignment explanation
Indices: 11469838--11469906 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
11469828 TTATTGAAAG
*
11469838 AAAAT- AAAAT- AAAATA ATAAA-A TAAAAT- AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AA-AATA
11469885 GTAAAATA AAAATA AAAATA AA
1 --AAAATA AAAATA AAAATA AA
11469907 TGAATATTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
5 15 0.28
6 27 0.50
7 7 0.13
8 3 0.06
9 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:11470099 original size:44 final size:44
Alignment explanation
Indices: 11470011--11470115 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
11470001 AAAGAAGAAA
* * * *
11470011 AACGGCTTGAAGACGCGACTCGGAGTTGTCGGCTCGGCTCGGCT
1 AACGGCTCGAAGACGCGACTCGGAGGTGTCAGCTCAGCTCGGCT
* * *
11470055 AACGGCTCGGAGACGCGACTCAGG-GGTGTCAGCTTAGCTGGGCT
1 AACGGCTCGAAGACGCGACTC-GGAGGTGTCAGCTCAGCTCGGCT
* *
11470099 AACGGCTCAAAAACGCG
1 AACGGCTCGAAGACGCG
11470116 GGTCGCGCGC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 48 0.96
45 2 0.04
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (44 bp):
AACGGCTCGAAGACGCGACTCGGAGGTGTCAGCTCAGCTCGGCT
Found at i:11470496 original size:31 final size:31
Alignment explanation
Indices: 11470441--11470514 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
11470431 GGGAATCTGG
*
11470441 TCGAAAAATTCAAACTTAGCCGAAATAGTCA
1 TCGAAAAATTCAAACTTAGCCGAAAAAGTCA
* * *
11470472 TCGAAAAATTCAAACTTCGTCGAAAAATTCA
1 TCGAAAAATTCAAACTTAGCCGAAAAAGTCA
* *
11470503 ACAAAAAATTCA
1 TCGAAAAATTCA
11470515 CCAAAAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (31 bp):
TCGAAAAATTCAAACTTAGCCGAAAAAGTCA
Found at i:11470860 original size:17 final size:16
Alignment explanation
Indices: 11470824--11470885 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 16
11470814 TAAATATATT
*
11470824 AATAGAT-AACAAAAA
1 AATAGATAAATAAAAA
11470839 AATAGATAAATAAAAGA
1 AATAGATAAATAAAA-A
*
11470856 AATAGATAAATAATAAT
1 AATAGATAAATAA-AAA
11470873 AATA-ATAAATAAA
1 AATAGATAAATAAA
11470886 GTAGATAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.19
16 14 0.33
17 18 0.43
18 2 0.05
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (16 bp):
AATAGATAAATAAAAA
Found at i:11470868 original size:4 final size:4
Alignment explanation
Indices: 11470803--11470969 Score: 55
Period size: 4 Copynumber: 41.8 Consensus size: 4
11470793 AAATTAATCA
* * * *
11470803 AAAT AAA- AAGAT AAAT ATAT TAAT AGAT AACA- AAA- AAAT AGAT AAAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
* * *
11470850 AAAAG AAAT AGAT AAAT -AAT -AAT -AAT -AAT AAAT AAAGT AGAT AAAT
1 -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT
* * * *
11470896 AATAT AAAT ATTAAT AGAT AAAA AAAT AAA- AAAC AAA- AATAT ATAT
1 AA-AT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT
* * * *
11470942 TAAT AAAT AGAC AAAT AATAA AAAT AAA
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAA
11470970 AATAAAAGCC
Statistics
Matches: 121, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
3 23 0.19
4 77 0.64
5 17 0.14
6 4 0.03
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:11470905 original size:46 final size:48
Alignment explanation
Indices: 11470802--11470905 Score: 133
Period size: 46 Copynumber: 2.2 Consensus size: 48
11470792 AAAATTAATC
*
11470802 AAAATAAAAAGATAAATATATTAATAGATAACAAAAAAATAGATAAAT
1 AAAATAAATAGATAAATATATTAATAGATAACAAAAAAATAGATAAAT
* * *
11470850 AAAAGAAATAGATAAATA-A-TAATA-ATAATAAATAAAGTAGATAAAT
1 AAAATAAATAGATAAATATATTAATAGATAACAAA-AAAATAGATAAAT
*
11470896 AATATAAATA
1 AAAATAAATA
11470906 TTAATAGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 7 0.14
46 25 0.51
47 1 0.02
48 16 0.33
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (48 bp):
AAAATAAATAGATAAATATATTAATAGATAACAAAAAAATAGATAAAT
Found at i:11470942 original size:35 final size:37
Alignment explanation
Indices: 11470903--11470973 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
11470893 AATAATATAA
*
11470903 ATATTAATAGATA-A-AAA-AATAAAAAACAAAAATAT
1 ATATTAATAAATAGACAAATAAT-AAAAACAAAAATAT
*
11470938 ATATTAATAAATAGACAAATAATAAAAATAAAAATA
1 ATATTAATAAATAGACAAATAATAAAAACAAAAATA
11470974 AAAGCCCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 12 0.39
36 1 0.03
37 15 0.48
38 3 0.10
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (37 bp):
ATATTAATAAATAGACAAATAATAAAAACAAAAATAT
Found at i:11472133 original size:11 final size:11
Alignment explanation
Indices: 11472117--11472156 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
11472107 AAACGAACTT
11472117 TAAAAATAAAA
1 TAAAAATAAAA
*
11472128 TAAAAATAAAT
1 TAAAAATAAAA
*
11472139 TAATAAAAAAAA
1 TAA-AAATAAAA
11472151 TAAAAA
1 TAAAAA
11472157 AATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:11475839 original size:24 final size:24
Alignment explanation
Indices: 11475812--11475862 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11475802 TTTGCTAAAA
*
11475812 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATCATTTTTATAT
* *
11475836 TTTTTATTTATATCATTTTTATAT
1 TTTTAAATTATATCATTTTTATAT
11475860 TTT
1 TTT
11475863 GTTACGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTAAATTATATCATTTTTATAT
Found at i:11475842 original size:15 final size:16
Alignment explanation
Indices: 11475824--11475862 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
11475814 TTAAATTATA
11475824 TTATTTTTAT-ATTTT
1 TTATTTTTATCATTTT
*
11475839 TTATTTATATCATTTT
1 TTATTTTTATCATTTT
11475855 TATATTTT
1 T-TATTTT
11475863 GTTACGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTATCATTTT
Found at i:11476514 original size:13 final size:13
Alignment explanation
Indices: 11476496--11476521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11476486 TTTATGTCGC
11476496 TTCATATAATTTT
1 TTCATATAATTTT
11476509 TTCATATAATTTT
1 TTCATATAATTTT
11476522 CATATTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCATATAATTTT
Found at i:11480527 original size:25 final size:25
Alignment explanation
Indices: 11480494--11480541 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11480484 AAAATAAAAA
*
11480494 TTATTATAATTATGATTGAAAAATT
1 TTATTATAATTATGATTAAAAAATT
*
11480519 TTATTATAATTATGTTTAAAAAA
1 TTATTATAATTATGATTAAAAAA
11480542 ATAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
TTATTATAATTATGATTAAAAAATT
Done.