Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 128 of 214
Found at i:38966801 original size:37 final size:36
Alignment explanation
Indices: 38966750--38966840 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
38966740 ATTTCAAAAA
*
38966750 TAATATTATTTTAATAGT-TTAATATTAAATTTAA-AT
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
38966786 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
38966823 TAAAGTGATTATCTTAAT
1 T-AA-T-ATTATCTTAAT
38966841 CTTAAATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
36 12 0.26
37 19 0.40
38 4 0.09
39 11 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:38978465 original size:14 final size:15
Alignment explanation
Indices: 38978446--38978474 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38978436 TTAGGGTCCG
38978446 TTTC-TTTTCTTTTT
1 TTTCTTTTTCTTTTT
38978460 TTTCTTTTTCTTTTT
1 TTTCTTTTTCTTTTT
38978475 AGTTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTCTTTTTCTTTTT
Found at i:38997519 original size:31 final size:32
Alignment explanation
Indices: 38997457--38997524 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
38997447 CTTTTTAGAT
* *
38997457 AAATTTGATCCTTGACCTTTTAAGAAAGAGTC
1 AAATTTGACCCTTGACCTTTCAAGAAAGAGTC
38997489 AAATTTGACCACTT-ACCTTTCAA-AAAGAGTC
1 AAATTTGACC-CTTGACCTTTCAAGAAAGAGTC
*
38997520 GAATT
1 AAATT
38997525 GTTGTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.38
32 17 0.53
33 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
AAATTTGACCCTTGACCTTTCAAGAAAGAGTC
Found at i:38997875 original size:32 final size:32
Alignment explanation
Indices: 38997837--38997907 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
38997827 CCCATTTTTT
*
38997837 AAATAAATACCAAAAA-ATTATTTTTAAAATTA
1 AAATAAATACCAAAAACAGTA-TTTTAAAATTA
* **
38997869 AAATAAAAATTAAAAACAGTATTTTAAAATTA
1 AAATAAATACCAAAAACAGTATTTTAAAATTA
38997901 AAA-AAAT
1 AAATAAAT
38997908 TAAAAAGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 3 0.09
32 27 0.82
33 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (32 bp):
AAATAAATACCAAAAACAGTATTTTAAAATTA
Found at i:38997895 original size:26 final size:26
Alignment explanation
Indices: 38997866--38997924 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
38997856 ATTTTTAAAA
38997866 TTAAAA-T-AAAAATTAAAAACAGTATT
1 TTAAAATTAAAAAATT-AAAA-AGTATT
38997892 TTAAAATTAAAAAAATTAAAAAGTATT
1 TTAAAATT-AAAAAATTAAAAAGTATT
38997919 TTAAAA
1 TTAAAA
38997925 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.20
27 13 0.43
28 4 0.13
29 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
TTAAAATTAAAAAATTAAAAAGTATT
Found at i:38997916 original size:27 final size:30
Alignment explanation
Indices: 38997848--38997924 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
38997838 AATAAATACC
*
38997848 AAAAAATTATTTTTAAAATTAAAATAAAAATT
1 AAAAAAGTA-TTTTAAAATT-AAATAAAAATT
38997880 AAAAACAGTATTTTAAAATT-AA-AAAAATT
1 AAAAA-AGTATTTTAAAATTAAATAAAAATT
38997909 -AAAAAGTATTTTAAAA
1 AAAAAAGTATTTTAAAA
38997925 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 12 0.28
28 4 0.09
29 7 0.16
30 2 0.05
32 15 0.35
33 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAAAGTATTTTAAAATTAAATAAAAATT
Found at i:38997929 original size:11 final size:11
Alignment explanation
Indices: 38997907--38997985 Score: 59
Period size: 11 Copynumber: 6.5 Consensus size: 11
38997897 ATTAAAAAAA
38997907 TTAAAAAGTATT
1 TTAAAAA-TATT
38997919 TTAAAAATATT
1 TTAAAAATATT
*
38997930 TTAAAAATTTT
1 TTAAAAATATT
*
38997941 AAAATTAAAAAAATT
1 ----TTAAAAATATT
*
38997956 TAAAAAAAGTATT
1 T-TAAAAA-TATT
*
38997969 TTAAAAGTATT
1 TTAAAAATATT
38997980 TTAAAA
1 TTAAAA
38997986 TTAAAAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
11 25 0.46
12 16 0.30
13 4 0.07
15 9 0.17
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:38997980 original size:50 final size:47
Alignment explanation
Indices: 38997889--38997985 Score: 158
Period size: 50 Copynumber: 2.0 Consensus size: 47
38997879 TAAAAACAGT
38997889 ATTTTAAAATTAAAAAAATTAAAAAGTATTTTAAAAATATTTTAAAA
1 ATTTTAAAATTAAAAAAATTAAAAAGTATTTTAAAAATATTTTAAAA
*
38997936 ATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAA
1 ATTTTAAAATTAAAAAAA-TT--AAAAAGTATTTTAAAAATATTTTAAAA
38997986 TTAAAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 18 0.39
48 2 0.04
50 26 0.57
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (47 bp):
ATTTTAAAATTAAAAAAATTAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:38997981 original size:41 final size:40
Alignment explanation
Indices: 38997858--38997995 Score: 140
Period size: 38 Copynumber: 3.5 Consensus size: 40
38997848 AAAAAATTAT
* *
38997858 TTTTAAAATTAAAATAAAAATTAAAAACAGTATTTTAAAAT-
1 TTTTAAAATT-AAA-AAAATTTAAAAAAAGTATTTTAAAATA
*** * **
38997899 TAAAAAAATT-AAAAAGTATTTTAAAAA-TATTTTAAAA-A
1 TTTTAAAATTAAAAAAAT-TTAAAAAAAGTATTTTAAAATA
38997937 TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGTA
1 TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAA-TA
38997978 TTTTAAAATTAAAAAAAT
1 TTTTAAAATTAAAAAAAT
38997996 ATTTATTATT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
38 27 0.35
39 24 0.31
41 26 0.34
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (40 bp):
TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAATA
Found at i:39001175 original size:21 final size:21
Alignment explanation
Indices: 39001123--39001167 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
39001113 TTTAACCTTG
*
39001123 AACCCCAAACCATAAAACTCA
1 AACCTCAAACCATAAAACTCA
39001144 AACCTCAAACCATAAACACT-A
1 AACCTCAAACCATAAA-ACTCA
39001165 AAC
1 AAC
39001168 TTTAAACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.53, C:0.36, G:0.00, T:0.11
Consensus pattern (21 bp):
AACCTCAAACCATAAAACTCA
Found at i:39001373 original size:19 final size:20
Alignment explanation
Indices: 39001343--39001392 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
39001333 TAGGATTTGA
* *
39001343 GGTTTAAGGTTTGGGTTTAT
1 GGTTTAAGGTTTGAGTTCAT
39001363 GGTTT-AGGTTTGAGTTCAT
1 GGTTTAAGGTTTGAGTTCAT
*
39001382 GGTTCAAGGTT
1 GGTTTAAGGTT
39001393 CGGGATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (20 bp):
GGTTTAAGGTTTGAGTTCAT
Found at i:39001525 original size:13 final size:13
Alignment explanation
Indices: 39001507--39001534 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39001497 ATAAAATAAT
39001507 TTCTCCTAAACTA
1 TTCTCCTAAACTA
39001520 TTCTCCTAAACTA
1 TTCTCCTAAACTA
39001533 TT
1 TT
39001535 AAGGAGGAAT
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:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (13 bp):
TTCTCCTAAACTA
Found at i:39003450 original size:3 final size:3
Alignment explanation
Indices: 39003442--39003511 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
39003432 AAATTAGTCC
* * * ***
39003442 TTA TTA TTA TTA ATC TTA TTA TTA TTA TCA TTA GCG TTA TTA -TA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
39003490 TTC TTA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
39003512 ATTTAGTACT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:39020113 original size:26 final size:27
Alignment explanation
Indices: 39020060--39020123 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
39020050 ATAAAAAATA
39020060 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
39020088 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
39020114 ACCAAAATAT
1 ACCAAAATAT
39020124 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:39020207 original size:27 final size:27
Alignment explanation
Indices: 39020176--39020235 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
39020166 CCCTGATCAG
*
39020176 GCCAATCACATTGGCGGCACCAAAGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*** *
39020203 GCCAAAGTGATTGGCGGCACCAATGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*
39020230 ACCAAA
1 GCCAAA
39020236 GGACTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.15
Consensus pattern (27 bp):
GCCAAACACATTGGCGGCACCAAAGGT
Found at i:39020236 original size:27 final size:27
Alignment explanation
Indices: 39020185--39020236 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
39020175 GGCCAATCAC
*
39020185 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTACCAAAGTG
*
39020212 ATTGGCGGCACCAATGGTACCAAAG
1 ATTGGCGGCACCAAAGGTACCAAAG
39020237 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAAAGTG
Found at i:39020371 original size:19 final size:19
Alignment explanation
Indices: 39020344--39020405 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
39020334 ACAGAATAGT
39020344 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * * *
39020363 TTGTTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
39020381 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
39020400 TTATTA
1 TTATTA
39020406 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:39020396 original size:18 final size:18
Alignment explanation
Indices: 39020338--39020397 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
39020328 TAGTTTACAG
39020338 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
* * * *
39020356 AATAGAGTTGTTAAATGAG
1 AATAG-TTTATTAAATTAA
39020375 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
39020393 AATAG
1 AATAG
39020398 AGTTATTACT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 19 0.58
19 14 0.42
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:39020999 original size:27 final size:27
Alignment explanation
Indices: 39020958--39021009 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
39020948 CATTTTAGTC
*
39020958 CTTTGGCACCATTGGTGCTGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
39020985 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
39021010 GTGATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.23, T:0.33
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:39021017 original size:27 final size:27
Alignment explanation
Indices: 39020960--39021018 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
39020950 TTTTAGTCCT
* *
39020960 TTGGCACCATTGGTGCTGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
39020987 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
39021014 TTGGC
1 TTGGC
39021019 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:39021102 original size:27 final size:28
Alignment explanation
Indices: 39021072--39021136 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 28
39021062 TGTTTTTGGT
39021072 ATATTTTGGTAAATAAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
39021099 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
39021127 ATATTTTGGT
1 ATATTTTGGT
39021137 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:39024019 original size:3 final size:3
Alignment explanation
Indices: 39024011--39024051 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
39024001 ACCATAGCAA
39024011 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39024052 CAACTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:39028102 original size:24 final size:24
Alignment explanation
Indices: 39028060--39028106 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
39028050 GTGATTCCCG
* *
39028060 TTAATTGCTCTTCGTAGCTACCCA
1 TTAATTGCACTTCGGAGCTACCCA
*
39028084 TTAATTGCACTTTGGAGCTACCC
1 TTAATTGCACTTCGGAGCTACCC
39028107 GTTATAGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (24 bp):
TTAATTGCACTTCGGAGCTACCCA
Found at i:39030622 original size:8 final size:8
Alignment explanation
Indices: 39030609--39030638 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
39030599 GTTGATTTCC
39030609 AAACATTT
1 AAACATTT
39030617 AAACATTT
1 AAACATTT
39030625 AAACATTT
1 AAACATTT
39030633 AAACAT
1 AAACAT
39030639 GCATATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (8 bp):
AAACATTT
Found at i:39030904 original size:22 final size:21
Alignment explanation
Indices: 39030878--39031001 Score: 96
Period size: 22 Copynumber: 5.9 Consensus size: 21
39030868 TTCACAAACA
39030878 AATTCCTTTCAAAAATTCTCTC
1 AATTCC-TTCAAAAATTCTCTC
*
39030900 AATTCCCTTCAAAATTTCTCTC
1 AATT-CCTTCAAAAATTCTCTC
* *
39030922 AATTTCCTTCCAGAATTCTCTC
1 AA-TTCCTTCAAAAATTCTCTC
* *
39030944 AA--ACTCTC--AAATTCTC-A
1 AATTCCT-TCAAAAATTCTCTC
* *
39030961 AATTCCTTCCAAAATCCTCTC
1 AATTCCTTCAAAAATTCTCTC
*
39030982 AATTTCCTTCAAAAAATCTC
1 AA-TTCCTTCAAAAATTCTC
39031002 CAAATCCATA
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.03
18 9 0.11
19 4 0.05
20 9 0.11
21 2 0.03
22 50 0.62
23 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (21 bp):
AATTCCTTCAAAAATTCTCTC
Found at i:39031248 original size:24 final size:23
Alignment explanation
Indices: 39031193--39031248 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
39031183 TATATTTTAA
*
39031193 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
39031216 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
39031242 ATTTTTT
1 ATTTTTT
39031249 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:39033401 original size:23 final size:24
Alignment explanation
Indices: 39033367--39033441 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 24
39033357 ACATTATTTG
*
39033367 ATTAAAATCCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
* *
39033390 ATTAAAAACCCTTA-CCTAATTTA
1 ATTAAAAACCCTAACCCTAACTTA
* * *
39033413 ATTAAAAACCCAAACCCAAACCTA
1 ATTAAAAACCCTAACCCTAACTTA
39033437 ATTAA
1 ATTAA
39033442 TTAAATTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.07
23 28 0.67
24 11 0.26
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTAACTTA
Found at i:39033521 original size:23 final size:23
Alignment explanation
Indices: 39033494--39033545 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
39033484 AACCCTAACA
39033494 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
39033517 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
*
39033540 CAAACC
1 CTAACC
39033546 CTAACCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
CTAACCTAATTTAATTAAAAACC
Found at i:39033567 original size:117 final size:115
Alignment explanation
Indices: 39033387--39034428 Score: 1226
Period size: 122 Copynumber: 8.7 Consensus size: 115
39033377 CTAACCCTAC
* *
39033387 TTAATTAAAAACCCTTACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
*
39033452 AACCCTAACCTAACTTAATTTAAATAATTAAAAACCCTAACACTAACCTAAT
66 AACCCTAACCTAACCTAATTT-AATAATTAAAAACCCTAAC-CTAACCTAAT
39033504 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
*
39033569 AACCCTAACCTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAAT
66 AACCCTAACCTAACCTAATTT-AATAATTAAAAACCCTAA-CCTAACCTAAT
39033621 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
*
39033686 AACCCTAACCTAACTTAATTTAATTAAATTAAAAACCCTAACCTAACCTAAT
66 AACCCTAACCTAACCTAATTTAA-T-AATTAAAAACCCTAACCTAACCTAAT
* * *
39033738 TTAATTAAAAACCCAAACCCAAACCTATTTAAATAAATTAAAAACCCTAA-CCTAACCTAATTTA
1 TTAATT---AA---AAACCCTAACCTAATT---T-AATTAAAAACCCAAACCCTAACCTAA-TTA
*
39033802 ACTAAATTAAAAACCCTAACCCTAACCTAA-TT--TAATTAAAAACCCTAACCTAACCTAAT
55 ATTAAATTAAAAACCCTAA-CCTAACCTAATTTAATAATTAAAAACCCTAACCTAACCTAAT
39033861 TTAATTAAAAACACTAACCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
1 TTAATT-AAAA-AC---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
* *
39033926 TTAAAAACCCTAATCTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAAT
61 TTAAAAACCCTAACCTAACCTAATTT-AATAATTAAAAACCCTAA-CCTAACCTAAT
* *
39033983 TTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCAAATCCTAACCTATTTAATTAAA
1 TTAATTAAAAA--C---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
*
39034048 TTAAAAACCCTAACCTAACCTAAATTAACTAAATTAAAAACCCTAACCTAACCTAAT
61 TTAAAAACCCTAACCTAACCTAATTTAA-T-AATTAAAAACCCTAACCTAACCTAAT
*
39034105 TTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAA
1 TTAATTAAAAA--C---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
*
39034170 TTAAAAACCCTAACCTAACCTAA-TT--TAATTAAAAACCCAAACCCTAACCTATTTAAT
61 TTAAAAACCCTAACCTAACCTAATTTAATAATTAAAAACCCTAA-CCTAACC----TAAT
* ** *** * *
39034227 TAAATTAAAAACCCTAACCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTAACCTAATTTA
1 TTAATTAAAAACCCTAACCTAATTTAA-TTAA--AAA-CCCAAACCCTAA-CCTAA-TTAATTAA
39034292 ATT-AAAACCCTAACCTAACCTAA-TT--TAATTAAAAACCCTAACCTAACCTAAT
60 ATTAAAAACCCTAACCTAACCTAATTTAATAATTAAAAACCCTAACCTAACCTAAT
* *
39034344 TTAATTAAAAACTCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA-CCTAACCTAATTTA
1 TTAATT---AA---AAACCCTAACC----TAATTTAATTAAAAACCCAAACCCTAACCTAA-TTA
*
39034408 ACTAAATTAAAAACCCTAACC
55 ATTAAATTAAAAACCCTAACC
39034429 CTATTTAATT
Statistics
Matches: 832, Mismatches: 42, Indels: 97
0.86 0.04 0.10
Matches are distributed among these distances:
116 2 0.00
117 261 0.31
118 67 0.08
119 13 0.02
120 9 0.01
121 56 0.07
122 271 0.33
123 83 0.10
124 4 0.00
126 15 0.02
127 42 0.05
128 9 0.01
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (115 bp):
TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
AACCCTAACCTAACCTAATTTAATAATTAAAAACCCTAACCTAACCTAAT
Found at i:39033634 original size:23 final size:23
Alignment explanation
Indices: 39033607--39033662 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
39033597 TAAAAACCCT
39033607 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
39033630 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
39033653 AACCCAAACC
1 AACCCTAACC
39033663 CTAACCTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:39033849 original size:23 final size:24
Alignment explanation
Indices: 39033822--39033900 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 24
39033812 AAACCCTAAC
39033822 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAA--C--A
39033850 CCTAACCTAATTTAATTAAAAACACTAA
1 CCTAACCTAATTTAATT-AAAA-AC--A
39033878 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
39033901 CCAAACCCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.04
27 4 0.08
28 38 0.78
29 4 0.08
30 1 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (24 bp):
CCTAACCTAATTTAATTAAAAACA
Found at i:39033907 original size:23 final size:23
Alignment explanation
Indices: 39033819--39033907 Score: 70
Period size: 28 Copynumber: 3.4 Consensus size: 23
39033809 TAAAAACCCT
*
39033819 AACCCTAACCTAATTTAATTAAA
1 AACCCAAACCTAATTTAATTAAA
39033842 AACCCTAACCTAACCTAATTTAATTAAAA
1 AACCC--A---AACCTAATTTAATT-AAA
*
39033871 ACACTAACCTAACCTAATTTAATTAAA
1 A-AC---CCAAACCTAATTTAATTAAA
39033898 AACCCAAACC
1 AACCCAAACC
39033908 CTAACCTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
23 11 0.21
26 2 0.04
27 4 0.08
28 28 0.53
29 4 0.08
30 2 0.04
33 2 0.04
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (23 bp):
AACCCAAACCTAATTTAATTAAA
Found at i:39034099 original size:23 final size:24
Alignment explanation
Indices: 39034076--39034159 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 24
39034066 CCTAAATTAA
39034076 CTAAATTAAAAACCCTAACCTAAC
1 CTAAATTAAAAACCCTAACCTAAC
39034100 CTAATTTAATTAAAAACCCTAACCTAAC
1 CT-A---AATTAAAAACCCTAACCTAAC
*
39034128 CTAATTTAATTAAAAACCCAAACCCTAAC
1 CT-A---AATTAAAAACCCTAA-CCTAAC
39034157 CTA
1 CTA
39034160 TTTAATTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
28 43 0.80
29 8 0.15
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (24 bp):
CTAAATTAAAAACCCTAACCTAAC
Found at i:39034303 original size:22 final size:23
Alignment explanation
Indices: 39034275--39034337 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 23
39034265 TAAAAACCCT
39034275 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
39034298 ACCCTAACCTAACCTAATTTAATTAAA
1 A----ACCCTAACCTAATTTAATTAAA
39034325 AACCCTAACCTAA
1 AACCCTAACCTAA
39034338 CCTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 12 0.35
27 22 0.65
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:39034381 original size:150 final size:151
Alignment explanation
Indices: 39033513--39034431 Score: 1237
Period size: 150 Copynumber: 6.0 Consensus size: 151
39033503 TTTAATTAAA
*
39033513 AACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAA-T--TT-AATTAAAAACCCTAAC
* * *
39033578 CTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACC----TAATTTAATTAAAAACCCTAAC
61 CTAACCTAA-TT---TAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAAC
** ***
39033639 CTAATTTAA-TTAA--AAA-CCCAAACCCT
122 CTAACCTAATTTAACTAAATTAAAAACCCT
* * *
39033665 AA-CCTAA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAATTAAATTAAAAACCCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAA--T--TT-AATTAAAAACCCTAAC
* *
39033728 CTAACCTAATTTAATTAAAAACCCAAACCCAAACCTATTTAAATAAATTAAAAACCCTAACCTAA
61 CTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAA
39033793 CCTAATTTAACTAAATTAAAAACCCT
126 CCTAATTTAACTAAATTAAAAACCCT
*
39033819 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACACTAACCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAAC
* * *
39033884 CTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAATCTAACTTAA
66 CTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAA
*
39033949 TTTAAAT-AATTAAAAACCCT
131 TTTAACTAAATTAAAAACCCT
*
39033969 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCAAATCCTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-CCTAA
* * * *
39034034 CCTATTTAATTAAATTAAAAACCCTAA-CCTAACCTAAATTAACTAAATTAAAAACCCTAACCTA
65 CC----TAATTTAATTAAAAACCCAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAACCTA
39034098 ACCTAA-TT---T-AATTAAAAACCCT
125 ACCTAATTTAACTAAATTAAAAACCCT
* *
39034120 AA-CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACC----TAATTTAATTAAAAACCCTAAC
39034184 CTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAA
61 CTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAA
39034249 CCTAATTTAACTAAATTAAAAACCCT
126 CCTAATTTAACTAAATTAAAAACCCT
39034275 AACCCTAACCTAATTTAATT-AAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAAC
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAAC
*
39034339 CTAATTTAATTAAAAACTCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAA
66 CTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAA
39034404 TTTAACTAAATTAAAAACCCT
131 TTTAACTAAATTAAAAACCCT
39034425 AACCCTA
1 AACCCTA
39034432 TTTAATTAAA
Statistics
Matches: 697, Mismatches: 41, Indels: 60
0.87 0.05 0.08
Matches are distributed among these distances:
146 22 0.03
149 11 0.02
150 343 0.49
151 135 0.19
152 4 0.01
153 3 0.00
154 35 0.05
155 98 0.14
156 46 0.07
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (151 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAAC
CTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAA
TTTAACTAAATTAAAAACCCT
Found at i:39034432 original size:61 final size:61
Alignment explanation
Indices: 39033406--39034441 Score: 1052
Period size: 61 Copynumber: 17.1 Consensus size: 61
39033396 AACCCTTACC
* * *
39033406 TAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
*
39033467 TAATTTAAATAATTAAAAACCCTAACACTAACCTAA-T--TT-AATTAAAAACCCTAACCTAA--
1 TAA-TT--A-AATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
*
39033526 T--TT-AATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
39033584 TAATTTAAATAATTAAAAACCCTAACCCTAACCTAA-T--TT-AATTAAAAACCCTAACCTAA--
1 TAA-TT--A-AATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
*
39033643 T--TT-AATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACTTAAT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAAC-----
39033705 T
61 T
* *
39033706 TAATTAAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAA--AACCCAAACCCAAACCT-ATT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAA-TTAATTAAATTAA---AAACCCTAACCTAACT
* * *
39033767 TAAATAAATTAAAAACCCTAA-CCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAA-CCTAACT
* * *
39033829 TAATTTAATTAAAAACCCTAA-CCTAACCTAA-T--TT-AATTAAAAACACTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
* * *
39033885 TAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAATCTAACT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
*
39033946 TAATTTAAATAATTAAAAACCCTAACCCTAACCTAA-T--TT-AATTAAAAACCCTAACCTAACC
1 TAA-TT--A-AATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
* * * *
39034007 TAATTTAATTAAAAACCCAAATCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAAA
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAA-C----
39034072 T
61 T
* *
39034073 TAACTAAATTAAAAACCCTAA-CCTAACCTAA-T--TT-AATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
* * * *
39034129 TAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
* * *
39034190 TAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTAACCTAAT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAA-C----
39034255 T
61 T
* *
39034256 TAACTAAATTAAAAACCCTAACCCTAACCTAA-T--TT-AATT-AAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
* *
39034312 TAATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAA--AACTCAAACCCTAACCT-ATT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAA-TTAATTAAATTAA---AAACCCTAACCTAACT
* *
39034373 TAATTAAATTAAAAACCCTAA-CCTAACCTAATTTAACTAAATTAAAAACCCTAACCCT-ATT
1 TAATTAAATTAAAAACCCTAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAA-CCTAACT
39034434 TAATTAAA
1 TAATTAAA
39034442 AACCCTAATT
Statistics
Matches: 842, Mismatches: 54, Indels: 158
0.80 0.05 0.15
Matches are distributed among these distances:
52 49 0.06
53 2 0.00
55 14 0.02
56 108 0.13
57 57 0.07
58 5 0.01
59 5 0.01
60 30 0.04
61 323 0.38
62 60 0.07
63 7 0.01
64 6 0.01
65 95 0.11
66 70 0.08
67 11 0.01
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (61 bp):
TAATTAAATTAAAAACCCTAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTAACT
Found at i:39034438 original size:33 final size:33
Alignment explanation
Indices: 39033412--39034428 Score: 899
Period size: 33 Copynumber: 33.5 Consensus size: 33
39033402 TACCTAATTT
* * *
39033412 AATTAAAAACCCAAACCCAAACCTAA-TTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
* *
39033445 AATTAAAAACCCTAACCTAACTTAATTTAAAT-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39033477 AATTAAAAACCCTAACACTAACCTAA-TT---T-
1 AATTAAAAACCCTAAC-CTAACCTAATTTAACTA
39033506 AATTAAAAA--C---CCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39033529 AATTAAAAACCCAAACCCTAACCTAA-TTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
* *
39033562 AATTAAAAACCCTAACCTAACTTAATTTAAAT-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39033594 AATTAAAAACCCTAACCCTAACCTAA-TT---T-
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39033623 AATTAAAAA--C---CCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39033646 AATTAAAAACCCAAACCCTAACCTAA-TTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
* *
39033679 AATTAAAAACCCTAACCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39033712 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* * *
39033740 AATTAAAAACCCAAACCCAAACCT-ATTTAAATA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39033773 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39033806 AATTAAAAACCCTAACCCTAACCTAA-TT---T-
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39033835 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
*
39033863 AATTAAAAACACTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39033891 AATTAAAAACCCAAACCCTAACCTAA-TTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
* * *
39033924 AATTAAAAACCCTAATCTAACTTAATTTAAAT-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39033956 AATTAAAAACCCTAACCCTAACCTAA-TT---T-
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39033985 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39034013 AATTAAAAACCCAAATCCTAACCT-ATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
*
39034046 AATTAAAAACCCTAACCTAACCTAAATTAACTA
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39034079 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39034107 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39034135 AATTAAAAACCCAAACCCTAACCT-ATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39034168 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* *
39034196 AATTAAAAACCCAAACCCTAACCT-ATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39034229 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39034262 AATTAAAAACCCTAACCCTAACCTAA-TT---T-
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39034291 AATT-AAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39034318 AATTAAAAACCCTAACCTAACCTAA-TT---T-
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
* * *
39034346 AATTAAAAACTCAAACCCTAACCT-ATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTTAACTA
39034379 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAATTTAACTA
39034412 AATTAAAAACCCTAACC
1 AATTAAAAACCCTAACC
39034429 CTATTTAATT
Statistics
Matches: 874, Mismatches: 40, Indels: 140
0.83 0.04 0.13
Matches are distributed among these distances:
23 43 0.05
24 1 0.00
25 2 0.00
27 19 0.02
28 201 0.23
29 143 0.16
30 2 0.00
32 139 0.16
33 304 0.35
34 20 0.02
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.28
Consensus pattern (33 bp):
AATTAAAAACCCTAACCTAACCTAATTTAACTA
Found at i:39037836 original size:124 final size:125
Alignment explanation
Indices: 39037615--39037895 Score: 347
Period size: 124 Copynumber: 2.3 Consensus size: 125
39037605 CCACGAGGGC
* *
39037615 GCGATTTGACACTGTTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * *
39037680 GAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
* *
39037740 GCGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* ** * * *
39037802 GCGAAATCGCGTCCACGAGGCCATTATTTCACAATTTCTTCTTAAATAGCATCCTAGTA-GA
64 GCGAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
** *
39037863 TGCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 -GCGATTTGACACTATTT-CCTCAGAAACGTCAA
39037896 CTCAAAAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
123 8 0.06
124 77 0.57
125 42 0.31
126 7 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
Found at i:39039794 original size:13 final size:13
Alignment explanation
Indices: 39039770--39039808 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
39039760 TATTAGAATG
39039770 ATAAAT-AAATAA
1 ATAAATAAAATAA
39039782 ATAAATAAAATAA
1 ATAAATAAAATAA
39039795 A-AAGATAAAATAA
1 ATAA-ATAAAATAA
39039808 A
1 A
39039809 AATGCTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:39041743 original size:94 final size:94
Alignment explanation
Indices: 39041619--39042370 Score: 941
Period size: 94 Copynumber: 8.0 Consensus size: 94
39041609 AGTTTCATGT
* * * * * * * * *
39041619 TGCTCCATTGCAACTTTAAGAAGATAAGATTTGTTATTGTAGTTTCAATCCAACCCACCGCAACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
*
39041684 TCAGGGGTATAGGGTTTGTAGCTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* * * *
39041713 TGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGAAACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
* *
39041778 TCAGAGGTATAGGATTTGTAGTTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * * * *
39041807 CGCTCCACTACAATTTTAGGGAGATAAGATTCACCATGGTAGATTTAATTCGACCCACTGCAACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
39041872 TCAGGGGTATAGGATTTGTAGCTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
** * * * * * *
39041901 TGCTCTGCTGCAACTTTAGGGAGATAATATTCGTTATAGTAGAATCAATCCAACCCATTGCAACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
*
39041966 TCAGGGGTATAAGATTTGTAGCTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * *
39041995 TGTTTCACTGCAA-TTTCAAGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACAGCAAT
1 TGCTCCACTGCAACTTT-AGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAAC
39042059 TTCAGGGGTATAGGATTTGTAGCTTCAATC
65 TTCAGGGGTATAGGATTTGTAGCTTCAATC
* * *
39042089 TACTCCACTGTAACTTTAGGGAGATAAGATTC-CTTATGGTAGATTCAATCCGACCCACTGTAAC
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGC-TATGGTAGATTCAATCCGACCCACTGCAAC
*
39042153 TTCAGGGGTATAAGATTTGTAGCTTCAATC
65 TTCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * ** *
39042183 TACTCCATTGCAACTTTAGGGTGACAAGATTCGCTATGGTAGATTCAATTTGACCCACTGCGACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
*
39042248 TCAGGGGTATAGGATTTGTAGCTTCAACC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
** * * * * * *
39042277 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCCTTGTAGTTTTATTCTGACCCAATGCAACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
* *
39042342 TCAGGGGTATAGGAATTGTAGCTTTAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
39042371 CGAAGATTTG
Statistics
Matches: 561, Mismatches: 93, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
93 4 0.01
94 553 0.99
95 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (94 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
TCAGGGGTATAGGATTTGTAGCTTCAATC
Found at i:39044668 original size:25 final size:26
Alignment explanation
Indices: 39044640--39044709 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
39044630 GCATGTAAAT
39044640 GGGAAGCTCTAT-CGAGCCATATAAC
1 GGGAAGCTCTATGCGAGCCATATAAC
* * ** *
39044665 GGGAAACTC-ATGTGAGCTGTATAGC
1 GGGAAGCTCTATGCGAGCCATATAAC
39044690 GGGAAGCTCT-TGCGAGCCAT
1 GGGAAGCTCTATGCGAGCCAT
39044710 TTATTGGAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (26 bp):
GGGAAGCTCTATGCGAGCCATATAAC
Found at i:39044746 original size:25 final size:25
Alignment explanation
Indices: 39044718--39044787 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
39044708 ATTTATTGGA
*
39044718 AAGCTCAAGAGAGCCAAATATCAGG
1 AAGCTCAAGAGAGCTAAATATCAGG
*** *
39044743 AAGCTTGTGAGAGCTAAATATCGGG
1 AAGCTCAAGAGAGCTAAATATCAGG
*
39044768 ATGCTCATA-AGAGCTAAATA
1 AAGCTCA-AGAGAGCTAAATA
39044788 ATGGGAAACT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCAAGAGAGCTAAATATCAGG
Found at i:39044793 original size:25 final size:25
Alignment explanation
Indices: 39044752--39044805 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
39044742 GAAGCTTGTG
**
39044752 AGAGCTAAATATCGGGATGCTCATA
1 AGAGCTAAATATCGGGAAACTCATA
39044777 AGAGCTAAATAAT-GGGAAACTCATA
1 AGAGCTAAAT-ATCGGGAAACTCATA
39044802 AGAG
1 AGAG
39044806 TTGTGGTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAGCTAAATATCGGGAAACTCATA
Found at i:39056548 original size:21 final size:21
Alignment explanation
Indices: 39056523--39056565 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39056513 TTTTCTAAAG
*
39056523 ATGTGTATTGGACTAAATTGA
1 ATGTGAATTGGACTAAATTGA
* *
39056544 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGACTAAATTGA
39056565 A
1 A
39056566 CTAAATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTGAATTGGACTAAATTGA
Found at i:39059784 original size:25 final size:25
Alignment explanation
Indices: 39059751--39059889 Score: 99
Period size: 25 Copynumber: 5.5 Consensus size: 25
39059741 TGAGCATCCC
*
39059751 ATTATATGGCTCTCACGAGCTTCTAG
1 ATTA-ATGGCTCTCACGAGCTTCTCG
***
39059777 ATTAATGGCTCTCTTAAGCTTCTCG
1 ATTAATGGCTCTCACGAGCTTCTCG
* *
39059802 -TTTATGGCTCGT-ATGAGCTTC-CTG
1 ATTAATGGCTC-TCACGAGCTTCTC-G
** *
39059826 A-TAATTTGGCTCTCTGGAGCTTTTCG
1 ATTAA--TGGCTCTCACGAGCTTCTCG
*
39059852 A-TAATTGGCTCTCACGAACTTCTCG
1 ATTAA-TGGCTCTCACGAGCTTCTCG
39059877 ATTAATGGCTCTC
1 ATTAATGGCTCTC
39059890 CGAAACTTCC
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.01
24 19 0.21
25 45 0.50
26 24 0.27
27 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
ATTAATGGCTCTCACGAGCTTCTCG
Found at i:39059993 original size:25 final size:25
Alignment explanation
Indices: 39059937--39059998 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
39059927 TTACGACTCT
*
39059937 TATGAGCTTCCCGTTATATAGCACG
1 TATGAGCTTCCCGTTACATAGCACG
* * *
39059962 AAAGAGCTTCCCGTTTACAT-GCTCG
1 TATGAGCTTCCCG-TTACATAGCACG
39059987 TATGAGCATTCC
1 TATGAGC-TTCC
39059999 TGAATATGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (25 bp):
TATGAGCTTCCCGTTACATAGCACG
Found at i:39064977 original size:13 final size:13
Alignment explanation
Indices: 39064945--39064978 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
39064935 TCCTAATACT
39064945 AATATTA-TATTA
1 AATATTATTATTA
39064957 AA-ATTATTATTA
1 AATATTATTATTA
39064969 AATATTATTA
1 AATATTATTA
39064979 AGAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:39064989 original size:22 final size:22
Alignment explanation
Indices: 39064952--39065016 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
39064942 ACTAATATTA
39064952 TATTAAAATTATTATTAAATA-T
1 TATTAAAATTA-TATTAAATAGT
*
39064974 TATTAAGAATTATATTAAGAAAGT
1 TATTAA-AATTATATTAA-ATAGT
*
39064998 TATT-AAATTATATTTAATA
1 TATTAAAATTATATTAAATA
39065017 ATAATTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 22 0.59
23 8 0.22
24 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TATTAAAATTATATTAAATAGT
Found at i:39064994 original size:12 final size:12
Alignment explanation
Indices: 39064948--39064991 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
39064938 TAATACTAAT
39064948 ATTA-TATTAAA
1 ATTATTATTAAA
39064959 ATTATTATT-AA
1 ATTATTATTAAA
39064970 A-TATTATTAAGA
1 ATTATTATTAA-A
39064982 ATTA-TATTAA
1 ATTATTATTAA
39064992 GAAAGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.24
11 8 0.28
12 12 0.41
13 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:39074190 original size:16 final size:16
Alignment explanation
Indices: 39074171--39074203 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39074161 AAAAATTTTC
39074171 AGTCCAACCCATTTAA
1 AGTCCAACCCATTTAA
*
39074187 AGTCTAACCCATTTAA
1 AGTCCAACCCATTTAA
39074203 A
1 A
39074204 ATTCTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (16 bp):
AGTCCAACCCATTTAA
Found at i:39079416 original size:18 final size:17
Alignment explanation
Indices: 39079384--39079417 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39079374 CAACCGCGAT
*
39079384 AAACGCAATGCGACCGA
1 AAACGCAACGCGACCGA
39079401 AAACGCGAACGCGACCG
1 AAACGC-AACGCGACCG
39079418 CGACCGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.32, G:0.26, T:0.03
Consensus pattern (17 bp):
AAACGCAACGCGACCGA
Found at i:39101687 original size:106 final size:106
Alignment explanation
Indices: 39101502--39101702 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
39101492 AAGCTTTAAG
*
39101502 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAATCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
39101567 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
39101608 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
39101673 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
39101703 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:39102608 original size:22 final size:23
Alignment explanation
Indices: 39102552--39102608 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
39102542 AGTTTAAAAT
39102552 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
39102575 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
39102596 AAAATATATAAAA
1 AAAATATATAAAA
39102609 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:39103338 original size:13 final size:13
Alignment explanation
Indices: 39103320--39103344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39103310 AAATGCGTAG
39103320 ATAAATAAATGAA
1 ATAAATAAATGAA
39103333 ATAAATAAATGA
1 ATAAATAAATGA
39103345 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:39104233 original size:132 final size:132
Alignment explanation
Indices: 39104064--39104800 Score: 1018
Period size: 132 Copynumber: 5.6 Consensus size: 132
39104054 CTGTTTTTCA
* *
39104064 ATCCACTTCCTACCAATATAGGAAGGCAGGATATGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
39104129 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
39104194 GG
131 CG
* * *
39104196 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
39104261 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
39104326 CG
131 CG
* *
39104328 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
39104393 GAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
39104458 CG
131 CG
* * * * * * * * **
39104460 ATCCACTTCATGCCAATACATG-AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACA
* * *** *** * *
39104524 GGAAGACAAGATCTGC-ATCTTCGAT-TCACTTC-ATGCCAATACATG-AGACAAGATTTGCTTT
65 TGAAGACAAGATCTGCTTTCTTCGATCT-ACTTCGCCACCAATATGGGAAGACAAGATCTGC-AT
39104585 CTTCG
128 CTTCG
* * * * *
39104590 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGCCAATACA
1 ATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACA
*
39104654 TGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
65 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
39104719 TCG
130 TCG
* * * *
39104722 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCCTCGATCTACTTCATGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
39104787 GAAGACAAGATCTG
66 GAAGACAAGATCTG
39104801 TTTTAATGAC
Statistics
Matches: 524, Mismatches: 71, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
129 12 0.02
130 43 0.08
131 94 0.18
132 363 0.69
133 12 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CG
Found at i:39104512 original size:87 final size:88
Alignment explanation
Indices: 39104051--39104774 Score: 838
Period size: 88 Copynumber: 8.3 Consensus size: 88
39104041 AGGGAGATAG
* * * * * * * *
39104051 GATCTG-TTT-TTCAATCCACTTC-CTACCAATATAGGAAGGCAGGATATGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
39104113 CTTCACGCCAATACATGAAGACAA
65 CTTCACGCCAATACATGAAGACAA
* * *
39104137 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
** * * * *
39104202 TTC-CTATCAATATAGGAAGATAG
66 TTCAC-GCCAATACATGAAGACAA
* * * * *** * * *
39104225 GACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * ***
39104289 CTTCGCCACCAATATGGGAAGACAA
65 CTTC-ACGCCAATACATGAAGACAA
* * * * * * * *
39104314 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
39104377 CTTCACGCCAATACATGAAGACAA
65 CTTCACGCCAATACATGAAGACAA
*
39104401 GATCTGCTTTCTTCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
39104466 TTCATGCCAATACATG-AGACAA
66 TTCACGCCAATACATGAAGACAA
*
39104488 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATTCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
39104553 TTCATGCCAATACATG-AGACAA
66 TTCACGCCAATACATGAAGACAA
*
39104575 GATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
39104640 TTCACGCCAATACATGAAGACAA
66 TTCACGCCAATACATGAAGACAA
*
39104663 GATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * *
39104728 TTC-CTACCAATATAGGAAGATAG
66 TTCAC-GCCAATACATGAAGACAA
* * *
39104751 GACCTGCTATCCTCGATCTACTTC
1 GATCTGCTTTCTTCGATCTACTTC
39104775 ATGCCAATAC
Statistics
Matches: 554, Mismatches: 73, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
86 6 0.01
87 217 0.39
88 266 0.48
89 64 0.12
90 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (88 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCACGCCAATACATGAAGACAA
Found at i:39117494 original size:43 final size:44
Alignment explanation
Indices: 39117433--39117530 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 44
39117423 GGTATAGGAA
** *
39117433 TTGTAGCTTCAATATGCTCCACTGTAGCTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATATGCTCCACTACAACTTCAGAGAGATAAGAT
* * *
39117477 TTG-AGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGGT
1 TTGTAGCTTCAATATGCTCCACTACAACTTCAGAGAGATAAGAT
39117520 TTGTAGCTTCA
1 TTGTAGCTTCA
39117531 TCTTACTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 37 0.80
44 9 0.20
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATATGCTCCACTACAACTTCAGAGAGATAAGAT
Found at i:39117552 original size:44 final size:43
Alignment explanation
Indices: 39117460--39117564 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
39117450 TCCACTGTAG
* *
39117460 CTTCAGAGAGATAAGATTTGAGCTTTAATCTGCTCCACTACAA
1 CTTCAGAGAGATAAGATTTGAGCTTTAATCTACTCCACCACAA
* * *
39117503 CTTCAGAGAGATAAGGTTTGTAGC-TTCATCTTACTCCACCGCAA
1 CTTCAGAGAGATAAGATTTG-AGCTTTAATC-TACTCCACCACAA
* * *
39117547 TTTCAGGGAGATACGATT
1 CTTCAGAGAGATAAGATT
39117565 CGCCATGGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 24 0.47
44 27 0.53
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCAGAGAGATAAGATTTGAGCTTTAATCTACTCCACCACAA
Found at i:39126266 original size:18 final size:18
Alignment explanation
Indices: 39126206--39126266 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
39126196 TGTACCAATT
39126206 TCTGCCATGTCGTCCAGA
1 TCTGCCATGTCGTCCAGA
* * * **
39126224 TCTACTCTTGTTCTATCCATT
1 TCTGC-CATG-TC-GTCCAGA
39126245 TCTGCCATGTCGTCCAGA
1 TCTGCCATGTCGTCCAGA
39126263 TCTG
1 TCTG
39126267 GAACAATGGG
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 12 0.40
19 5 0.17
20 5 0.17
21 8 0.27
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.38
Consensus pattern (18 bp):
TCTGCCATGTCGTCCAGA
Found at i:39126785 original size:19 final size:18
Alignment explanation
Indices: 39126763--39126798 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
39126753 AAGGCCTTTT
*
39126763 ATGAAATTTAATGCATGAG
1 ATGAAATGTAATG-ATGAG
39126782 ATGAAATGTAATGATGA
1 ATGAAATGTAATGATGA
39126799 TGAATGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (18 bp):
ATGAAATGTAATGATGAG
Found at i:39130012 original size:5 final size:5
Alignment explanation
Indices: 39130002--39130036 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
39129992 ATTACTTGAC
39130002 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
39130037 GGAAAATGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:39134742 original size:41 final size:41
Alignment explanation
Indices: 39134676--39134891 Score: 290
Period size: 41 Copynumber: 5.3 Consensus size: 41
39134666 CTCAGATCTA
*
39134676 AAAAGCGCCGCTAACT-CTCATATCTTTAGCGGCGTTTTTGG
1 AAAAGCGCCGCTAA-TGCTCAGATCTTTAGCGGCGTTTTTGG
* *
39134717 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCATTTTTGA
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
* *
39134758 AAAAGCGCCGCTAATTCTCAGATCTTTAGCAGCGTTTTTGG
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
* *
39134799 GAAAGCGCCGCTAATGCTTAGATCTTTAGCGGCGTTTTTGG
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
* * ** * * *
39134840 AAAAGCGCCGTTAATGCTCGGGGCTTTAGCGACATTTTTGA
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
39134881 AAAAGCGCCGC
1 AAAAGCGCCGC
39134892 AAAAACATTT
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 1 0.01
41 152 0.99
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGG
Found at i:39135331 original size:14 final size:15
Alignment explanation
Indices: 39135298--39135331 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
39135288 TAAGGTTTAT
39135298 AGATTATGGAATTAG
1 AGATTATGGAATTAG
39135313 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
39135327 GGATT
1 AGATT
39135332 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:39135530 original size:82 final size:82
Alignment explanation
Indices: 39135393--39135570 Score: 252
Period size: 82 Copynumber: 2.2 Consensus size: 82
39135383 GAGTTAGGGA
* * *
39135393 TTTAGGGTTTATGGATTCAGTGTCAGGTTAGGCTTTAGAGTTTAGATTAATTAGTGTATTT-TAA
1 TTTAGGGTTTAGGGATTCAGGGTCAGGTTAGGCTTTAGAGTTTAGACTAATTAGTGT-TTTCTAA
39135457 TTTATATATTAAATAATG
65 TTTATATATTAAATAATG
* * * * *
39135475 TTTAGGGGTTAGGGATTCGGGGTCGGGTTAGGGTTT-GTGATTTAGACTAATTAGTGTTTTCTAA
1 TTTAGGGTTTAGGGATTCAGGGTCAGGTTAGGCTTTAGAG-TTTAGACTAATTAGTGTTTTCTAA
39135539 TTTATATATTAAATAATG
65 TTTATATATTAAATAATG
39135557 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
39135571 TTTGTGGTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 5 0.06
82 80 0.94
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (82 bp):
TTTAGGGTTTAGGGATTCAGGGTCAGGTTAGGCTTTAGAGTTTAGACTAATTAGTGTTTTCTAAT
TTATATATTAAATAATG
Found at i:39136698 original size:22 final size:23
Alignment explanation
Indices: 39136673--39136731 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
39136663 CTCCTCCCCC
*
39136673 AAAATCCCCAACTTTCCCGCC-T
1 AAAATCCCCAACTTTCCCCCCTT
*
39136695 AAAATCCCTAA-TTTCCCCCCTT
1 AAAATCCCCAACTTTCCCCCCTT
* *
39136717 GAAACCCCCAACTTT
1 AAAATCCCCAACTTT
39136732 ACAAACATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 19 0.63
23 3 0.10
ACGTcount: A:0.29, C:0.42, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAATCCCCAACTTTCCCCCCTT
Found at i:39136782 original size:163 final size:163
Alignment explanation
Indices: 39136612--39136935 Score: 639
Period size: 163 Copynumber: 2.0 Consensus size: 163
39136602 GCGTTTTTAT
*
39136612 TAAAAACGTCGCAAAAAATTTACTTTAAAAAAATAGGCCATTTTATAAAATCTCCTCCCCCAAAA
1 TAAAAACGCCGCAAAAAATTTACTTTAAAAAAATAGGCCATTTTATAAAATCTCCTCCCCCAAAA
39136677 TCCCCAACTTTCCCGCCTAAAATCCCTAATTTCCCCCCTTGAAACCCCCAACTTTACAAACATAC
66 TCCCCAACTTTCCCGCCTAAAATCCCTAATTTCCCCCCTTGAAACCCCCAACTTTACAAACATAC
39136742 CGTCCTTTAAAATTTTTAACTCCATGCCCATAA
131 CGTCCTTTAAAATTTTTAACTCCATGCCCATAA
39136775 TAAAAACGCCGCAAAAAATTTACTTTAAAAAAATAGGCCATTTTATAAAATCTCCTCCCCCAAAA
1 TAAAAACGCCGCAAAAAATTTACTTTAAAAAAATAGGCCATTTTATAAAATCTCCTCCCCCAAAA
39136840 TCCCCAACTTTCCCGCCTAAAATCCCTAATTTCCCCCCTTGAAACCCCCAACTTTACAAACATAC
66 TCCCCAACTTTCCCGCCTAAAATCCCTAATTTCCCCCCTTGAAACCCCCAACTTTACAAACATAC
39136905 CGTCCTTTAAAATTTTTAACTCCATGCCCAT
131 CGTCCTTTAAAATTTTTAACTCCATGCCCAT
39136936 TGCTATATTT
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 160 1.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (163 bp):
TAAAAACGCCGCAAAAAATTTACTTTAAAAAAATAGGCCATTTTATAAAATCTCCTCCCCCAAAA
TCCCCAACTTTCCCGCCTAAAATCCCTAATTTCCCCCCTTGAAACCCCCAACTTTACAAACATAC
CGTCCTTTAAAATTTTTAACTCCATGCCCATAA
Found at i:39136861 original size:22 final size:23
Alignment explanation
Indices: 39136836--39136894 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
39136826 CTCCTCCCCC
*
39136836 AAAATCCCCAACTTTCCCGCC-T
1 AAAATCCCCAACTTTCCCCCCTT
*
39136858 AAAATCCCTAA-TTTCCCCCCTT
1 AAAATCCCCAACTTTCCCCCCTT
* *
39136880 GAAACCCCCAACTTT
1 AAAATCCCCAACTTT
39136895 ACAAACATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 19 0.63
23 3 0.10
ACGTcount: A:0.29, C:0.42, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAATCCCCAACTTTCCCCCCTT
Found at i:39140691 original size:24 final size:23
Alignment explanation
Indices: 39140663--39140710 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
39140653 AATTTAAAAA
39140663 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
39140687 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
39140710 A
1 A
39140711 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:39140836 original size:43 final size:43
Alignment explanation
Indices: 39140735--39140939 Score: 250
Period size: 43 Copynumber: 4.8 Consensus size: 43
39140725 AGATTATGTT
* * * * *
39140735 TTTAGCGGTGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* *
39140777 TTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* *
39140820 TATAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* ** *
39140863 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* ** *
39140906 TTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAG
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAG
39140940 ATTATGTTTT
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 31 0.22
43 113 0.78
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:39142283 original size:21 final size:22
Alignment explanation
Indices: 39142242--39142285 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
39142232 TATGATATGC
*
39142242 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
39142264 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
39142285 A
1 A
39142286 GATATCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:39142519 original size:23 final size:23
Alignment explanation
Indices: 39142475--39142519 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
39142465 TCTTATTTTG
* *
39142475 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
39142498 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
39142520 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:39142878 original size:37 final size:37
Alignment explanation
Indices: 39142802--39142878 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
39142792 CATACATACG
*
39142802 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
39142840 TTTTATAA-ATATATATATAC-ACATAGTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
39142877 TT
1 TT
39142879 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:39144656 original size:19 final size:20
Alignment explanation
Indices: 39144619--39144669 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
39144609 TTAAAAAAAT
*
39144619 AAATTATAAAAAGTTATTTTTA
1 AAATTAT-AAAAGTTA-TTTAA
39144641 AAATT-TAAAA-TTATTTAA
1 AAATTATAAAAGTTATTTAA
39144659 AAATTATAAAA
1 AAATTATAAAA
39144670 ATGATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 8 0.30
20 4 0.15
21 1 0.04
22 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTATAAAAGTTATTTAA
Found at i:39144680 original size:42 final size:42
Alignment explanation
Indices: 39144592--39144691 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
39144582 TTTAATTAAT
*
39144592 TTTTTAAAATTTTAAAATTAAAAAAATAAATTATAAAAAGTTA
1 TTTTTAAAA-TTTAAAATTAAAAAAATAAATTATAAAAAGTAA
***
39144635 TTTTTAAAATTTAAAATT-ATTTAA-AAATTATAAAAATGATAA
1 TTTTTAAAATTTAAAATTAAAAAAATAAATTATAAAAA-G-TAA
*
39144677 TTTTT-AATTTTAAAA
1 TTTTTAAAATTTAAAA
39144692 AAATAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 12 0.24
41 13 0.26
42 16 0.32
43 9 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (42 bp):
TTTTTAAAATTTAAAATTAAAAAAATAAATTATAAAAAGTAA
Found at i:39145129 original size:23 final size:22
Alignment explanation
Indices: 39145096--39145138 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
39145086 ATAAAAAAAT
39145096 ATTTTTAAAAAA-TAATATGATG
1 ATTTTTAAAAAAGTAA-ATGATG
39145118 ATTTTTAGAAAAAGTAAATGA
1 ATTTTTA-AAAAAGTAAATGA
39145139 GGTATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 9 0.47
24 3 0.16
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAAAGTAAATGATG
Found at i:39148461 original size:54 final size:54
Alignment explanation
Indices: 39148370--39148479 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
39148360 TCCCCCATAA
* *
39148370 TCCCTTAATTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
1 TCCCCTAACTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
* *
39148424 TCCCCTAACTCACTCCTAAAATCGCT-TCTTCACTTCCCACTATACATCCACCAC
1 TCCCCTAACTCACTCCTAAAATCGCTCCCTT-ACTTCCCACTACACATCCACCAC
39148478 TC
1 TC
39148480 ATAAACCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.06
54 48 0.94
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.28
Consensus pattern (54 bp):
TCCCCTAACTCACTCCTAAAATCGCTCCCTTACTTCCCACTACACATCCACCAC
Found at i:39150453 original size:114 final size:111
Alignment explanation
Indices: 39150140--39150806 Score: 572
Period size: 114 Copynumber: 5.9 Consensus size: 111
39150130 TTACCACAAT
* * * * * * *
39150140 GCGCCGCGAAATCTCTTAACCAAAACGC-TGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGC
1 GCGCCGCAAAATATCTTAA-CAAAACGCAT-AGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGC
* * ** * * *
39150204 GTTTACGCG-AAACGCCATTAAAGGACAGTAATAGCGGCGCTTTCTGGAA
63 GCTTATG-GTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * *
39150253 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGCG
* * * * * * *
39150317 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
64 CTTAT-GGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * * *
39150366 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * **
39150431 CATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* ** * * *
39150481 GCGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAAC-AAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGC
* *
39150546 TTACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAA
65 TTATGGTAAA-CGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAA
* * *
39150595 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * * **
39150660 CTTA--GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* * *
39150708 GCGCCGCAAAATATCTTAACAAAAACGCAGT-GTTTTGATCTTAATGTATATAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAAC-AAAACGCA-TAGTTTTGGTCTTGATGTATATAGAATTAGTGGCG
* *
39150772 CTTACGGTAAACCGCCGCTAAAGAATATTAATAGC
64 CTTATGGTAAA-CGCCGCTAAAGAATAGTAATAGC
39150807 AGCAAAATAT
Statistics
Matches: 453, Mismatches: 82, Indels: 37
0.79 0.14 0.06
Matches are distributed among these distances:
112 51 0.11
113 167 0.37
114 175 0.39
115 60 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (111 bp):
GCGCCGCAAAATATCTTAACAAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGCT
TATGGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
Found at i:39150708 original size:227 final size:226
Alignment explanation
Indices: 39150254--39151037 Score: 827
Period size: 208 Copynumber: 3.5 Consensus size: 226
39150244 TTTCTGGAAA
* * * * * * * * * *
39150254 CGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCGC
* * * * * * *
39150318 TTATAGG-AAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAAGCGCCGCAAACTATCT
65 TTA-CGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCT
* * * ** * * * * * * *
39150382 TAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCGCATATGGTCAAACGCC
129 TAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGC-T-TAGTGAAACGCC
* *
39150447 GCTAAAGAATAGTATTAGCGGCGATTTGTAGCTAG
192 GTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAG
39150482 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
39150547 TACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTT
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAAGCGCCGCAAAATATCTT
39150612 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
130 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
39150677 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
195 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
* *
39150709 CGCCGCAAAATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
39150774 TACGGTAAACCGCCGCTAAAGAATATTAATA-----GC--------A-----GCAAAATATCTTA
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
39150821 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
131 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
* * **
39150886 AAGCATAGTATTAGCGGCGCTTGGATA-AAAG
196 AAGCATAGTATTAGCGGCGATTTG-TAGCTAG
* * * * * * * ** * *
39150917 CGCCACCAAGTATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCGA
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGC
* * * * * *
39150982 TTTCGGTAAAACGTCGCTAAAGCATAGTATTAGCGGCGATTTGTTGATAGCGCCGC
65 TTACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGA-AGCGCCGC
39151038 GACTTACCAT
Statistics
Matches: 473, Mismatches: 59, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
208 142 0.30
209 39 0.08
213 1 0.00
214 1 0.00
222 2 0.00
223 1 0.00
227 139 0.29
228 77 0.16
229 71 0.15
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (226 bp):
CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
AAGCATAGTATTAGCGGCGATTTGTAGCTAG
Found at i:39151325 original size:14 final size:14
Alignment explanation
Indices: 39151256--39151326 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
39151246 ACAGTGTAAA
*
39151256 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* * *
39151270 GTTTACGATGTA-G
1 GTTTAAGGTTTAGG
39151283 GTTTAAGG-TTAGG
1 GTTTAAGGTTTAGG
*
39151296 GTATTAGGGTGTTTAGG
1 GT-TTA-AG-GTTTAGG
39151313 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
39151327 AGTCTGGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.05
13 10 0.23
14 18 0.42
15 2 0.05
16 4 0.09
17 7 0.16
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:39152494 original size:22 final size:22
Alignment explanation
Indices: 39152468--39152514 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
39152458 ACTATTCCGA
*
39152468 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
39152490 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
39152512 TTA
1 TTA
39152515 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:39152896 original size:36 final size:36
Alignment explanation
Indices: 39152854--39152969 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
39152844 GTTGTTATGT
39152854 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
1 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
* ** * * *
39152890 TCTGAAATA--ATTTGTTTTTG--ATTATGTTGTTATG
1 TCTGAAATATGCTTTGGATTTGAAATAAT-TTCTGA-G
*
39152924 TTCTGAAATATGCTTTGGATTTGAAATAATTTTTGAG
1 -TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
39152961 TCTGAAATA
1 TCTGAAATA
39152970 ATTTGTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 9 0.15
35 9 0.15
36 18 0.30
37 9 0.15
38 4 0.07
39 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (36 bp):
TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
Found at i:39152920 original size:71 final size:71
Alignment explanation
Indices: 39152821--39153021 Score: 368
Period size: 71 Copynumber: 2.8 Consensus size: 71
39152811 TGAGTGGATT
39152821 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
39152886 TGAGTC
66 TGAGTC
*
39152892 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
39152957 TGAGTC
66 TGAGTC
*
39152963 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
39153022 CTGGATCTGG
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
70 2 0.02
71 125 0.98
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:39153176 original size:14 final size:14
Alignment explanation
Indices: 39153157--39153186 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
39153147 ATAAAAGGTT
39153157 TTTAGTTAATCATC
1 TTTAGTTAATCATC
39153171 TTTAGTTAATCATC
1 TTTAGTTAATCATC
39153185 TT
1 TT
39153187 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:39154647 original size:11 final size:11
Alignment explanation
Indices: 39154610--39154649 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
39154600 GAATATCTCA
39154610 AACT-ATGGGT
1 AACTAATGGGT
*
39154620 AACTAGTGGGT
1 AACTAATGGGT
39154631 AACTAATGGGT
1 AACTAATGGGT
39154642 AACTAATG
1 AACTAATG
39154650 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:39156014 original size:17 final size:17
Alignment explanation
Indices: 39155992--39156290 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
39155982 GTTAAATTTA
39155992 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
39156009 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
39156026 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
39156049 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
39156066 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
39156083 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
39156106 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
39156123 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
39156146 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
39156163 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
39156180 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
39156193 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
39156207 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
39156224 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
39156247 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
39156264 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
39156281 TTACTAAAAT
1 TTACTAAAAT
39156291 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:39156065 original size:40 final size:40
Alignment explanation
Indices: 39156009--39156172 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
39155999 AATACATTAC
*
39156009 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
39156049 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
39156102 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
39156146 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
39156173 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:39156071 original size:57 final size:57
Alignment explanation
Indices: 39155983--39156132 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
39155973 CGATTGAATG
39155983 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
39156040 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
39156097 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
39156133 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:39156128 original size:97 final size:97
Alignment explanation
Indices: 39156012--39156323 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
39156002 ACATTACTTA
*
39156012 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
39156077 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
39156109 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
39156174 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
39156209 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
39156274 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
39156307 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
39156324 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:39156170 original size:57 final size:60
Alignment explanation
Indices: 39156109--39156233 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
39156099 AAATTTATTT
39156109 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
39156166 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
39156227 CTAAAAT
1 CTAAAAT
39156234 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:39156241 original size:101 final size:100
Alignment explanation
Indices: 39156004--39156306 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
39155994 ACTAAAATAC
*
39156004 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
39156069 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
39156105 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
39156167 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
39156202 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
39156267 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
39156303 ATTA
1 ATTA
39156307 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:39156250 original size:40 final size:43
Alignment explanation
Indices: 39156158--39156273 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
39156148 ACTAAAATAC
*
39156158 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
39156202 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
39156244 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
39156274 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:39156277 original size:57 final size:57
Alignment explanation
Indices: 39156202--39156323 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
39156192 GTTTAAATTT
* *
39156202 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
39156259 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
39156316 GTTACTTA
1 ATTACTTA
39156324 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:39156313 original size:13 final size:13
Alignment explanation
Indices: 39156295--39156365 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
39156285 TAAAATTTGT
39156295 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
39156308 TTAAATATGTTAC
1 TTAAATTTATTAC
39156321 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
39156334 TTAAATATGTTAC
1 TTAAATTTATTAC
39156347 TTAAATTTATTAC
1 TTAAATTTATTAC
39156360 TTAAAT
1 TTAAAT
39156366 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:39156331 original size:26 final size:26
Alignment explanation
Indices: 39156295--39156366 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
39156285 TAAAATTTGT
39156295 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
39156321 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
39156347 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
39156367 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:39156655 original size:19 final size:19
Alignment explanation
Indices: 39156631--39156857 Score: 91
Period size: 19 Copynumber: 12.5 Consensus size: 19
39156621 TAAAATAAAA
39156631 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
39156650 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
39156668 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
39156684 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
39156703 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
39156728 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* * *
39156746 GACATAAT-ACATT-TAATT
1 TACATAATAAC-TTACAACT
* *
39156764 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
39156778 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
39156797 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
39156816 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
39156830 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
39156849 TACATAATA
1 TACATAATA
39156858 CATAATAACT
Statistics
Matches: 160, Mismatches: 20, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 42 0.26
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:39156669 original size:18 final size:18
Alignment explanation
Indices: 39156646--39156724 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 18
39156636 AATAACTTAC
39156646 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
39156664 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
39156682 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
39156699 AACTTACATAATACATTT
1 AACTTACATAATACATTT
39156717 AACTTACA
1 AACTTACA
39156725 ACTTACATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 2 0.04
16 4 0.08
17 2 0.04
18 19 0.40
19 13 0.27
20 5 0.10
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:39156710 original size:26 final size:26
Alignment explanation
Indices: 39156629--39157032 Score: 516
Period size: 26 Copynumber: 16.0 Consensus size: 26
39156619 ATTAAAATAA
39156629 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
*
39156655 AATACAT-TTAACTTACATTACTTACAT
1 AATACATAATAACTTACA--ACTTACAT
39156682 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
*
39156708 AATACAT-TTAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
* * * *
39156733 AATACAT-TTGACTGACATA-ATACAT
1 AATACATAATAACTTACA-ACTTACAT
* * *
39156758 -TTA-ATTTACAACTT---AC--AC--
1 AATACA-TAATAACTTACAACTTACAT
39156776 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
*
39156802 AATACATAATAACTTACAACTTACAC
1 AATACATAATAACTTACAACTTACAT
39156828 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
39156854 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
* * *
39156880 AATACAT-TTAACTTGCAACTTACAC
1 AATACATAATAACTTACAACTTACAT
39156905 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
39156931 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
* *
39156957 AATACAT-TTAACTTACAACTTACAC
1 AATACATAATAACTTACAACTTACAT
*
39156982 AATACAT-TTAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
39157007 AATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACAT
39157033 TTAACTTACA
Statistics
Matches: 334, Mismatches: 26, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.03
20 3 0.01
21 1 0.00
22 2 0.01
23 1 0.00
24 5 0.01
25 118 0.35
26 171 0.51
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
AATACATAATAACTTACAACTTACAT
Found at i:39156878 original size:19 final size:19
Alignment explanation
Indices: 39156804--39156934 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
39156794 ACTTACATAA
39156804 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
39156823 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
39156842 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
39156856 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
39156875 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
39156893 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
39156907 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
39156926 TACATAATA
1 TACATAATA
39156935 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:39157040 original size:11 final size:10
Alignment explanation
Indices: 39157024--39157077 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
39157014 AATAACTTAC
39157024 AACTTACATTT
1 AACTTACA-TT
39157035 AACTTACA-T
1 AACTTACATT
39157044 AA--TACATTT
1 AACTTACA-TT
39157053 AACTTACA-T
1 AACTTACATT
39157062 AACTTACA-T
1 AACTTACATT
39157071 AACTTAC
1 AACTTAC
39157078 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:39157061 original size:18 final size:18
Alignment explanation
Indices: 39156998--39157063 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
39156988 TTTAACTTAC
*
39156998 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
39157017 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
39157035 AACTTACATAATACATTT
1 AACTTACATAATACATTT
39157053 AACTTACATAA
1 AACTTACATAA
39157064 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:39157073 original size:18 final size:18
Alignment explanation
Indices: 39156913--39157077 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
39156903 ACAATACATA
39156913 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
39156929 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
39156948 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
39156962 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
39156980 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
39156998 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
39157015 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
39157031 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
39157049 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
39157069 ATAACTTAC
1 ATAACTTAC
39157078 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:39162554 original size:21 final size:21
Alignment explanation
Indices: 39162528--39162598 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
39162518 CTACAACTTA
* *
39162528 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
39162549 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
39162570 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
39162591 AAGCAGAG
1 AAGCAGAG
39162599 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:39162841 original size:14 final size:14
Alignment explanation
Indices: 39162822--39162855 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
39162812 ATTGCTATTG
39162822 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
39162836 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
39162850 TTTGCT
1 GTTGCT
39162856 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:39162975 original size:41 final size:42
Alignment explanation
Indices: 39162922--39163253 Score: 198
Period size: 42 Copynumber: 7.9 Consensus size: 42
39162912 GTTTTTGTAT
* * *
39162922 AAAAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
39162963 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
39163006 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
39163048 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
39163090 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * ****
39163132 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * ****
39163174 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
39163216 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
39163254 TTTTCTAAGC
Statistics
Matches: 255, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
41 32 0.13
42 190 0.75
43 33 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:39163064 original size:126 final size:125
Alignment explanation
Indices: 39162924--39163249 Score: 357
Period size: 126 Copynumber: 2.6 Consensus size: 125
39162914 TTTTGTATAA
* * * *
39162924 AAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
39162989 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
66 TTAGCGGC-ATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
* *** * *
39163050 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
* ***** * * **
39163115 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
* * *** * * *
39163176 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
39163241 TTTAGCGGC
65 TTTAGCGGC
39163250 GTTTTTTTCT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
126 142 0.82
127 32 0.18
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
TTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:39163075 original size:42 final size:42
Alignment explanation
Indices: 39163011--39163297 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
39163001 AGAAAAAAAA
**
39163011 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
* *
39163053 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
39163095 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
39163137 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
39163179 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
39163221 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
39163263 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
39163298 GTTTGTAAAC
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.00
42 220 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:39163099 original size:84 final size:82
Alignment explanation
Indices: 39162924--39163297 Score: 442
Period size: 84 Copynumber: 4.5 Consensus size: 82
39162914 TTTTGTATAA
* * * *** ** *
39162924 AAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTAAGCGCCGCTAAAGAACATGTTCT
*******
39162989 TTAGCGGCGATTAGAAAAA
65 TTAGCGGCG-TTTTTTTCT
* *
39163008 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTAAGCGCCGCTAAAGAACATGTTC
*
39163073 TTTAGCGGCGTTTTTTCCT
64 TTTAGCGGCGTTTTTTTCT
* * * *
39163092 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--AAGCGCCGCTAAAGAACATGTTC
39163157 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
*
39163176 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TAAGCGCCGCTAAAGAACATGTTC
39163241 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
* *
39163260 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
39163298 GTTTGTAAAC
Statistics
Matches: 253, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 208 0.82
85 36 0.14
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCTT
TAGCGGCGTTTTTTTCT
Found at i:39163948 original size:21 final size:21
Alignment explanation
Indices: 39163919--39163959 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39163909 AGAACACGCC
39163919 AACAAAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * *
39163940 AACAGAAGCTCGTGAGAGCT
1 AACAAAAGCTCATAAGAGCT
39163960 GATCCACCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:39166441 original size:38 final size:41
Alignment explanation
Indices: 39166382--39166467 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 41
39166372 AATTATATTT
* * *
39166382 AATACAATAAAATATTTATTATATTTAT-TT-GTGTTTTTC
1 AATATAATAAAATAATTATTATATTTATGTTAGTGTTTATC
39166421 AATATAATAAAA-AATTATTATATTTATGTTAGTGTTTATC
1 AATATAATAAAATAATTATTATATTTATGTTAGTGTTTATC
39166461 AATATAA
1 AATATAA
39166468 ATACTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 14 0.33
39 13 0.31
40 15 0.36
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (41 bp):
AATATAATAAAATAATTATTATATTTATGTTAGTGTTTATC
Found at i:39168125 original size:22 final size:22
Alignment explanation
Indices: 39168086--39168130 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39168076 TTTTGACATA
* *
39168086 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
39168108 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
39168130 T
1 T
39168131 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:39171100 original size:8 final size:8
Alignment explanation
Indices: 39171089--39171129 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
39171079 AAAAATAATA
39171089 AAAATTAT
1 AAAATTAT
*
39171097 AAAAATAT
1 AAAATTAT
* *
39171105 AAACTAAT
1 AAAATTAT
39171113 AAAATTAT
1 AAAATTAT
39171121 AAAATTAT
1 AAAATTAT
39171129 A
1 A
39171130 TTTTTACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:39173572 original size:18 final size:19
Alignment explanation
Indices: 39173537--39173573 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39173527 TATATTATAT
*
39173537 TTAATAATTTTTTGACATA
1 TTAATAATTTTATGACATA
39173556 TTAATAATTTTAT-ACATA
1 TTAATAATTTTATGACATA
39173574 GATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAATAATTTTATGACATA
Found at i:39173595 original size:22 final size:22
Alignment explanation
Indices: 39173556--39173600 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39173546 TTTTGACATA
* *
39173556 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
39173578 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
39173600 T
1 T
39173601 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:39175825 original size:25 final size:25
Alignment explanation
Indices: 39175788--39175886 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
39175778 GACACACCAC
* * * *
39175788 AGCTCGCAAGAGCGTCCCGTTATTT
1 AGCTCTCATGAGCTTCCCATTATTT
* * **
39175813 AGCTCTCATGAGCATCCTATTAAAT
1 AGCTCTCATGAGCTTCCCATTATTT
* *
39175838 GGCTCTCTTGAGCTTCCCATTATTT
1 AGCTCTCATGAGCTTCCCATTATTT
* * *
39175863 GGCTTTCATGAGCTTCCCAATATT
1 AGCTCTCATGAGCTTCCCATTATT
39175887 GGCTTGCATG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCATTATTT
Found at i:39175904 original size:25 final size:25
Alignment explanation
Indices: 39175846--39175901 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
39175836 ATGGCTCTCT
* *
39175846 TGAGCTTCCCATTATTTGGCTTTCA
1 TGAGCTTCCCAATATTTGGCTTGCA
39175871 TGAGCTTCCCAATA-TTGGCTTGCA
1 TGAGCTTCCCAATATTTGGCTTGCA
39175895 TGAGCTT
1 TGAGCTT
39175902 TCCGATTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (25 bp):
TGAGCTTCCCAATATTTGGCTTGCA
Found at i:39175946 original size:25 final size:25
Alignment explanation
Indices: 39175814--39176012 Score: 145
Period size: 25 Copynumber: 8.0 Consensus size: 25
39175804 CCGTTATTTA
* * *
39175814 GCTCTCATGAGCATCCTATTAAATG
1 GCTCTCATGAGCTTCCCATTACATG
* **
39175839 GCTCTCTTGAGCTTCCCATTATTTG
1 GCTCTCATGAGCTTCCCATTACATG
* * *
39175864 GCTTTCATGAGCTTCCCAATA-TTG
1 GCTCTCATGAGCTTCCCATTACATG
*
39175888 GCT-TGCATGAGCTTTCCGATTAC--G
1 GCTCT-CATGAGC-TTCCCATTACATG
* *
39175912 GCTCTTATGAGCTTACCATTACATG
1 GCTCTCATGAGCTTCCCATTACATG
* * *
39175937 GCTCACATGAGATTCCCGTTACATG
1 GCTCTCATGAGCTTCCCATTACATG
* * * *
39175962 GCTCACATGAGTTTCTCATTATATG
1 GCTCTCATGAGCTTCCCATTACATG
** *
39175987 GCTCGAAAGAGCTTCCCGATTACATG
1 GCTCTCATGAGCTTCCC-ATTACATG
39176013 CTCGTATGGG
Statistics
Matches: 139, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
23 9 0.06
24 23 0.17
25 100 0.72
26 7 0.05
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCATTACATG
Found at i:39179612 original size:20 final size:20
Alignment explanation
Indices: 39179575--39179613 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39179565 CATTTTTTCT
*
39179575 TTACTTAAATTTCTTTTTAA
1 TTACTTAAATTACTTTTTAA
39179595 TTAC-TAAATTACTATTTTA
1 TTACTTAAATTACT-TTTTA
39179614 CCCTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTACTTAAATTACTTTTTAA
Found at i:39180346 original size:22 final size:22
Alignment explanation
Indices: 39180306--39180348 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39180296 ATATATATTT
*
39180306 TTATATTATTAAAATAAAATAA
1 TTATATTATTAAAAAAAAATAA
39180328 TTATA-TATTAAATAAAAAATA
1 TTATATTATTAAA-AAAAAATA
39180349 GAACTTGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATATTATTAAAAAAAAATAA
Found at i:39182913 original size:5 final size:5
Alignment explanation
Indices: 39182904--39182937 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
39182894 TTTATAAAGC
*
39182904 TTATA ATATA -TATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
39182938 AAGTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:39183905 original size:43 final size:43
Alignment explanation
Indices: 39183843--39183967 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
39183833 GGATTCCGAT
39183843 ATGTGTTCT-CGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
1 ATGTGTT-TACGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
* * ** ***
39183886 CTGTGTTTACGTGTAAGACC-CTGTTTGGGACAATGGCATCGGT
1 ATGTGTTTACGTGTAAGACCAC-GTCTGGGACGTTGGCATCAAC
* ** *
39183929 ATGTGATTACACGTAAGACCACGTCTGGGATGTTGGCAT
1 ATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
39183968 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.03
43 61 0.95
44 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
ATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
Done.