Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 89
Found at i:10648083 original size:30 final size:30
Alignment explanation
Indices: 10648049--10648143 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 30
10648039 ATTCTTTGTG
10648049 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* * *
10648079 AGCTGTTTGTCT-TCCAAAATGCTCCACTA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
* * * * *
10648108 AGATGTATGTGTCTTCCAAATGCTTCATCA
1 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
10648138 AGCTGT
1 AGCTGT
10648144 CCCAACATGT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 24 0.46
30 28 0.54
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (30 bp):
AGCTGTTTGTGTCTCCCAAATGCTCCACCA
Found at i:10648124 original size:31 final size:29
Alignment explanation
Indices: 10648055--10648131 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
10648045 TGTGAGCTGT
* *
10648055 TTGTGTCTCCCAAATGCTCCACCAAGCTG
1 TTGTGTCTTCCAAATGCTCCACCAAGATG
*
10648084 TT-TGTCTTCCAAAATGCTCCACTAAGATG
1 TTGTGTCTTCC-AAATGCTCCACCAAGATG
10648113 TATGTGTCTTCCAAATGCT
1 T-TGTGTCTTCCAAATGCT
10648132 TCATCAAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 7 0.17
29 19 0.45
30 8 0.19
31 8 0.19
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (29 bp):
TTGTGTCTTCCAAATGCTCCACCAAGATG
Found at i:10650447 original size:20 final size:19
Alignment explanation
Indices: 10650414--10650453 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10650404 ACTCCAAAGC
10650414 ATATTATTTTATTG-TAAA
1 ATATTATTTTATTGATAAA
10650432 ATATTAATTATTATTGATAAA
1 ATATT-ATT-TTATTGATAAA
10650453 A
1 A
10650454 ACATGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 6 0.32
21 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATTATTTTATTGATAAA
Found at i:10653440 original size:21 final size:21
Alignment explanation
Indices: 10653416--10653467 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
10653406 AAAACTATGT
10653416 CAATGGACCTATCTATTAATG
1 CAATGGACCTATCTATTAATG
*
10653437 CAATGGACCTATTTATTAATG
1 CAATGGACCTATCTATTAATG
*
10653458 TAATGGACCT
1 CAATGGACCT
10653468 CTATTTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
CAATGGACCTATCTATTAATG
Found at i:10655233 original size:22 final size:20
Alignment explanation
Indices: 10655198--10655241 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
10655188 TTGTTTATCT
10655198 TTTCTTTTACTCTTTATCTTTC
1 TTTCTTTTACTCTTT-T-TTTC
**
10655220 TTTCTTTTTTTCTTTTTTTC
1 TTTCTTTTACTCTTTTTTTC
10655240 TT
1 TT
10655242 CTTCATCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTACTCTTTTTTTC
Found at i:10657125 original size:25 final size:24
Alignment explanation
Indices: 10657097--10657148 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
10657087 TTACCCTTCT
10657097 CAAGGCTGCTCTCGAACCCATAACA
1 CAAGGCTGC-CTCGAACCCATAACA
*
10657122 CAA-GCTTCCTCGAACCCATAACA
1 CAAGGCTGCCTCGAACCCATAACA
10657145 CAAG
1 CAAG
10657149 CTTTATACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 18 0.72
24 4 0.16
25 3 0.12
ACGTcount: A:0.35, C:0.37, G:0.13, T:0.15
Consensus pattern (24 bp):
CAAGGCTGCCTCGAACCCATAACA
Found at i:10657133 original size:23 final size:23
Alignment explanation
Indices: 10657107--10657151 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10657097 CAAGGCTGCT
10657107 CTCGAACCCATAACACAAGCTTC
1 CTCGAACCCATAACACAAGCTTC
10657130 CTCGAACCCATAACACAAGCTT
1 CTCGAACCCATAACACAAGCTT
10657152 TATACTCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.38, G:0.09, T:0.18
Consensus pattern (23 bp):
CTCGAACCCATAACACAAGCTTC
Found at i:10665409 original size:14 final size:14
Alignment explanation
Indices: 10665390--10665424 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
10665380 CTTTGTAATT
10665390 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
*
10665404 TTCTTTTTTTTTTC
1 TTCTTTTTCTTTTC
10665418 TTCTTTT
1 TTCTTTT
10665425 GAGTGCTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:10675542 original size:78 final size:77
Alignment explanation
Indices: 10675452--10675597 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 77
10675442 ATAAACAATA
*
10675452 AAAGAATGTAATT-TTGATTAC-AACTCTTTTAATGGATATATAATTCGGAA-TAATTAAATAAG
1 AAAGAATGTAATTCAT-ATT-CTAACTC-TTTAATGGATATATAATT-GGAATTAATTAAATAAG
*
10675514 AGTTTAAATAAATGTT
62 AATTTAAATAAATGTT
* * * *
10675530 AAAGAGTGTAATTCATATTCTAAGTCTTTAATGGATATTTAATTTGAATTAATTAAATAAGAATT
1 AAAGAATGTAATTCATATTCTAACTCTTTAATGGATATATAATTGGAATTAATTAAATAAGAATT
10675595 TAA
66 TAA
10675598 TTAATTCGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
76 3 0.05
77 36 0.61
78 19 0.32
79 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (77 bp):
AAAGAATGTAATTCATATTCTAACTCTTTAATGGATATATAATTGGAATTAATTAAATAAGAATT
TAAATAAATGTT
Found at i:10682181 original size:29 final size:29
Alignment explanation
Indices: 10682136--10682191 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10682126 AGTCCATTAT
*
10682136 TCTTTTACTCAACAGTGTTTAATCGTTCA
1 TCTTTTACTCAACAGTGCTTAATCGTTCA
*
10682165 TCTTTTACTCAATAGTGCTTAATCGTT
1 TCTTTTACTCAACAGTGCTTAATCGTT
10682192 TAACTAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGCTTAATCGTTCA
Found at i:10682631 original size:47 final size:46
Alignment explanation
Indices: 10682580--10682708 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
10682570 TACTCGATAA
* * *
10682580 TTTTATTTATACCATCATTTCATGTCTTAATGCATTCTTTCATACAT
1 TTTTAGTTATA-CATCATTTCATGCCTTAATGCATCCTTTCATACAT
* * *
10682627 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCAT
1 TTTTAGTTAT-ACATCATTTCATGCCTTAATGCATCCTTTCATACAT
* *
10682674 TTTTAGTTATGACATCTTTTCATGCCAATAATGCA
1 TTTTAGTTAT-ACATCATTTCATGCC-TTAATGCA
10682709 CCCATATACA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
47 64 0.90
48 7 0.10
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (46 bp):
TTTTAGTTATACATCATTTCATGCCTTAATGCATCCTTTCATACAT
Found at i:10682646 original size:27 final size:27
Alignment explanation
Indices: 10682611--10682698 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
10682601 ATGTCTTAAT
* *
10682611 GCATTCTTTCATACATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTAGTTATG
*
10682638 GCATCCTTTCATGC---CTTA---AT-
1 GCATCCTTTCATGCATTTTTAGTTATG
10682658 GCATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTAGTTATG
* *
10682685 ACATCTTTTCATGC
1 GCATCCTTTCATGC
10682699 CAATAATGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
20 14 0.29
21 2 0.04
23 3 0.06
24 3 0.06
26 2 0.04
27 24 0.50
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTTAGTTATG
Found at i:10682826 original size:34 final size:34
Alignment explanation
Indices: 10682775--10682968 Score: 129
Period size: 34 Copynumber: 5.1 Consensus size: 34
10682765 ACATTATTTC
10682775 ATGCCAATAATACACCCATATGCATTATTCTTTT
1 ATGCCAATAATACACCCATATGCATTATTCTTTT
*
10682809 ATGCTAATAATGA-ACCCATATGCATTTCAACTATGGCATCCTTT
1 ATGCCAATAAT-ACACCCATATGCA-TT--A-T-T--C-T--TTT
10682853 CATGCCAATAATACACCCATATGCATTATTCTTTT
1 -ATGCCAATAATACACCCATATGCATTATTCTTTT
* * *
10682888 ATGCTAATAATGCACCCAAATGCATTTCAGCTATGGCATCCTTTT
1 ATGCCAATAATACACCCATATGCA--T----TAT----T-CTTTT
*
10682933 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATACACCCATATGCATTATTCTTTT
10682967 AT
1 AT
10682969 TCATTCGTTC
Statistics
Matches: 129, Mismatches: 7, Indels: 48
0.70 0.04 0.26
Matches are distributed among these distances:
34 49 0.38
35 7 0.05
36 1 0.01
37 2 0.02
38 2 0.02
39 4 0.03
40 4 0.03
41 2 0.02
42 2 0.02
43 1 0.01
44 7 0.05
45 48 0.37
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (34 bp):
ATGCCAATAATACACCCATATGCATTATTCTTTT
Found at i:10682854 original size:79 final size:79
Alignment explanation
Indices: 10682681--10682968 Score: 434
Period size: 79 Copynumber: 3.6 Consensus size: 79
10682671 CATTTTTAGT
* * * *
10682681 TATGACATCTTTTCATGCCAATAATGCACCCATATACATTATTATTTTTATGCTAATAAT-ACAC
1 TATGACATCCTTTCATGCCAATAATACACCCATATGCATTATT-CTTTTATGCTAATAATGA-AC
10682745 CCATATGCATTTCAGC
64 CCATATGCATTTCAGC
**
10682761 TATGACATTATTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCTAATAATGAACCC
1 TATGACATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCTAATAATGAACCC
*
10682826 ATATGCATTTCAAC
66 ATATGCATTTCAGC
* *
10682840 TATGGCATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCTAATAATGCACCC
1 TATGACATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCTAATAATGAACCC
*
10682905 AAATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
10682919 TATGGCATCCTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTAT
1 TATGACATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTAT
10682969 TCATTCGTTC
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
79 153 0.79
80 40 0.21
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (79 bp):
TATGACATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCTAATAATGAACCC
ATATGCATTTCAGC
Found at i:10689493 original size:68 final size:68
Alignment explanation
Indices: 10689400--10689726 Score: 424
Period size: 68 Copynumber: 4.8 Consensus size: 68
10689390 GACATTTAAT
* * * * *
10689400 CTTTCATCTAACTGGCATGATTGACAGCTTTCTGTAAAATGCATAATTAGGCCTCAAAGGCACTT
1 CTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
10689465 AGC
66 AGC
* * * *
10689468 CTTTCATCTAATTGGCATAATTGACATC-TTCTGTCAAATGCACACAGCTAGGCCTCAAAGGCAC
1 CTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACA-A-TTAGGCCTCAAAGGCAC
10689532 TTAGC
64 TTAGC
* * * *
10689537 CTTTCATATAACTCGCATAATTGACACCTCTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTT
1 CTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
10689602 AGC
66 AGC
* * * *
10689605 CTTTCATATAACTGGCATAATTGACACTTTTCTATCAAATGCACAGTTAGGCCTCAAAGACACTT
1 CTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
10689670 AGC
66 AGC
* * * *
10689673 CTTTCAT-TGAACTGGCATAATTTACACCTTTCAGTCAAATGCACAGTGAGGCCT
1 CTTTCATAT-AACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCT
10689727 TAAATCTTAT
Statistics
Matches: 232, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
67 15 0.06
68 158 0.68
69 45 0.19
70 14 0.06
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
CTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTT
AGC
Found at i:10689630 original size:137 final size:135
Alignment explanation
Indices: 10689384--10689726 Score: 447
Period size: 137 Copynumber: 2.5 Consensus size: 135
10689374 TAGTCCTTTA
* ** * * * * * *
10689384 CTCAAAGACATTTAATCTTTCATCTAACTGGCATGATTGACAGCTTTCTGTAAAATGCATAATTA
1 CTCAAAGACACTTAGCCTTTCAT-TAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTA
* * *
10689449 GGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACA-TCTTCTGTCAAATGCACAC
65 GGCCTCAAAGGCACTTAGCCTTTCATATAACTGGCATAATTGACACTCTTCTATCAAATG--CAC
10689513 AGCTAGGC
128 AGCTAGGC
* * *
10689521 CTCAAAGGCACTTAGCCTTTCATATAACTCGCATAATTGACACCTCTCTATCAAATGCACAGTTA
1 CTCAAAGACACTTAGCCTTTCAT-TAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTA
*
10689586 GGCCTCAAAGGCACTTAGCCTTTCATATAACTGGCATAATTGACACTTTTCTATCAAATGCACAG
65 GGCCTCAAAGGCACTTAGCCTTTCATATAACTGGCATAATTGACACTCTTCTATCAAATGCACAG
*
10689651 TTAGGC
130 CTAGGC
* *
10689657 CTCAAAGACACTTAGCCTTTCATTGAACTGGCATAATTTACACCTTTC-AGTCAAATGCACAGTG
1 CTCAAAGACACTTAGCCTTTCATT-AACTGGCATAATTGACACCTTTCTA-TCAAATGCACAGTT
10689721 AGGCCT
64 AGGCCT
10689727 TAAATCTTAT
Statistics
Matches: 180, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
135 2 0.01
136 71 0.39
137 95 0.53
138 12 0.07
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (135 bp):
CTCAAAGACACTTAGCCTTTCATTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAG
GCCTCAAAGGCACTTAGCCTTTCATATAACTGGCATAATTGACACTCTTCTATCAAATGCACAGC
TAGGC
Found at i:10690078 original size:59 final size:59
Alignment explanation
Indices: 10690001--10690525 Score: 748
Period size: 59 Copynumber: 8.9 Consensus size: 59
10689991 ACTCATATTT
* * * * *
10690001 CCTATATGGAAATTCATACATTTAGTATGAATCTCTTATCATTTTAGCACAC-AAGGTGT
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGC
* * * *
10690060 TCAATACGGATATTCATACACTTAGTATGAATTTCCTAACATTTTAGCACACGAAGTGCC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTG-C
* * *
10690120 CCGATACGGAAATTCATACACTTAGTATGAATTTCTTAACAATTTAGCACATGAAGTGC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
* * * * *
10690179 CCTATACGAAAATTCATACACTTAGTATGAATTGCTTAATATTTTCGTACACGAAGTGC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
* * *
10690238 CCTATACGGAAATTCAGACATTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTAC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
* * * *
10690297 CCTATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTACCAAAAGAAGTGC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
*
10690356 CCTATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
*
10690415 CCTATACAGAAATTCATACACTTCA-TATGAATTTCTTAACATTTTAGCACACGAAGTGC
1 CCTATACGGAAATTCATACACTT-AGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
* * *
10690474 CCTATACGAAAATTTATACACTTAGTATGAATTTCTTAACACTTTAGCACAC
1 CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
10690526 TTAGTTCCAT
Statistics
Matches: 413, Mismatches: 49, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
58 1 0.00
59 357 0.86
60 55 0.13
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (59 bp):
CCTATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGC
Found at i:10694808 original size:68 final size:68
Alignment explanation
Indices: 10694699--10695112 Score: 589
Period size: 68 Copynumber: 6.1 Consensus size: 68
10694689 TAGTCTTTTA
* * * * *
10694699 CTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTAACATCTTTCTGTCAAATGCACAATTC
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTT-
10694764 A-GC
65 AGGC
* *
10694767 CTCAAAGGCACTTAGTCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAATTGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTA
10694832 GGC
66 GGC
* * * * *
10694835 CTCAAAGGCACTTAGCC-TTAATTCTAACTGGCATAATTGACACCTTTGTTTCAAATACACAGTT
1 CTCAAAGGCACTTAGCCTTTCA-TCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTT
10694899 AGGC
65 AGGC
*
10694903 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTA
10694968 GGC
66 GGC
* * * * *
10694971 CTCACAGGAATTTAGCCTTTCATCTAACTGGCATAACTGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTA
10695036 GGC
66 GGC
* * * * *
10695039 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACATTTTTGTCAAATGCATAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTA
10695104 GGC
66 GGC
10695107 CTCAAA
1 CTCAAA
10695113 TCTTTTATTT
Statistics
Matches: 313, Mismatches: 30, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
67 4 0.01
68 306 0.98
69 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTA
GGC
Found at i:10696877 original size:59 final size:59
Alignment explanation
Indices: 10695385--10696850 Score: 2240
Period size: 59 Copynumber: 24.8 Consensus size: 59
10695375 TCACATTTCA
* * * *
10695385 TATATGGAAATTCATACATTTAGTATGAATCTCTTATCATTTTAGCACAC-AAGGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCC
* * * * * *
10695444 AATACGAAAATTCATACACTTAGCATGAATTTCCTAACATTTTAGCACACAAAGTGCCT
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10695503 TATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAATGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * * *
10695562 TATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTAACATACGAAGTACCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * *
10695621 TATACGGAAATTCAAACACTTAGTATGAATTTCTTAACATTTTTGCTCATC-AAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACA-CGAAGTGCCC
* * * *
10695680 TATATGGAAATTCATACACTTACTATGAATTTTTTAACATTTTAGCACACGAAGTGTCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10695739 TATACGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACGGAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10695798 TATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCA
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10695857 TATACGGATATTCTTACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10695916 TATACGGAAATTTATACACTTAGTATGAATTTCTTTACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * * *
10695975 TATAC-GAAGATTTATACACTTTGTATGAATTTCTTAACATTTTAGAACATGAAGTGCCC
1 TATACGGAA-ATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
*
10696034 AATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
** ** *
10696093 TATACATAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACTTGAAGAGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* **
10696152 TATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATAAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
10696211 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10696270 TATACGGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTTCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * *
10696329 TATACAGAAATCCATACACTTAGTAAGAATTTCTTAA-ATTTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACA-TTTTAGCACACGAAGTGCCC
** * *
10696388 TATACAAAAATTCATGCACTTAGTATGAATTTCTTAACATTTTAGCACATGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * *
10696447 TATACGGAAATTCATACACTTAGTATAAAATTTCATAACATTTTAGCACAGGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTAT-GAATTTCTTAACATTTTAGCACACGAAGTGCCC
* *
10696507 TATATGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * *
10696566 TATACAGAAATTCATACATTTAGTATGAATTTCTAAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
* * *
10696625 TATACAGAAATCCA-ACACTTAGTATAAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
**
10696683 TATACAAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
*
10696742 TATACGGAAATTCATACACTTAGTATGAGTTTCTTAACATTTTAGCACACGAAGTGCCC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
*
10696801 TATACGGAAATTCATACACTTAGTATGAATTTCTTAGCATTTTAGCACAC
1 TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
10696851 TTAGTACCAT
Statistics
Matches: 1284, Mismatches: 114, Indels: 18
0.91 0.08 0.01
Matches are distributed among these distances:
58 58 0.05
59 1165 0.91
60 61 0.05
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (59 bp):
TATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCC
Found at i:10697367 original size:94 final size:95
Alignment explanation
Indices: 10697212--10697400 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 95
10697202 TGATACTTTT
* * * *
10697212 ATACTATGGTATCGATACCCCCTTTTGGTATCAATACCCATTTTAGGTTCGATGTTGCCTGGTAT
1 ATACTATGGTACCGATACCCCCTTCTGGTATCAATACCAATTTTAGATTCGATGTTGCCTGGTAT
* **
10697277 CGATTTCCTTACCATGGTATCGATAATACC
66 CAATACCCTTACCATGGTATCGATAATACC
* *
10697307 ATACTATGGTACCGATA-CCCCTTCTGGTATCGATACCAATTTTAGATTCGATGTTTCCTGGTAT
1 ATACTATGGTACCGATACCCCCTTCTGGTATCAATACCAATTTTAGATTCGATGTTGCCTGGTAT
*
10697371 CAATACCCTTACCATGGTATCGATACTACC
66 CAATACCCTTACCATGGTATCGATAATACC
10697401 TCGTTGGTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 68 0.81
95 16 0.19
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (95 bp):
ATACTATGGTACCGATACCCCCTTCTGGTATCAATACCAATTTTAGATTCGATGTTGCCTGGTAT
CAATACCCTTACCATGGTATCGATAATACC
Found at i:10704537 original size:27 final size:27
Alignment explanation
Indices: 10704478--10704564 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
10704468 TATTAACTTA
* *
10704478 AAAAATATTTT-TTGTTAACTTTA-TT
1 AAAAATATTTTATTATTAACTTAATTT
*
10704503 AAATATATTTTATTATTAACTTAATTT
1 AAAAATATTTTATTATTAACTTAATTT
* ** *
10704530 AAAAATATTTTATTTTTATTTTCATTT
1 AAAAATATTTTATTATTAACTTAATTT
10704557 AAAAATAT
1 AAAAATAT
10704565 ATAGTTTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 10 0.19
26 10 0.19
27 32 0.62
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
AAAAATATTTTATTATTAACTTAATTT
Found at i:10704770 original size:31 final size:32
Alignment explanation
Indices: 10704698--10704773 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
10704688 TAACTCGTGA
* *
10704698 TGATCACATCTTAATTAAATAAAAATTAAAAG
1 TGATCATATCTTAATTAAATAAAAATCAAAAG
*
10704730 TGATCATATCTTAATTAAATAAAAA-CGAAAG
1 TGATCATATCTTAATTAAATAAAAATCAAAAG
10704761 TGA-CTATATCTTA
1 TGATC-ATATCTTA
10704774 TGTATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.03
31 15 0.38
32 24 0.60
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (32 bp):
TGATCATATCTTAATTAAATAAAAATCAAAAG
Found at i:10705103 original size:2 final size:2
Alignment explanation
Indices: 10705096--10705123 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10705086 ATATAACATA
10705096 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
10705124 TAATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10705425 original size:20 final size:20
Alignment explanation
Indices: 10705400--10705444 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
10705390 AGCTTTGAGC
10705400 AAGAGTTTCGAAAATTCTAT
1 AAGAGTTTCGAAAATTCTAT
10705420 AAGAGTTTCGAAAATTCTAT
1 AAGAGTTTCGAAAATTCTAT
10705440 AAGAG
1 AAGAG
10705445 ATTCAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
AAGAGTTTCGAAAATTCTAT
Found at i:10706577 original size:24 final size:24
Alignment explanation
Indices: 10706550--10706658 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
10706540 TATATCAAAA
* *
10706550 ATCAAAACATAATTCACGTCAAGT
1 ATCAAAACAGAATCCACGTCAAGT
* * *
10706574 ATCATATCAGAATCCATGTCAAGT
1 ATCAAAACAGAATCCACGTCAAGT
*** *
10706598 ATCATTTCAGAATCCATGTCAAGT
1 ATCAAAACAGAATCCACGTCAAGT
*** *
10706622 ATCATTTCAGAATCCAAGTCAAGT
1 ATCAAAACAGAATCCACGTCAAGT
*
10706646 ATCATAACAGAAT
1 ATCAAAACAGAAT
10706659 TCAAATAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (24 bp):
ATCAAAACAGAATCCACGTCAAGT
Found at i:10706657 original size:48 final size:48
Alignment explanation
Indices: 10706567--10706658 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
10706557 CATAATTCAC
* **
10706567 GTCAAGTATCATATCAGAATCCATGTCAAGTATCATTTCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAAGTCAAGTATCATAACAGAATCCAT
*
10706615 GTCAAGTATCATTTCAGAATCCAAGTCAAGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAATCCAAGTCAAGTATCATAACAGAAT
10706659 TCAAATAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (48 bp):
GTCAAGTATCATATCAGAATCCAAGTCAAGTATCATAACAGAATCCAT
Found at i:10718370 original size:11 final size:11
Alignment explanation
Indices: 10718354--10718397 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
10718344 AAATTAGGAT
10718354 GAATTTGAAAA
1 GAATTTGAAAA
10718365 GAATTTGAAAA
1 GAATTTGAAAA
10718376 GAATTTGAAAA
1 GAATTTGAAAA
10718387 GAATTTGAAAA
1 GAATTTGAAAA
10718398 TAATAGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (11 bp):
GAATTTGAAAA
Found at i:10735880 original size:21 final size:21
Alignment explanation
Indices: 10735856--10735906 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10735846 AACATTAGGA
* *
10735856 AATTTTTAAATAAATTTCTGT
1 AATTATTAAATAAATTTCCGT
*
10735877 AATTATTAAATAATTTTCCGT
1 AATTATTAAATAAATTTCCGT
10735898 AATTATTAA
1 AATTATTAA
10735907 CCCCTTGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (21 bp):
AATTATTAAATAAATTTCCGT
Found at i:10739974 original size:14 final size:14
Alignment explanation
Indices: 10739933--10739976 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
10739923 AACCGGGTCG
10739933 AGCTGAGTCAACTC
1 AGCTGAGTCAACTC
* *
10739947 A-CTAAGTTAACTC
1 AGCTGAGTCAACTC
*
10739960 AGTTGAGTCAACTC
1 AGCTGAGTCAACTC
10739974 AGC
1 AGC
10739977 CAAAGTCAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (14 bp):
AGCTGAGTCAACTC
Found at i:10751986 original size:20 final size:20
Alignment explanation
Indices: 10751961--10751998 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10751951 TTGGCTCAAG
10751961 TATCGAT-ATAGGATGAACAA
1 TATCGATAAT-GGATGAACAA
10751981 TATCGATAATGGATGAAC
1 TATCGATAATGGATGAAC
10751999 TGGATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TATCGATAATGGATGAACAA
Found at i:10753635 original size:30 final size:30
Alignment explanation
Indices: 10753566--10753637 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
10753556 AATGGATTTA
* * **
10753566 TTTAGTGACCAAATTATAAATTTGGTAAAG
1 TTTAGGGACCAAAGTATAAATTTGAAAAAG
10753596 TTT-GGGACCAAAGTATAAACTTT-AAAAAG
1 TTTAGGGACCAAAGTATAAA-TTTGAAAAAG
10753625 TTTAGGGACCAAA
1 TTTAGGGACCAAA
10753638 ATGTTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (30 bp):
TTTAGGGACCAAAGTATAAATTTGAAAAAG
Found at i:10754595 original size:24 final size:24
Alignment explanation
Indices: 10754568--10754616 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10754558 TGCATGACAT
10754568 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
10754592 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
10754616 T
1 T
10754617 TAGAAAGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:10754976 original size:59 final size:59
Alignment explanation
Indices: 10754901--10755028 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
10754891 CAGCATGCTG
* * * ** *
10754901 CATATTCGGGATTATACTAAAGTATAATTAGTGTATATGGT-GAGCACGACCTTATGTGT
1 CATATTCGGGACTATACTAAAGGATAACTAGTACAGATGGTGGAG-ACGACCTTATGTGT
* * *
10754960 CATATTCGGGACTATACTTAAGGATACCTAGTACAGATGGTGGAGATGACCTTATGTGT
1 CATATTCGGGACTATACTAAAGGATAACTAGTACAGATGGTGGAGACGACCTTATGTGT
*
10755019 CATACTCGGG
1 CATATTCGGG
10755029 TTAGCACTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 55 0.95
60 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (59 bp):
CATATTCGGGACTATACTAAAGGATAACTAGTACAGATGGTGGAGACGACCTTATGTGT
Found at i:10764155 original size:27 final size:27
Alignment explanation
Indices: 10764125--10764194 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
10764115 TATGTGCAAG
* *
10764125 TATACATACATATA-AGAGTACATATTA
1 TATATATATATATATAGA-TACATATTA
* *
10764152 TATATATATATATATATATATATATTA
1 TATATATATATATATAGATACATATTA
10764179 TATATATATATATATA
1 TATATATATATATATA
10764195 TAGGCTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (27 bp):
TATATATATATATATAGATACATATTA
Found at i:10764157 original size:2 final size:2
Alignment explanation
Indices: 10764146--10764196 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
10764136 ATAAGAGTAC
10764146 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10764186 AT AT AT AT AT A
1 AT AT AT AT AT A
10764197 GGCTAAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10766373 original size:118 final size:117
Alignment explanation
Indices: 10766165--10766393 Score: 316
Period size: 118 Copynumber: 1.9 Consensus size: 117
10766155 AATATAGACG
* * *
10766165 ATAACATAACCGGTTAATTATCGTTAACATTATCAAGCACAATAACATATTAGGTAACGCTTATA
1 ATAACATAACCGGTTAATTATAGTAAACATTATCAAGCACAATAACAAATTAGGTAACGCTTATA
* **
10766230 TAACGTAATAGGTAGTGCCTTTTTAAAGCTGATGGGGCTTTGGAAATTCTACA
66 TAACATAATAGGTAACGCCTTTTT-AAGCTGATGGGGCTTTGGAAATTCTACA
* * * *
10766283 ATAACATAATCGGTTAATTACTAG-AAACATTATCAAGCATAATGACAAATTAGGTAGCGCTTAT
1 ATAACATAACCGGTTAATTA-TAGTAAACATTATCAAGCACAATAACAAATTAGGTAACGCTTAT
* * *
10766347 ATAATATAATAGGTAACGTCTTTTTAAGTTGATGGGGCTTTGGAAAT
65 ATAACATAATAGGTAACGCCTTTTTAAGCTGATGGGGCTTTGGAAAT
10766394 CCGATGATAA
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
117 21 0.22
118 74 0.76
119 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (117 bp):
ATAACATAACCGGTTAATTATAGTAAACATTATCAAGCACAATAACAAATTAGGTAACGCTTATA
TAACATAATAGGTAACGCCTTTTTAAGCTGATGGGGCTTTGGAAATTCTACA
Found at i:10767684 original size:25 final size:25
Alignment explanation
Indices: 10767656--10767705 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10767646 ACAAGAATCG
10767656 CTGAAGCATGTTCTTGTATGAACCT
1 CTGAAGCATGTTCTTGTATGAACCT
10767681 CTGAAGCATGTTCTTGTATGAACCT
1 CTGAAGCATGTTCTTGTATGAACCT
10767706 TTACTTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (25 bp):
CTGAAGCATGTTCTTGTATGAACCT
Found at i:10770823 original size:46 final size:45
Alignment explanation
Indices: 10770665--10770884 Score: 265
Period size: 46 Copynumber: 5.0 Consensus size: 45
10770655 GTTTATGGTT
* *
10770665 TATTGGTAAAATAATCTTACGAGCTTATAGG-ATTAAATGGTAGGTA
1 TATTGGT-AAATAAGCTTACGAGCTTAT-GGTATTAAATGGTAAGTA
*
10770711 TATTGGTAAATAAGCTTACGAGCTTAT-GTAATAAATGGTAAG--
1 TATTGGTAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTA
* * *
10770753 CA-T-GCAAATAAGCTTACAAGCTTATGGTATTAAATGGTAAGTA
1 TATTGGTAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTA
* * *
10770796 TATTGGTAAACTAACCTTATGAGCTTATGGTATTAAATGGTGAGTA
1 TATTGGTAAA-TAAGCTTACGAGCTTATGGTATTAAATGGTAAGTA
*
10770842 TATTGGTACAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 TATTGGTA-AATAAGCTTACGAGCTTATGGTATTAAATGGTAAG
10770885 AAATTTTATA
Statistics
Matches: 149, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
40 20 0.13
41 15 0.10
42 1 0.01
43 2 0.01
44 12 0.08
45 33 0.22
46 64 0.43
47 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (45 bp):
TATTGGTAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTA
Found at i:10771180 original size:13 final size:13
Alignment explanation
Indices: 10771162--10771186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10771152 AGATAGTGGC
10771162 ATGTACTTATTAA
1 ATGTACTTATTAA
10771175 ATGTACTTATTA
1 ATGTACTTATTA
10771187 TTGTAGCAAT
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:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
ATGTACTTATTAA
Found at i:10774567 original size:66 final size:63
Alignment explanation
Indices: 10774428--10774568 Score: 156
Period size: 66 Copynumber: 2.2 Consensus size: 63
10774418 ACTCCCATCA
* * * * *
10774428 CCCCCGTAAGTTTACCCCTTAATTCCACAACTTCTTCACCACTTCATCAATTTTTCCACCCAT
1 CCCCCTTAAGTTCACCCCTCAATTCAACAACTTCTTCACCACTCCATCAATTTTTCCACCCAT
* ** *
10774491 CACCATCTTAAGTTCACCCCTCAATTCAACTTCTTCTTTCACCACTCCATCTATTTTTCCACCCA
1 C-CC-CCTTAAGTTCACCCCTCAATTCAACAACTTC-TTCACCACTCCATCAATTTTTCCACCCA
10774556 CTT
63 --T
10774559 CCCCCTTAAG
1 CCCCCTTAAG
10774569 CCTCTCAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
63 1 0.02
64 2 0.03
65 24 0.38
66 32 0.51
67 2 0.03
68 2 0.03
ACGTcount: A:0.23, C:0.40, G:0.03, T:0.34
Consensus pattern (63 bp):
CCCCCTTAAGTTCACCCCTCAATTCAACAACTTCTTCACCACTCCATCAATTTTTCCACCCAT
Found at i:10777362 original size:183 final size:182
Alignment explanation
Indices: 10777054--10777645 Score: 860
Period size: 183 Copynumber: 3.2 Consensus size: 182
10777044 GCGCTTTACT
* * * *
10777054 GGTTTTGTCATATTTTTACATGTTATATTATTATGTATTGATATATGTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACCTGATATATTATTATGTATCGATACATGTTTATAAAGTATCGATAC
* * *
10777119 TTTATAGGCGCTATTACTGTTTTTCCTTTAAATTCCAAAAGTATCGATACTTGTTTGAATGGTAT
66 TTTATAGGCGCTATTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGTAT
** *
10777184 TAATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATATTGAAACC
131 CGATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATATT-AAACC
*
10777237 GGTTTTGTCATATTTTTACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
1 GGTTTTGTCATATTTTTACCTGATATATTATTATGTATCGATACATGTTTATAAAGTATCGATAC
* *
10777302 TTTATAGGCCCTATTATTATTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGTAT
66 TTTATAGGCGCTATTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGTAT
* * * *
10777367 CGATACCTTCAACATATCCGATAGCTCTTTACTGATTTTATTATATTAAAACC
131 CGATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATATT-AAACC
* * *
10777420 GGTTTTGTCATATTTTTACCCGATATATTGTTATGTATCGATACATGTTTATAAAATATCGATAC
1 GGTTTTGTCATATTTTTACCTGATATATTATTATGTATCGATACATGTTTATAAAGTATCGATAC
* * * **
10777485 TTTATAGGCGCTATTATTGCTTTTCTTTTATATTCTAAAAGTATTTATACTTATTTGAATGGTAT
66 TTTATAGGCGCTATTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGTAT
* ** * *
10777550 CGATACCTTCAATATATCTAGTAGCGCTTTACCGGTTTTCTCATATTAAACCC
131 CGATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATATTAAA-CC
* * *
10777603 GGTTTTGTCCTATTTCTATCTGATATATTATTATGTATCGATA
1 GGTTTTGTCATATTTTTACCTGATATATTATTATGTATCGATA
10777646 TATATTTGCA
Statistics
Matches: 367, Mismatches: 41, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
182 3 0.01
183 364 0.99
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.45
Consensus pattern (182 bp):
GGTTTTGTCATATTTTTACCTGATATATTATTATGTATCGATACATGTTTATAAAGTATCGATAC
TTTATAGGCGCTATTATTGTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTGAATGGTAT
CGATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATATTAAACC
Found at i:10782650 original size:21 final size:22
Alignment explanation
Indices: 10782625--10782666 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10782615 GAAAATAACA
10782625 AAAACCCGAATATT-GGTAGAG
1 AAAACCCGAATATTGGGTAGAG
*
10782646 AAAACCCGAATCTTGGGTAGA
1 AAAACCCGAATATTGGGTAGA
10782667 AAAGTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (22 bp):
AAAACCCGAATATTGGGTAGAG
Found at i:10786878 original size:22 final size:23
Alignment explanation
Indices: 10786845--10786887 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10786835 GATCTGTACT
10786845 AAAATAATAATATTATTTTCCCG
1 AAAATAATAATATTATTTTCCCG
*
10786868 AAAAT-ATAATATTCTTTTCC
1 AAAATAATAATATTATTTTCC
10786888 TAGTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATAATAATATTATTTTCCCG
Found at i:10787205 original size:18 final size:18
Alignment explanation
Indices: 10787182--10787224 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
10787172 TCTTCTGATA
10787182 ACAATGATGAAATATATT
1 ACAATGATGAAATATATT
10787200 ACAATGATGAAATATATT
1 ACAATGATGAAATATATT
10787218 ACAATGA
1 ACAATGA
10787225 CCTATACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (18 bp):
ACAATGATGAAATATATT
Found at i:10792591 original size:56 final size:56
Alignment explanation
Indices: 10792519--10792672 Score: 254
Period size: 56 Copynumber: 2.7 Consensus size: 56
10792509 AAAGTGGTTA
* * *
10792519 CTAGTTTGACTCAGTGGTTTAATATTTGAATTCTTTTATAGAAATATATTAATTGT
1 CTAGTTTGACTTAGTGGTTTGATATTTGAATTCTTTTATAAAAATATATTAATTGT
10792575 CTAGTTTGACTTAGTGGTTTGATATTTGAATTCTTTTATAAAAATATATTAATTGT
1 CTAGTTTGACTTAGTGGTTTGATATTTGAATTCTTTTATAAAAATATATTAATTGT
* *
10792631 CTAGTTTGAAATTAGTGGTTTGATATTTGAGTTCTTTTATAA
1 CTAGTTTG-ACTTAGTGGTTTGATATTTGAATTCTTTTATAA
10792673 GAATCTAGTT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
56 61 0.66
57 31 0.34
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (56 bp):
CTAGTTTGACTTAGTGGTTTGATATTTGAATTCTTTTATAAAAATATATTAATTGT
Found at i:10793500 original size:27 final size:26
Alignment explanation
Indices: 10793468--10793519 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
10793458 TTTAGAGTTG
*
10793468 GGATTTT-TAGGAATTTAGGGTTTTTTA
1 GGATTTTCTA-GAATTTA-AGTTTTTTA
10793495 GGATTTTCTAGAATTTAAGTTTTTT
1 GGATTTTCTAGAATTTAAGTTTTTT
10793520 GGGGAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 14 0.61
28 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (26 bp):
GGATTTTCTAGAATTTAAGTTTTTTA
Found at i:10798964 original size:31 final size:31
Alignment explanation
Indices: 10798897--10798983 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
10798887 ATTGCACTTT
*
10798897 AAAAGCAAGCAACCCTATAACCATACAATAA
1 AAAAGTAAGCAACCCTATAACCATACAATAA
* * *
10798928 AAAAGTAAGCAATCCTATAACCATTCAATTA
1 AAAAGTAAGCAACCCTATAACCATACAATAA
* * * *
10798959 AAAAGTAGGCAGCCTTACAACCATA
1 AAAAGTAAGCAACCCTATAACCATA
10798984 TGTATTATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.18
Consensus pattern (31 bp):
AAAAGTAAGCAACCCTATAACCATACAATAA
Found at i:10801544 original size:13 final size:13
Alignment explanation
Indices: 10801526--10801557 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10801516 ACAACATTTA
10801526 ATTTTTTATCATT
1 ATTTTTTATCATT
*
10801539 ATTTTTTATTATT
1 ATTTTTTATCATT
10801552 ATTTTT
1 ATTTTT
10801558 CATTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTTTTATCATT
Found at i:10801944 original size:17 final size:17
Alignment explanation
Indices: 10801922--10801960 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
10801912 GAATCTGCTA
*
10801922 AGGACTATAAGAGTGTT
1 AGGACTATAAGAGTCTT
10801939 AGGACTATAAGAGTCTT
1 AGGACTATAAGAGTCTT
10801956 AGGAC
1 AGGAC
10801961 AAAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (17 bp):
AGGACTATAAGAGTCTT
Found at i:10803737 original size:17 final size:17
Alignment explanation
Indices: 10803715--10803767 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10803705 TGAATAAAGT
*
10803715 TAGTTCACTAATCAAAC
1 TAGTTCAATAATCAAAC
* *
10803732 TAGTTCAATCATTAAAC
1 TAGTTCAATAATCAAAC
*
10803749 TAGTGT-ATTAATCAAAC
1 TAGT-TCAATAATCAAAC
10803766 TA
1 TA
10803768 ACTCTTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 28 0.97
18 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (17 bp):
TAGTTCAATAATCAAAC
Found at i:10809944 original size:16 final size:16
Alignment explanation
Indices: 10809923--10810025 Score: 59
Period size: 18 Copynumber: 6.2 Consensus size: 16
10809913 ATATATATAG
10809923 TATATATTATGTATTA
1 TATATATTATGTATTA
* *
10809939 TATATATT-TGAAAATA
1 TATATATTATG-TATTA
* * *
10809955 CATATAGTTTTTGAATTA
1 TATATA--TTATGTATTA
*
10809973 TATATA-TATATATATA
1 TATATATTATGTAT-TA
*
10809989 TATATATATATATATATA
1 TATATAT-TATGTAT-TA
10810007 TATATATTATAGTA-TA
1 TATATATTAT-GTATTA
10810023 TAT
1 TAT
10810026 TATAAAAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.09
16 29 0.41
17 3 0.04
18 30 0.43
19 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (16 bp):
TATATATTATGTATTA
Found at i:10809978 original size:2 final size:2
Alignment explanation
Indices: 10809971--10810092 Score: 100
Period size: 2 Copynumber: 64.5 Consensus size: 2
10809961 GTTTTTGAAT
10809971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
10810013 T- TA TA GTA TA TA T- TA TA -A AA AA TA TA TA TA -A TT TT TGA AA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* *
10810053 AA T- TA TA TA TA TA TA TA T- TA TA T- TA TA TG T- TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10810090 TA T
1 TA T
10810093 TATTACTTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
1 9 0.09
2 92 0.89
3 2 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10815337 original size:14 final size:15
Alignment explanation
Indices: 10815318--10815351 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10815308 TATTTGAATT
10815318 TGATGATGTAAGG-A
1 TGATGATGTAAGGAA
*
10815332 TGATGATGTTAGGAA
1 TGATGATGTAAGGAA
10815347 TGATG
1 TGATG
10815352 TCATGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
TGATGATGTAAGGAA
Found at i:10822964 original size:13 final size:13
Alignment explanation
Indices: 10822946--10822973 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10822936 TTAATGATGC
10822946 ACAAGTAAACTAT
1 ACAAGTAAACTAT
10822959 ACAAGTAAACTAT
1 ACAAGTAAACTAT
10822972 AC
1 AC
10822974 CACCACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (13 bp):
ACAAGTAAACTAT
Found at i:10830392 original size:37 final size:36
Alignment explanation
Indices: 10830365--10830617 Score: 280
Period size: 37 Copynumber: 6.8 Consensus size: 36
10830355 TCAAAAACAC
*
10830365 TTTTTGAAAACGTATAATATATAGGTTTTT---AATA
1 TTTTTGAAAACATATAATATATA-GTTTTTAAAAATA
*
10830399 TTTTTGAAAACATATAATATTTAGTTTTTTAAAAATA
1 TTTTTGAAAACATATAATATATAG-TTTTTAAAAATA
*
10830436 TATTTGAAAACATATAATATATAGTTTTTTAAAAAAATA
1 TTTTTGAAAACATATAATATATAG-TTTTT--AAAAATA
* * *
10830475 TTTCTTGGAAACATATGATATAAAGTTTTTTTTAAAAATA
1 TTT-TTGAAAACATATAATATATAG---TTTTTAAAAATA
10830515 TTTTTGAAAACATATAATATATAGTTTTTAAAAATA
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAATA
**
10830551 TTTTTGAAAA-ATGTATAATATATAGTTTTTTTAAATA
1 TTTTTGAAAACA--TATAATATATAGTTTTTAAAAATA
* * *
10830588 TTTTTGAAAACGTATAGTATATGGTTTTTA
1 TTTTTGAAAACATATAATATATAGTTTTTA
10830618 TAGTCTAATA
Statistics
Matches: 190, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 26 0.14
35 1 0.01
36 37 0.19
37 64 0.34
39 27 0.14
40 28 0.15
42 6 0.03
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAATA
Found at i:10843446 original size:72 final size:73
Alignment explanation
Indices: 10843277--10843572 Score: 418
Period size: 72 Copynumber: 4.1 Consensus size: 73
10843267 TACGGACTCA
**
10843277 ACTTCACGGTGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
1 ACTTCACGACGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
10843342 TCGACTTG
66 TCGACTTG
* *
10843350 ACTTTACGACGAAAGAGTCACCCACGATTTCAACTTCACAATGAAGGATATC-TACCCAAAAGTT
1 ACTTCACGACGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
*
10843414 TTGACTTG
66 TCGACTTG
* * * *
10843422 ACTTCATGACGAAAGAGTCACCCACGATTCCAACTTCACAACAAAGGATACCGTACCCAAAAGTT
1 ACTTCACGACGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
10843487 TCGACTTG
66 TCGACTTG
* * * * * * *
10843495 ACTTCACGACGAAGGAGTCACCCCCG-TTTCAACTTCACAACAAAGTATATCGTGCCCAATAG-A
1 ACTTCACGACGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
*
10843558 TCGACTTA
66 TCGACTTG
10843566 ACTTCAC
1 ACTTCAC
10843573 ATAAAATGAG
Statistics
Matches: 200, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
71 14 0.07
72 96 0.48
73 90 0.45
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (73 bp):
ACTTCACGACGAAAGAGTCACCCACGATTTCAACTTCACAACGAAGGATATCGTACCCAAAAGTT
TCGACTTG
Found at i:10844309 original size:36 final size:36
Alignment explanation
Indices: 10844236--10844531 Score: 302
Period size: 36 Copynumber: 8.1 Consensus size: 36
10844226 CAAACGTTAT
**
10844236 TTTTTG-AAA-GTAT-ATAGTATACGTTTTGAAAACATA
1 TTTTTGAAAACGTATAATA-TATA-GTTTTTTAAA-ATA
10844272 TTTTTGAAAACGTATAATATATAGTTTTTT--AATA
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAATA
* *
10844306 TATTTGAAAACATATAATATATAGTTTTTTTAAAAAATA
1 TTTTTGAAAACGTATAATATATAG-TTTTTT--AAAATA
* * ** *
10844345 TTTCTTGGAAACGTATAATATATTGTTTTTTAATTGTT
1 TTT-TTGAAAACGTATAATATATAGTTTTTTAA-AATA
*
10844383 TTTTTGAAAATGTATAATATATAG-TTTTTAAAATTA
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAA-TA
*
10844419 TTTTTGAAAACGTATAATATATAGTTTTTAAAAATA
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAATA
* *
10844455 ATTTGGAAAACGTATAATATATAGTTTTTTAAAATA
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAATA
* *
10844491 TTTTTGAAAAACGTATAGTATAT--TATTTTAAAATA
1 TTTTTG-AAAACGTATAATATATAGTTTTTTAAAATA
10844526 GTTTTT
1 -TTTTT
10844532 ATAACTTAAA
Statistics
Matches: 220, Mismatches: 26, Indels: 28
0.80 0.09 0.10
Matches are distributed among these distances:
34 25 0.11
35 18 0.08
36 81 0.37
37 51 0.23
38 12 0.05
39 15 0.07
40 18 0.08
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAACGTATAATATATAGTTTTTTAAAATA
Found at i:10844389 original size:111 final size:108
Alignment explanation
Indices: 10844269--10844513 Score: 316
Period size: 109 Copynumber: 2.2 Consensus size: 108
10844259 TTTTGAAAAC
*
10844269 ATATTTTTGAAAACGTATAATATATAGTTTTT-TAA-TATATTTGAAAACATATAATATATAGTT
1 ATATTTTTGAAAACGTATAATATATAGTTTTTAAAATTATATTTGAAAACATATAATATATAG--
* * *
10844332 TTTTTAAAAAATATTTCTTGG-AAACGTATAATATATTGTTTTTTAATT
64 TTTTT-AAAAATA-AT-TTGGAAAACGTATAATATATAGTTTTTTAA-A
* * * * *
10844380 GTTTTTTTGAAAATGTATAATATATAGTTTTTAAAATTATTTTTGAAAACGTATAATATATAGTT
1 ATATTTTTGAAAACGTATAATATATAGTTTTTAAAATTATATTTGAAAACATATAATATATAGTT
10844445 TTTAAAAATAATTTGGAAAACGTATAATATATAGTTTTTTAAA
66 TTTAAAAATAATTTGGAAAACGTATAATATATAGTTTTTTAAA
*
10844488 ATATTTTTGAAAAACGTATAGTATAT
1 ATATTTTTG-AAAACGTATAATATAT
10844514 TATTTTAAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
108 11 0.09
109 39 0.33
110 7 0.06
111 34 0.29
112 2 0.02
113 24 0.21
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (108 bp):
ATATTTTTGAAAACGTATAATATATAGTTTTTAAAATTATATTTGAAAACATATAATATATAGTT
TTTAAAAATAATTTGGAAAACGTATAATATATAGTTTTTTAAA
Found at i:10844440 original size:73 final size:71
Alignment explanation
Indices: 10844236--10844513 Score: 298
Period size: 73 Copynumber: 3.8 Consensus size: 71
10844226 CAAACGTTAT
*
10844236 TTTTTG-AAA-GTAT-ATAGTATACG-TTTTGAAAACATATTTTTGAAAACGTATAATATATAGT
1 TTTTTGAAAACGTATAATA-TATA-GTTTTTTAAAA-ATATTTTTGAAAACGTATAATATATAGT
10844297 TTTTTAATA
63 TTTTTAATA
* * * *
10844306 TATTTGAAAACATATAATATATAGTTTTTTTAAAAAATATTTCTTGGAAACGTATAATATATTGT
1 TTTTTGAAAACGTATAATATATAG-TTTTTT-AAAAATATTT-TTGAAAACGTATAATATATAGT
*
10844371 TTTTTAATTGTT
63 TTTTTAA---TA
* *
10844383 TTTTTGAAAATGTATAATATATAG-TTTTTAAAATTATTTTTGAAAACGTATAATATATAGTTTT
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTTT
*
10844447 TAAAAATA
66 T--TAATA
* * *
10844455 ATTTGGAAAACGTATAATATATAGTTTTTT-AAAATATTTTTGAAAAACGTATAGTATAT
1 TTTTTGAAAACGTATAATATATAGTTTTTTAAAAATATTTTTG-AAAACGTATAATATAT
10844514 TATTTTAAAA
Statistics
Matches: 175, Mismatches: 19, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
70 5 0.03
71 4 0.02
72 40 0.23
73 57 0.33
74 40 0.23
75 7 0.04
77 22 0.13
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.46
Consensus pattern (71 bp):
TTTTTGAAAACGTATAATATATAGTTTTTTAAAAATATTTTTGAAAACGTATAATATATAGTTTT
TTAATA
Found at i:10844930 original size:21 final size:21
Alignment explanation
Indices: 10844897--10844949 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
10844887 GAATCTCAAA
* * * *
10844897 GAAGCATGCAATAACCAAATC
1 GAAGCAAGTAATAACAAAACC
*
10844918 GAAGCAAGTAATAGCAAAACC
1 GAAGCAAGTAATAACAAAACC
10844939 GAGAGCAAGTA
1 GA-AGCAAGTA
10844950 GCCCCATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.11
Consensus pattern (21 bp):
GAAGCAAGTAATAACAAAACC
Found at i:10857859 original size:16 final size:17
Alignment explanation
Indices: 10857830--10857863 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10857820 AATAAGTCAA
10857830 TTTTATATGTATAAATT
1 TTTTATATGTATAAATT
10857847 TTTTATATG-ATAAATT
1 TTTTATATGTATAAATT
10857863 T
1 T
10857864 CATATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATATGTATAAATT
Found at i:10858108 original size:4 final size:4
Alignment explanation
Indices: 10858099--10858300 Score: 377
Period size: 4 Copynumber: 50.0 Consensus size: 4
10858089 TTATATGCTT
10858099 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
10858147 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
10858195 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
10858243 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGATCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-T-A
10858293 TGTA TGTA
1 TGTA TGTA
10858301 GTAACAACTT
Statistics
Matches: 194, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
4 189 0.97
5 2 0.01
6 3 0.02
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:10866143 original size:20 final size:22
Alignment explanation
Indices: 10866120--10866200 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 22
10866110 TTTTGGCAGA
*
10866120 GGGAATCGAT-CCCCCCATGA-
1 GGGAACCGATACCCCCCATGAG
* **
10866140 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCCCATG-AG
* *
10866163 GGGAACCGATCCCCCCCA-CAG
1 GGGAACCGATACCCCCCATGAG
*
10866184 GGGAATCGATACCCCCC
1 GGGAACCGATACCCCCC
10866201 TGGGGTTCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.18
21 24 0.49
22 1 0.02
23 15 0.31
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.14
Consensus pattern (22 bp):
GGGAACCGATACCCCCCATGAG
Found at i:10870799 original size:23 final size:23
Alignment explanation
Indices: 10870772--10870838 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
10870762 GCCGGTCAAC
10870772 GGTCAACGGGTCGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCGGGTCA
* *
10870795 GGTCAACGGGTCGGGTTGGATCA
1 GGTCAACGGGTCGGGTCGGGTCA
10870818 GGTCAACGGGTCGGGTCGGGT
1 GGTCAACGGGTCGGGTCGGGT
10870839 TGTGACCGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (23 bp):
GGTCAACGGGTCGGGTCGGGTCA
Found at i:10878695 original size:18 final size:19
Alignment explanation
Indices: 10878661--10878699 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10878651 TAATTCTTAT
*
10878661 TTAAATTTTATTATAATTA
1 TTAAATTTAATTATAATTA
10878680 TTAAATTTAATT-TAATTA
1 TTAAATTTAATTATAATTA
10878698 TT
1 TT
10878700 GTCTTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAATTTAATTATAATTA
Found at i:10879440 original size:20 final size:20
Alignment explanation
Indices: 10879382--10879446 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
10879372 AAGTATAAGT
*
10879382 AAGCAATATCAAACAGAAGC
1 AAGCAATATCAAACAGAATC
* *
10879402 AAACAATATAAAACAGAATC
1 AAGCAATATCAAACAGAATC
*
10879422 AAGCAATATCCAACAGAATC
1 AAGCAATATCAAACAGAATC
10879442 AAGCA
1 AAGCA
10879447 CCAATTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.12
Consensus pattern (20 bp):
AAGCAATATCAAACAGAATC
Found at i:10880445 original size:81 final size:81
Alignment explanation
Indices: 10880332--10880905 Score: 711
Period size: 81 Copynumber: 7.1 Consensus size: 81
10880322 AAGAATTTAG
* * * *
10880332 TCTTTTACCCAAAGGAATTT-ACTCTTTCATCTAACTTGCATTATTGACACCTTTCT-TCCAAAT
1 TCTTTTACTCAAAGGCATTTAAC-CTTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAAAT
* *
10880395 GCACAGCTATGCATTTAA
64 GCACAGCTAGGCAATTAA
* * * **
10880413 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATAT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
10880478 ATAGCTAGGAAATTAA
66 ACAGCTAGGCAATTAA
* *
10880494 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACGGGCATAATTGACACTTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
10880559 ACAACTAGGCAATTCA
66 ACAGCTAGGCAATTAA
* * *
10880575 TCTTTTACTCAAAGGCTTTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAACGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
10880640 ACAACTAGACAATTAA
66 ACAGCTAGGCAATTAA
* * * * * * * * *
10880656 TCTTTTATTCAAAGGCATTTAACATTTCATTTAACTAGCATAATTAACACATTGCTATCAAATGA
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10880721 ACAGCTAGGGAATTAA
66 ACAGCTAGGCAATTAA
* * * *
10880737 TCTTTTAGTCAAAGGTATTTAACATTTCACCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10880802 ACAACTAGGCAATTAA
66 ACAGCTAGGCAATTAA
* * * * * * *
10880818 TTTTTTACTGAAAGGTATTTAACCTTTCATCTAACTGGCATTATTAACACCTTTCTGGCAAATAC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10880883 ACAGCTAGGCAGTTAA
66 ACAGCTAGGCAATTAA
10880899 TCTTTTA
1 TCTTTTA
10880906 TTTAAAACAG
Statistics
Matches: 421, Mismatches: 70, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
81 419 1.00
82 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCAATTAA
Found at i:10887597 original size:80 final size:81
Alignment explanation
Indices: 10887426--10887917 Score: 632
Period size: 81 Copynumber: 6.1 Consensus size: 81
10887416 AAGCATTTAG
* * * * * *
10887426 TCTTTTAC-CTAAAGGAATTTAGCCTTTCATCTAACTTGG-ATGATTGAAAACTTTCTGCCAAAT
1 TCTTTTACTC-AAAGGCATTTAACCTTTCATCTAAC-TGGCATAATTGACACCTTTCTGTCAAAT
* * *
10887489 GTACAACTAGGCATTTAA
64 GCACAGCTAGGCAATTAA
* * * * * *
10887507 TCTTTAACTCAAAGACATTTAGCCTTTCATCTAACT-GCTTAATTGACATCTTTCAGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10887571 ACAGCTAGACAATTAA
66 ACAGCTAGGCAATTAA
* * *
10887587 TGTTTTACTCAAAGGCATTTAACCTTTCATCTAACT-GCATAATTGATACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
10887651 ATAGCTATGTAATTAA
66 ACAGCTAGGCAATTAA
*
10887667 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTTCTGTCAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTTCTGTCAAATG
10887732 CACAGCTAGGCAATTAA
65 CACAGCTAGGCAATTAA
** * *
10887749 TCTTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
10887814 ACAACAAGGCAATTAA
66 ACAGCTAGGCAATTAA
* *
10887830 TCTTTTACTCAAAGGTATTTAACCTTTCTTCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
10887895 ATAGCTAGGCTATTAA
66 ACAGCTAGGCAATTAA
10887911 TCTTTTA
1 TCTTTTA
10887918 TTTAAAACAG
Statistics
Matches: 360, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
79 1 0.00
80 135 0.38
81 149 0.41
82 75 0.21
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCAATTAA
Found at i:10888512 original size:21 final size:21
Alignment explanation
Indices: 10888486--10888539 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
10888476 CTGGAATATA
*
10888486 TGGTATCAATACTTTACTTTT
1 TGGTATCGATACTTTACTTTT
*
10888507 TGGTATCGATACTTTTCTTTT
1 TGGTATCGATACTTTACTTTT
10888528 TGGTATCGATAC
1 TGGTATCGATAC
10888540 CCTATCAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (21 bp):
TGGTATCGATACTTTACTTTT
Found at i:10891325 original size:2 final size:2
Alignment explanation
Indices: 10891318--10891386 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
10891308 AAATTTTTAA
10891318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10891360 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10891387 AAGCATATAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10891618 original size:6 final size:6
Alignment explanation
Indices: 10891607--10891662 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
10891597 TGGATTCGAG
** * * *
10891607 TTTGGA TTTGGA TTCAGA TTTGGA TTTGAA TTTGGA TTCGGG TTTGGA
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA
*
10891655 TTCGGA TT
1 TTTGGA TT
10891663 CAGATTCAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.05, G:0.30, T:0.46
Consensus pattern (6 bp):
TTTGGA
Found at i:10891652 original size:42 final size:42
Alignment explanation
Indices: 10891595--10891698 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
10891585 TTTTGAATAT
* * ** *
10891595 TTTGGATTCGAGTTTGGATTTGGATTCAGATTTGGATTTGAA
1 TTTGGATTCGGGTTTGGATTCGGATTCAGATTCAGATTCGAA
10891637 TTTGGATTCGGGTTTGGATTCGGATTCAGATTCAGATTCGAA
1 TTTGGATTCGGGTTTGGATTCGGATTCAGATTCAGATTCGAA
* *
10891679 TTTAGATTCGGGTTTTGATT
1 TTTGGATTCGGGTTTGGATT
10891699 GGGTTCGGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (42 bp):
TTTGGATTCGGGTTTGGATTCGGATTCAGATTCAGATTCGAA
Found at i:10891659 original size:12 final size:12
Alignment explanation
Indices: 10891610--10891662 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
10891600 ATTCGAGTTT
10891610 GGATTTGGATTC
1 GGATTTGGATTC
* *
10891622 AGATTTGGATTT
1 GGATTTGGATTC
*
10891634 GAATTTGGATTC
1 GGATTTGGATTC
*
10891646 GGGTTTGGATTC
1 GGATTTGGATTC
10891658 GGATT
1 GGATT
10891663 CAGATTCAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.19, C:0.06, G:0.32, T:0.43
Consensus pattern (12 bp):
GGATTTGGATTC
Found at i:10891663 original size:18 final size:18
Alignment explanation
Indices: 10891595--10891668 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
10891585 TTTTGAATAT
*
10891595 TTTGGATTC-GAGTTTGGA
1 TTTGGATTCGGA-TTCGGA
* *
10891613 TTTGGATTCAGATTTGGA
1 TTTGGATTCGGATTCGGA
* * *
10891631 TTTGAATTTGGATTCGGG
1 TTTGGATTCGGATTCGGA
*
10891649 TTTGGATTCGGATTCAGA
1 TTTGGATTCGGATTCGGA
10891667 TT
1 TT
10891669 CAGATTCGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
18 44 0.96
19 2 0.04
ACGTcount: A:0.19, C:0.07, G:0.30, T:0.45
Consensus pattern (18 bp):
TTTGGATTCGGATTCGGA
Found at i:10891674 original size:18 final size:18
Alignment explanation
Indices: 10891653--10891687 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10891643 TTCGGGTTTG
*
10891653 GATTCGGATTCAGATTCA
1 GATTCGAATTCAGATTCA
*
10891671 GATTCGAATTTAGATTC
1 GATTCGAATTCAGATTC
10891688 GGGTTTTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GATTCGAATTCAGATTCA
Found at i:10891707 original size:17 final size:18
Alignment explanation
Indices: 10891685--10891733 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
10891675 CGAATTTAGA
10891685 TTCGGGTTTTGATT-GGG
1 TTCGGGTTTTGATTCGGG
*
10891702 TTCGGGTTTTAAGTTCGGG
1 TTCGGGTTTTGA-TTCGGG
10891721 TTCGGG-TTTGATT
1 TTCGGGTTTTGATT
10891734 TTAAGTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 13 0.46
18 6 0.21
19 9 0.32
ACGTcount: A:0.08, C:0.08, G:0.37, T:0.47
Consensus pattern (18 bp):
TTCGGGTTTTGATTCGGG
Found at i:10891723 original size:19 final size:17
Alignment explanation
Indices: 10891685--10891729 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
10891675 CGAATTTAGA
*
10891685 TTCGGGTTTTGATTGGG
1 TTCGGGTTTTAATTGGG
10891702 TTCGGGTTTTAAGTTCGGG
1 TTCGGGTTTTAA-TT-GGG
10891721 TTCGGGTTT
1 TTCGGGTTT
10891730 GATTTTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
18 2 0.08
19 12 0.48
ACGTcount: A:0.07, C:0.09, G:0.38, T:0.47
Consensus pattern (17 bp):
TTCGGGTTTTAATTGGG
Found at i:10891754 original size:13 final size:13
Alignment explanation
Indices: 10891736--10891781 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
10891726 GTTTGATTTT
10891736 AAGTTTGAGGTTC
1 AAGTTTGAGGTTC
*
10891749 AAGTTTGA-GTTT
1 AAGTTTGAGGTTC
*
10891761 AGGTTT-AGGTTC
1 AAGTTTGAGGTTC
*
10891773 GAGTTTGAG
1 AAGTTTGAG
10891782 TTTGGGTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 15 0.58
13 10 0.38
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (13 bp):
AAGTTTGAGGTTC
Found at i:10891777 original size:24 final size:24
Alignment explanation
Indices: 10891719--10891795 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
10891709 TTTAAGTTCG
* * *
10891719 GGTTCGGGTTTGATTTTAAGTTTGA
1 GGTTCGAGTTTGAGTTTAGGTTT-A
*
10891744 GGTTCAAGTTTGAGTTTAGGTTTA
1 GGTTCGAGTTTGAGTTTAGGTTTA
* *
10891768 GGTTCGAGTTTGAGTTTGGGTTTG
1 GGTTCGAGTTTGAGTTTAGGTTTA
10891792 GGTT
1 GGTT
10891796 TTGGTTAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 26 0.58
25 19 0.42
ACGTcount: A:0.14, C:0.04, G:0.35, T:0.47
Consensus pattern (24 bp):
GGTTCGAGTTTGAGTTTAGGTTTA
Found at i:10891796 original size:18 final size:18
Alignment explanation
Indices: 10891751--10891808 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
10891741 TGAGGTTCAA
*
10891751 GTTTGAGTTTAGGTTTAG
1 GTTTGAGTTTAGGTTTGG
*
10891769 GTTCGAGTTT-GAGTTTGG
1 GTTTGAGTTTAG-GTTTGG
* * *
10891787 GTTTGGGTTTTGGTTAGG
1 GTTTGAGTTTAGGTTTGG
10891805 GTTT
1 GTTT
10891809 AGGGTTAGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.10, C:0.02, G:0.38, T:0.50
Consensus pattern (18 bp):
GTTTGAGTTTAGGTTTGG
Found at i:10891983 original size:16 final size:17
Alignment explanation
Indices: 10891958--10891990 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10891948 AAACAAAATT
*
10891958 TGTTTTTAA-GTTTGGG
1 TGTTTGTAAGGTTTGGG
10891974 TGTTTGTAAGGTTTGGG
1 TGTTTGTAAGGTTTGGG
10891991 GAAGAACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (17 bp):
TGTTTGTAAGGTTTGGG
Found at i:10892212 original size:101 final size:104
Alignment explanation
Indices: 10892058--10892316 Score: 287
Period size: 101 Copynumber: 2.5 Consensus size: 104
10892048 AATGGGTTTA
* * * * *
10892058 GGTTTTGGTGTTTGTGAAGATCAAATAAAGG-TTTAGGGAAGAATTAGGATGAACACGTA-ATG-
1 GGTTTTGGTGTTTGTGAAGATCAAAT-GAGGTTTTTGGGATGAATAAGGATGAACAAG-AGATGA
* * **
10892120 AATTATTTAGTGTTTGA-T-A-AAAACACGTGAAATGGATTG
64 AATTA-TGAGTGTTTGATTGAGAAAAAACACGAAATGGATTG
* * * *
10892159 GGTTTTAGTGTTTTTGAAGATCAAATGAGGTTTTTGGGATGAATAAGGGTGAACAAGAGTTGAAA
1 GGTTTTGGTGTTTGTGAAGATCAAATGAGGTTTTTGGGATGAATAAGGATGAACAAGAGATGAAA
* *
10892224 TTATGGGTGTTTGATTGAGAAAAAACACGAAATGGTTTG
66 TTATGAGTGTTTGATTGAGAAAAAACACGAAATGGATTG
* *
10892263 GGTTTTGGTGTTTGTGAAGATCAAATGAGGGTTTTTGGGATGAACACGGATGAA
1 GGTTTTGGTGTTTGTGAAGATCAAATGA-GGTTTTTGGGATGAATAAGGATGAA
10892317 AACTTATGAA
Statistics
Matches: 131, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
100 4 0.03
101 56 0.43
102 6 0.05
103 1 0.01
104 42 0.32
105 22 0.17
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (104 bp):
GGTTTTGGTGTTTGTGAAGATCAAATGAGGTTTTTGGGATGAATAAGGATGAACAAGAGATGAAA
TTATGAGTGTTTGATTGAGAAAAAACACGAAATGGATTG
Found at i:10892384 original size:18 final size:20
Alignment explanation
Indices: 10892344--10892386 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
10892334 GAATTTCTAT
* *
10892344 AGAGAATGCAGAAGATTTTG
1 AGAGAATGCAGAAGAGTTAG
10892364 AGAGAAT-CAG-AGAGTTAG
1 AGAGAATGCAGAAGAGTTAG
10892382 AGAGA
1 AGAGA
10892387 GAGAGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.19
Consensus pattern (20 bp):
AGAGAATGCAGAAGAGTTAG
Found at i:10892600 original size:61 final size:61
Alignment explanation
Indices: 10892527--10892663 Score: 222
Period size: 61 Copynumber: 2.2 Consensus size: 61
10892517 TCCTTGTTTT
*
10892527 AAATTTGTTCAATTTAGTCCAAATTTAATCATGCAATATATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAATTTAATCATACAATATATTAATTTAAGCTTCATATTTA
** *
10892588 AAATTT-TCTCAATTTAGTCCAAATTTAATGTTACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTGT-TCAATTTAGTCCAAATTTAATCATACAATATATTAATTTAAGCTTCATATTTA
10892649 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
10892664 GATCCTTATA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
60 1 0.01
61 68 0.97
62 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCCAAATTTAATCATACAATATATTAATTTAAGCTTCATATTTA
Found at i:10892752 original size:26 final size:26
Alignment explanation
Indices: 10892695--10892754 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
10892685 TCTTTCAATT
*
10892695 AATATATATGTTTATATTAATAAATT
1 AATATATATGTTTATATTAATAAATG
*
10892721 AATATATA-GTTTATATATACT-AATG
1 AATATATATGTTTATAT-TAATAAATG
10892746 AACTATATA
1 AA-TATATA
10892755 ATATATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (26 bp):
AATATATATGTTTATATTAATAAATG
Found at i:10892805 original size:33 final size:32
Alignment explanation
Indices: 10892720--10892803 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 32
10892710 ATTAATAAAT
*
10892720 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACCAAT-AACTATA
* *
10892753 TAATATATAGTTTGTATATACC-ATATACTTTA
1 TAATATATAGTTTATATATACCAATA-ACTATA
*
10892785 T-ATATATAGTTTTTATATA
1 TAATATATAGTTTATATATA
10892804 TAGTTCGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 18 0.39
32 8 0.17
33 20 0.43
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (32 bp):
TAATATATAGTTTATATATACCAATAACTATA
Found at i:10892806 original size:13 final size:13
Alignment explanation
Indices: 10892775--10892808 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10892765 TGTATATACC
*
10892775 ATATACTTTATAT
1 ATATAGTTTATAT
*
10892788 ATATAGTTTTTAT
1 ATATAGTTTATAT
10892801 ATATAGTT
1 ATATAGTT
10892809 CGTATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:10893046 original size:25 final size:27
Alignment explanation
Indices: 10892930--10893046 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
10892920 ATTGAATTTA
* * *
10892930 TATAGTATAAATTATATAAATATAAAT
1 TATAGTATATACTATATAAATATAAAC
* * * *
10892957 TATATTACATAGTATATAAATATTAAC
1 TATAGTATATACTATATAAATATAAAC
*
10892984 TATAGTATATACTATATAAATATCAAC
1 TATAGTATATACTATATAAATATAAAC
* *
10893011 TATAGTATATAGT-T-TATATATAAAC
1 TATAGTATATACTATATAAATATAAAC
*
10893036 TATAGTTTATA
1 TATAGTATATA
10893047 TAGTTTTTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
25 19 0.25
26 1 0.01
27 56 0.74
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (27 bp):
TATAGTATATACTATATAAATATAAAC
Found at i:10893048 original size:54 final size:54
Alignment explanation
Indices: 10892930--10893046 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
10892920 ATTGAATTTA
* * * * *
10892930 TATAGTATAAATTATATAAATATAAATTATATTACATAGTATATAAATATTAAC
1 TATAGTATATACTATATAAATATAAACTATAGTACATAGTATATAAATATAAAC
* * *
10892984 TATAGTATATACTATATAAATATCAACTATAGTATATAGT-T-TATATATAAAC
1 TATAGTATATACTATATAAATATAAACTATAGTACATAGTATATAAATATAAAC
*
10893036 TATAGTTTATA
1 TATAGTATATA
10893047 TAGTTTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 19 0.35
53 1 0.02
54 34 0.63
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (54 bp):
TATAGTATATACTATATAAATATAAACTATAGTACATAGTATATAAATATAAAC
Found at i:10893057 original size:25 final size:25
Alignment explanation
Indices: 10892949--10893059 Score: 87
Period size: 27 Copynumber: 4.2 Consensus size: 25
10892939 AATTATATAA
* * * *
10892949 ATATAAATTATATTACATAGTATATAA
1 ATATAAACTATAGTATATAGT-T-TAT
* * *
10892976 ATATTAACTATAGTATATACTATATAA
1 ATATAAACTATAGTATATAGT-T-TAT
*
10893003 ATATCAACTATAGTATATAGTTTAT
1 ATATAAACTATAGTATATAGTTTAT
*
10893028 ATATAAACTATAGTTTATATAGTTTTT
1 ATATAAACTATAG--TATATAGTTTAT
10893055 ATATA
1 ATATA
10893060 TAGTTCATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
25 14 0.19
26 1 0.01
27 57 0.79
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (25 bp):
ATATAAACTATAGTATATAGTTTAT
Found at i:10893062 original size:47 final size:46
Alignment explanation
Indices: 10893011--10893116 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 46
10893001 AAATATCAAC
* * * *
10893011 TATAGTATATAGTTTATATATAAAC-TATAGTTTATATAGTTTTTATA
1 TATAGTATATA-TGTAAAT-TAAACATATAGTATATATAGTTTATATA
*
10893058 TATAGT-TCATATGTAAATTATACTATATAGTATATATAGTTTATATA
1 TATAGTAT-ATATGTAAATTAAAC-ATATAGTATATATAGTTTATATA
*
10893105 TATAATATATAT
1 TATAGTATATAT
10893117 AAATATCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
45 4 0.08
46 6 0.12
47 38 0.78
48 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (46 bp):
TATAGTATATATGTAAATTAAACATATAGTATATATAGTTTATATA
Found at i:10893219 original size:24 final size:24
Alignment explanation
Indices: 10893161--10893226 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 24
10893151 AATTATAGTT
*
10893161 TATATATATAGTATATACTACATAAA
1 TATATATATAGT-T-CACTACATAAA
*
10893187 TAATTTATATAGTTCACTA-ATAAA
1 T-ATATATATAGTTCACTACATAAA
10893211 CTATATATATAGTTCA
1 -TATATATATAGTTCA
10893227 TATGTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 18 0.51
25 5 0.14
26 2 0.06
27 10 0.29
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (24 bp):
TATATATATAGTTCACTACATAAA
Found at i:10893310 original size:27 final size:26
Alignment explanation
Indices: 10893280--10893374 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
10893270 TCAACTACAG
*
10893280 TATATAGTTTATATATAAATTATAATT
1 TATATAGTTTATATATAAA-TATAATA
* *
10893307 TATATAGCTTATATATATATAT-ATA
1 TATATAGTTTATATATAAATATAATA
* *
10893332 TATATAGTTCATATGTAAACTAT-ATA
1 TATATAGTTTATATATAAA-TATAATA
*
10893358 GTATATA-TATATATATA
1 -TATATAGTTTATATATA
10893375 GTTTATATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
25 17 0.30
26 16 0.29
27 23 0.41
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TATATAGTTTATATATAAATATAATA
Found at i:10893321 original size:2 final size:2
Alignment explanation
Indices: 10893316--10893399 Score: 64
Period size: 2 Copynumber: 40.0 Consensus size: 2
10893306 TTATATAGCT
* *
10893316 TA TA TA TA TA TA TA TA TA TA TA GT- TCA TA TG TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA TA
* *
10893358 GTA TA TA TA TA TA TA TA GTT TA TA TA TG TA T- TA TA TA CTA TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
10893400 AAAATAGTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
1 2 0.03
2 56 0.85
3 8 0.12
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10893363 original size:52 final size:50
Alignment explanation
Indices: 10893280--10893384 Score: 115
Period size: 52 Copynumber: 2.1 Consensus size: 50
10893270 TCAACTACAG
* * *
10893280 TATATAGTTTATATATAAATTATAATTTATATAGCTTATATATATA-TATATA
1 TATATAGTTCATATATAAACTATAATGTATATA---TATATATATAGTATATA
* *
10893332 TATATAGTTCATATGTAAACTAT-ATAGTATATATATATATATAGTTTATA
1 TATATAGTTCATATATAAACTATAAT-GTATATATATATATATAGTATATA
10893382 TAT
1 TAT
10893385 GTATTATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
49 10 0.22
50 8 0.17
51 2 0.04
52 26 0.57
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (50 bp):
TATATAGTTCATATATAAACTATAATGTATATATATATATATAGTATATA
Found at i:10893458 original size:20 final size:20
Alignment explanation
Indices: 10893433--10893474 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10893423 ATAAACTATA
10893433 TATATAGTTCATACGTAAAC
1 TATATAGTTCATACGTAAAC
* *
10893453 TATATAGTTTATATGTAAAC
1 TATATAGTTCATACGTAAAC
10893473 TA
1 TA
10893475 CTAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TATATAGTTCATACGTAAAC
Found at i:10893486 original size:92 final size:92
Alignment explanation
Indices: 10893389--10893558 Score: 202
Period size: 92 Copynumber: 1.8 Consensus size: 92
10893379 ATATATGTAT
* * *
10893389 TATATACTATAAAAATAGTTTATATAGTTCGT-TA-ATAAACTATATATATAGTTCATACGTAAA
1 TATATA-TAT-AAAATAGTTTACATAGTTCATATATATAAACTATACATATAGTTCATACGTAAA
10893452 CTATATAGTT-TATATGTAAACTACTAAAC
64 CTATATA-TTATATATGTAAACTACTAAAC
* * * *** *
10893481 TATATATATTATATAGTTTACATAGTTTATATATATAGTTTATACATATAGTTCATATGTAAACT
1 TATATATATAAAATAGTTTACATAGTTCATATATATAAACTATACATATAGTTCATACGTAAACT
10893546 ATATATTATATAT
66 ATATATTATATAT
10893559 AGTTTACATA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
90 16 0.25
91 7 0.11
92 42 0.65
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (92 bp):
TATATATATAAAATAGTTTACATAGTTCATATATATAAACTATACATATAGTTCATACGTAAACT
ATATATTATATATGTAAACTACTAAAC
Found at i:10893520 original size:13 final size:13
Alignment explanation
Indices: 10893502--10893570 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
10893492 TATAGTTTAC
10893502 ATAGTTTATATAT
1 ATAGTTTATATAT
*
10893515 ATAGTTTATACAT
1 ATAGTTTATATAT
* *
10893528 ATAGTTCATATGT
1 ATAGTTTATATAT
* *
10893541 AAACTATATATTATAT
1 ATAGT-T-TA-TATAT
*
10893557 ATAGTTTACATAT
1 ATAGTTTATATAT
10893570 A
1 A
10893571 GTATAAGGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
13 30 0.71
14 3 0.07
15 2 0.05
16 7 0.17
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:10893716 original size:2 final size:2
Alignment explanation
Indices: 10893672--10893696 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10893662 ACCATATACA
10893672 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10893697 AACTATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10893757 original size:33 final size:33
Alignment explanation
Indices: 10893666--10893760 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
10893656 CCCTAAACCA
* *
10893666 TATACAATATATATATATATATATATATATAAAC
1 TATATAATTTATATATATATATAT-TATATAAAC
* * * *
10893700 TATATAGTTTTTATATAATTTATATTA-ATAAAT
1 TATATAATTTATATAT-ATATATATTATATAAAC
*
10893733 TATATAATTTATACATAGTATATATTAT
1 TATATAATTTATATATA-TATATATTAT
10893761 TTATAAGTAC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
32 1 0.02
33 26 0.54
34 14 0.29
35 7 0.15
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (33 bp):
TATATAATTTATATATATATATATTATATAAAC
Found at i:10893826 original size:20 final size:22
Alignment explanation
Indices: 10893803--10893847 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
10893793 ATATAGTTTA
10893803 TATATAATTCATA-T-ATAAAC
1 TATATAATTCATATTAATAAAC
*
10893823 TATATAATTTATATTAATAAAC
1 TATATAATTCATATTAATAAAC
10893845 TAT
1 TAT
10893848 GAAGCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 1 0.05
22 9 0.41
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATAATTCATATTAATAAAC
Found at i:10893857 original size:92 final size:92
Alignment explanation
Indices: 10893684--10893857 Score: 210
Period size: 92 Copynumber: 1.9 Consensus size: 92
10893674 ATATATATAT
* * * *
10893684 ATATATATATATAAACTATATAGTTTTTATATAATTTATATTAATAAATTATATAATTTATACAT
1 ATATATAAATATAAACTATATAGTTTATATATAATTCATATTAATAAACTATATAATTTATACAT
* * * *
10893749 AGTATATATTATTTATAAGTACACATA
66 AATAAATATAACTTATAAGTACACATA
* *
10893776 ATATATAAATATAAATTATATAGTTTATATATAATTCATA-T-ATAAACTATATAATTTATA-TT
1 ATATATAAATATAAACTATATAGTTTATATATAATTCATATTAATAAACTATATAATTTATACAT
10893838 AATAAACTATGAAGCTTATA
66 AATAAA-TAT-AA-CTTATA
10893858 TATAGTTCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 5 0.07
90 21 0.30
91 2 0.03
92 41 0.59
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (92 bp):
ATATATAAATATAAACTATATAGTTTATATATAATTCATATTAATAAACTATATAATTTATACAT
AATAAATATAACTTATAAGTACACATA
Found at i:10893917 original size:2 final size:2
Alignment explanation
Indices: 10893910--10894028 Score: 66
Period size: 2 Copynumber: 58.0 Consensus size: 2
10893900 TTATACATGG
* *
10893910 TA TA TA TA GTT TA TA TA TA TT TA TA TA TA GTA TA TA -A TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
10893952 TA AA TA TA AA CTA TA TA GTT TA TT TA TA TA -A TA TA TA TA CTT
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* *
10893994 TA TA TA TA AA CTA TA TA GTT TA TA TA TA TA T- TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
10894029 GTCGTTTCAA
Statistics
Matches: 88, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
1 4 0.05
2 76 0.86
3 8 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10893958 original size:23 final size:22
Alignment explanation
Indices: 10893911--10893968 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
10893901 TATACATGGT
* **
10893911 ATATATAGTTTAT-ATATATTT
1 ATATATAGTATATAATATATAA
10893932 ATATATAGTATATAATAATATAA
1 ATATATAGTATATAAT-ATATAA
* *
10893955 ATATAAACTATATA
1 ATATATAGTATATA
10893969 GTTTATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 2 0.07
23 16 0.53
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
ATATATAGTATATAATATATAA
Found at i:10893968 original size:42 final size:40
Alignment explanation
Indices: 10893921--10894028 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 40
10893911 ATATATAGTT
10893921 TATATATATTTATATATAGTATATAATAATATAAATATAAAC
1 TATATATATTTATATATA-TATAT-ATAATATAAATATAAAC
* * *
10893963 TATATAGTTTATTTATATA-ATATATATACTTTATATATAAAC
1 TATATA---TATTTATATATATATATATAATATAAATATAAAC
*
10894005 TATATA-GTTTATATATATAT-TATA
1 TATATATATTTATATATATATATATA
10894029 GTCGTTTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
38 12 0.21
39 4 0.07
42 26 0.45
43 5 0.09
44 1 0.02
45 10 0.17
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (40 bp):
TATATATATTTATATATATATATATAATATAAATATAAAC
Found at i:10893986 original size:20 final size:20
Alignment explanation
Indices: 10893911--10894028 Score: 78
Period size: 20 Copynumber: 6.2 Consensus size: 20
10893901 TATACATGGT
*
10893911 ATATATAGTTTATATATATTT
1 ATATATAGTTTATATATA-TA
10893932 ATATATAG--TATATA-ATA
1 ATATATAGTTTATATATATA
10893949 ATATA-A----ATATA-A-A
1 ATATATAGTTTATATATATA
* *
10893962 CTATATAGTTTATTTATATAA
1 ATATATAGTTTATATATAT-A
*
10893983 TATATATACTTTATATATA-A
1 -ATATATAGTTTATATATATA
10894003 ACTATATAGTTTATATATATA
1 A-TATATAGTTTATATATATA
*
10894024 TTATA
1 ATATA
10894029 GTCGTTTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
13 5 0.06
14 7 0.09
16 1 0.01
17 6 0.08
18 5 0.06
19 8 0.10
20 21 0.27
21 10 0.13
22 15 0.19
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
ATATATAGTTTATATATATA
Found at i:10893988 original size:22 final size:21
Alignment explanation
Indices: 10893955--10894023 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
10893945 AATAATATAA
10893955 ATATAAACTATATAGTTTATTT
1 ATATAAACTATATAGTTTA-TT
*
10893977 ATATAATA-TATATACTTTA-T
1 ATATAA-ACTATATAGTTTATT
10893997 ATATAAACTATATAGTTTATAT
1 ATATAAACTATATAGTTTAT-T
10894019 ATATA
1 ATATA
10894024 TTATAGTCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 1 0.02
20 17 0.41
22 22 0.54
23 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (21 bp):
ATATAAACTATATAGTTTATT
Found at i:10893998 original size:31 final size:33
Alignment explanation
Indices: 10893921--10893999 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 33
10893911 ATATATAGTT
*
10893921 TATATATATTTATATATAGTATATAATAATATAA
1 TATATATACTT-TATATAGTATATAATAATATAA
* * *
10893955 -ATATAAAC--TATATAGT-T-TATTTATATAA
1 TATATATACTTTATATAGTATATAATAATATAA
10893983 TATATATACTTTATATA
1 TATATATACTTTATATA
10894000 TAAACTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
28 9 0.24
29 8 0.22
30 8 0.22
31 6 0.16
33 6 0.16
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (33 bp):
TATATATACTTTATATAGTATATAATAATATAA
Found at i:10894027 original size:11 final size:11
Alignment explanation
Indices: 10893910--10894028 Score: 65
Period size: 11 Copynumber: 11.2 Consensus size: 11
10893900 TTATACATGG
10893910 TATATATAGTT-
1 TATATATA-TTA
10893921 TATATATATT-
1 TATATATATTA
*
10893931 TATATATAGTA
1 TATATATATTA
*
10893942 TATA-ATAATA
1 TATATATATTA
* *
10893952 TAAATATA-AA
1 TATATATATTA
10893962 CTATATAGT-TTA
1 -TATATA-TATTA
* *
10893974 TTTATATAATA
1 TATATATATTA
10893985 TATATACT-TTA
1 TATATA-TATTA
* *
10893996 TATATAAACTA
1 TATATATATTA
*
10894007 TATA-GT-TTA
1 TATATATATTA
10894016 TATATATATTA
1 TATATATATTA
10894027 TA
1 TA
10894029 GTCGTTTCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
9 6 0.07
10 22 0.27
11 51 0.62
12 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (11 bp):
TATATATATTA
Found at i:10894828 original size:26 final size:25
Alignment explanation
Indices: 10894797--10894846 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10894787 AAGCATCAAA
* * *
10894797 TTTACCTGACTTGACATGTATCCGAT
1 TTTACCCGACCTGACA-GAATCCGAT
10894823 TTTACCCGACCTGACAGAATCCGA
1 TTTACCCGACCTGACAGAATCCGA
10894847 CTGAAACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (25 bp):
TTTACCCGACCTGACAGAATCCGAT
Found at i:10899143 original size:35 final size:34
Alignment explanation
Indices: 10899058--10899144 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
10899048 AAAATAATTT
* *
10899058 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
10899092 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
10899130 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
10899145 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:10899705 original size:27 final size:27
Alignment explanation
Indices: 10899675--10899744 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
10899665 CAGGTGATGG
*
10899675 TGGCGGCGGCAGCATCGGGTAAGGGAA
1 TGGCAGCGGCAGCATCGGGTAAGGGAA
* * *
10899702 TGGCAGCGGCGGCATCTGGTAATGGAA
1 TGGCAGCGGCAGCATCGGGTAAGGGAA
* * *
10899729 AGGCAGTGGCGGCATC
1 TGGCAGCGGCAGCATC
10899745 ATATGTGGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.44, T:0.14
Consensus pattern (27 bp):
TGGCAGCGGCAGCATCGGGTAAGGGAA
Found at i:10901449 original size:16 final size:16
Alignment explanation
Indices: 10901425--10901468 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10901415 TATATCTACA
* *
10901425 AAAAAATTAAATAAGT
1 AAAATATTAAATAAAT
10901441 AAAATATTAAATAAAT
1 AAAATATTAAATAAAT
*
10901457 TAAATACTTAAA
1 AAAATA-TTAAA
10901469 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATATTAAATAAAT
Found at i:10901482 original size:10 final size:11
Alignment explanation
Indices: 10901458--10901491 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10901448 TAAATAAATT
*
10901458 AAATACTTAAA
1 AAATATTTAAA
*
10901469 AAAAATTTAAA
1 AAATATTTAAA
10901480 AAATATTTAAA
1 AAATATTTAAA
10901491 A
1 A
10901492 TATAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATATTTAAA
Found at i:10908158 original size:32 final size:32
Alignment explanation
Indices: 10908082--10908207 Score: 130
Period size: 32 Copynumber: 4.0 Consensus size: 32
10908072 CCAACCTAAG
* * *
10908082 GGAATGCCTTGGGACCTTAGAGCCTACCCAA-
1 GGAATACCTTGGGGCCTCAGAGCCTACCCAAT
*
10908113 GGAATACCTTGGGGCCTCAAAGCCTACCCAAT
1 GGAATACCTTGGGGCCTCAGAGCCTACCCAAT
** *
10908145 GGTTTACCTTGGGGCCTGAGAGCCTACCCAAT
1 GGAATACCTTGGGGCCTCAGAGCCTACCCAAT
* * * *
10908177 GGAACATCTCGGGGCCT-ACGGGCCTACCCAA
1 GGAATACCTTGGGGCCTCA-GAGCCTACCCAA
10908208 GGGTAACCTT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
31 28 0.35
32 51 0.65
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (32 bp):
GGAATACCTTGGGGCCTCAGAGCCTACCCAAT
Found at i:10908217 original size:63 final size:63
Alignment explanation
Indices: 10908088--10908217 Score: 147
Period size: 63 Copynumber: 2.1 Consensus size: 63
10908078 TAAGGGAATG
* * * * *
10908088 CCTTGGGACCTTAGAGCCTACCCAAGGAATACCTTGGGGCCTCAAAGCCTACCCAATGGTTTA
1 CCTTGGGACCTGAGAGCCTACCCAAGGAACACCTCGGGGCCTCAAAGCCTACCCAATGGGTAA
* * **
10908151 CCTTGGGGCCTGAGAGCCTACCCAATGGAACATCTCGGGGCCT-ACGGGCCTACCCAA-GGGTAA
1 CCTTGGGACCTGAGAGCCTACCCAA-GGAACACCTCGGGGCCTCA-AAGCCTACCCAATGGGTAA
10908214 CCTT
1 CCTT
10908218 AGGTTCGTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 32 0.57
64 24 0.43
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (63 bp):
CCTTGGGACCTGAGAGCCTACCCAAGGAACACCTCGGGGCCTCAAAGCCTACCCAATGGGTAA
Found at i:10914796 original size:21 final size:23
Alignment explanation
Indices: 10914770--10914813 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
10914760 ACATTACTGG
10914770 AAGTATCAATA-CCCTA-GAGTA
1 AAGTATCAATACCCCTATGAGTA
*
10914791 AAGTATCGATACCCCTATGAGTA
1 AAGTATCAATACCCCTATGAGTA
10914814 TCAGTACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (23 bp):
AAGTATCAATACCCCTATGAGTA
Found at i:10920671 original size:23 final size:25
Alignment explanation
Indices: 10920620--10920672 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
10920610 TTATCTTTTT
*
10920620 CACATA-CTCATATAATCACATATG
1 CACATATCACATATAATCACATATG
*
10920644 -GCATATCACATA-AATCACATA-G
1 CACATATCACATATAATCACATATG
10920666 CACATAT
1 CACATAT
10920673 AAACACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (25 bp):
CACATATCACATATAATCACATATG
Found at i:10925316 original size:22 final size:22
Alignment explanation
Indices: 10925291--10925430 Score: 124
Period size: 22 Copynumber: 6.2 Consensus size: 22
10925281 AATATGATAA
10925291 TATACTATTGAATTATGTTCGT
1 TATACTATTGAATTATGTTCGT
* *
10925313 TATAAATTTTTGAATTATGTTCGT
1 TAT--ACTATTGAATTATGTTCGT
10925337 TATACTATTGAATTATGTTCGT
1 TATACTATTGAATTATGTTCGT
* * *
10925359 TATACTATTTGAACTCATATTAAG-
1 TATACTA-TTGAA-TTATGTT-CGT
* * *
10925383 -AAAATA-TGATAATAATGTTCGT
1 TATACTATTG--AATTATGTTCGT
10925405 TATACTATTGAATTATGTTCGT
1 TATACTATTGAATTATGTTCGT
10925427 TATA
1 TATA
10925431 AATTTTTGAC
Statistics
Matches: 93, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
21 3 0.03
22 47 0.51
23 15 0.16
24 27 0.29
25 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (22 bp):
TATACTATTGAATTATGTTCGT
Found at i:10927108 original size:20 final size:21
Alignment explanation
Indices: 10927070--10927108 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10927060 TCTGGAATTT
10927070 TTGTTCAAGCCCAGAAAATCA
1 TTGTTCAAGCCCAGAAAATCA
*
10927091 TTGTTCATGCCC-GAAAAT
1 TTGTTCAAGCCCAGAAAAT
10927109 TCACTATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
TTGTTCAAGCCCAGAAAATCA
Done.