Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 73 of 129
Found at i:13897013 original size:20 final size:20
Alignment explanation
Indices: 13896975--13897013 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13896965 AAAAAATAAC
*
13896975 ATAAAAATCAACATAAAAAA
1 ATAAAAATCAAAATAAAAAA
*
13896995 ATAAATATCAAAATCAAAA
1 ATAAAAATCAAAAT-AAAA
13897014 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAAAATCAAAATAAAAAA
Found at i:13897033 original size:26 final size:26
Alignment explanation
Indices: 13896978--13897033 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
13896968 AAATAACATA
* * *
13896978 AAAATCAACATAAAAAAATAAATATC
1 AAAATCAAAATAAAAAAATAAAAAGC
*
13897004 AAAATCAAAATGAAAAAAA-AAAAAGG
1 AAAATCAAAAT-AAAAAAATAAAAAGC
13897030 AAAA
1 AAAA
13897034 ACCTGCGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.12
Consensus pattern (26 bp):
AAAATCAAAATAAAAAAATAAAAAGC
Found at i:13897294 original size:20 final size:19
Alignment explanation
Indices: 13897269--13897308 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13897259 GTCGCCTTGC
*
13897269 ACTGGTGGCCAAAAACTTCA
1 ACTGGT-GCCAAAAAATTCA
*
13897289 ACTGGTGTCAAAAAATTCA
1 ACTGGTGCCAAAAAATTCA
13897308 A
1 A
13897309 AATTTTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (19 bp):
ACTGGTGCCAAAAAATTCA
Found at i:13897394 original size:20 final size:19
Alignment explanation
Indices: 13897371--13897420 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13897361 AAGATCGTCA
13897371 AAAAATTCAAACGGTCACC
1 AAAAATTCAAACGGTCACC
*
13897390 GAAAAATTC-AATGGTCACC
1 -AAAAATTCAAACGGTCACC
13897409 AAGAAATTCAAA
1 AA-AAATTCAAA
13897421 TTTTTTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 15 0.56
20 10 0.37
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAAATTCAAACGGTCACC
Found at i:13897877 original size:3 final size:3
Alignment explanation
Indices: 13897871--13897925 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
13897861 TTTTAAAGAT
* * *
13897871 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA -AA TTA TAT TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
13897915 -AA TAA TAA TAA
1 TAA TAA TAA TAA
13897926 AAAAAGAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 5 0.12
3 35 0.83
4 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13898132 original size:40 final size:39
Alignment explanation
Indices: 13898087--13898225 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 39
13898077 CTCCTCTAAA
*
13898087 TAGAGGCTATAAAACTTTAAATTCAAAAAGCTCATATCAC
1 TAGAGGC-ATAAAACTTTAAATTCAAAAAGCTCATATAAC
* * * *
13898127 TAGAGGCA-ACGAACTTTAAATGTTAAAAAGCTCCTCTAAC
1 TAGAGGCATA-AAACTTTAAAT-TCAAAAAGCTCATATAAC
* * * *
13898167 CAGAGGCA-ATCAACTTTAAATTC-AAAAGCTCCTTTAAC
1 TAGAGGCATA-AAACTTTAAATTCAAAAAGCTCATATAAC
* *
13898205 TAAAGGCA-ACGAACTTTAAAT
1 TAGAGGCATA-AAACTTTAAAT
13898226 GACTCATTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
38 32 0.39
39 12 0.14
40 39 0.47
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (39 bp):
TAGAGGCATAAAACTTTAAATTCAAAAAGCTCATATAAC
Found at i:13898212 original size:38 final size:38
Alignment explanation
Indices: 13898099--13898225 Score: 148
Period size: 38 Copynumber: 3.3 Consensus size: 38
13898089 GAGGCTATAA
* *
13898099 AACTTTAAATTCAAAAAGCTCATATCACTAGAGGCAACG
1 AACTTTAAATTC-AAAAGCTCCTATAACTAGAGGCAACG
* * *
13898138 AACTTTAAATGTTAAAAAGCTCCTCTAACCAGAGGCAATC-
1 AACTTTAAA--TTCAAAAGCTCCTATAACTAGAGGCAA-CG
* *
13898178 AACTTTAAATTCAAAAGCTCCTTTAACTAAAGGCAACG
1 AACTTTAAATTCAAAAGCTCCTATAACTAGAGGCAACG
13898216 AACTTTAAAT
1 AACTTTAAAT
13898226 GACTCATTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 33 0.44
39 9 0.12
40 29 0.39
41 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (38 bp):
AACTTTAAATTCAAAAGCTCCTATAACTAGAGGCAACG
Found at i:13898215 original size:78 final size:80
Alignment explanation
Indices: 13898076--13898226 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 80
13898066 TTTTTGAAAG
* * * *
13898076 GCTCCTCTAAATAGAGGCTATAAAACTTTAAATTCAAAAAGCTCATATCACTAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAATAAAACTTTAAATTCAAAAAGCTCATATAACTAAAGGCAACGAAC
13898141 TTTAAATGTTAAAAA
66 TTTAAATGTTAAAAA
* * * *
13898156 GCTCCTCTAACCAGAGGCAAT-CAACTTTAAATTC-AAAAGCTCCTTTAACTAAAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAATAAAACTTTAAATTCAAAAAGCTCATATAACTAAAGGCAACGAAC
13898219 TTTAAATG
66 TTTAAATG
13898227 ACTCATTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 33 0.52
79 12 0.19
80 18 0.29
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAATAAAACTTTAAATTCAAAAAGCTCATATAACTAAAGGCAACGAAC
TTTAAATGTTAAAAA
Found at i:13898435 original size:33 final size:33
Alignment explanation
Indices: 13898392--13898463 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
13898382 ACTTTAAATG
* * *
13898392 TTAAAAGGCTCCTCTAACCAGAGGCAACAAACT
1 TTAAATGGCTCATCTAACCAAAGGCAACAAACT
*
13898425 TTAAATGGCTCATTTAACCAAAGGCAACAAACT
1 TTAAATGGCTCATCTAACCAAAGGCAACAAACT
13898458 TTAAAT
1 TTAAAT
13898464 TAAAGATCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (33 bp):
TTAAATGGCTCATCTAACCAAAGGCAACAAACT
Found at i:13898560 original size:205 final size:204
Alignment explanation
Indices: 13898151--13898636 Score: 733
Period size: 205 Copynumber: 2.4 Consensus size: 204
13898141 TTTAAATGTT
* * * * * *
13898151 AAAAAGCTCCTCTAACCAGAGGCAATC-AACTTTAAATTCAAAA-GCTCCTTTAACTAAAGGCAA
1 AAAAAACTCCTTTGACCAGAGGCAA-CAAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAA
*
13898214 CGAACTTTAAATGACTCATTTAACCAAAGACAACAAACTTTAAATTAAAAATATGAGAAGACTTA
65 CAAACTTTAAATGACTCATTTAACCAAAGACAACAAACTTTAAATTAAAAATATGAGAAGACTTA
* *
13898279 TAGATTATGCCATTTGGTCTTACAAATCTTGCCTAATTTTGATAGAGTCTTCTGACCAGAGGCTC
130 TAGATTATGCCATTTGGTCTTACAAATCATGCCTAATTTTGATAGAGTCCTCTGACCAGAGGCTC
13898344 TTGAAATTAA
195 TTGAAATTAA
* *
13898354 AAAAAACTCCTTTGACCAGAGGTAACAAACTTTAAATGTTAAAAGGCTCCTCTAACCAGAGGCAA
1 AAAAAACTCCTTTGACCAGAGGCAACAAACTTTAAAT-TTAAAAGGCTCCTCTAACCAAAGGCAA
* * * * *
13898419 CAAACTTTAAATGGCTCATTTAACCAAAGGCAACAAACTTTAAATTAAAGATCTGAGAGGACTTA
65 CAAACTTTAAATGACTCATTTAACCAAAGACAACAAACTTTAAATTAAAAATATGAGAAGACTTA
**
13898484 TAGATTATGCCATTTGGTCTTACAAATCATGTTTAATTTTGATAGAGTCCTCTGACCAGAGGCTC
130 TAGATTATGCCATTTGGTCTTACAAATCATGCCTAATTTTGATAGAGTCCTCTGACCAGAGGCTC
13898549 TTGAAATTAA
195 TTGAAATTAA
* * * *
13898559 AAAAAACTCCTTTGACCAAAGGCAACAAACTTTAAATCTTAAAAGGCTTCTCTAACCATATGCAA
1 AAAAAACTCCTTTGACCAGAGGCAACAAACTTTAAAT-TTAAAAGGCTCCTCTAACCAAAGGCAA
13898624 CAAACTTTAAATG
65 CAAACTTTAAATG
13898637 TTAAAAGGCT
Statistics
Matches: 256, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
202 1 0.00
203 31 0.12
204 5 0.02
205 219 0.86
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (204 bp):
AAAAAACTCCTTTGACCAGAGGCAACAAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
AAACTTTAAATGACTCATTTAACCAAAGACAACAAACTTTAAATTAAAAATATGAGAAGACTTAT
AGATTATGCCATTTGGTCTTACAAATCATGCCTAATTTTGATAGAGTCCTCTGACCAGAGGCTCT
TGAAATTAA
Found at i:13898625 original size:40 final size:40
Alignment explanation
Indices: 13898573--13898682 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
13898563 AACTCCTTTG
* * *
13898573 ACCAAAGGCAACAAACTTTAAATCTTAAAAGGCTTCTCTA
1 ACCAGAGGCAACAAACTTTAAATGTTAAAAGGCTCCTCTA
* * * *
13898613 ACCATATGCAACAAACTTTAAATGTTAAAAGGCTCCTTTG
1 ACCAGAGGCAACAAACTTTAAATGTTAAAAGGCTCCTCTA
13898653 ACCAGAGGCAACAAACTTTAAATGTTAAAA
1 ACCAGAGGCAACAAACTTTAAATGTTAAAA
13898683 TCTGAGAGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (40 bp):
ACCAGAGGCAACAAACTTTAAATGTTAAAAGGCTCCTCTA
Found at i:13910785 original size:94 final size:95
Alignment explanation
Indices: 13910682--13910876 Score: 293
Period size: 94 Copynumber: 2.1 Consensus size: 95
13910672 TATTTTTTTT
* * *
13910682 AAATTTAGATTATCCTAACTCACCGATGAAATCTAGATATTAATCTCTTATTTGAAGAAAATTAA
1 AAATTTAGATTATCCCAACTCACCGATAAAATCTAAATATTAATCTCTTATTTGAAGAAAATTAA
*
13910747 ACTCTTTCAA-TTTTCTATAGTTTTTTAAA
66 ACTCTTTCAATTTTTATATAGTTTTTTAAA
* * * *
13910776 AAATTTAGATTATCCCGACTCACCGGTAAAATCTAAATATTAATCTCTTGTTTGAAGAAAATTGA
1 AAATTTAGATTATCCCAACTCACCGATAAAATCTAAATATTAATCTCTTATTTGAAGAAAATTAA
*
13910841 ACTCTTTCAATTTTTTATATATTTTTTTAAA
66 ACTCTTTCAA-TTTTTATATAGTTTTTTAAA
13910872 AAATT
1 AAATT
13910877 CAAGATATCA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 68 0.76
96 22 0.24
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (95 bp):
AAATTTAGATTATCCCAACTCACCGATAAAATCTAAATATTAATCTCTTATTTGAAGAAAATTAA
ACTCTTTCAATTTTTATATAGTTTTTTAAA
Found at i:13911253 original size:16 final size:15
Alignment explanation
Indices: 13911234--13911275 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
13911224 TTTTTATTTA
13911234 TATTTTTTT-AGGTTTT
1 TATTTTTTTCA-G-TTT
13911250 TATTTTATTTCAGTTT
1 TATTTT-TTTCAGTTT
13911266 TATTTTTTTC
1 TATTTTTTTC
13911276 TATTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 4 0.17
18 1 0.04
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (15 bp):
TATTTTTTTCAGTTT
Found at i:13911372 original size:23 final size:24
Alignment explanation
Indices: 13911346--13911390 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13911336 TAATAACATC
*
13911346 ATAAAAAAA-GAACATAAAAAATA
1 ATAAAAAAATCAACATAAAAAATA
13911369 ATAAAAAAATCAACATAAAAAA
1 ATAAAAAAATCAACATAAAAAA
13911391 ATCAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (24 bp):
ATAAAAAAATCAACATAAAAAATA
Found at i:13911388 original size:14 final size:14
Alignment explanation
Indices: 13911345--13911395 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
13911335 GTAATAACAT
*
13911345 CATAAAAAAA-GAA
1 CATAAAAAAATCAA
13911358 CAT-AAAAAAT--A
1 CATAAAAAAATCAA
13911369 -ATAAAAAAATCAA
1 CATAAAAAAATCAA
13911382 CATAAAAAAATCAA
1 CATAAAAAAATCAA
13911396 AATCAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.06
11 8 0.24
12 6 0.18
13 4 0.12
14 13 0.39
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (14 bp):
CATAAAAAAATCAA
Found at i:13911403 original size:14 final size:14
Alignment explanation
Indices: 13911368--13911416 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
13911358 CATAAAAAAT
13911368 AATAAAAAAATCAA
1 AATAAAAAAATCAA
*
13911382 CATAAAAAAATCAA
1 AATAAAAAAATCAA
*
13911396 AATCAAAACAA--AA
1 AAT-AAAAAAATCAA
13911409 AATAAAAA
1 AATAAAAA
13911417 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 15 0.50
15 6 0.20
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:13911750 original size:20 final size:20
Alignment explanation
Indices: 13911725--13911798 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
13911715 TTTTGATCGT
* *
13911725 CGAAAAATTTAAATGGTCAC
1 CGAAAAATTCAAATGATCAC
* *
13911745 CGAAAAATTCAAACGATCAT
1 CGAAAAATTCAAATGATCAC
*
13911765 TGAAAAATTCAAATGATCAC
1 CGAAAAATTCAAATGATCAC
*
13911785 CAAAAAATTCAAAT
1 CGAAAAATTCAAAT
13911799 TTTTTCAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.23
Consensus pattern (20 bp):
CGAAAAATTCAAATGATCAC
Found at i:13916800 original size:20 final size:20
Alignment explanation
Indices: 13916771--13916808 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13916761 GATGCCTACA
*
13916771 AAATAATAGGCATGATATAC
1 AAATAATAGGCATAATATAC
*
13916791 AAATATTAGGCATAATAT
1 AAATAATAGGCATAATAT
13916809 TAGATGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (20 bp):
AAATAATAGGCATAATATAC
Found at i:13919583 original size:64 final size:65
Alignment explanation
Indices: 13919470--13919592 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 65
13919460 ACATAAACAT
* * *
13919470 CTTAAACGATCCTTTAAATTTTTTTTAAAAGAACCATTTAAGCC-GTTTT-TGCATAAAAAATGC
1 CTTAAACGATCCTTTAAATATTTTATAAAAGAACCATTTAAGCCATTTTTATGCATAAAAAATGC
* * * * **
13919533 CTTAAATGATCCTTTAAGGTATTTTATAAAAGGATCATTTAAGGTATTTTTATGCATAAA
1 CTTAAACGATCCTTTAA-ATATTTTATAAAAGAACCATTTAAGCCATTTTTATGCATAAA
13919593 TGCCTTAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
63 16 0.33
64 20 0.42
65 4 0.08
66 8 0.17
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (65 bp):
CTTAAACGATCCTTTAAATATTTTATAAAAGAACCATTTAAGCCATTTTTATGCATAAAAAATGC
Found at i:13919731 original size:39 final size:39
Alignment explanation
Indices: 13919686--13919791 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
13919676 GTTTCTGTAC
** *
13919686 AAAAAATGCCTTAAATGATCCTTTTATGTGTTTTTAT-A
1 AAAAAATGCCTTAAATGATCCTTTTATGCATTTCTATCA
* *
13919724 TAGAAAATACCTTAAATGATCCTTTTATGCATTTCTATGCA
1 -AAAAAATGCCTTAAATGATCCTTTTATGCATTTCTAT-CA
13919765 AAAAAATGCCTTAAATGATCCTTTTAT
1 AAAAAATGCCTTAAATGATCCTTTTAT
13919792 TTTTTTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 32 0.55
40 25 0.43
41 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (39 bp):
AAAAAATGCCTTAAATGATCCTTTTATGCATTTCTATCA
Found at i:13919810 original size:40 final size:39
Alignment explanation
Indices: 13919687--13919810 Score: 115
Period size: 40 Copynumber: 3.1 Consensus size: 39
13919677 TTTCTGTACA
* *
13919687 AAAAATGCCTTAAATGATCCTTTTA-TGTGTTTTTATAT
1 AAAAATGCCTTAAATGATCCTTTTATTATTTTTTTATAT
* * * * ** *
13919725 AGAAAATACCTTAAATGATCCTTTTATGCATTTCTATGCAA
1 A-AAAATGCCTTAAATGATCCTTTTAT-TATTTTTTTATAT
* *
13919766 AAAAATGCCTTAAATGATCCTTTTATTTTTTTTTTTTTAT
1 AAAAATGCCTTAAATGATCCTTTTA-TTATTTTTTTATAT
13919806 AAAAA
1 AAAAA
13919811 GATCATTTAA
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
38 1 0.02
39 23 0.35
40 34 0.52
41 7 0.11
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (39 bp):
AAAAATGCCTTAAATGATCCTTTTATTATTTTTTTATAT
Found at i:13920183 original size:99 final size:99
Alignment explanation
Indices: 13920072--13920275 Score: 304
Period size: 99 Copynumber: 2.1 Consensus size: 99
13920062 AATGCTTTAC
* * *
13920072 ATGATCCTTTTATTTTGTTATAAAATAATTATTTAAG-GTATTTTTTTTGTATAAAA-ATGCCTT
1 ATGATCATTTTATTTTGTTATAAAATAATTATTTAAGACTATTTTTTTTGTAGAAAACA--CCTT
*
13920135 AAATAGTCCTTTTATAAATTAAAAGATAATTATTAA
64 AAATAATCCTTTTATAAATTAAAAGATAATTATTAA
* * *
13920171 ATGATCATTTTATTTTGTTATAAAATGATTATTTAAGACTTTTTTTTTTGTAGAAAACACGTTAA
1 ATGATCATTTTATTTTGTTATAAAATAATTATTTAAGACTATTTTTTTTGTAGAAAACACCTTAA
*
13920236 ATAATCCTTTTATAAATTAAAGGATAATTATTAA
66 ATAATCCTTTTATAAATTAAAAGATAATTATTAA
13920270 ATGATC
1 ATGATC
13920276 CATAATATTA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 78 0.82
100 16 0.17
101 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (99 bp):
ATGATCATTTTATTTTGTTATAAAATAATTATTTAAGACTATTTTTTTTGTAGAAAACACCTTAA
ATAATCCTTTTATAAATTAAAAGATAATTATTAA
Found at i:13920316 original size:99 final size:97
Alignment explanation
Indices: 13920091--13920346 Score: 271
Period size: 99 Copynumber: 2.6 Consensus size: 97
13920081 TTATTTTGTT
* * * *
13920091 ATAAAATAATTATTTAAGGTATTTTTTTTGTATAAAA-ATGCCTTAAATAGTCCTTTTATAAATT
1 ATAAAATGATTATTTAAGGCA-TTTTTTTGTAGAAAACA--CCTTAAATAATCCTTTTATAAATT
** *****
13920155 AAAAGATAATTATTAAATGATCATTTTATTTTGTT
63 AAAAGATAATTATTAAATGATCATAATATTAAAAA
* * *
13920190 ATAAAATGATTATTTAAGACTTTTTTTTTTGTAGAAAACACGTTAAATAATCCTTTTATAAATTA
1 ATAAAATGATTATTTAAGGC--ATTTTTTTGTAGAAAACACCTTAAATAATCCTTTTATAAATTA
*
13920255 AAGGATAATTATTAAATGATCCATAATATTAAAAAA
64 AAAGATAATTATTAAATGAT-CATAATATT-AAAAA
* * *
13920291 ATAAAATGATCATTTAAGGCATTTTTTTGTAGAGAAACACCTTAAATGATCTTTTT
1 ATAAAATGATTATTTAAGGCATTTTTTTGTAGA-AAACACCTTAAATAATCCTTTT
13920347 GTTTTGTTAT
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
99 71 0.55
100 40 0.31
101 19 0.15
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (97 bp):
ATAAAATGATTATTTAAGGCATTTTTTTGTAGAAAACACCTTAAATAATCCTTTTATAAATTAAA
AGATAATTATTAAATGATCATAATATTAAAAA
Found at i:13920370 original size:64 final size:63
Alignment explanation
Indices: 13920291--13920409 Score: 148
Period size: 63 Copynumber: 1.9 Consensus size: 63
13920281 TATTAAAAAA
* * *
13920291 ATAAAATGATCATTTAAGGCATTTTTTTGTAGAGAAACACCTTAAATGATCTTTTTGTTTTGTT
1 ATAAAAAGATCATTTAAGGCATTTTTTT-TAGAGAAACACCTTAAATAATCATTTTGTTTTGTT
* *** **
13920355 ATAAAAAGATTATTTAAGTTGTTTTTTTTAGAGAAATGCCTTAAATAATCATTTT
1 ATAAAAAGATCATTTAAGGCATTTTTTTTAGAGAAACACCTTAAATAATCATTTT
13920410 ATTTGTAGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
63 23 0.50
64 23 0.50
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (63 bp):
ATAAAAAGATCATTTAAGGCATTTTTTTTAGAGAAACACCTTAAATAATCATTTTGTTTTGTT
Found at i:13922357 original size:5 final size:5
Alignment explanation
Indices: 13922347--13922371 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13922337 ATTGATGGGT
13922347 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
13922372 GGAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:13928924 original size:44 final size:44
Alignment explanation
Indices: 13928854--13928955 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
13928844 TAGAGGATTA
* * * * *
13928854 TTTTAAAGTTTTTTAGCTTTTGAATAGA-GGACCCATTTTTCTAT
1 TTTTAAAGTTGTTTAGCCTCTAAATAGAGGGACCCATTTCT-TAT
*
13928898 TTTTAAAGTTGTTTAGCCTCTAAATAGAGGGGCCCATTTCTTAT
1 TTTTAAAGTTGTTTAGCCTCTAAATAGAGGGACCCATTTCTTAT
**
13928942 TTGCAAAGTTGTTT
1 TTTTAAAGTTGTTT
13928956 GTCTTTATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 39 0.80
45 10 0.20
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.46
Consensus pattern (44 bp):
TTTTAAAGTTGTTTAGCCTCTAAATAGAGGGACCCATTTCTTAT
Found at i:13930219 original size:23 final size:22
Alignment explanation
Indices: 13930179--13930221 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13930169 TTGAAAACTC
*
13930179 CTAACCCTCGTGTGACTCGACT
1 CTAACCCTCGTGTAACTCGACT
*
13930201 CTAACCCTTGTGTCAACTCGA
1 CTAACCCTCGTGT-AACTCGA
13930222 TTCCAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.21, C:0.35, G:0.16, T:0.28
Consensus pattern (22 bp):
CTAACCCTCGTGTAACTCGACT
Found at i:13930333 original size:24 final size:26
Alignment explanation
Indices: 13930285--13930338 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
13930275 TGTTTTTGAT
13930285 TTTTGATTTTATCTCTATTTTTTTA-
1 TTTTGATTTTATCTCTATTTTTTTAG
13930310 TTTT-ATTTTAT-T-TATTATTGTTTAG
1 TTTTGATTTTATCTCTATT-TT-TTTAG
13930335 TTTT
1 TTTT
13930339 TAAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.15
23 3 0.12
24 11 0.42
25 8 0.31
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTTGATTTTATCTCTATTTTTTTAG
Found at i:13930424 original size:21 final size:21
Alignment explanation
Indices: 13930380--13930424 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13930370 TATTTATGAT
* *
13930380 TATTAATTGCATGATATTTCA
1 TATTAATTACATGATATATCA
13930401 TATTAATTACATGATAATAT-A
1 TATTAATTACATGAT-ATATCA
13930422 TAT
1 TAT
13930425 ATATATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
TATTAATTACATGATATATCA
Found at i:13930495 original size:18 final size:18
Alignment explanation
Indices: 13930469--13930506 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13930459 TTTTTCCTTT
* *
13930469 TTGCTTGATATAGTATTA
1 TTGCATGATATAATATTA
13930487 TTGCATGATATAATATTA
1 TTGCATGATATAATATTA
13930505 TT
1 TT
13930507 TTGTCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (18 bp):
TTGCATGATATAATATTA
Found at i:13933506 original size:19 final size:18
Alignment explanation
Indices: 13933466--13933508 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13933456 TTTGGCTTCA
**
13933466 GTTTAAAGGTTGATTTTTG
1 GTTT-AAGGTTGATTTGGG
13933485 GTTTAAGGTTTGATTTGGG
1 GTTTAAGG-TTGATTTGGG
13933504 GTTTA
1 GTTTA
13933509 GGGGTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (18 bp):
GTTTAAGGTTGATTTGGG
Found at i:13936083 original size:19 final size:18
Alignment explanation
Indices: 13936061--13936107 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
13936051 GACTTTAGGT
*
13936061 TTTAAGGTTTAATTTTGGG
1 TTTAAGGTTTAACTTT-GG
*
13936080 TTTAAGAG-TTGACTTTGG
1 TTTAAG-GTTTAACTTTGG
13936098 TTTAAGGTTT
1 TTTAAGGTTT
13936108 TGATTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 10 0.42
19 12 0.50
20 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (18 bp):
TTTAAGGTTTAACTTTGG
Found at i:13936110 original size:19 final size:18
Alignment explanation
Indices: 13936049--13936139 Score: 59
Period size: 18 Copynumber: 5.1 Consensus size: 18
13936039 GACCTTAGGG
13936049 TTGACTTTAGGTTTTAAGGT
1 TTGACTTT-GG-TTTAAGGT
* *
13936069 TTAATTTTGGGTTTAAGAG-
1 TTGACTTT-GGTTTAAG-GT
13936088 TTGACTTTGGTTTAAGGTT
1 TTGACTTTGGTTTAAGG-T
*
13936107 TTGA-TTTCG----AGGT
1 TTGACTTTGGTTTAAGGT
*
13936120 TTGACTTTGGTTTAGGGT
1 TTGACTTTGGTTTAAGGT
13936138 TT
1 TT
13936140 TGATTTTGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
13 5 0.09
14 7 0.13
17 1 0.02
18 17 0.31
19 16 0.29
20 9 0.16
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (18 bp):
TTGACTTTGGTTTAAGGT
Found at i:13936124 original size:32 final size:31
Alignment explanation
Indices: 13936088--13936155 Score: 109
Period size: 32 Copynumber: 2.2 Consensus size: 31
13936078 GGTTTAAGAG
13936088 TTGACTTTGGTTTAAGGTTTTGATTTCGAGGT
1 TTGACTTTGGTTTAAGGTTTTGATTTCG-GGT
* *
13936120 TTGACTTTGGTTTAGGGTTTTGATTTTGGGT
1 TTGACTTTGGTTTAAGGTTTTGATTTCGGGT
13936151 TTGAC
1 TTGAC
13936156 CTTAAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.13, C:0.06, G:0.29, T:0.51
Consensus pattern (31 bp):
TTGACTTTGGTTTAAGGTTTTGATTTCGGGT
Found at i:13936141 original size:19 final size:18
Alignment explanation
Indices: 13936088--13936148 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 18
13936078 GGTTTAAGAG
13936088 TTGACTTTGGTTTAAGGTT
1 TTGACTTTGGTTT-AGGTT
*
13936107 TTGA-TTTCG---AGG-T
1 TTGACTTTGGTTTAGGTT
13936120 TTGACTTTGGTTTAGGGTT
1 TTGACTTTGGTTTA-GGTT
*
13936139 TTGATTTTGG
1 TTGACTTTGG
13936149 GTTTGACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
17 1 0.03
18 6 0.18
19 14 0.42
ACGTcount: A:0.13, C:0.05, G:0.30, T:0.52
Consensus pattern (18 bp):
TTGACTTTGGTTTAGGTT
Found at i:13936221 original size:74 final size:76
Alignment explanation
Indices: 13936088--13936229 Score: 209
Period size: 74 Copynumber: 1.9 Consensus size: 76
13936078 GGTTTAAGAG
* *
13936088 TTGACTTTGGTTTAAGGTTTTGATTTCGAGGTTTGACTTTGGTTTAGGGTTTTGATTTTGGGTTT
1 TTGACTTTGGTTTAAGGTTTTGATTTCGAAGTTTAACTTTGGTTTAGGGTTTTGATTTTGGGTTT
13936153 GACCTTAAGGT
66 GACCTTAAGGT
* * *
13936164 TTGACTTTGG-TTAAGG-TTTGGTTTTGAAGTTTAACTTCT-GTTTAGGGTTTTGGTTTTGGGTT
1 TTGACTTTGGTTTAAGGTTTTGATTTCGAAGTTTAACTT-TGGTTTAGGGTTTTGATTTTGGGTT
13936226 TGAC
65 TGAC
13936230 TTTGGATTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 43 0.72
75 7 0.12
76 10 0.17
ACGTcount: A:0.14, C:0.06, G:0.29, T:0.51
Consensus pattern (76 bp):
TTGACTTTGGTTTAAGGTTTTGATTTCGAAGTTTAACTTTGGTTTAGGGTTTTGATTTTGGGTTT
GACCTTAAGGT
Found at i:13939014 original size:120 final size:121
Alignment explanation
Indices: 13938867--13939085 Score: 293
Period size: 120 Copynumber: 1.8 Consensus size: 121
13938857 AAAAAAAAAG
* * * * * *
13938867 AAATAAAGAGAATTTTTAAATAGGCCCAGATGGT-GAAGAATTTAGAAATTTTGAAA-AAGAAAA
1 AAATAAAGAAAATTTCTAAATAAGCCCAAATGGTAG-AGAATTGA-AAATTTTAAAACAAGAAAA
*
13938930 TATTTCTAAATTGATCCAAATGATGAAA-AATATAGAAATCCAAAAAAATATAATAAAT
64 TATTTCTAAATTGACCCAAATGATGAAATAAT-TAGAAATCCAAAAAAATATAATAAAT
13938988 AAATAAA-AAAATTTCTAAATAAGCCCAAATGGTAGAGAATTGAAAATTTTAAAACAAGAAAATA
1 AAATAAAGAAAATTTCTAAATAAGCCCAAATGGTAGAGAATTGAAAATTTTAAAACAAGAAAATA
* * *
13939052 TTTTTAATTTGACCCAAATGGTGAAATAATTAGA
66 TTTCTAAATTGACCCAAATGATGAAATAATTAGA
13939086 TATATTTTCA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
119 10 0.12
120 64 0.75
121 11 0.13
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (121 bp):
AAATAAAGAAAATTTCTAAATAAGCCCAAATGGTAGAGAATTGAAAATTTTAAAACAAGAAAATA
TTTCTAAATTGACCCAAATGATGAAATAATTAGAAATCCAAAAAAATATAATAAAT
Found at i:13942304 original size:9 final size:9
Alignment explanation
Indices: 13942263--13942327 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
13942253 ATAATGAGTG
13942263 AAAAAATGA
1 AAAAAATGA
*
13942272 AAGAAAGA-AA
1 AA-AAA-ATGA
*
13942282 AAAAAAGGGA
1 AAAAAA-TGA
13942292 AAAAAA--A
1 AAAAAATGA
13942299 AGAAAAATGA
1 A-AAAAATGA
13942309 AAAAAATGA
1 AAAAAATGA
13942318 AAAAAATGA
1 AAAAAATGA
13942327 A
1 A
13942328 GGAATGAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
7 2 0.04
8 6 0.13
9 23 0.49
10 15 0.32
11 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (9 bp):
AAAAAATGA
Found at i:13944016 original size:40 final size:41
Alignment explanation
Indices: 13943851--13944059 Score: 224
Period size: 41 Copynumber: 5.0 Consensus size: 41
13943841 GATTGTCAAT
* * * *
13943851 GAGCTTTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
1 GAGCATTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* * * * *
13943892 GAGCATTTTATTTTCCAAAGTTGTGGTGCCTATTTTTAGAG
1 GAGCATTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* *
13943933 GAGCATTTTATTTTTCAAAGTTGTT-ATGCCTCTGTTTAAAG
1 GAGCATTTTATTTTTCAAAGTTGTTGA-GCCTCTATTTAGAG
** *
13943974 GAGCA-TTTATTTTTCAAAGTCATTGAGCCTTTATTTAGAG
1 GAGCATTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
* *
13944014 GAGCATTATTTATTTTTCCAAAGTTGTGGAGCCTCTGTTTAGAG
1 GAGCA-T-TTTATTTTT-CAAAGTTGTTGAGCCTCTATTTAGAG
13944058 GA
1 GA
13944060 ATTTTTATGT
Statistics
Matches: 141, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
40 33 0.23
41 76 0.54
43 9 0.06
44 23 0.16
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (41 bp):
GAGCATTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
Found at i:13946245 original size:51 final size:50
Alignment explanation
Indices: 13946147--13946245 Score: 110
Period size: 51 Copynumber: 1.9 Consensus size: 50
13946137 TTTAAATAAG
* ***
13946147 CCCAAATGGTAAAAAATTTAGAAATTTCGAAAAAAAATATTTCTAAATTGA
1 CCCAAATGGTAAAAAATTTAGAAA-TTCCAAAAAAAATATAAATAAATTGA
**
13946198 CCCAAATGGTGGAAAATTTAGAAA-TCCAAAAAATAATACTAAATAAAT
1 CCCAAATGGTAAAAAATTTAGAAATTCCAAAAAA-AATA-TAAATAAAT
13946246 AAAAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
49 8 0.20
50 4 0.10
51 28 0.70
ACGTcount: A:0.53, C:0.11, G:0.10, T:0.26
Consensus pattern (50 bp):
CCCAAATGGTAAAAAATTTAGAAATTCCAAAAAAAATATAAATAAATTGA
Found at i:13946369 original size:31 final size:31
Alignment explanation
Indices: 13946331--13946389 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13946321 CAAATGGTGG
* *
13946331 AATAATTAGATATATTTTCGATAATAAAAAA
1 AATAATTAAACATATTTTCGATAATAAAAAA
* *
13946362 AATAATTAAACATTTTTTCGATGATAAA
1 AATAATTAAACATATTTTCGATAATAAA
13946390 GCCTTTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (31 bp):
AATAATTAAACATATTTTCGATAATAAAAAA
Found at i:13947694 original size:10 final size:10
Alignment explanation
Indices: 13947678--13947761 Score: 82
Period size: 10 Copynumber: 8.3 Consensus size: 10
13947668 GAAGAAAAGA
13947678 ATGAATCTTG
1 ATGAATCTTG
*
13947688 TTGAATCTTG
1 ATGAATCTTG
*
13947698 AAGAATCTTG
1 ATGAATCTTG
*
13947708 TTGAATCTTG
1 ATGAATCTTG
*
13947718 AAGAATCTTG
1 ATGAATCTTG
13947728 AT-AACTCTTG
1 ATGAA-TCTTG
*
13947738 ATCAATCTTGG
1 ATGAATCTT-G
13947749 ATG-ATACTTG
1 ATGAAT-CTTG
13947759 ATG
1 ATG
13947762 CATTAGAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.03
10 51 0.84
11 8 0.13
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (10 bp):
ATGAATCTTG
Found at i:13947738 original size:20 final size:20
Alignment explanation
Indices: 13947680--13947727 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
13947670 AGAAAAGAAT
13947680 GAATCTTGTTGAATCTTGAA
1 GAATCTTGTTGAATCTTGAA
13947700 GAATCTTGTTGAATCTTGAA
1 GAATCTTGTTGAATCTTGAA
13947720 GAATCTTG
1 GAATCTTG
13947728 ATAACTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (20 bp):
GAATCTTGTTGAATCTTGAA
Found at i:13951431 original size:20 final size:20
Alignment explanation
Indices: 13951395--13951432 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13951385 AAAAAAAACA
*
13951395 AAAATTAAGAAATAAAAATT
1 AAAATTAAGAAACAAAAATT
13951415 AAAATT-AGAAAACAAAAA
1 AAAATTAAG-AAACAAAAA
13951433 AAATCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATTAAGAAACAAAAATT
Found at i:13953047 original size:111 final size:112
Alignment explanation
Indices: 13952397--13953097 Score: 479
Period size: 113 Copynumber: 6.2 Consensus size: 112
13952387 TACATTTTAT
* * * * * * *
13952397 TTTTCTTCATATTTTCAACAAATATTGCATTTATTAATCTTAGAAAAGTCTTTTTTTTCAACAAA
1 TTTT-TTCATGTTTTCAACAAAAATTAC-TTT-TTTATCTTAGAAATGT-TATCTTTTCAACAAA
* * ** * * * *
13952462 AATTATGTTTT-GATCTTAAAAACATCATCTTTATTGAATTCTAAAAAGTATA
62 GACTACATTTTCTATCTTAGAAATATCATCTTTATTGAATT-TTAAAA-TATA
* * * * * *
13952514 TTATTTCATGTTTTCAACAAATATT-GTGATTTTATCTTAGAAACGTTATCTTTTCCACAAAGAC
1 TTTTTTCATGTTTTCAACAAAAATTACT-TTTTTATCTTAGAAATGTTATCTTTTCAACAAAGAC
* * * * * *
13952578 TACATTTTTTATCTTAGAAATGTCGTTTTTATTAAATTCTGAAACATATA
65 TACATTTTCTATCTTAGAAATATCATCTTTATTGAATT-TTAAA-ATATA
** * * *
13952628 -TTTTTCATGTTTTCAACAAAAACTGTA--TTTTTATCTTAGAAACATTGTCTTTTCAATAAATA
1 TTTTTTCATGTTTTCAACAAAAA-T-TACTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGA
*** * * * * * * * *
13952690 CTGTGTTTTCTATCTTAAAAAAATCACCTTTGTTGTATTCTAAAAAACAA
64 CTACATTTTCTATCTTAGAAATATCATCTTTATTGAATTTTAAAATA-TA
* ** * * * *
13952740 TTTTTAT-ATGTTTACAA-AAAACCTACATTTTTATCATAGAAATGTCATCTTTTCAACAAAGAT
1 TTTTT-TCATGTTTTCAACAAAAATTACTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGAC
** * *
13952803 TATGTTTT-TATCTTATAAACATCATCTTTATTGAATTTTGAAAAATATATA
65 TACATTTTCTATCTTAGAAATATCATCTTTATTGAATTTT---AAA-ATATA
* * * *
13952854 CTTTTTTTATTTTTTCAATAAAAAACT-CTATTTTTATCTTAGAAATGTTATCTTTTCAACAAAG
1 -TTTTTTCATGTTTTCAA-CAAAAATTACT-TTTTTATCTTAGAAATGTTATCTTTTCAACAAAG
* * *
13952918 TCTACGTTTT-TATCTTAGAAATATCATCTTTATTGAATTTTAAAATATG
63 ACTACATTTTCTATCTTAGAAATATCATCTTTATTGAATTTTAAAATATA
* * * * * *
13952967 TTTTTTCATGTTTTAAATAAAAATTACTTTTTTATCTTAAAAATATCAT-TTTTCAATAAAGACT
1 TTTTTTCATGTTTTCAACAAAAATTACTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACT
* * * * * *
13953031 GCATTTTCTATCTTAGAAATGTCGTCTTTGTTGAATTCTAAAAAATA
66 ACATTTTCTATCTTAGAAATATCATCTTTATTGAATTTTAAAATATA
*
13953078 TTTTTTCATGTTTACAACAA
1 TTTTTTCATGTTTTCAACAA
13953098 CGATGTGTTT
Statistics
Matches: 463, Mismatches: 99, Indels: 50
0.76 0.16 0.08
Matches are distributed among these distances:
110 20 0.04
111 101 0.22
112 59 0.13
113 111 0.24
114 56 0.12
115 18 0.04
116 21 0.05
117 77 0.17
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (112 bp):
TTTTTTCATGTTTTCAACAAAAATTACTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACT
ACATTTTCTATCTTAGAAATATCATCTTTATTGAATTTTAAAATATA
Found at i:13953067 original size:228 final size:223
Alignment explanation
Indices: 13952433--13953090 Score: 602
Period size: 228 Copynumber: 2.9 Consensus size: 223
13952423 GCATTTATTA
* * * *
13952433 ATCTTAGAAAAGTCTTTTTTTTCAACAAAAAT-TATGTTTTGATCTTAAAAACATCATCTTTATT
1 ATCTTAGAAAAGT-TATCTTTTCAAC--AAATCTATGTTTTTATCTTAAAAAAATCATCTTTATT
* * * * * * * *
13952497 GAATTCTAAAAAGTATATTATTTCATGTTTTCAACAAATATT-GTGATTTTATCTTAGAAACGTT
63 GAATT-TTAAAA-TATATTTTTTCATGTTTT-AAAAAAAATTACT-TTTTTATCTTAGAAATGTC
* * * *
13952561 ATCTTTTCCACAAAGACTACATTTTTTATCTTAGAAATGTCGTTTTTATTAAATTCTG--AAACA
124 ATCTTTTCAACAAAGACT-CATTTTTTATCTTAGAAATGTCGTCTTTATTGAATTCTGAAAAATA
* *
13952624 TATATTTTTCATGTTTTCAACAAAAACTGTATTTTT
188 TATATTTTTCATGTTTTCAAAAAAAACTCTATTTTT
* * * * *
13952660 ATCTTAGAAACA-TTGTCTTTTCAATAAATACTGTGTTTTCTATCTTAAAAAAATCACCTTTGTT
1 ATCTTAGAAA-AGTTATCTTTTCAACAAAT-CTATGTTTT-TATCTTAAAAAAATCATCTTTATT
* * * * ** * *
13952724 GTATTCTAAAAAACAATTTTTAT-ATG-TTTACAAAAAACCTACATTTTTATCATAGAAATGTCA
63 GAATTTTAAAATA-TATTTTT-TCATGTTTTA-AAAAAAATTACTTTTTTATCTTAGAAATGTCA
* * ** * *
13952787 TCTTTTCAACAAAGA-TTATGTTTTTATCTTATAAACATCATCTTTATTGAATTTTGAAAAATAT
125 TCTTTTCAACAAAGACTCAT-TTTTTATCTTAGAAATGTCGTCTTTATTGAATTCTGAAAAATAT
* *
13952851 ATACTTTTTTTATTTTTTCAATAAAAAACTCTATTTTT
189 ATA--TTTTTCATGTTTTCAA-AAAAAACTCTATTTTT
* * * *
13952889 ATCTTAGAAATGTTATCTTTTCAACAAAGTCTACGTTTTTATCTTAGAAATATCATCTTTATTGA
1 ATCTTAGAAAAGTTATCTTTTCAACAAA-TCTATGTTTTTATCTTAAAAAAATCATCTTTATTGA
* * *
13952954 ATTTTAAAATATGTTTTTTCATGTTTTAAATAAAAATTACTTTTTTATCTTAAAAATATCAT-TT
65 ATTTTAAAATATATTTTTTCATGTTTTAAA-AAAAATTACTTTTTTATCTTAGAAATGTCATCTT
* * *
13953018 TTCAATAAAGACTGCATTTTCTATCTTAGAAATGTCGTCTTTGTTGAATTCT-AAAAA-ATAT-T
129 TTCAACAAAGACT-CATTTTTTATCTTAGAAATGTCGTCTTTATTGAATTCTGAAAAATATATAT
13953080 TTTTCATGTTT
193 TTTTCATGTTT
13953091 ACAACAACGA
Statistics
Matches: 341, Mismatches: 69, Indels: 46
0.75 0.15 0.10
Matches are distributed among these distances:
223 12 0.04
224 35 0.10
225 39 0.11
226 41 0.12
227 63 0.18
228 103 0.30
229 47 0.14
230 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (223 bp):
ATCTTAGAAAAGTTATCTTTTCAACAAATCTATGTTTTTATCTTAAAAAAATCATCTTTATTGAA
TTTTAAAATATATTTTTTCATGTTTTAAAAAAAATTACTTTTTTATCTTAGAAATGTCATCTTTT
CAACAAAGACTCATTTTTTATCTTAGAAATGTCGTCTTTATTGAATTCTGAAAAATATATATTTT
TCATGTTTTCAAAAAAAACTCTATTTTT
Found at i:13953109 original size:111 final size:111
Alignment explanation
Indices: 13952474--13953215 Score: 501
Period size: 111 Copynumber: 6.6 Consensus size: 111
13952464 TTATGTTTTG
* * * * *
13952474 ATCTTAAAAACATCATCTTTATTGAATTCTAAAAAGTATATTATTTCATGTTTTCAACAAATATT
1 ATCTTAGAAATATCATCTTTATTGAATTCTAAAAA--ATATTTTTTCATGTTTACAACAAAAATT
* * * * *
13952539 GTGATTTTATCTTAGAAACGTTATCTTTTCCACAAAGACTACATTTTTT
64 CT-TTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
* * * * * * * * *
13952588 ATCTTAGAAATGTCGTTTTTATTAAATTCTGAAACATATATTTTTCATGTTTTCAACAAAAACTG
1 ATCTTAGAAATATCATCTTTATTGAATTCTAAAAAATAT-TTTTTCATGTTTACAACAAAAATTC
** * * * ***
13952653 TATTTTTATCTTAGAAACATTGTCTTTTCAATAAATACTGTGTTTTCT
65 T-TTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
* * * * * * *
13952701 ATCTTAAAAAAATCACCTTTGTTGTATTCTAAAAAACAATTTTTAT-ATGTTTACAA-AAAACCT
1 ATCTTAGAAATATCATCTTTATTGAATTCTAAAAAA-TATTTTT-TCATGTTTACAACAAAA-AT
* * * * * **
13952764 ACATTTTTATCATAGAAATGTCATCTTTTCAACAAAGATTATGTTTT-T
63 TCTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
* * * * * * *
13952812 ATCTTATAAACATCATCTTTATTGAATTTTGAAAAATATATACTTTTTTTATTTTTTCAATAAAA
1 ATCTTAGAAATATCATCTTTATTGAATTCT--AAAA-A-ATA-TTTTTTCATGTTTACAA-CAAA
* * *
13952877 AACTCTATTTTTATCTTAGAAATGTTATCTTTTCAACAAAGTCTACGTTTT-T
60 AATTCT-TTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
* * * *
13952929 ATCTTAGAAATATCATCTTTATTGAATTTTAAAATATGTTTTTTCATGTTTTA-AATAAAAATTA
1 ATCTTAGAAATATCATCTTTATTGAATTCTAAAAAATATTTTTTCATG-TTTACAACAAAAATT-
* * * * *
13952993 CTTTTTTATCTTAAAAATATCAT-TTTTCAATAAAGACTGCATTTTCT
64 CTTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
* * * **
13953040 ATCTTAGAAATGTCGTCTTTGTTGAATTCTAAAAAATATTTTTTCATGTTTACAACAACGATGT-
1 ATCTTAGAAATATCATCTTTATTGAATTCTAAAAAATATTTTTTCATGTTTACAACAAAAAT-TC
* * ** * * * *
13953104 GTTTTTATATTAGAAATGTCCTTTTTTTAACAAAAACTATTATTTT-T
65 TTTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTA-CATTTTCT
* * * * * * **
13953151 ATCTTAAAAATTTCGTCCTTATTAAATTCTAAAAAAAAATATTTTTTCATATTTTTAACAAAAAT
1 ATCTTAGAAATATCATCTTTATTGAATTCT---AAAAAATATTTTTTCATGTTTACAACAAAAAT
13953216 CATGTTTTGG
Statistics
Matches: 493, Mismatches: 112, Indels: 46
0.76 0.17 0.07
Matches are distributed among these distances:
110 39 0.08
111 136 0.28
112 61 0.12
113 106 0.22
114 60 0.12
115 18 0.04
116 1 0.00
117 72 0.15
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (111 bp):
ATCTTAGAAATATCATCTTTATTGAATTCTAAAAAATATTTTTTCATGTTTACAACAAAAATTCT
TTTTTATCTTAGAAATGTTATCTTTTCAACAAAGACTACATTTTCT
Found at i:13953206 original size:339 final size:342
Alignment explanation
Indices: 13952451--13953214 Score: 763
Period size: 338 Copynumber: 2.3 Consensus size: 342
13952441 AAAGTCTTTT
* * * * * **
13952451 TTTTCAACAAAAATTATGTTTTGATCTTAAAAACATCATCTTTATTGAATTCT--AAAAAGTATA
1 TTTTCAACAAAAACTATATTTTTATCTTAAAAACATCATCCTTATTAAATTCTGAAAAAAAAATA
* * * * * * * *
13952514 -TTATTTCATGTTTTCAA-CAAATATTGTGA-TTTTATCTTAGAAACGTTATCTTTTCCACAAAG
66 CTTTTTTTATTTTTTCAATAAAAAACTCT-ATTTTTATCTTAGAAACGTTATCTTTTCAACAAAG
* * * *
13952576 ACTACATTTTTTATCTTAGAAATGTCGTTTTTATTAAATTCTGAAACATATATTTTTCATGTTTT
130 ACTACAGTTTTTATCTTAGAAATATCATCTTTATTAAATTCTGAAACATATATTTTTCATGTTTT
* * ** * **
13952641 CAACAAAAACTGTATTTTTATCTTAGAAACATTGTCTTTTCAATAAATACTGTGTTTTCTATCTT
195 AAACAAAAACTGTATTTTTATCTTAAAAACATCATCTTTTCAATAAAGACTGCATTTTCTATCTT
* *
13952706 AAAAAAATCACCTTTGTTGTATTCTAAAAAACAATTTTTATATGTTTACAAAAAACCTACATTTT
260 AAAAAAATCACCTTTGTTGAATTCTAAAAAACAATTTTTATATGTTTACAAAAAACATACATTTT
13952771 TATCATAGAAATGTCATC
325 TATCATAGAAATGTCATC
* * * * * * * * *
13952789 TTTTCAACAAAGATTATGTTTTTATCTTATAAACATCATCTTTATTGAATTTTGAAAAATATATA
1 TTTTCAACAAAAACTATATTTTTATCTTAAAAACATCATCCTTATTAAATTCTGAAAAAAAAATA
* *
13952854 CTTTTTTTATTTTTTCAATAAAAAACTCTATTTTTATCTTAGAAATGTTATCTTTTCAACAAAGT
66 CTTTTTTTATTTTTTCAATAAAAAACTCTATTTTTATCTTAGAAACGTTATCTTTTCAACAAAGA
* * *
13952919 CTAC-GTTTTTATCTTAGAAATATCATCTTTATTGAATT-TTAAA-ATATGTTTTTTCATGTTTT
131 CTACAGTTTTTATCTTAGAAATATCATCTTTATTAAATTCTGAAACATAT-ATTTTTCATGTTTT
* *
13952981 AAATAAAAA-T-TACTTTTTTATCTTAAAAATATCAT-TTTTCAATAAAGACTGCATTTTCTATC
195 AAACAAAAACTGTA--TTTTTATCTTAAAAACATCATCTTTTCAATAAAGACTGCATTTTCTATC
* ** ** * * ***
13953043 TTAGAAATGTCGTCTTTGTTGAATTCTAAAAAA-TATTTTT-TCATGTTTAC-AACAACGATGTG
258 TTAAAAAAATCACCTTTGTTGAATTCTAAAAAACAATTTTTAT-ATGTTTACAAAAAAC-ATACA
* *
13953105 TTTTTAT-ATTAGAAATGTCCTT
321 TTTTTATCA-TAGAAATGTCATC
* ** *
13953127 TTTTTAACAAAAACTATTATTTTTATCTTAAAAATTTCGTCCTTATTAAATTCT-AAAAAAAAAT
1 TTTTCAACAAAAACTA-TATTTTTATCTTAAAAACATCATCCTTATTAAATTCTGAAAAAAAAAT
* *
13953191 A-TTTTTTCATATTTTT-AACAAAAA
65 ACTTTTTTTAT-TTTTTCAATAAAAA
13953215 TCATGTTTTG
Statistics
Matches: 352, Mismatches: 61, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
337 22 0.06
338 111 0.32
339 85 0.24
340 49 0.14
341 44 0.12
342 41 0.12
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (342 bp):
TTTTCAACAAAAACTATATTTTTATCTTAAAAACATCATCCTTATTAAATTCTGAAAAAAAAATA
CTTTTTTTATTTTTTCAATAAAAAACTCTATTTTTATCTTAGAAACGTTATCTTTTCAACAAAGA
CTACAGTTTTTATCTTAGAAATATCATCTTTATTAAATTCTGAAACATATATTTTTCATGTTTTA
AACAAAAACTGTATTTTTATCTTAAAAACATCATCTTTTCAATAAAGACTGCATTTTCTATCTTA
AAAAAATCACCTTTGTTGAATTCTAAAAAACAATTTTTATATGTTTACAAAAAACATACATTTTT
ATCATAGAAATGTCATC
Found at i:13953972 original size:21 final size:21
Alignment explanation
Indices: 13953933--13953972 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13953923 AGTAGGGCAT
* *
13953933 TATTTAAATGCCCTTTATGGG
1 TATTTAAATGCCATATATGGG
*
13953954 TATTTGAATGCCATATATG
1 TATTTAAATGCCATATATG
13953973 CCAAATGGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (21 bp):
TATTTAAATGCCATATATGGG
Found at i:13955208 original size:26 final size:26
Alignment explanation
Indices: 13955179--13955266 Score: 101
Period size: 26 Copynumber: 3.4 Consensus size: 26
13955169 CCATCTAAAA
13955179 TTTAGGGTTTTCATTTAATGGTTTCC
1 TTTAGGGTTTTCATTTAATGGTTTCC
13955205 TTTAGGG-TTTCAACTTT-ATGGTTTCC
1 TTTAGGGTTTTC-A-TTTAATGGTTTCC
* * *
13955231 TTTAGGATTTTGATTTAA-GGTTTCAA
1 TTTAGGGTTTTCATTTAATGGTTTC-C
13955257 TTTAGGGTTT
1 TTTAGGGTTT
13955267 ATGGAATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
25 13 0.25
26 34 0.64
27 6 0.11
ACGTcount: A:0.18, C:0.09, G:0.20, T:0.52
Consensus pattern (26 bp):
TTTAGGGTTTTCATTTAATGGTTTCC
Found at i:13955221 original size:14 final size:14
Alignment explanation
Indices: 13955204--13955266 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 14
13955194 TAATGGTTTC
13955204 CTTTAGGGTTTCAA
1 CTTTAGGGTTTCAA
*
13955218 CTTTATGGTTTC--
1 CTTTAGGGTTTCAA
* **
13955230 CTTTAGGATTTTGA
1 CTTTAGGGTTTCAA
*
13955244 -TTTAAGGTTTCAA
1 CTTTAGGGTTTCAA
13955257 -TTTAGGGTTT
1 CTTTAGGGTTT
13955267 ATGGAATTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
12 9 0.24
13 18 0.47
14 11 0.29
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.51
Consensus pattern (14 bp):
CTTTAGGGTTTCAA
Found at i:13955396 original size:23 final size:23
Alignment explanation
Indices: 13955383--13955435 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
13955373 TATTTTTCTT
13955383 TTTATTAAAAATTTATTATTATA
1 TTTATTAAAAATTTATTATTATA
* * *
13955406 TTTATTAATATTTTATTATTTTA
1 TTTATTAAAAATTTATTATTATA
13955429 TTT-TTAA
1 TTTATTAA
13955436 CATTTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATTAAAAATTTATTATTATA
Found at i:13955410 original size:12 final size:12
Alignment explanation
Indices: 13955393--13955431 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
13955383 TTTATTAAAA
13955393 ATTTATTATTAT
1 ATTTATTATTAT
*
13955405 ATTTATTAATAT
1 ATTTATTATTAT
*
13955417 -TTTATTATTTT
1 ATTTATTATTAT
13955428 ATTT
1 ATTT
13955432 TTAACATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATTATTAT
Found at i:13955474 original size:3 final size:3
Alignment explanation
Indices: 13955466--13955492 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13955456 TTTAGACGAA
13955466 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
13955493 TAAAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13955557 original size:3 final size:3
Alignment explanation
Indices: 13955549--13955576 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13955539 AAAATTTTTC
13955549 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13955577 CATCTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13957467 original size:20 final size:20
Alignment explanation
Indices: 13957444--13957488 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13957434 TTTAAAAGTC
13957444 TTTTAAATTTTTTGC-TTTTA
1 TTTTAAATTTTTT-CATTTTA
**
13957464 TTTTTTATTTTTTCATTTTA
1 TTTTAAATTTTTTCATTTTA
13957484 TTTTA
1 TTTTA
13957489 TGGTGTCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTAAATTTTTTCATTTTA
Found at i:13960621 original size:20 final size:19
Alignment explanation
Indices: 13960582--13960646 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
13960572 CTTAGGGTTT
13960582 TGGTTTAGGGTTTGCATGG
1 TGGTTTAGGGTTTGCATGG
**
13960601 TGGTTTAGGGATTTGTGTGG
1 TGGTTTAGGG-TTTGCATGG
* *
13960621 TGGTTTGGGTGTTTGCATAG
1 TGGTTTAGG-GTTTGCATGG
13960641 TGGTTT
1 TGGTTT
13960647 GAATTTTAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.26
20 27 0.71
21 1 0.03
ACGTcount: A:0.09, C:0.03, G:0.42, T:0.46
Consensus pattern (19 bp):
TGGTTTAGGGTTTGCATGG
Found at i:13963260 original size:16 final size:16
Alignment explanation
Indices: 13963226--13963287 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
13963216 ATACAAGCTC
**
13963226 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
13963242 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
** *
13963258 ATATGTAA-TGATAAAG
1 ATA-CCAATTGTTAAAG
13963274 TATACCAATTGTTA
1 -ATACCAATTGTTA
13963288 TCACAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 26 0.74
17 9 0.26
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:13966119 original size:21 final size:20
Alignment explanation
Indices: 13966095--13966137 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13966085 TTTTCATTCA
13966095 TCAAATCATCAAATTT-CTTTT
1 TCAAATCA--AAATTTCCTTTT
13966116 TCAAATCAAAATTTCCTTTT
1 TCAAATCAAAATTTCCTTTT
13966136 TC
1 TC
13966138 TAAGAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (20 bp):
TCAAATCAAAATTTCCTTTT
Found at i:13972557 original size:11 final size:11
Alignment explanation
Indices: 13972525--13972551 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13972515 ATAAAATGAC
13972525 TATTATATTCT
1 TATTATATTCT
13972536 TATTATATTCT
1 TATTATATTCT
13972547 TATTA
1 TATTA
13972552 ATTTCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATATTCT
Found at i:13972949 original size:25 final size:25
Alignment explanation
Indices: 13972912--13972969 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
13972902 ACATATATCT
*
13972912 TTTCCTTTCCTTTAATTAACTTTCC
1 TTTCTTTTCCTTTAATTAACTTTCC
* * * *
13972937 TTTCTTTTTCTTTACTTTACTTTCT
1 TTTCTTTTCCTTTAATTAACTTTCC
13972962 TTTCTTTT
1 TTTCTTTT
13972970 ACTAATGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTCTTTTCCTTTAATTAACTTTCC
Found at i:13972972 original size:20 final size:20
Alignment explanation
Indices: 13972930--13972968 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13972920 CCTTTAATTA
*
13972930 ACTTTCCTTTCTTTTTCTTT
1 ACTTTACTTTCTTTTTCTTT
13972950 ACTTTACTTTC-TTTTCTTT
1 ACTTTACTTTCTTTTTCTTT
13972969 TACTAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (20 bp):
ACTTTACTTTCTTTTTCTTT
Found at i:13977879 original size:13 final size:13
Alignment explanation
Indices: 13977861--13977895 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
13977851 TTCAACTTGA
13977861 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
13977874 ATTAAATATATAT
1 ATTAAATTTAAAT
13977887 ATTAAATTT
1 ATTAAATTT
13977896 GAATTAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:13978030 original size:13 final size:13
Alignment explanation
Indices: 13977987--13978035 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
13977977 TAAAAATAAT
13977987 AATTTTATATTAA
1 AATTTTATATTAA
13978000 AA-TTTAT-TT-A
1 AATTTTATATTAA
13978010 AA---TATATTAA
1 AATTTTATATTAA
13978020 AATTTTATATTAA
1 AATTTTATATTAA
13978033 AAT
1 AAT
13978036 AATATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.10
9 2 0.06
10 6 0.19
11 2 0.06
12 5 0.16
13 13 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTTATATTAA
Found at i:13978052 original size:33 final size:32
Alignment explanation
Indices: 13977978--13978054 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
13977968 TTTATAAAAT
* *
13977978 AAAAA-TAATAATTTTATATTAAAATTTATTTA
1 AAAAATTAA-AATTTTATATTAAAATATATATA
*
13978010 AATATATTAAAATTTTATATTAAAATAATATATA
1 AA-AAATTAAAATTTTATATTAAAAT-ATATATA
13978044 AAAAATTAAAA
1 AAAAATTAAAA
13978055 AATAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 26 0.68
34 10 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAAATTAAAATTTTATATTAAAATATATATA
Found at i:13978059 original size:22 final size:24
Alignment explanation
Indices: 13978031--13978079 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
13978021 ATTTTATATT
*
13978031 AAAATAATATAT-AAA-AAATTAA
1 AAAATAATAAATCAAACAAATTAA
13978053 AAAATAATAAATCAAATCAAATTAA
1 AAAATAATAAATCAAA-CAAATTAA
13978078 AA
1 AA
13978080 TTTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 3 0.13
25 9 0.39
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATAATAAATCAAACAAATTAA
Found at i:13978069 original size:20 final size:20
Alignment explanation
Indices: 13978028--13978063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13978018 AAAATTTTAT
13978028 ATTAAAATAATATATAAAAA
1 ATTAAAATAATATATAAAAA
13978048 ATTAAAA-AATA-ATAAA
1 ATTAAAATAATATATAAA
13978064 TCAAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
ATTAAAATAATATATAAAAA
Found at i:13979154 original size:13 final size:14
Alignment explanation
Indices: 13979136--13979166 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13979126 TTTTTTAAAT
13979136 TTAATTAAT-TATA
1 TTAATTAATATATA
13979149 TTAATTAATATATA
1 TTAATTAATATATA
13979163 TTAA
1 TTAA
13979167 AAATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAATTAATATATA
Found at i:13980005 original size:61 final size:62
Alignment explanation
Indices: 13979892--13980023 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 62
13979882 ATGCTTTAAA
* * *
13979892 TAATTGATCAATTAAGTTATTATAAAAAAAGATCATTTAAGGCATTTTTGTATATAAAATGCCT
1 TAATTGATCAATTAAG-TATTATAAAAAAAGATCAATTAAAGCATTTGTGTATA-AAAATGCCT
*
13979956 TAATTGATCAATT-A-T-TTA-AAAAACAAGGATCAATTAAAGCATTTGTGTATAGAAATGCCT
1 TAATTGATCAATTAAGTATTATAAAAA-AA-GATCAATTAAAGCATTTGTGTATAAAAATGCCT
*
13980016 TAAATGAT
1 TAATTGAT
13980024 TGAGCAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
59 5 0.08
60 20 0.33
61 22 0.36
63 1 0.02
64 13 0.21
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (62 bp):
TAATTGATCAATTAAGTATTATAAAAAAAGATCAATTAAAGCATTTGTGTATAAAAATGCCT
Found at i:13989630 original size:11 final size:11
Alignment explanation
Indices: 13989608--13989646 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
13989598 TTTTGTTCAA
13989608 AAAATATTTTTC
1 AAAAT-TTTTTC
13989620 AAAATTTTTTC
1 AAAATTTTTTC
13989631 AAAATTTTTTC
1 AAAATTTTTTC
13989642 AAAAT
1 AAAAT
13989647 CATCCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATTTTTTC
Found at i:13994076 original size:155 final size:157
Alignment explanation
Indices: 13993790--13994172 Score: 396
Period size: 155 Copynumber: 2.4 Consensus size: 157
13993780 GACTTAGCTC
* ** *
13993790 AATTATATGTTATTAGCCTTGTTTGAATTGTTGAACTTGATTGTTTTGCTTGGTTTGTGTGAAAA
1 AATTATATGATATTAAACTTGTTTGAATGGTTGAACTTGATTGTTTTGCTTGGTTTGTGTGAAAA
* * ** * **
13993855 TGTTACGGTTCTATTTTTTAGATTTTTCATGTAGTAAAAAGGAAAAATTGTAAATCCGTTGTTAT
66 TGTTACGATTCTATTTTTTAGACTAGTCATGTAGTAAAAAGGAAAAATTGTAAATCCGCTACTAT
*
13993920 ATTTCTTA-TTAGCGACTTAAATAACT
131 ATTTCTAATTTAGCGACTTAAATAACT
* *
13993946 -ATTATATGATATTAAACTTGTTTGAATGGTTGAGCTTAATTGTTTTGCTTGGTTTGTGTGAAAA
1 AATTATATGATATTAAACTTGTTTGAATGGTTGAACTTGATTGTTTTGCTTGGTTTGTGTGAAAA
* * * * * * * **
13994010 TGTTACATATTAGTATTTTTTGGACTAGTCGTGT-GTTAAAGGGGAAAATTG-AAATTTGCTACT
66 TGTTAC-GATT-CTATTTTTTAGACTAGTCATGTAGTAAAAAGGAAAAATTGTAAATCCGCTACT
* * *
13994073 ATATTTCTAATTTAGTGGCTTAAATAGCT
129 ATATTTCTAATTTAGCGACTTAAATAACT
* * ** * * * * *
13994102 CAATTATATTATATTAAACTTATCCGAATGGTTGAACTTGACTGCTTTGCTTGATTTATGGGAAA
1 -AATTATATGATATTAAACTTGTTTGAATGGTTGAACTTGATTGTTTTGCTTGGTTTGTGTGAAA
13994167 ATGTTA
65 ATGTTA
13994173 TAGTGTTTTG
Statistics
Matches: 185, Mismatches: 37, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
155 80 0.43
156 31 0.17
157 16 0.09
158 58 0.31
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (157 bp):
AATTATATGATATTAAACTTGTTTGAATGGTTGAACTTGATTGTTTTGCTTGGTTTGTGTGAAAA
TGTTACGATTCTATTTTTTAGACTAGTCATGTAGTAAAAAGGAAAAATTGTAAATCCGCTACTAT
ATTTCTAATTTAGCGACTTAAATAACT
Found at i:13995974 original size:13 final size:13
Alignment explanation
Indices: 13995956--13995984 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13995946 TTTCACTTCA
13995956 AGGGTTTTATTTT
1 AGGGTTTTATTTT
13995969 AGGGTTTTATTTT
1 AGGGTTTTATTTT
13995982 AGG
1 AGG
13995985 TTTCGGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (13 bp):
AGGGTTTTATTTT
Found at i:13998471 original size:41 final size:41
Alignment explanation
Indices: 13998384--13998694 Score: 329
Period size: 41 Copynumber: 7.5 Consensus size: 41
13998374 ACGACTTTGA
* * * * * *
13998384 GAAAAATAAAATGCTCCTTTAAATAAAGGCATCATAACTTC
1 GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
* *
13998425 GAAAAACAAATTTCTCCTCTAAATAGAGGCACCACAACTTTT
1 GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAAC-TTT
* * * *
13998467 AAAAAAAATAAATTGCTCCTTTAAATAGAAGCACGACAACTTT
1 --GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
* *
13998510 GAAAAATAAATTGATCATCTAAATAGAGGCACCACAACTTT
1 GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
* * *
13998551 GAAAAAGTAAAATGCTCTTCTAAACAGAGGCACCACAACTTT
1 GAAAAA-TAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
** *
13998593 GGAAAAATAAAATT-CTTATCTAAACAGAGG-ACCACAACTTTT
1 -GAAAAAT-AAATTGCTCCTCTAAATAGAGGCACCACAAC-TTT
* *
13998635 GAAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTT
1 GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
* *
13998676 GAAAAACAAAATGCTCCTC
1 GAAAAATAAATTGCTCCTC
13998695 GACAATCATG
Statistics
Matches: 230, Mismatches: 31, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
40 5 0.02
41 121 0.53
42 59 0.26
43 13 0.06
44 32 0.14
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (41 bp):
GAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
Found at i:13998633 original size:83 final size:84
Alignment explanation
Indices: 13998379--13998687 Score: 349
Period size: 83 Copynumber: 3.7 Consensus size: 84
13998369 GCTTAACGAC
* * * * * * *
13998379 TTTGAGAAAAATAAAATGCTCCTTTAAATAAAGGCATCATAACTTCGAAAAACAAATTTCTCCTC
1 TTTGA-AAAAATAAAATGCTCCTTTAAACAGAGGCACCACAACTTTGAAAAACAAAATTCTCATC
13998444 TAAATAGAGGCACCACAACT
65 TAAATAGAGGCACCACAACT
* * * * * * *
13998464 TTTAAAAAAAATAAATTGCTCCTTTAAATAGAAGCACGACAACTTTGAAAAA-TAAATTGATCAT
1 TTT-GAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACAACTTTGAAAAACAAAATT-CTCAT
13998528 CTAAATAGAGGCACCACAAC-
64 CTAAATAGAGGCACCACAACT
* * *
13998548 TTTGAAAAAGTAAAATGCT-CTTCTAAACAGAGGCACCACAACTTTGGAAAAATAAAATTCTTAT
1 TTTGAAAAAATAAAATGCTCCTT-TAAACAGAGGCACCACAACTTT-GAAAAACAAAATTCTCAT
*
13998612 CTAAACAGAGG-ACCACAACT
64 CTAAATAGAGGCACCACAACT
* * *
13998632 TTTG-AAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTTGAAAAACAAAAT
1 TTTGAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACAACTTTGAAAAACAAAAT
13998688 GCTCCTCGAC
Statistics
Matches: 190, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
82 14 0.07
83 73 0.38
84 32 0.17
85 70 0.37
86 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (84 bp):
TTTGAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACAACTTTGAAAAACAAAATTCTCATCT
AAATAGAGGCACCACAACT
Found at i:13998918 original size:23 final size:22
Alignment explanation
Indices: 13998892--13998935 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13998882 TATGCAAGAA
*
13998892 TTCAAATTTGCAAGATTTCAAGG
1 TTCAAATTTGCAA-ATTGCAAGG
*
13998915 TTCACATTTGCAAATTGCAAG
1 TTCAAATTTGCAAATTGCAAG
13998936 ACTCGCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (22 bp):
TTCAAATTTGCAAATTGCAAGG
Found at i:13999193 original size:25 final size:25
Alignment explanation
Indices: 13999165--13999249 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
13999155 CTAAAATCTC
* *
13999165 AAAGGTTCTTATTTAAGAATTTCTT
1 AAAGATTCTCATTTAAGAATTTCTT
13999190 AAAGATTCTCATTTAA-AA---CTT
1 AAAGATTCTCATTTAAGAATTTCTT
* *
13999211 AAAGATTCTCATTTAAGGATTTTTT
1 AAAGATTCTCATTTAAGAATTTCTT
13999236 AAAGATTCTCATTT
1 AAAGATTCTCATTT
13999250 GAGTTCAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
21 19 0.37
22 1 0.02
24 2 0.04
25 30 0.58
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (25 bp):
AAAGATTCTCATTTAAGAATTTCTT
Found at i:13999213 original size:21 final size:21
Alignment explanation
Indices: 13999187--13999226 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
13999177 TTAAGAATTT
13999187 CTTAAAGATTCTCATTTAAAA
1 CTTAAAGATTCTCATTTAAAA
13999208 CTTAAAGATTCTCATTTAA
1 CTTAAAGATTCTCATTTAA
13999227 GGATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (21 bp):
CTTAAAGATTCTCATTTAAAA
Found at i:13999231 original size:14 final size:14
Alignment explanation
Indices: 13999209--13999249 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13999199 CATTTAAAAC
13999209 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
*
13999223 TTAAGGATT-T--T
1 TTAAAGATTCTCAT
13999234 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
13999248 TT
1 TT
13999250 GAGTTCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 1 0.05
14 11 0.50
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (14 bp):
TTAAAGATTCTCAT
Found at i:13999238 original size:46 final size:47
Alignment explanation
Indices: 13999156--13999249 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 47
13999146 GTTTTATATC
* *
13999156 TAAAATCTCAAAGGTTCTTATTTAAGAATTTCTTAAAGATTCTCATT
1 TAAAATCTCAAAGATTCTCATTTAAGAATTTCTTAAAGATTCTCATT
* * *
13999203 TAAAA-CTTAAAGATTCTCATTTAAGGATTTTTTAAAGATTCTCATT
1 TAAAATCTCAAAGATTCTCATTTAAGAATTTCTTAAAGATTCTCATT
13999249 T
1 T
13999250 GAGTTCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 37 0.88
47 5 0.12
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (47 bp):
TAAAATCTCAAAGATTCTCATTTAAGAATTTCTTAAAGATTCTCATT
Found at i:13999408 original size:21 final size:22
Alignment explanation
Indices: 13999373--13999427 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
13999363 TTCACACCTT
* *
13999373 AAAAATTCTTC-TTTGA-AATTC
1 AAAAATTC-TCATTTGAGAACTA
*
13999394 AAAGATTCTCATTTGAGAACTA
1 AAAAATTCTCATTTGAGAACTA
13999416 AAAAATTCTCAT
1 AAAAATTCTCAT
13999428 CAAAAGTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 12 0.43
22 14 0.50
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (22 bp):
AAAAATTCTCATTTGAGAACTA
Found at i:13999790 original size:23 final size:22
Alignment explanation
Indices: 13999760--13999803 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
13999750 TTGGAACAAG
*
13999760 TTTTATCAAC-TGATCATCATTA
1 TTTTATC-ACTTGATCACCATTA
13999782 TTTTCATCACTTGATCACCATT
1 TTTT-ATCACTTGATCACCATT
13999804 CATAAGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTTATCACTTGATCACCATTA
Found at i:14000747 original size:1 final size:1
Alignment explanation
Indices: 14000736--14000780 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
14000726 CATTTTCTCA
* * * *
14000736 TTTTTTCTTTTTTTTTTTTTATTTTTTTATTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14000781 CCTATCCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:14000747 original size:8 final size:8
Alignment explanation
Indices: 14000743--14000779 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
14000733 TCATTTTTTC
14000743 TTTTTT-T
1 TTTTTTAT
14000750 TTTTTTAT
1 TTTTTTAT
14000758 TTTTTTAT
1 TTTTTTAT
14000766 TTTTTTAT
1 TTTTTTAT
14000774 TTTTTT
1 TTTTTT
14000780 TCCTATCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14001527 original size:26 final size:26
Alignment explanation
Indices: 14001498--14001550 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14001488 GAATAAGTTC
14001498 TTAAAATTAAATTTTAGAATTATTGT
1 TTAAAATTAAATTTTAGAATTATTGT
14001524 TTAAAATTAAATTTTAGAATTATTGT
1 TTAAAATTAAATTTTAGAATTATTGT
14001550 T
1 T
14001551 ATCATTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TTAAAATTAAATTTTAGAATTATTGT
Found at i:14005979 original size:26 final size:26
Alignment explanation
Indices: 14005950--14006000 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14005940 CACTTTTTTC
* *
14005950 TTTG-TTTTTGTTTTCTTTTTTCTATT
1 TTTGATTTTTG-TGTCTTCTTTCTATT
14005976 TTTGATTTTTGTGTCTTCTTTCTAT
1 TTTGATTTTTGTGTCTTCTTTCTAT
14006001 GTGTGTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.75
Consensus pattern (26 bp):
TTTGATTTTTGTGTCTTCTTTCTATT
Found at i:14008061 original size:8 final size:8
Alignment explanation
Indices: 14008043--14008095 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
14008033 CTTAAGGCAA
14008043 TTTGATTTT
1 TTTG-TTTT
14008052 TTT-TTTT
1 TTTGTTTT
*
14008059 TTTGTTCT
1 TTTGTTTT
*
14008067 TTTGTATT
1 TTTGTTTT
14008075 TTTGTTTGTT
1 TTTG-TT-TT
14008085 TTTGTTTT
1 TTTGTTTT
14008093 TTT
1 TTT
14008096 ACTTTTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 7 0.19
8 18 0.49
9 6 0.16
10 6 0.16
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (8 bp):
TTTGTTTT
Found at i:14008103 original size:26 final size:25
Alignment explanation
Indices: 14008043--14008108 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
14008033 CTTAAGGCAA
14008043 TTTG-ATTTTTTTTTTTTTTGTTCT
1 TTTGTATTTTTTTTTTTTTTGTTCT
*
14008067 TTTGTATTTTTGTTTGTTTTTGTT-T
1 TTTGTATTTTT-TTTTTTTTTGTTCT
* *
14008092 TTT-TACTTTTTTCTTTT
1 TTTGTATTTTTTTTTTTT
14008109 ATTTATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 10 0.28
25 10 0.28
26 11 0.31
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.82
Consensus pattern (25 bp):
TTTGTATTTTTTTTTTTTTTGTTCT
Found at i:14008473 original size:32 final size:32
Alignment explanation
Indices: 14008393--14008487 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
14008383 TAGGCTTGTG
* *
14008393 TGCCATATAATCT-GGGTATAAATTTTCATTAA
1 TGCCAGATAATCTAGGCT-TAAATTTTCATTAA
* * * *
14008425 TACTAGTTAAAT-TAGGCTTAAAGTTTCATTAA
1 TGCCAGAT-AATCTAGGCTTAAATTTTCATTAA
14008457 TGCCAGATAATCTAGGCTTAAATTTTTCATT
1 TGCCAGATAATCTAGGCTTAAA-TTTTCATT
14008488 TGGTATTAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
31 3 0.06
32 33 0.67
33 13 0.27
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (32 bp):
TGCCAGATAATCTAGGCTTAAATTTTCATTAA
Found at i:14008529 original size:66 final size:66
Alignment explanation
Indices: 14008439--14008719 Score: 257
Period size: 66 Copynumber: 4.3 Consensus size: 66
14008429 AGTTAAATTA
* * * ***
14008439 GGCTTAAAGTTTCATTAATGCCAGATAATCTAGGCTTAAATTTTTCATTTGGTATTAGCTAAACT
1 GGCTTAAATTTTCATTAGTGCCAGATAATCTAGGCTTAAATTTTTCATTGGGTGCCAGCTAAACT
14008504 G
66 G
* * * * *
14008505 GGCTTAAATTTTCATTAGTTCCAGATAAT-TTGAGCTTAAAATTTTCATTGGGTGCCAACTAAAT
1 GGCTTAAATTTTCATTAGTGCCAGATAATCTAG-GCTTAAATTTTTCATTGGGTGCCAGCTAAAC
14008569 TG
65 TG
* * * * * * * * *
14008571 GGTTTAAATTTTCAATAGTGCTAGATAATATGGGCTTAGA-TCTCCATT-GGTGCTAGCTAAACT
1 GGCTTAAATTTTCATTAGTGCCAGATAATCTAGGCTTAAATTTTTCATTGGGTGCCAGCTAAACT
14008634 G
66 G
* * * *
14008635 GGCTTAAATTTTCATTAAGTGCTAGCTAACCTTA-GCTTAAATCTTTTCATTGGGTGGCAGCTAA
1 GGCTTAAATTTTCATT-AGTGCCAGATAATC-TAGGCTTAAAT-TTTTCATTGGGTGCCAGCTAA
*
14008699 AC-A
63 ACTG
*
14008702 GGCTTAAATTATCATTAG
1 GGCTTAAATTTTCATTAG
14008720 GTGGAAACTA
Statistics
Matches: 173, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
64 27 0.16
65 25 0.14
66 86 0.50
67 23 0.13
68 12 0.07
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (66 bp):
GGCTTAAATTTTCATTAGTGCCAGATAATCTAGGCTTAAATTTTTCATTGGGTGCCAGCTAAACT
G
Found at i:14008637 original size:32 final size:33
Alignment explanation
Indices: 14008587--14008663 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 33
14008577 AATTTTCAAT
* *
14008587 AGTGCTAGATAATATGGGCTTAGATCTCCATT-
1 AGTGCTAGCTAATATGGGCTTAAATCTCCATTA
* * *
14008619 GGTGCTAGCTAA-ACTGGGCTTAAATTTTCATTA
1 AGTGCTAGCTAATA-TGGGCTTAAATCTCCATTA
14008652 AGTGCTAGCTAA
1 AGTGCTAGCTAA
14008664 CCTTAGCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 25 0.68
33 11 0.30
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (33 bp):
AGTGCTAGCTAATATGGGCTTAAATCTCCATTA
Found at i:14008751 original size:132 final size:130
Alignment explanation
Indices: 14008494--14008763 Score: 291
Period size: 132 Copynumber: 2.1 Consensus size: 130
14008484 CATTTGGTAT
* *
14008494 TAGCTAAACTGGGCTTAAATTTTCATTAGTTCCAGATAATTTGAGCTTAAAATTTTCATTGGGTG
1 TAGCTAAACTGGGCTTAAATTTTCATTAGTGCCAGATAACTTGAGCTTAAAATTTTCATTGGGTG
** * * * *
14008559 CCAACTAAATTGGGTTTAAATTTTCAATAGTGCTAGATAATATGGGCTTAGATCTCCATTGGTGC
66 CCAACTAAATCAGGCTTAAATTATCAATAGTGCGAAATAATATGGGCTTAGATCTCCATTGGTGC
* * *
14008624 TAGCTAAACTGGGCTTAAATTTTCATTAAGTGCTAGCTAACCTT-AGCTTAAATCTTTTCATTGG
1 TAGCTAAACTGGGCTTAAATTTTCATT-AGTGCCAGATAA-CTTGAGCTTAAA-ATTTTCATTGG
* * *
14008688 GTGGCAGCTAAA-CAGGCTTAAATTATCATTAGGTG-GAAACTAGAT-TGGGCTTAAGA-CAT-C
63 GTGCCAACTAAATCAGGCTTAAATTATCAATA-GTGCGAAA-TA-ATATGGGCTT-AGATC-TCC
14008748 ATTGGTGC
123 ATTGGTGC
*
14008756 TAGTTAAA
1 TAGCTAAA
14008764 TTAGACTTAA
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
130 27 0.23
131 33 0.28
132 51 0.44
133 6 0.05
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (130 bp):
TAGCTAAACTGGGCTTAAATTTTCATTAGTGCCAGATAACTTGAGCTTAAAATTTTCATTGGGTG
CCAACTAAATCAGGCTTAAATTATCAATAGTGCGAAATAATATGGGCTTAGATCTCCATTGGTGC
Found at i:14009389 original size:3 final size:3
Alignment explanation
Indices: 14009383--14009476 Score: 63
Period size: 3 Copynumber: 32.3 Consensus size: 3
14009373 TTTTTATGTA
* *
14009383 TAT TAT TAT TAT TAT TAT TAT T-G TAG TAT TAT ATAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
14009426 TAT TAT TAT TAT CAAC T-T TAT T-T TAT TTT TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14009470 TTT TAT T
1 TAT TAT T
14009477 TCTCATTTCT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
2 8 0.11
3 58 0.83
4 4 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14009435 original size:23 final size:23
Alignment explanation
Indices: 14009383--14009437 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 23
14009373 TTTTTATGTA
14009383 TATTATTATTATTATTATTATTG
1 TATTATTATTATTATTATTATTG
* *
14009406 TAGTATTA-TA-TATTA-TATTA
1 TATTATTATTATTATTATTATTG
14009426 TATTATTATTAT
1 TATTATTATTAT
14009438 CAACTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 11 0.41
21 7 0.26
22 2 0.07
23 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TATTATTATTATTATTATTATTG
Found at i:14011725 original size:8 final size:8
Alignment explanation
Indices: 14011712--14011741 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14011702 CTACATTCAT
14011712 TTTTTTTA
1 TTTTTTTA
14011720 -TTTTTTA
1 TTTTTTTA
14011727 TTTTTTTA
1 TTTTTTTA
14011735 TTTTTTT
1 TTTTTTT
14011742 TGTCATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14011732 original size:15 final size:15
Alignment explanation
Indices: 14011712--14011740 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14011702 CTACATTCAT
14011712 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
14011727 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
14011741 TTGTCATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:14013384 original size:11 final size:11
Alignment explanation
Indices: 14013368--14013392 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14013358 ATCATAGAAC
14013368 TTTTTTCTTTT
1 TTTTTTCTTTT
14013379 TTTTTTCTTTT
1 TTTTTTCTTTT
14013390 TTT
1 TTT
14013393 AAAGGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:14018199 original size:6 final size:6
Alignment explanation
Indices: 14018190--14018229 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
14018180 TTTAAAATTC
*
14018190 TATTTT TATTTT TATTTT TATTTAAT TTTTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTT--T TATTTT TATTTT TA
14018230 GATTAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 25 0.83
8 5 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:14018701 original size:6 final size:7
Alignment explanation
Indices: 14018689--14018739 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
14018679 TATATATTTT
14018689 TTTATTA
1 TTTATTA
14018696 -TTATTA
1 TTTATTA
14018702 TTTATTAA
1 TTTATT-A
*
14018710 TCT-TTA
1 TTTATTA
*
14018716 TTTAATA
1 TTTATTA
14018723 TTTATT-
1 TTTATTA
14018729 TTTATTA
1 TTTATTA
14018736 TTTA
1 TTTA
14018740 ATAATTTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 15 0.42
7 18 0.50
8 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:14018738 original size:13 final size:13
Alignment explanation
Indices: 14018674--14018739 Score: 50
Period size: 13 Copynumber: 5.1 Consensus size: 13
14018664 CTAAAAATGG
14018674 ATTTTTA-TATATT
1 ATTTTTATTAT-TT
14018687 -TTTTTATTA-TT
1 ATTTTTATTATTT
14018698 ATTATTTATTAATCTT
1 ATT-TTTATT-AT-TT
* *
14018714 -TATTTAATATTT
1 ATTTTTATTATTT
14018726 ATTTTTATTATTT
1 ATTTTTATTATTT
14018739 A
1 A
14018740 ATAATTTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 2 0.05
12 10 0.24
13 21 0.50
14 6 0.14
15 1 0.02
16 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTATTT
Found at i:14018927 original size:9 final size:9
Alignment explanation
Indices: 14018897--14018939 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
14018887 AAAAATAAAC
14018897 AATTA-TTT
1 AATTATTTT
*
14018905 ATTTA-TTT
1 AATTATTTT
*
14018913 ATTTATTTT
1 AATTATTTT
14018922 AATTATTTT
1 AATTATTTT
14018931 AATTATTTT
1 AATTATTTT
14018940 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
AATTATTTT
Found at i:14020836 original size:19 final size:18
Alignment explanation
Indices: 14020806--14020868 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
14020796 ATGCTTTCTT
14020806 CTTTTTT-T-TTTTACTTA
1 CTTTTTTATATTTTA-TTA
14020823 CTTTTTTATATTTTTATTA
1 CTTTTTTATA-TTTTATTA
14020842 -TTTTTTATGATTTATATTA
1 CTTTTTTAT-ATTT-TATTA
*
14020861 TTTTTTTA
1 CTTTTTTA
14020869 CACTTAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.17
18 12 0.30
19 9 0.22
20 12 0.30
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTTTTTATATTTTATTA
Found at i:14022621 original size:14 final size:14
Alignment explanation
Indices: 14022594--14022654 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
14022584 CATATGCATT
* *
14022594 CCAAAACCTCAAAC
1 CCAAACCCTAAAAC
*
14022608 CCAAGCCCTAAAAC
1 CCAAACCCTAAAAC
*
14022622 CTAAACCCT-AAAC
1 CCAAACCCTAAAAC
* *
14022635 TCAAACCTTAAAAC
1 CCAAACCCTAAAAC
*
14022649 CTAAAC
1 CCAAAC
14022655 TTTAAGACCA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 10 0.28
14 26 0.72
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (14 bp):
CCAAACCCTAAAAC
Found at i:14022640 original size:13 final size:12
Alignment explanation
Indices: 14022594--14022814 Score: 81
Period size: 13 Copynumber: 16.9 Consensus size: 12
14022584 CATATGCATT
*
14022594 CCAAAACCTCAAA
1 CCAAACCCT-AAA
*
14022607 CCCAAGCCCTAAAA
1 -CCAAACCCT-AAA
14022621 CCTAAACCCTAAA
1 CC-AAACCCTAAA
*
14022634 CTCAAACCTTAAAA
1 C-CAAACCCT-AAA
**
14022648 CCTAAACTTTAAGA
1 CC-AAACCCTAA-A
14022662 CCAAACCC-AAA
1 CCAAACCCTAAA
14022673 CCTTAAACCCT-AA
1 CC--AAACCCTAAA
* **
14022686 CTGAAACATTAAA
1 C-CAAACCCTAAA
14022699 CCTAAACCCTAAA
1 CC-AAACCCTAAA
*
14022712 CCTAACCCTAAAA
1 CCAAACCCT-AAA
*
14022725 CCTAAACCTTAAA
1 CC-AAACCCTAAA
14022738 CCTAAA-CCTAAA
1 CC-AAACCCTAAA
* *
14022750 TCCTAACCCTAGACC
1 -CCAAACCCTA-A-A
*
14022765 CCTAAA-CTTAAA
1 CC-AAACCCTAAA
*
14022777 TCATAAACCCTAAA
1 -C-CAAACCCTAAA
*
14022791 CCAAACTCTAAA
1 CCAAACCCTAAA
14022803 CCAAAACCCTAA
1 CC-AAACCCTAA
14022815 CCTAGACCTT
Statistics
Matches: 157, Mismatches: 28, Indels: 45
0.68 0.12 0.20
Matches are distributed among these distances:
11 3 0.02
12 31 0.20
13 75 0.48
14 46 0.29
15 2 0.01
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:14022642 original size:19 final size:19
Alignment explanation
Indices: 14022618--14022863 Score: 95
Period size: 19 Copynumber: 12.8 Consensus size: 19
14022608 CCAAGCCCTA
14022618 AAACCTAAACCCTAAACTC
1 AAACCTAAACCCTAAACTC
* *
14022637 AAACCTTAAAACCTAAACTTT
1 AAACC-TAAACCCTAAAC-TC
*
14022658 AAGACC-AAACCC-AAACCTT
1 AA-ACCTAAACCCTAAA-CTC
*
14022677 AAACCCT-AA--CTGAAACATT
1 AAA-CCTAAACCCT-AAAC-TC
14022696 AAACCTAAACCCTAAAC-C
1 AAACCTAAACCCTAAACTC
* * *
14022714 TAACCCTAAAACCTAAACCTT
1 -AAACCTAAACCCTAAA-CTC
14022735 AAACCTAAA-CCTAAA-TCC
1 AAACCTAAACCCTAAACT-C
* * *
14022753 TAACCCTAGACCCCTAAACTT
1 -AAACCTA-AACCCTAAACTC
*
14022774 AAATCATAAACCCTAAAC-C
1 AAA-CCTAAACCCTAAACTC
* *
14022793 AAACTCTAAA-CCAAAACCC
1 AAAC-CTAAACCCTAAACTC
* * *
14022812 TAACCTAGACCTTAAACT-
1 AAACCTAAACCCTAAACTC
* * *
14022830 AACCCCAAACCGT-AAC-C
1 AAACCTAAACCCTAAACTC
14022847 AAACCTCAAACCCTAAA
1 AAACCT-AAACCCTAAA
14022864 ACCAACTTGA
Statistics
Matches: 169, Mismatches: 31, Indels: 54
0.67 0.12 0.21
Matches are distributed among these distances:
17 9 0.05
18 30 0.18
19 70 0.41
20 42 0.25
21 14 0.08
22 4 0.02
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.17
Consensus pattern (19 bp):
AAACCTAAACCCTAAACTC
Found at i:14022654 original size:6 final size:6
Alignment explanation
Indices: 14022618--14022863 Score: 105
Period size: 6 Copynumber: 38.5 Consensus size: 6
14022608 CCAAGCCCTA
*
14022618 AAACCT AAACCCT AAA-CT CAAACCTT AAAACCT AAACTTT AAGACC-
1 AAACCT AAA-CCT AAACCT -AAACC-T -AAACCT AAAC-CT AA-ACCT
* *
14022664 AAACCC AAACCTT AAACCCT -AA-CT GAAACATT AAACCT AAACCCT AAACCT
1 AAACCT AAACC-T AAA-CCT AAACCT -AAAC-CT AAACCT AAA-CCT AAACCT
* * *
14022715 AACCCT AAAACCT AAACCTT AAACCT AAACCT AAATCCT AACCCT AGACCCCT
1 AAACCT -AAACCT AAACC-T AAACCT AAACCT AAA-CCT AAACCT A-A-ACCT
* * *
14022768 AAACTT AAATCAT AAACCCT AAACC- AAACTCT AAACCA AAACCCT -AACCT
1 AAACCT AAA-CCT AAA-CCT AAACCT AAAC-CT AAACCT AAA-CCT AAACCT
* * *
14022818 AGACCTT AAA-CT AACCCC AAACCGT -AACC- AAACCT CAAACCCT AAA
1 AAACC-T AAACCT AAACCT AAACC-T AAACCT AAACCT -AAA-CCT AAA
14022864 ACCAACTTGA
Statistics
Matches: 187, Mismatches: 22, Indels: 61
0.69 0.08 0.23
Matches are distributed among these distances:
4 2 0.01
5 19 0.10
6 79 0.42
7 68 0.36
8 19 0.10
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.17
Consensus pattern (6 bp):
AAACCT
Found at i:14024609 original size:15 final size:16
Alignment explanation
Indices: 14024584--14024624 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
14024574 TCGGATTATT
14024584 TAAAGAAAAATCAA-AA
1 TAAAGAAAAAT-AATAA
14024600 TAAA-AAAAATAATAA
1 TAAAGAAAAATAATAA
*
14024615 TAAATAAAAA
1 TAAAGAAAAA
14024625 GGAAGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
TAAAGAAAAATAATAA
Found at i:14024712 original size:15 final size:16
Alignment explanation
Indices: 14024683--14024717 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
14024673 CTTTTCCCCG
14024683 AAAATTGATTTTTTTT
1 AAAATTGATTTTTTTT
14024699 AAAATTGA-TTTTTTT
1 AAAATTGATTTTTTTT
14024714 AAAA
1 AAAA
14024718 AAAATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
AAAATTGATTTTTTTT
Found at i:14024718 original size:16 final size:16
Alignment explanation
Indices: 14024683--14024718 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
14024673 CTTTTCCCCG
*
14024683 AAAATTGATTTTTTTT
1 AAAATTGATTTTTTTA
14024699 AAAATTGATTTTTTTA
1 AAAATTGATTTTTTTA
14024715 AAAA
1 AAAA
14024719 AAATTGATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AAAATTGATTTTTTTA
Found at i:14025180 original size:61 final size:60
Alignment explanation
Indices: 14024656--14025183 Score: 612
Period size: 61 Copynumber: 8.7 Consensus size: 60
14024646 TTGTGCAGAA
* * * * * **
14024656 AAAATTTATACTTTCAACTTTTCCCCGAAAATTGATTTTTTTTAAAATTGATT-TTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-ATTTTTTTTGAAATT--TTATTTTTAAGG
* * **
14024718 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
* *
14024779 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCCTTTTTTTTTTAAAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAA---TATTTTTTTT-GAAATTTTATTTTTAAGG
* * *
14024844 AAAATTGATACTTTCAACTTTTCCTC-AAAAGTA---TTTTTGAAAATCTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTG-AAAT-TTTATTTTTAAGG
*
14024902 AAAATTGAT-CTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATA--TTTTTTTTGAAATTTTATTTTTAAGG
* *
14024963 AAAATTAATACTTTCAACTTTTCCTC-AAAAATA---TTTTTGAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
*
14025019 AAAATTGATACTTTCAACTTTTCCT-AAAAAAAACCTTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATA--TTTTTTTTGAAATTTTATTTTTAAGG
*
14025080 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCT-TTTTTTTTTAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAA--TATTTTTTTTGAAATTTTATTTTTAAGG
*
14025141 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATATTTTTTTT
14025184 ATTTTTATTT
Statistics
Matches: 404, Mismatches: 35, Indels: 55
0.82 0.07 0.11
Matches are distributed among these distances:
56 52 0.13
57 25 0.06
58 25 0.06
60 4 0.01
61 173 0.43
62 62 0.15
63 14 0.03
64 6 0.01
65 43 0.11
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
Found at i:14025231 original size:6 final size:5
Alignment explanation
Indices: 14025208--14025370 Score: 62
Period size: 5 Copynumber: 32.4 Consensus size: 5
14025198 AAAATTGAAT
*
14025208 AATAA AACAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* * * *
14025253 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA-AA ATATTA ACTAA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AATAA A-ATAA AATAA
*
14025301 ACCTAA TCTAAT-A AAT-A AAT-A AATAA AAT-A AAT-A AATAAA TAATAA
1 A-ATAA ---AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA -AATAA
*
14025347 AAT-A AAT-A AATAA ATTAA AA-AA AA
1 AATAA AATAA AATAA AATAA AATAA AA
14025371 AACCTAGAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 39
0.71 0.07 0.22
Matches are distributed among these distances:
4 40 0.32
5 46 0.37
6 34 0.27
7 4 0.03
8 1 0.01
9 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:14025231 original size:17 final size:15
Alignment explanation
Indices: 14025208--14025288 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 15
14025198 AAAATTGAAT
14025208 AATAAAACAAAATAAA
1 AATAAAA-AAAATAAA
* *
14025224 AATGAAAATAA-AAA
1 AATAAAAAAAATAAA
* *
14025238 AATAAAATAAAGAAA
1 AATAAAAAAAATAAA
*
14025253 AGTAAAACAAAAATAAA
1 AAT-AAA-AAAAATAAA
14025270 AATAAAATAAAGATAAA
1 AATAAAA-AAA-ATAAA
14025287 AA
1 AA
14025289 AATATTAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.22
15 9 0.18
16 15 0.29
17 16 0.31
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AATAAAAAAAATAAA
Found at i:14025285 original size:11 final size:11
Alignment explanation
Indices: 14025211--14025371 Score: 72
Period size: 11 Copynumber: 14.8 Consensus size: 11
14025201 ATTGAATAAT
*
14025211 AAAACAAAATA
1 AAAATAAAATA
14025222 AAAATGAAAATAAA
1 AAAAT-AAAAT--A
14025236 AAAATAAAATA
1 AAAATAAAATA
* *
14025247 AAGA-AAAGTA
1 AAAATAAAATA
14025257 AAACA-AAAATA
1 AAA-ATAAAATA
14025268 AAAATAAAATA
1 AAAATAAAATA
*
14025279 AAGATAAAA-A
1 AAAATAAAATA
* * *
14025289 AATATTAACTA
1 AAAATAAAATA
** **
14025300 AACCTAATCTA
1 AAAATAAAATA
14025311 ATAAAT-AAAT-
1 A-AAATAAAATA
14025321 -AAATAAAAT-
1 AAAATAAAATA
14025330 -AAAT-AAATA
1 AAAATAAAATA
14025339 AATAATAAAATAA
1 AA-AATAAAAT-A
*
14025352 ATAAATAAATTA
1 A-AAATAAAATA
14025364 AAAA-AAAA
1 AAAATAAAA
14025372 ACCTAGAGCG
Statistics
Matches: 117, Mismatches: 19, Indels: 29
0.71 0.12 0.18
Matches are distributed among these distances:
8 8 0.07
9 8 0.07
10 19 0.16
11 48 0.41
12 13 0.11
13 14 0.12
14 7 0.06
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14025319 original size:4 final size:4
Alignment explanation
Indices: 14025310--14025361 Score: 79
Period size: 4 Copynumber: 12.8 Consensus size: 4
14025300 AACCTAATCT
14025310 AATA AATA AATA AATAA AATA AATA AATA AAT- AATAA AATA AATA AATA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AAT-A AATA AATA AATA
14025359 AAT
1 AAT
14025362 TAAAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.07
4 35 0.78
5 7 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:14025347 original size:20 final size:21
Alignment explanation
Indices: 14025310--14025370 Score: 97
Period size: 20 Copynumber: 2.9 Consensus size: 21
14025300 AACCTAATCT
14025310 AATAAATAAATAAATAAAATA
1 AATAAATAAATAAATAAAATA
14025331 AATAAATAAAT-AATAAAATA
1 AATAAATAAATAAATAAAATA
*
14025351 AATAAATAAATTAAAAAAAA
1 AATAAATAAA-TAAATAAAA
14025371 AACCTAGAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 19 0.51
21 12 0.32
22 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AATAAATAAATAAATAAAATA
Found at i:14026280 original size:22 final size:22
Alignment explanation
Indices: 14026235--14026280 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14026225 ATAATTAGAA
*
14026235 AAGATAAATCAAAAAATATTAT
1 AAGATAAATCAAAAAATATAAT
14026257 AAGATAAAT-AAAAAATAATAAT
1 AAGATAAATCAAAAAAT-ATAAT
14026279 AA
1 AA
14026281 TAACAGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAGATAAATCAAAAAATATAAT
Found at i:14026322 original size:4 final size:4
Alignment explanation
Indices: 14026299--14026395 Score: 64
Period size: 4 Copynumber: 24.8 Consensus size: 4
14026289 ATATAATTAG
14026299 ATAA AT-A A-AA ATACA A-AA ATAA ATAAA ATAA A-AA ATAA ATAA A-AA
1 ATAA ATAA ATAA ATA-A ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA
* * * *
14026344 TAAAA ATAT ATAT ATTA ATAA ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA
1 -ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA
14026393 ATA
1 ATA
14026396 CATAGGATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
3 17 0.22
4 48 0.63
5 8 0.11
6 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:14026328 original size:62 final size:59
Alignment explanation
Indices: 14026203--14026395 Score: 169
Period size: 62 Copynumber: 3.1 Consensus size: 59
14026193 AATAAAAATT
* *
14026203 AAAATAATAATAATAATAATAGATAATTAGAAAAGATAAATCAA-AAAATATTATAAGAT-AAAT
1 AAAATAATAATAATAA-AATATATAATTAGATAA-ATAAA--AATAAAA-A--ATAA-ATAAAAT
14026266 AA
58 AA
14026268 AAAATAATAATAATAACAGATATATAATTAGATAAATAAAAATACAAAAATAAATAAAATAA
1 AAAATAATAATAATAA-A-ATATATAATTAGATAAATAAAAATA-AAAAATAAATAAAATAA
* ** *
14026330 AAAATAAATAAAAATAAAAATATATATATTA-ATAAATAGTAATAATAAATAAAT-AAATAA
1 AAAAT-AATAATAAT-AAAATATATA-ATTAGATAAATAAAAATAAAAAATAAATAAAATAA
*
14026390 TAAATA
1 AAAATA
14026396 CATAGGATAT
Statistics
Matches: 113, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
59 1 0.01
60 10 0.09
61 11 0.10
62 33 0.29
63 15 0.13
64 4 0.04
65 25 0.22
66 14 0.12
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (59 bp):
AAAATAATAATAATAAAATATATAATTAGATAAATAAAAATAAAAAATAAATAAAATAA
Found at i:14026346 original size:66 final size:64
Alignment explanation
Indices: 14026191--14026395 Score: 183
Period size: 66 Copynumber: 3.2 Consensus size: 64
14026181 TCAACCTTCC
* * * *
14026191 AAAATAAAAATTAAAATAATAATAATAATAATAGATAATTAGA-AAAGATAAAT-CAAAAAATAT
1 AAAATAAAAAAT-AAATAATAATAATAA-AATATATAATTAGATAAATAAAAATAC-AAAAATA-
*
14026254 TAT
62 AAT
*
14026257 AAGATAAATAAA-AAATAATAATAATAACAGATATATAATTAGATAAATAAAAATACAAAAATAA
1 AAAATAAA-AAATAAATAATAATAATAA-A-ATATATAATTAGATAAATAAAAATACAAAAATAA
14026321 AT
63 AT
* ** *
14026323 AAAATAAAAAATAAATAAAAAT-A-AAAATATATATATTA-ATAAATAGTAATA-ATAAATAAAT
1 AAAATAAAAAATAAATAATAATAATAAAATATATA-ATTAGATAAATAAAAATACAAAAATAAAT
*
14026384 -AAATAATAAATA
1 AAAATAAAAAATA
14026396 CATAGGATAT
Statistics
Matches: 120, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
60 11 0.09
61 9 0.08
62 18 0.15
63 5 0.04
64 2 0.02
65 20 0.17
66 37 0.31
67 17 0.14
68 1 0.01
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (64 bp):
AAAATAAAAAATAAATAATAATAATAAAATATATAATTAGATAAATAAAAATACAAAAATAAAT
Found at i:14026374 original size:34 final size:33
Alignment explanation
Indices: 14026299--14026395 Score: 72
Period size: 34 Copynumber: 2.7 Consensus size: 33
14026289 ATATAATTAG
14026299 ATAAATAAAAATACAAAAATAAAT-AAAATAAAAA
1 ATAAAT-AAAATA-AAAAATAAATAAAAATAAAAA
*
14026333 ATAAATAAAAATAAAAATATATATATTAATAAATAGTAATA
1 ATAAAT-AAAATAAAAA-ATA-A-A-TAA-AAATA--AAAA
*
14026374 ATAAAT-AAATAAATAATAAATA
1 ATAAATAAAATAAAAAATAAATA
14026396 CATAGGATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
33 4 0.08
34 16 0.30
35 3 0.06
36 2 0.04
37 2 0.04
38 4 0.08
39 13 0.25
41 9 0.17
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (33 bp):
ATAAATAAAATAAAAAATAAATAAAAATAAAAA
Found at i:14026644 original size:6 final size:6
Alignment explanation
Indices: 14026635--14026683 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
14026625 TTTTTTATAT
*
14026635 TTTTTG TTTTT- TTTTTG --TTTG CTTTTG TTTTTG TTTTTG TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
14026679 TTTTT
1 TTTTT
14026684 AACCAAAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
4 4 0.10
5 10 0.26
6 25 0.64
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (6 bp):
TTTTTG
Done.