Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 111 of 199
Found at i:36756763 original size:41 final size:40
Alignment explanation
Indices: 36756655--36756764 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 40
36756645 TTTAACATAT
* * *
36756655 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTATTCATA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTATTCAGA
* *
36756695 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCCGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCT-ATTCAGA
*
36756736 TCACCGGCACTTAGCCTGCTAGATTTATA
1 TCACCGGCACTTAGCCTGCTAGGTTTATA
36756765 GTCTGAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 30 0.48
41 32 0.52
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (40 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTATTCAGA
Found at i:36760109 original size:47 final size:47
Alignment explanation
Indices: 36760056--36760290 Score: 129
Period size: 47 Copynumber: 5.1 Consensus size: 47
36760046 TCATATAAGA
* *
36760056 ATATTTATTATTAAAAATTTTATGAAATTATATGTCATTATTAAATT
1 ATATTTATTATTAAAAATTTTATGAAATTATATATAATTATTAAATT
* * *
36760103 ATATTTA--A-TAATAATTATT-TTAAATTATACA-AATTCATATAAGA--
1 ATATTTATTATTAAAAATT-TTATGAAATTATATATAATT-AT-TAA-ATT
* * * *
36760147 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAAAATTTTATGAAATTATATATAATTATTAAATT
* * *
36760194 ATATTTA--A-TAATAATTATT-TTAAATTATACA-AATTCATATAAGA--
1 ATATTTATTATTAAAAATT-TTATGAAATTATATATAATT-AT-TAA-ATT
* * * * * * *
36760238 AAAATTATTAGTAAGAGTTTTATGAAATTGTATATTATTATTAAATT
1 ATATTTATTATTAAAAATTTTATGAAATTATATATAATTATTAAATT
36760285 ATATTT
1 ATATTT
36760291 TTTAATAATT
Statistics
Matches: 139, Mismatches: 27, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
43 6 0.04
44 47 0.34
45 14 0.10
46 14 0.10
47 52 0.37
48 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (47 bp):
ATATTTATTATTAAAAATTTTATGAAATTATATATAATTATTAAATT
Found at i:36760145 original size:91 final size:91
Alignment explanation
Indices: 36760042--36760413 Score: 505
Period size: 91 Copynumber: 4.0 Consensus size: 91
36760032 TGATTTTAGT
* * * * *
36760042 AAATTCATATAAGAATATTTATTATTAAAAATTTTATGAAATTATATGTCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
36760107 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
36760133 AAATTCATATAAGAAAATTTATTA-TCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
36760197 TTTAATAATAATTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
* * *
36760224 AAATTCATATAAGAAAAATTATTAGTAAGAGTTTTATGAAATTGTATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
**
36760289 TTTTTAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
* *
36760315 AAATTCATATAAGAAAATTTATTAGTAATAATTATT-TTAAATTTCATTAAATATATATTTTAAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT-TTATGAAA-TT-A-T--ATAT-TA--TT-AT
* *
36760379 TAAAATATATTTAATAATAATTATTTCAAATTATA
56 TAAATTATATTTAATAATAATTATTTTAAATTATA
36760414 TTTTATAATC
Statistics
Matches: 251, Mismatches: 18, Indels: 15
0.88 0.06 0.05
Matches are distributed among these distances:
90 1 0.00
91 203 0.81
92 5 0.02
94 1 0.00
96 4 0.02
97 2 0.01
99 2 0.01
100 33 0.13
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:36760289 original size:16 final size:15
Alignment explanation
Indices: 36760268--36760313 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 15
36760258 TATGAAATTG
36760268 TATATTATTATTAAAT
1 TATATTATT-TTAAAT
36760284 TATATT-TTTT-AA-
1 TATATTATTTTAAAT
36760296 TA-ATTATTTTAAAT
1 TATATTATTTTAAAT
36760310 TATA
1 TATA
36760314 CAAATTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 3 0.12
12 6 0.23
13 4 0.15
14 4 0.15
15 3 0.12
16 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATTTTAAAT
Found at i:36760399 original size:53 final size:52
Alignment explanation
Indices: 36760340--36760527 Score: 137
Period size: 53 Copynumber: 3.3 Consensus size: 52
36760330 AATTTATTAG
36760340 TAATAATTATTTTAAATTTCATTAAATATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTTAAATTT-ATTAAATATATATTTTAATTAAAATATATTTAA
* * *
36760393 TAATAATTATTTCAAATTATATTTTATAATCTCATATATTATAATTTTAGTAAAT-TCATATAA
1 TAATAATTATTTTAAATT-TA--TTA-AA--T-ATATATTTTAA--TTA--AAATAT-ATTTAA
* *
36760456 GAAT-ATTGATTATAAAGAATTTTATTAAATATATATTTTAATTAAAATATATTTAA
1 TAATAATT-ATT-T-TA-AA-TTTATTAAATATATATTTTAATTAAAATATATTTAA
* *
36760512 TAATAACTATGTTAAA
1 TAATAATTATTTTAAA
36760528 ATATGATTAA
Statistics
Matches: 105, Mismatches: 11, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
53 20 0.19
54 2 0.02
55 4 0.04
56 16 0.15
57 3 0.03
58 4 0.04
59 10 0.10
60 10 0.10
61 4 0.04
62 4 0.04
63 17 0.16
64 4 0.04
65 1 0.01
66 4 0.04
67 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (52 bp):
TAATAATTATTTTAAATTTATTAAATATATATTTTAATTAAAATATATTTAA
Found at i:36760404 original size:14 final size:15
Alignment explanation
Indices: 36760355--36760393 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
36760345 ATTATTTTAA
*
36760355 ATTTCATTAAATATAT
1 ATTTAATTAAA-ATAT
36760371 ATTTTAATTAAAATAT
1 A-TTTAATTAAAATAT
36760387 ATTTAAT
1 ATTTAAT
36760394 AATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 9 0.43
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAATTAAAATAT
Found at i:36760413 original size:26 final size:25
Alignment explanation
Indices: 36760340--36760422 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
36760330 AATTTATTAG
*
36760340 TAATAATTATTTTAAATT-TCATTAAA
1 TAATAATTA-TTTAAATTAT-ATTTAA
* * *
36760366 TATATATTTTAATTAAAATATATTTAA
1 TA-ATA-ATTATTTAAATTATATTTAA
*
36760393 TAATAATTATTTCAAATTATATTTTA
1 TAATAATTATTT-AAATTATATTTAA
36760419 TAAT
1 TAAT
36760423 CTCATATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
25 5 0.11
26 20 0.44
27 16 0.36
28 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATAATTATTTAAATTATATTTAA
Found at i:36760434 original size:22 final size:24
Alignment explanation
Indices: 36760408--36760454 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
36760398 ATTATTTCAA
36760408 ATTAT-ATTTTA-T-AATCTCATAT
1 ATTATAATTTTAGTAAAT-TCATAT
36760430 ATTATAATTTTAGTAAATTCATAT
1 ATTATAATTTTAGTAAATTCATAT
36760454 A
1 A
36760455 AGAATATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 8 0.36
25 3 0.14
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTATAATTTTAGTAAATTCATAT
Found at i:36760515 original size:18 final size:17
Alignment explanation
Indices: 36760474--36760509 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
36760464 ATTATAAAGA
36760474 ATTTT-ATTAAATATAT
1 ATTTTAATTAAATATAT
36760490 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
36760506 ATTT
1 ATTT
36760510 AATAATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:36760714 original size:44 final size:47
Alignment explanation
Indices: 36760665--36760761 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 47
36760655 CTATTACACC
* * *
36760665 TCCATTCTATTTAACCAAAC-ACAAAAA-TA-CTATTACA-CCTCTAT
1 TCCATTCCATTCAACCAAACAAAAAAAATTACCTATTA-AGCCTCTAT
36760709 TCCATTCCATTCAACCAAACAAAAAAAATTACCTATTAAGCCTCTAT
1 TCCATTCCATTCAACCAAACAAAAAAAATTACCTATTAAGCCTCTAT
36760756 TCCATT
1 TCCATT
36760762 AGACCTCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 18 0.39
45 6 0.13
46 3 0.07
47 19 0.41
ACGTcount: A:0.40, C:0.28, G:0.01, T:0.31
Consensus pattern (47 bp):
TCCATTCCATTCAACCAAACAAAAAAAATTACCTATTAAGCCTCTAT
Found at i:36760768 original size:16 final size:16
Alignment explanation
Indices: 36760749--36760796 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
36760739 ACCTATTAAG
*
36760749 CCTCTATTCCATTAGA
1 CCTCTATTCCATTACA
36760765 CCTCTATTCCATTACA
1 CCTCTATTCCATTACA
* *
36760781 TCTCTATTTCATTACA
1 CCTCTATTCCATTACA
36760797 GCGAACCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (16 bp):
CCTCTATTCCATTACA
Found at i:36767496 original size:17 final size:15
Alignment explanation
Indices: 36767467--36767508 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
36767457 AAATAATAAA
36767467 ATATATTTTTATTTT
1 ATATATTTTTATTTT
*
36767482 ATATATTTTTATATT
1 ATATATTTTTATTTT
36767497 -T-TATTTTTATTT
1 ATATATTTTTATTT
36767509 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 14 0.56
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATATATTTTTATTTT
Found at i:36767519 original size:28 final size:29
Alignment explanation
Indices: 36767470--36767526 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
36767460 TAATAAAATA
* * * *
36767470 TATTTTTATTTTATATATTTTTA-TATTT
1 TATTTTTATTTAAAAAAATTTTATTATTT
36767498 TATTTTTATTTAAAAAAATTTTATTATTT
1 TATTTTTATTTAAAAAAATTTTATTATTT
36767527 AAATTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTTTATTTAAAAAAATTTTATTATTT
Found at i:36771588 original size:16 final size:16
Alignment explanation
Indices: 36771567--36771618 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
36771557 TTTGGTTCGC
36771567 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36771583 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
36771599 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
36771615 TGTA
1 TGTA
36771619 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:36771665 original size:45 final size:44
Alignment explanation
Indices: 36771599--36771693 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
36771589 GGATTAGAGG
* * * *
36771599 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTCAA
* **
36771644 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTCAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTCAA
36771688 TGTAAT
1 TGTAAT
36771694 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 17 0.40
45 26 0.60
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTCAA
Found at i:36771876 original size:18 final size:17
Alignment explanation
Indices: 36771855--36771889 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36771845 TTATTATTTA
*
36771855 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36771873 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36771890 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36771883 original size:28 final size:27
Alignment explanation
Indices: 36771813--36771885 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
36771803 TTTATTATCA
*
36771813 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
36771841 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
36771868 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
36771886 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:36772021 original size:18 final size:17
Alignment explanation
Indices: 36771999--36772033 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36771989 TAATTATTAA
*
36771999 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36772017 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36772034 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36772021 original size:144 final size:147
Alignment explanation
Indices: 36771774--36772045 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
36771764 ATGATTATTG
*
36771774 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
36771839 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTA--TAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
36771904 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
* *
36771923 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
36771986 ACATAATTATTA-AATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
36772046 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 48 0.40
147 44 0.37
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:36772080 original size:59 final size:58
Alignment explanation
Indices: 36772017--36772199 Score: 153
Period size: 53 Copynumber: 3.1 Consensus size: 58
36772007 TAATTAAAAT
*
36772017 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTC-TAATAATTAATATTCTTATATGAATTTACTAAAATCATA
** ** * * *
36772076 ATATATGATACTGTAAAATATAAATTAAAATAA-TAATTATT-AAATAT-ATTTTAATTAAA--A
1 ATATA--AT--T-T--AATA-AAATTCTAATAATTAA-TATTCTTATATGAATTTACTAAAATCA
36772136 T-
57 TA
*
36772137 ATATAATTTAATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTAATAATTAATATTCTTATATGAATTTACTAAAATCATA
36772195 ATATA
1 ATATA
36772200 TGATACTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 31
0.67 0.11 0.22
Matches are distributed among these distances:
53 14 0.15
54 10 0.11
55 9 0.10
56 1 0.01
57 3 0.03
58 5 0.05
59 7 0.07
61 7 0.07
62 2 0.02
63 1 0.01
64 10 0.11
65 7 0.07
66 13 0.14
67 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (58 bp):
ATATAATTTAATAAAATTCTAATAATTAATATTCTTATATGAATTTACTAAAATCATA
Found at i:36772141 original size:18 final size:17
Alignment explanation
Indices: 36772101--36772153 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
36772091 AAATATAAAT
36772101 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
36772115 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
36772130 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
36772148 TAAAAT
1 TAAAAT
36772154 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:36772206 original size:119 final size:120
Alignment explanation
Indices: 36771988--36772273 Score: 495
Period size: 119 Copynumber: 2.4 Consensus size: 120
36771978 ATATTTAAAC
*
36771988 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCT
* *
36772053 TATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAAAATA
66 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
36772108 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCT
1 ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCT
* *
36772172 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAATA
66 TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
*
36772227 ATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 A-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
36772274 TAAAATAATT
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
119 108 0.68
120 51 0.32
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCT
TATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAATTAAAATA
Found at i:36772211 original size:60 final size:59
Alignment explanation
Indices: 36772027--36772213 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
36772017 ATATAATTTA
*
36772027 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
36772088 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
36772146 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
36772207 ATAAAAT
1 ATAAAAT
36772214 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:36772270 original size:59 final size:58
Alignment explanation
Indices: 36771993--36772272 Score: 162
Period size: 59 Copynumber: 4.7 Consensus size: 58
36771983 TAAACATAAT
* *
36771993 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT-T--CTT-AATAATTAA
1 TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAATTTAAATAATTAA
** * * * * *
36772047 TATTCTTATATGAATTTACTCAAATCATAATATATGATACT-GTAAAATATAAATTAAAATAA-T
1 TATT-AAATAT--ATTT--T--AATTAAAATATATGAT-TTAATAAAATAT-AATTTAAATAATT
36772110 AA
57 AA
* * * * **
36772112 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAAT-ATTCT
1 -TATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-TATAAT-TTAAATAATTAA
* * * ** * * *
36772172 TATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAATTTGAAATAATTAA
1 TAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTT-AAATAATTAA
36772232 TATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 TATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
36772273 TTAAAATAAT
Statistics
Matches: 159, Mismatches: 44, Indels: 41
0.65 0.18 0.17
Matches are distributed among these distances:
54 4 0.03
55 4 0.03
57 4 0.03
58 3 0.02
59 62 0.39
60 38 0.24
61 21 0.13
62 2 0.01
63 4 0.03
65 8 0.05
66 9 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAATTTAAATAATTAA
Found at i:36776593 original size:16 final size:16
Alignment explanation
Indices: 36776572--36776628 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
36776562 TTTGGTTCGC
*
36776572 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
36776588 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
36776604 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
36776620 TGTAATGGA
1 TGTAATGGA
36776629 AAAACTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:36776895 original size:18 final size:17
Alignment explanation
Indices: 36776874--36776908 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36776864 TTATTATTAA
*
36776874 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36776892 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36776909 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36777027 original size:16 final size:16
Alignment explanation
Indices: 36777008--36777048 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
36776998 TTAATCATAT
*
36777008 TTAAATATAATTATTA
1 TTAAATATAATTATAA
36777024 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
36777039 TTAAAATATA
1 TT-AAATATA
36777049 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:36777048 original size:154 final size:154
Alignment explanation
Indices: 36776761--36777072 Score: 547
Period size: 154 Copynumber: 2.0 Consensus size: 154
36776751 TAGAATACCC
36776761 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
36776826 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
36776891 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATT-TTAA-AA
* *
36776918 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
*
36776981 TATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
36777046 ATATAATTTAATAAAATTTTAAAA
131 ATATAATTTAATAAAATTTTAAAA
36777070 TTA
1 TTA
36777073 ATATTCTTAT
Statistics
Matches: 151, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
152 5 0.03
153 4 0.03
154 81 0.54
155 1 0.01
157 60 0.40
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (154 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTTTAAAA
Found at i:36777056 original size:14 final size:15
Alignment explanation
Indices: 36777008--36777058 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
36776998 TTAATCATAT
*
36777008 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
36777024 TTAAATATATTATAA
1 TTAAATATATTATAA
36777039 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
36777052 TTTAATA
1 TTAAATA
36777059 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:36777120 original size:59 final size:59
Alignment explanation
Indices: 36777056--36777240 Score: 155
Period size: 59 Copynumber: 3.1 Consensus size: 59
36777046 ATATAATTTA
36777056 ATAAAATTTTAAAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTTTAAAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * * *
36777115 GTAAAA-TAT-AAATTAACATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTTTAAAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT
* * *
36777173 AATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATT-TTAA-AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
36777235 ATAAAA
1 ATAAAA
36777241 GAAAATTTCA
Statistics
Matches: 91, Mismatches: 23, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
57 5 0.05
58 6 0.07
59 31 0.34
60 14 0.15
61 27 0.30
62 5 0.05
63 3 0.03
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTTTAAAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:36777144 original size:118 final size:118
Alignment explanation
Indices: 36777014--36777308 Score: 447
Period size: 120 Copynumber: 2.5 Consensus size: 118
36777004 ATATTTAAAT
*
36777014 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAATTAATATTC
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAATTAAAATTC
* *
36777079 TTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AA
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA
*
36777131 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-TTAA-AATTAAAA
*
36777196 TTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
63 TTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
* *
36777252 ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAA-TTTAAAATTA
1 ATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTTTAAAATTA
36777309 TTATAACTAA
Statistics
Matches: 164, Mismatches: 8, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
116 4 0.02
117 4 0.02
118 51 0.31
119 26 0.16
120 74 0.45
121 5 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (118 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTAAAATTAAAATTC
TTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA
Found at i:36777174 original size:14 final size:15
Alignment explanation
Indices: 36777125--36777176 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
36777115 GTAAAATATA
36777125 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
36777140 TATTAAATATATTAT
1 AATTAAATATATTAT
36777155 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
36777168 AATTTAATA
1 AATTAAATA
36777177 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:36777191 original size:44 final size:43
Alignment explanation
Indices: 36777102--36777192 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
36777092 CTCAAATCAT
* * *
36777102 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
36777145 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
36777189 AATA
1 AATA
36777193 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:36777281 original size:15 final size:15
Alignment explanation
Indices: 36777261--36777299 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
36777251 AATAATTAAT
36777261 ATTAAATATGATTTA
1 ATTAAATATGATTTA
36777276 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
36777293 ATAAAAT
1 ATTAAAT
36777300 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:36777286 original size:17 final size:17
Alignment explanation
Indices: 36777266--36777299 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36777256 TTAATATTAA
*
36777266 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
36777283 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
36777300 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:36777442 original size:93 final size:92
Alignment explanation
Indices: 36777332--36777526 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
36777322 GATTATAGTT
* * *
36777332 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
36777395 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
36777425 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
36777490 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
36777517 TATGAATTTA
1 TATGAATTTA
36777527 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:36778937 original size:11 final size:11
Alignment explanation
Indices: 36778923--36778949 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
36778913 AAAAATCAAT
36778923 ACAAAAGTTTC
1 ACAAAAGTTTC
36778934 ACAAAAGTTTC
1 ACAAAAGTTTC
36778945 ACAAA
1 ACAAA
36778950 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:36781213 original size:15 final size:15
Alignment explanation
Indices: 36781193--36781223 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36781183 ATATTATGTA
36781193 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
36781208 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
36781223 T
1 T
36781224 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:36785582 original size:30 final size:31
Alignment explanation
Indices: 36785548--36785605 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
36785538 CTAAAATATT
36785548 TTTATAAAT-TTTAGAAATAT-TTTAAAATCA
1 TTTATAAATCTTTA-AAATATATTTAAAATCA
* *
36785578 TTTATAGATCTTTAAAATCTATTTAAAA
1 TTTATAAATCTTTAAAATATATTTAAAA
36785606 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTATAAATCTTTAAAATATATTTAAAATCA
Found at i:36806316 original size:10 final size:12
Alignment explanation
Indices: 36806287--36806351 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
36806277 GGTGTCTCCC
36806287 TCTCTTCTCATT
1 TCTCTTCTCATT
*
36806299 TCTTTTCT-ATT
1 TCTCTTCTCATT
36806310 T-TCTTCT--TT
1 TCTCTTCTCATT
* *
36806319 TCTTTTCTCCTT
1 TCTCTTCTCATT
*
36806331 TCTCTT-TTATT
1 TCTCTTCTCATT
*
36806342 TCTTTTCTCA
1 TCTCTTCTCA
36806352 ATCATTGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 3 0.07
10 10 0.24
11 12 0.29
12 16 0.39
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTCTTCTCATT
Found at i:36806325 original size:20 final size:23
Alignment explanation
Indices: 36806287--36806351 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
36806277 GGTGTCTCCC
36806287 TCTCTTCTCATTTCTTTTCT-ATT
1 TCTCTTCT-ATTTCTTTTCTCATT
*
36806310 T-TCTTCT-TTTCTTTTCTCCTT
1 TCTCTTCTATTTCTTTTCTCATT
*
36806331 TCTCTTTTATTTCTTTTCTCA
1 TCTCTTCTATTTCTTTTCTCA
36806352 ATCATTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.28
21 3 0.08
22 11 0.31
23 12 0.33
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (23 bp):
TCTCTTCTATTTCTTTTCTCATT
Found at i:36818254 original size:50 final size:50
Alignment explanation
Indices: 36818134--36818322 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
36818124 AAAGAGATCT
* * *
36818134 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGTTCC
1 CATGTAAGACCATGTCTGGGATATGGCGTTGGCA-C--CGA-G--ATGAGAGTTCC
* * *
36818190 CATGTAAGACCATGTGTAGGATATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGTTCC
* * * * * * * *
36818240 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAAGATAATTCC
1 CATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGTTCC
36818290 CATGTAAGACCAT-TCTGGGATATGGCGTTGGCA
1 CATGTAAGACCATGTCTGGGATATGGCGTTGGCA
36818323 GTACAAAAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 17 0.15
50 61 0.54
52 1 0.01
53 2 0.02
55 1 0.01
56 30 0.27
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGTTCC
Found at i:36827722 original size:18 final size:19
Alignment explanation
Indices: 36827682--36827725 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
36827672 AAAAAAAACG
36827682 TTTTGAAATTGAATAATGA
1 TTTTGAAATTGAATAATGA
36827701 -TTTGTAAA-TGAATAAT-A
1 TTTTG-AAATTGAATAATGA
36827718 TTTTGAAA
1 TTTTGAAA
36827726 ACGAACGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTTGAAATTGAATAATGA
Found at i:36829038 original size:21 final size:21
Alignment explanation
Indices: 36829005--36829045 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36828995 CTGCGTACGC
36829005 GAGCGCGTAGAGTAGACACAT
1 GAGCGCGTAGAGTAGACACAT
* * *
36829026 GAGCGTGTGGAGTAGCCACA
1 GAGCGCGTAGAGTAGACACA
36829046 CGGCCATGTT
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:0.29, C:0.20, G:0.37, T:0.15
Consensus pattern (21 bp):
GAGCGCGTAGAGTAGACACAT
Found at i:36837439 original size:20 final size:19
Alignment explanation
Indices: 36837357--36837438 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
36837347 TATTTTTGTT
*
36837357 AAAA-TATCGATACTTAAG
1 AAAAGTATCGATACTTAAC
*
36837375 AACAAGTATCGATATTTTAAC
1 AA-AAGTATCGATA-CTTAAC
* * *
36837396 AAAACTATTGATATTTAATC
1 AAAAGTATCGATACTTAA-C
36837416 AAAAGTATCGATACTTAAC
1 AAAAGTATCGATACTTAAC
36837435 AAAA
1 AAAA
36837439 AATATCATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.04
19 12 0.23
20 33 0.62
21 6 0.11
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (19 bp):
AAAAGTATCGATACTTAAC
Found at i:36839244 original size:16 final size:17
Alignment explanation
Indices: 36839223--36839257 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
36839213 TTTTATAACA
36839223 AATAAAAA-TGTTTTTG
1 AATAAAAATTGTTTTTG
36839239 AATAAAAATTGTTTTTG
1 AATAAAAATTGTTTTTG
36839256 AA
1 AA
36839258 CAAAGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
AATAAAAATTGTTTTTG
Found at i:36839426 original size:20 final size:22
Alignment explanation
Indices: 36839365--36839428 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 22
36839355 CACTTCAAAT
* *
36839365 ATTTTT-AACTCAAGTGAAATA
1 ATTTTTAAAATCAAGTGAAACA
36839386 ATTTTTAAAATCAAGTGAAACA
1 ATTTTTAAAATCAAGTGAAACA
*
36839408 A-TTTT-ATATCAAGTGAAACA
1 ATTTTTAAAATCAAGTGAAACA
36839428 A
1 A
36839429 GTGAAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.38
21 10 0.26
22 14 0.36
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (22 bp):
ATTTTTAAAATCAAGTGAAACA
Found at i:36839476 original size:20 final size:20
Alignment explanation
Indices: 36839451--36839496 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
36839441 TTAAAACAAA
*
36839451 AAGTATCAATATTTTTTAAT
1 AAGTATCAATATATTTTAAT
***
36839471 AAGTATTGGTATATTTTAAT
1 AAGTATCAATATATTTTAAT
36839491 AAGTAT
1 AAGTAT
36839497 TAATGCCCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (20 bp):
AAGTATCAATATATTTTAAT
Found at i:36840521 original size:18 final size:18
Alignment explanation
Indices: 36840500--36840565 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
36840490 TCATTATGTT
36840500 AAATTAAAAAAAATTT-AA
1 AAATT-AAAAAAATTTAAA
*
36840518 AAATT-TAAAAATTTAAA
1 AAATTAAAAAAATTTAAA
*
36840535 AAATTTAAAAAATTTAAA
1 AAATTAAAAAAATTTAAA
*
36840553 AAATTTAAAAAAT
1 AAATTAAAAAAAT
36840566 AATTAAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.18
17 7 0.16
18 29 0.66
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTAAAAAAATTTAAA
Found at i:36840528 original size:9 final size:9
Alignment explanation
Indices: 36840507--36840565 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
36840497 GTTAAATTAA
36840507 AAAAAATTT
1 AAAAAATTT
36840516 -AAAAATTT
1 AAAAAATTT
36840524 -AAAAATTT
1 AAAAAATTT
36840532 AAAAAATTT
1 AAAAAATTT
36840541 AAAAAATTT
1 AAAAAATTT
36840550 AAAAAATTT
1 AAAAAATTT
36840559 AAAAAAT
1 AAAAAAT
36840566 AATTAAACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.33
9 33 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:36841430 original size:29 final size:27
Alignment explanation
Indices: 36841388--36841442 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
36841378 AAAAAGAAAG
* *
36841388 AAAAATATCCAATTGGTTTGAAAAAAATA
1 AAAAATATCAAATT--TTAGAAAAAAATA
*
36841417 AAAAATATTAAATTTTAGAAAAAAAT
1 AAAAATATCAAATTTTAGAAAAAAAT
36841443 GATTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.48
29 12 0.52
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAAATATCAAATTTTAGAAAAAAATA
Found at i:36859642 original size:16 final size:18
Alignment explanation
Indices: 36859618--36859654 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36859608 CAATTCATTA
36859618 ATACACAA-T-CAAATTT
1 ATACACAATTGCAAATTT
*
36859634 ATACTCAATTGCAAATTT
1 ATACACAATTGCAAATTT
36859652 ATA
1 ATA
36859655 TCACTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (18 bp):
ATACACAATTGCAAATTT
Found at i:36861741 original size:37 final size:37
Alignment explanation
Indices: 36861680--36861825 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
36861670 TACGTATGAT
* *
36861680 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
36861715 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
36861752 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
36861789 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
36861826 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:36861840 original size:46 final size:46
Alignment explanation
Indices: 36861789--36862016 Score: 294
Period size: 52 Copynumber: 4.7 Consensus size: 46
36861779 TAAGTGTAGC
**
36861789 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
36861835 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
36861881 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
36861933 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
36861985 CACTTATCACTTTGTCACTTGATCAGATAAGT
1 CACTTATCACTTTGTCACTTGATCAGATAAGT
36862017 ACTCAAATCC
Statistics
Matches: 166, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
46 73 0.44
49 1 0.01
50 1 0.01
51 3 0.02
52 88 0.53
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:36861890 original size:7 final size:7
Alignment explanation
Indices: 36861878--36861911 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
36861868 TAGCCGAAGC
36861878 TATCACT
1 TATCACT
36861885 TATCACT
1 TATCACT
*
36861892 TTTCACT
1 TATCACT
36861899 TATCACT
1 TATCACT
36861906 TGATCA
1 T-ATCA
36861912 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:36869037 original size:18 final size:17
Alignment explanation
Indices: 36869009--36869043 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36868999 TCCAGTTTCT
36869009 TCCTTTTTTCAAATAAA
1 TCCTTTTTTCAAATAAA
*
36869026 TCCTTATTTTCAATTAAA
1 TCCTT-TTTTCAAATAAA
36869044 ACACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
TCCTTTTTTCAAATAAA
Found at i:36870431 original size:19 final size:19
Alignment explanation
Indices: 36870399--36870463 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
36870389 ATTTTAAAAA
*
36870399 TTAAAAATAATAAAAATATT
1 TTAAAAA-ATTAAAAATATT
36870419 TTAAAAAATTAAAAATCA--
1 TTAAAAAATTAAAAAT-ATT
*
36870437 TTAGAAATATTAAAAATATTT
1 TTA-AAAAATTAAAAATA-TT
36870458 TTAAAA
1 TTAAAA
36870464 TTTTAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 11 0.29
21 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TTAAAAAATTAAAAATATT
Found at i:36870451 original size:38 final size:39
Alignment explanation
Indices: 36870398--36870472 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
36870388 AATTTTAAAA
36870398 ATTAAAAATAATAAAAATA-TTTTAAAAAATTAAAAATC
1 ATTAAAAATAATAAAAATATTTTTAAAAAATTAAAAATC
* * **
36870436 ATTAGAAATATTAAAAATATTTTTAAAATTTTAAAAA
1 ATTAAAAATAATAAAAATATTTTTAAAAAATTAAAAA
36870473 ACTTAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 17 0.53
39 15 0.47
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (39 bp):
ATTAAAAATAATAAAAATATTTTTAAAAAATTAAAAATC
Found at i:36870452 original size:28 final size:28
Alignment explanation
Indices: 36870394--36870452 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
36870384 TTTAAATTTT
*
36870394 AAAAATTAAAAATAATAAAAATATTTTA
1 AAAAATTAAAAATAATAAAAATATTTAA
* *
36870422 AAAAATTAAAAATCATTAGAAATA-TTAA
1 AAAAATTAAAAAT-AATAAAAATATTTAA
36870450 AAA
1 AAA
36870453 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATTAAAAATAATAAAAATATTTAA
Found at i:36870608 original size:10 final size:10
Alignment explanation
Indices: 36870595--36870642 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
36870585 AAAACTATTA
36870595 AATTTTTAAT
1 AATTTTTAAT
36870605 AATTTTT-AT
1 AATTTTTAAT
*
36870614 ACTTTTTAAT
1 AATTTTTAAT
36870624 AA-TTTTAAT
1 AATTTTTAAT
*
36870633 GATTTTTAAT
1 AATTTTTAAT
36870643 TTTTAAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:36870621 original size:19 final size:19
Alignment explanation
Indices: 36870596--36870642 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
36870586 AAACTATTAA
*
36870596 ATTTTTAATAATTTTTAT-
1 ATTTTTAATAATTTTAATG
36870614 ACTTTTTAATAATTTTAATG
1 A-TTTTTAATAATTTTAATG
36870634 ATTTTTAAT
1 ATTTTTAAT
36870643 TTTTAAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTAATAATTTTAATG
Found at i:36872695 original size:55 final size:55
Alignment explanation
Indices: 36872621--36872782 Score: 231
Period size: 53 Copynumber: 3.0 Consensus size: 55
36872611 ACATGCTATG
* * *
36872621 TAACAACCAA-TTAGACATATAAACAATCGATTCAAAATAAGCAATATTCCAACA
1 TAACAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA
** * *
36872675 TAACAATTGATTTAAACATATAAACAATCG--TCAAAAGAAGTAGTATTCCAACA
1 TAACAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA
*
36872728 TGACAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA
1 TAACAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA
36872783 ATTAAGAAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
53 47 0.51
54 7 0.08
55 39 0.42
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (55 bp):
TAACAATCAATTTAAACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA
Found at i:36875607 original size:29 final size:27
Alignment explanation
Indices: 36875589--36875658 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
36875579 ATATTAAGTC
36875589 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
36875616 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
36875644 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
36875659 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:36875652 original size:28 final size:28
Alignment explanation
Indices: 36875589--36875686 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
36875579 ATATTAAGTC
*
36875589 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
36875616 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
36875644 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
36875673 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36875687 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:36890735 original size:22 final size:24
Alignment explanation
Indices: 36890690--36890736 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
36890680 AGGTTGAAAC
36890690 ACCTTATTCTAATCAATATCAAATAG
1 ACCTTATTCTAAT-AATA-CAAATAG
36890716 ACCTTATTCTAAT-ATA-AAATA
1 ACCTTATTCTAATAATACAAATA
36890737 AAAGAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
24 3 0.14
26 13 0.62
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (24 bp):
ACCTTATTCTAATAATACAAATAG
Found at i:36894457 original size:13 final size:13
Alignment explanation
Indices: 36894438--36894467 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
36894428 ATATTTATGA
36894438 AAAAAAATTTAAAT
1 AAAAAAA-TTAAAT
36894452 AAAAAAATTAAAT
1 AAAAAAATTAAAT
36894465 AAA
1 AAA
36894468 TATTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAAATTAAAT
Found at i:36894753 original size:20 final size:20
Alignment explanation
Indices: 36894711--36894757 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36894701 GGAGGCTTTG
*
36894711 AATCAATTTGAATAAAATCA
1 AATCAATTTGAATAAAATAA
* **
36894731 AATCAATTTGATTGGAATAA
1 AATCAATTTGAATAAAATAA
36894751 AATCAAT
1 AATCAAT
36894758 CAAATCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (20 bp):
AATCAATTTGAATAAAATAA
Found at i:36901813 original size:20 final size:20
Alignment explanation
Indices: 36901781--36901850 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
36901771 TTGTGCGGGA
36901781 TTGCACTTT-GGTGCCTCTGT
1 TTGCA-TTTCGGTGCCTCTGT
*
36901801 TTGCATTTCGGTGCCTTTGTAT
1 TTGCATTTCGGTGCCTCTG--T
* *
36901823 TTGCACTACGGTGCCTCTGT
1 TTGCATTTCGGTGCCTCTGT
*
36901843 TAGCATTT
1 TTGCATTT
36901851 TGATGCTCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 3 0.08
20 20 0.50
22 17 0.43
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGCATTTCGGTGCCTCTGT
Found at i:36902943 original size:27 final size:28
Alignment explanation
Indices: 36902913--36902966 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
36902903 CAAAATTCAT
*
36902913 ACTTTAATTA-TAAAATAATT-AATTTTC
1 ACTTAAATTATTAAAAT-ATTGAATTTTC
36902940 ACTTAAATTATTAAAATATTGAATTTT
1 ACTTAAATTATTAAAATATTGAATTTT
36902967 AATTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
ACTTAAATTATTAAAATATTGAATTTTC
Found at i:36910570 original size:45 final size:45
Alignment explanation
Indices: 36910499--36910941 Score: 780
Period size: 45 Copynumber: 9.9 Consensus size: 45
36910489 TCGGCCATGG
* * * * *
36910499 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
36910544 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
36910589 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
36910634 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCGAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
36910679 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATG-TGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
36910723 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
36910768 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
36910813 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
36910858 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
36910903 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
36910942 TCCACCTCTT
Statistics
Matches: 380, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
44 42 0.11
45 338 0.89
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:36910889 original size:224 final size:224
Alignment explanation
Indices: 36910499--36910939 Score: 810
Period size: 224 Copynumber: 2.0 Consensus size: 224
36910489 TCGGCCATGG
* * * *
36910499 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
36910564 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
* *
36910629 CCAAATGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCGAATGCTTCCTCAAATTC
131 CCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTC
36910694 TTCCATGAATTATGCATGATGTGGCCAAA
196 TTCCATGAATTATGCATGATGTGGCCAAA
* *
36910723 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
36910788 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
36910853 CCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTC
131 CCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTC
36910918 TTCCATGAATTATGCATGATGT
196 TTCCATGAATTATGCATGATGT
36910940 TGTCCACCTC
Statistics
Matches: 209, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
224 209 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (224 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
CCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTC
TTCCATGAATTATGCATGATGTGGCCAAA
Found at i:36911253 original size:20 final size:20
Alignment explanation
Indices: 36911228--36911282 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
36911218 ACGAGTTAAA
* *
36911228 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
36911248 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
36911268 TTGAGCTCCAATGAG
1 TTGAGCTCGAATGAG
36911283 TTGAACCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:36914444 original size:20 final size:20
Alignment explanation
Indices: 36914419--36914483 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 20
36914409 AGTTGCAAGA
36914419 TTTAGAGCTTGCCATTATGG
1 TTTAGAGCTTGCCATTATGG
** *
36914439 TTTAGAGCTTGCCAACGCATGA
1 TTTAGAGCTTGCC-A-TTATGG
36914461 TTTAGAGCTTGCCATTATGG
1 TTTAGAGCTTGCCATTATGG
36914481 TTT
1 TTT
36914484 TTTCTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 19 0.51
21 2 0.05
22 16 0.43
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTAGAGCTTGCCATTATGG
Found at i:36914467 original size:22 final size:21
Alignment explanation
Indices: 36914417--36914474 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
36914407 GCAGTTGCAA
**
36914417 GATTTAGAGCTTGCC-ATTAT
1 GATTTAGAGCTTGCCAAGCAT
*
36914437 GGTTTAGAGCTTGCCAACGCAT
1 GATTTAGAGCTTGCCAA-GCAT
36914459 GATTTAGAGCTTGCCA
1 GATTTAGAGCTTGCCA
36914475 TTATGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.44
21 1 0.03
22 17 0.53
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
GATTTAGAGCTTGCCAAGCAT
Found at i:36918383 original size:43 final size:43
Alignment explanation
Indices: 36918335--36918431 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
36918325 AGGTGCAGGT
* ** * *
36918335 TTCACATGGTCTGCAACACGGACGTGTGTTCCAAAATAGTTTG
1 TTCACACGGTCTGCAACACAAACGTCTGTTCCAAAAGAGTTTG
* *
36918378 TTCACACAGTCTGCAACACAAACTTCTGTTCCAAAAGAGTTTG
1 TTCACACGGTCTGCAACACAAACGTCTGTTCCAAAAGAGTTTG
36918421 -TCACACGGTCT
1 TTCACACGGTCT
36918432 AGGACACAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 10 0.22
43 36 0.78
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TTCACACGGTCTGCAACACAAACGTCTGTTCCAAAAGAGTTTG
Found at i:36921431 original size:23 final size:25
Alignment explanation
Indices: 36921398--36921476 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 25
36921388 AACACACCAA
*
36921398 TATCACAGCAAAGCTGCCAGTAATAG
1 TATC-CAGCAAAGCTGCCAGTAACAG
* *
36921424 TGTCGCAACAAAGCTGCCAGTAACAG
1 TATC-CAGCAAAGCTGCCAGTAACAG
36921450 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATC-CAGCAAAGCTGCCAGTAACAG
36921476 T
1 T
36921477 CTACTTCCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (25 bp):
TATCCAGCAAAGCTGCCAGTAACAG
Found at i:36921439 original size:26 final size:26
Alignment explanation
Indices: 36921406--36921476 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
36921396 AATATCACAG
* *
36921406 CAAAGCTGCCAGTAATAGTGTCGCAA
1 CAAAGCTGCCAGTAACAGTATCGCAA
*
36921432 CAAAGCTGCCAGTAACAGTATCGCAG
1 CAAAGCTGCCAGTAACAGTATCGCAA
36921458 CAAAGCTGCCAGTAACAGT
1 CAAAGCTGCCAGTAACAGT
36921477 CTACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTATCGCAA
Found at i:36921662 original size:27 final size:27
Alignment explanation
Indices: 36921632--36921783 Score: 110
Period size: 27 Copynumber: 5.6 Consensus size: 27
36921622 CATCTCCTAG
*
36921632 GGGTATAAC-AGTTATTTTACCCTATGA
1 GGGTATAACGA-TCATTTTACCCTATGA
** *
36921659 GGGTATTTCGATCATTTTACCCTATGG
1 GGGTATAACGATCATTTTACCCTATGA
** * * * *
36921686 GGGTATTTCGGTCATTTGACCCAATAA
1 GGGTATAACGATCATTTTACCCTATGA
* **
36921713 TGGTATTTCGATCATTTTACCCTATCG-
1 GGGTATAACGATCATTTTACCCTAT-GA
** *
36921740 GGGTATTTCGATCATTTTACCCTATGG
1 GGGTATAACGATCATTTTACCCTATGA
**
36921767 GGGTATGTCGATCATTT
1 GGGTATAACGATCATTT
36921784 CTTAACCTCT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 104 0.98
28 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATAACGATCATTTTACCCTATGA
Found at i:36921689 original size:54 final size:53
Alignment explanation
Indices: 36921645--36921783 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 53
36921635 TATAACAGTT
*
36921645 ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATCGGGGTATTTC-GTC
* * * *
36921699 ATTTGACCCAATAATGGTATTTCGATCATTTTACCCTATCGGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATCGGGGTATTTCG-TC
* *
36921753 ATTTTACCCTATGGGGGTATGTCGATCATTT
1 ATTTTACCCTATGAGGGTATTTCGATCATTT
36921784 CTTAACCTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (53 bp):
ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATCGGGGTATTTCGTC
Found at i:36929291 original size:26 final size:26
Alignment explanation
Indices: 36929252--36929364 Score: 154
Period size: 26 Copynumber: 4.3 Consensus size: 26
36929242 ACACACCAAC
* * * *
36929252 ATCGCAGCAAAGCTGTCACTAATAGT
1 ATCGCAGCAGAGCTGCCAGTAACAGT
*
36929278 GTCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTGCCAGTAACAGT
* *
36929304 ATCGCAGTAGAGCTACCAGTAACAGT
1 ATCGCAGCAGAGCTGCCAGTAACAGT
36929330 ATCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTGCCAGTAACAGT
*
36929356 ATTGCAGCA
1 ATCGCAGCA
36929365 ATGCTACCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAGAGCTGCCAGTAACAGT
Found at i:36929371 original size:52 final size:52
Alignment explanation
Indices: 36929252--36929383 Score: 158
Period size: 52 Copynumber: 2.5 Consensus size: 52
36929242 ACACACCAAC
* ** * * *
36929252 ATCGCAGCAAAGCTGTCACTAATAGTGTCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTACCAATAACAGTATCGCAGCAGAGCTGCCAGTAACAGT
* *
36929304 ATCGCAGTAGAGCTACCAGTAACAGTATCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTACCAATAACAGTATCGCAGCAGAGCTGCCAGTAACAGT
* *
36929356 ATTGCAGCA-ATGCTACCAATAATAGTAT
1 ATCGCAGCAGA-GCTACCAATAACAGTAT
36929384 ACTTCCTCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 1 0.01
52 67 0.99
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (52 bp):
ATCGCAGCAGAGCTACCAATAACAGTATCGCAGCAGAGCTGCCAGTAACAGT
Found at i:36929382 original size:26 final size:26
Alignment explanation
Indices: 36929252--36929383 Score: 140
Period size: 26 Copynumber: 5.1 Consensus size: 26
36929242 ACACACCAAC
* ** * *
36929252 ATCGCAGCAAAGCTGTCACTAATAGT
1 ATCGCAGCAGAGCTACCAGTAACAGT
* *
36929278 GTCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTACCAGTAACAGT
*
36929304 ATCGCAGTAGAGCTACCAGTAACAGT
1 ATCGCAGCAGAGCTACCAGTAACAGT
*
36929330 ATCGCAGCAGAGCTGCCAGTAACAGT
1 ATCGCAGCAGAGCTACCAGTAACAGT
* * *
36929356 ATTGCAGCA-ATGCTACCAATAATAGT
1 ATCGCAGCAGA-GCTACCAGTAACAGT
36929382 AT
1 AT
36929384 ACTTCCTCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 1 0.01
26 90 0.99
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAGAGCTACCAGTAACAGT
Found at i:36929587 original size:27 final size:27
Alignment explanation
Indices: 36929554--36929695 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
36929544 GGGTATAACA
*
36929554 GTCATTTTACCCTATGAGAGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
36929581 GTTATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
36929608 GTCATTTTACCCTATGATGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
36929635 ATTATTTTACCCTAT-AGTGGTATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
36929662 GTCATTTTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
36929689 GTCATTT
1 GTCATTT
36929696 CTTGACCTCT
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:36929630 original size:81 final size:81
Alignment explanation
Indices: 36929545--36929695 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
36929535 ATCTCCTATG
* * * * **
36929545 GGTATAAC-AGTCATTTTACCCTATGAG-AGTATTTCGGTTATTTTATCCTATGGGGGTATTTTG
1 GGTATAACGA-TCATTTTACCCTAT-AGTAGTATTTCAGTCATTTTACCCTATAGGGGTATTTCA
36929608 GTCATTTTACCCTATGAT
64 GTCATTTTACCCTATGAT
** * *
36929626 GGTATTTCGATTATTTTACCCTATAGTGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGT
1 GGTATAACGATCATTTTACCCTATAGTAGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGT
36929691 CATTT
66 CATTT
36929696 CTTGACCTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
80 2 0.03
81 55 0.95
82 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (81 bp):
GGTATAACGATCATTTTACCCTATAGTAGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGT
CATTTTACCCTATGAT
Found at i:36929684 original size:54 final size:54
Alignment explanation
Indices: 36929552--36929687 Score: 184
Period size: 54 Copynumber: 2.5 Consensus size: 54
36929542 ATGGGTATAA
* * * *
36929552 CAGTCATTTTACCCTATGAGAGTATTTCGGTTATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTACCCTATAGGGGTATTT
** * *
36929606 TGGTCATTTTACCCTATGATGGTATTTCGATTATTTTACCCTATAGTGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTACCCTATAGGGGTATTT
36929660 CAGTCATTTTACCCTAT-AGGGGTATTTC
1 CAGTCATTTTACCCTATGA-GGGTATTTC
36929688 AGTCATTTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 69 0.99
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTACCCTATAGGGGTATTT
Found at i:36933575 original size:20 final size:20
Alignment explanation
Indices: 36933550--36933599 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
36933540 TGAACCCTTC
36933550 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
36933570 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
*
36933590 TATTTACTTA
1 CATTTACTTA
36933600 TTTTAGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.52
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:36938985 original size:23 final size:23
Alignment explanation
Indices: 36938959--36939003 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
36938949 CGATGCTCAG
*
36938959 TTATCCACTTCAGCAGTGTTCAA
1 TTATACACTTCAGCAGTGTTCAA
** *
36938982 TTATATGCTTTAGCAGTGTTCA
1 TTATACACTTCAGCAGTGTTCA
36939004 GATATTCACT
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (23 bp):
TTATACACTTCAGCAGTGTTCAA
Found at i:36940955 original size:20 final size:20
Alignment explanation
Indices: 36940890--36941004 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
36940880 AATACCAAGG
* *
36940890 GTAAATTATCGATACTTTGA
1 GTAAAGTATAGATACTTTGA
* * *
36940910 ATAAAGTATAAATAAC-TAGA
1 GTAAAGTATAGAT-ACTTTGA
** *
36940930 CCAAAGTATAGATACTTTTA
1 GTAAAGTATAGATACTTTGA
36940950 GTAAAGTAT-GAATACTTTGA
1 GTAAAGTATAG-ATACTTTGA
*
36940970 -TCGAAGTATAGATACTTTGA
1 GT-AAAGTATAGATACTTTGA
* *
36940990 GTAAACTATCGATAC
1 GTAAAGTATAGATAC
36941005 CTTGGATATT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.06
20 64 0.89
21 4 0.06
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
GTAAAGTATAGATACTTTGA
Found at i:36940955 original size:40 final size:40
Alignment explanation
Indices: 36940900--36940994 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
36940890 GTAAATTATC
*
36940900 GATACTTTGAATAAAGTATAAATAAC-TAGACCAAAGTATA
1 GATACTTTGAGTAAAGTATAAAT-ACTTAGACCAAAGTATA
* * * * *
36940940 GATACTTTTAGTAAAGTATGAATACTTTGATCGAAGTATA
1 GATACTTTGAGTAAAGTATAAATACTTAGACCAAAGTATA
36940980 GATACTTTGAGTAAA
1 GATACTTTGAGTAAA
36940995 CTATCGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.04
40 45 0.96
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (40 bp):
GATACTTTGAGTAAAGTATAAATACTTAGACCAAAGTATA
Found at i:36943321 original size:32 final size:33
Alignment explanation
Indices: 36943285--36943350 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 33
36943275 TAGCACAATC
*
36943285 TATTTTATCTATT-AAGG-CT-TAATATTTTGATT
1 TATTTTAT-TATTCAAGGACTGTAATACTTT-ATT
36943317 TATTTTATTATTCAAGGACTGTAATACTTTATT
1 TATTTTATTATTCAAGGACTGTAATACTTTATT
36943350 T
1 T
36943351 TTAAACTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 4 0.13
32 12 0.40
33 6 0.20
34 8 0.27
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (33 bp):
TATTTTATTATTCAAGGACTGTAATACTTTATT
Found at i:36946749 original size:168 final size:173
Alignment explanation
Indices: 36946469--36946810 Score: 613
Period size: 168 Copynumber: 2.0 Consensus size: 173
36946459 TAAATCCATA
36946469 TAGAACTGCACTTCTTTTATTTATTTATTTTTAGAATAAGGTGTTTCAACCTTACTACACTCCTT
1 TAGAACTGCACTTCTTTTATTTATTTATTTTTAGAATAAGGTGTTTCAACCTTACTACACTCCTT
*
36946534 CTATTAGAATATGGTTTTACAAGCCTATAAATAGATATAGTCTACTCCTCTTGT-A-A-TCGAAT
66 CTATTAGAATATGGTTTTACAAGCCTATAAATAGATATAGTCTACTCCTCTTGTAACATTCAAAT
*
36946596 TCAACATAGTGAATTATCTTGTCCTCTACCCGTGGTTTTTTTT
131 TCAACATAGTGAATTATCTTCTCCTCTACCCGTGGTTTTTTTT
36946639 TAGAACTGCACTTCTTTTATTTA-TT-TTTTTAGAATAAGGTGTTTCAACCTTACTACACTCCTT
1 TAGAACTGCACTTCTTTTATTTATTTATTTTTAGAATAAGGTGTTTCAACCTTACTACACTCCTT
36946702 CTATTAGAATATGGTTTTACAAGCCTATAAATAGATATAGTCTACTCCTCTTGTAATCATTCAAA
66 CTATTAGAATATGGTTTTACAAGCCTATAAATAGATATAGTCTACTCCTCTTGTAA-CATTCAAA
*
36946767 TTCAACATAGTGAATTATCTTCTTCTCTACCCGTGGTTTTTTTT
130 TTCAACATAGTGAATTATCTTCTCCTCTACCCGTGGTTTTTTTT
36946811 CCTGAAAGGG
Statistics
Matches: 165, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
168 92 0.56
169 3 0.02
170 23 0.14
171 1 0.01
172 46 0.28
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (173 bp):
TAGAACTGCACTTCTTTTATTTATTTATTTTTAGAATAAGGTGTTTCAACCTTACTACACTCCTT
CTATTAGAATATGGTTTTACAAGCCTATAAATAGATATAGTCTACTCCTCTTGTAACATTCAAAT
TCAACATAGTGAATTATCTTCTCCTCTACCCGTGGTTTTTTTT
Found at i:36950280 original size:3 final size:3
Alignment explanation
Indices: 36950272--36950296 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36950262 CTAAGGTCTC
36950272 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
36950297 TGAGATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:36950879 original size:31 final size:31
Alignment explanation
Indices: 36950841--36950901 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
36950831 ATTAATTTTT
*
36950841 AACTATTC-AAAAATTTTCATTTAAGTCATTA
1 AACTATTCAAAAAATTTT-ATTTAAATCATTA
36950872 AACTATTCAAAAAATTTTATTTAAATCATT
1 AACTATTCAAAAAATTTTATTTAAATCATT
36950902 GGGTTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (31 bp):
AACTATTCAAAAAATTTTATTTAAATCATTA
Found at i:36952475 original size:33 final size:33
Alignment explanation
Indices: 36952420--36952498 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
36952410 ATTGAGGCTT
* *
36952420 AAACTAATTCAATGTCATCCCTA-CGTCATAGCG
1 AAACAAATTCAATGTCACCCCTACCGT-ATAGCG
* *
36952453 AAACCAATACAATGTCACCCCTACCGTATAGCG
1 AAACAAATTCAATGTCACCCCTACCGTATAGCG
36952486 AAACAAATTCAAT
1 AAACAAATTCAAT
36952499 CTCATCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 37 0.93
34 3 0.08
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (33 bp):
AAACAAATTCAATGTCACCCCTACCGTATAGCG
Found at i:36959354 original size:16 final size:17
Alignment explanation
Indices: 36959311--36959357 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
36959301 ATATATTACA
36959311 ATAATTAATATATAATGT
1 ATAATT-ATATATAATGT
36959329 ACTACTATTATATATAAT-T
1 A-TA--ATTATATATAATGT
36959348 ATAATTATAT
1 ATAATTATAT
36959358 TGTAGATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 7 0.27
18 3 0.12
19 4 0.15
20 9 0.35
21 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATTATATATAATGT
Found at i:36961220 original size:11 final size:11
Alignment explanation
Indices: 36961206--36961280 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
36961196 GATAATCACT
36961206 TTAATATTAAA
1 TTAATATTAAA
36961217 TTAATA--AAA
1 TTAATATTAAA
*
36961226 -TACTATTAAGA
1 TTAATATTAA-A
36961237 -TAATATTAAA
1 TTAATATTAAA
36961247 TTTAAT-TTAATA
1 -TTAATATTAA-A
36961259 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
36961272 ATAATATTA
1 TTAATATTA
36961281 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 26 0.50
12 9 0.17
13 3 0.06
14 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:36961234 original size:25 final size:25
Alignment explanation
Indices: 36961180--36961245 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
36961170 AAACATTAAA
*
36961180 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
36961205 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
**
36961229 TATTAAGATAATATTAA
1 T-TTAATTTAATATTAA
36961246 ATTTAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.18
25 24 0.71
26 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:36961267 original size:36 final size:37
Alignment explanation
Indices: 36961169--36961280 Score: 108
Period size: 36 Copynumber: 3.1 Consensus size: 37
36961159 ATCTTCAAGA
*
36961169 TAAACATTAAATTTAAT-TT-AA-TATTAAGATAATCACT
1 TAAATATT-AATTTAATATTAAACTATTAAGATAAT-A-T
* * *
36961206 TTAATATTAAATTAATA-AAATACTATTAAGATAATAT
1 TAAATATTAATTTAATATTAA-ACTATTAAGATAATAT
*
36961243 TAAAT-TTAATTTAATATTAAACTATTAAAATAATAT
1 TAAATATTAATTTAATATTAAACTATTAAGATAATAT
36961279 TA
1 TA
36961281 TTTTTGAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
36 34 0.55
37 14 0.23
38 2 0.03
39 12 0.19
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (37 bp):
TAAATATTAATTTAATATTAAACTATTAAGATAATAT
Found at i:36968376 original size:11 final size:12
Alignment explanation
Indices: 36968218--36968377 Score: 57
Period size: 11 Copynumber: 13.1 Consensus size: 12
36968208 TAGAGAGTTC
36968218 AAATATAATATT
1 AAATATAATATT
*
36968230 AAATTTAATATT
1 AAATATAATATT
*
36968242 AAATCT--TATT
1 AAATATAATATT
* *
36968252 AAAAAATAGAGATTT
1 -AAATATA-ATA-TT
* *
36968267 TAATTTAATATT
1 AAATATAATATT
*
36968279 -AAGATAATCAGTTT
1 AAATATAAT-A--TT
*
36968293 AATATTATATTATT
1 AA-A-TATAATATT
*
36968307 AAA-ATACTATT
1 AAATATAATATT
36968318 AAGATA-AATATT
1 AA-ATATAATATT
*
36968330 AAATTTAAT-TT
1 AAATATAATATT
*
36968341 AAATTTAAT-TT
1 AAATATAATATT
*
36968352 AATATTTAAATATT
1 AA-ATAT-AATATT
36968366 AAA-ATAATATT
1 AAATATAATATT
36968377 A
1 A
36968378 TTTTTGGAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.04
11 43 0.38
12 35 0.31
13 8 0.07
14 15 0.13
15 3 0.03
16 2 0.02
17 4 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (12 bp):
AAATATAATATT
Found at i:36969983 original size:12 final size:12
Alignment explanation
Indices: 36969966--36969990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36969956 AGCTAACTAT
36969966 AGTTGTACTTTG
1 AGTTGTACTTTG
36969978 AGTTGTACTTTG
1 AGTTGTACTTTG
36969990 A
1 A
36969991 CTTAGCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.48
Consensus pattern (12 bp):
AGTTGTACTTTG
Found at i:36981602 original size:39 final size:40
Alignment explanation
Indices: 36981445--36981616 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
36981435 GCTACTCGTT
* * *
36981445 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36981485 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
36981525 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
36981565 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36981604 CAAATGCCTTCGG
1 CAAATGCCTTCGG
36981617 ATCTTAGTCC
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.28
40 87 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36981653 original size:79 final size:78
Alignment explanation
Indices: 36981445--36981669 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 78
36981435 GCTACTCGTT
* * ** *
36981445 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACT-AGCACAAA-GCCTTCGGG-CTTAGCCCG
*
36981509 GATTTAGTAACTCGCA
63 GAATTAGTAACTCGCA
* * * * *
36981525 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGCTTAGCCCGGA
*
36981590 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
** * * *
36981604 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCACAAAGCCTTCAGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTC-GGGCTTAGCCCG
36981668 GA
63 GA
36981670 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.46
80 59 0.49
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGCTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:36981653 original size:119 final size:120
Alignment explanation
Indices: 36981447--36981669 Score: 265
Period size: 119 Copynumber: 1.9 Consensus size: 120
36981437 TACTCGTTCA
* *
36981447 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGAAT
* * * *
36981512 TTAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACCAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
36981567 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGA
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGA
* * *
36981629 ATATGGTCACTTAGCA-CAAAGCCTTCAGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACCAAAGCCTTCAGGACTTAACCCGGA
36981670 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
118 4 0.05
119 66 0.77
120 16 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGAAT
ATAGTAACTAGCACCAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:36982859 original size:56 final size:56
Alignment explanation
Indices: 36982792--36982911 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
36982782 TATTAGTTTA
36982792 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
36982848 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
36982904 TTGCCCAT
1 TTGCCCAT
36982912 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37003525 original size:39 final size:40
Alignment explanation
Indices: 37003408--37003592 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
37003398 GCTACTCGTT
*
37003408 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37003448 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37003488 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
37003527 CAAATGCCTTC-GGACCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37003568 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37003593 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37003553 original size:79 final size:81
Alignment explanation
Indices: 37003410--37003592 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
37003400 TACTCGTTCA
* *
37003410 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
37003474 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* ***
37003490 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGACCTTAGTTCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
37003552 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
37003569 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37003593 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:37012486 original size:43 final size:43
Alignment explanation
Indices: 37012425--37012718 Score: 272
Period size: 43 Copynumber: 6.8 Consensus size: 43
37012415 TAGGTTATAT
* *
37012425 TTCGGTTTATCTGATGATGAACTGTGTGTGCCAATATAGATGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * *
37012468 TTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATATGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * * *
37012511 TTCGGTTTATTCGATGACGCAA-TGTGTGTGCCAGTATAGTTTC
1 TTCGGTTTATCCGATGATG-AACTGTGTGTGCCAGTATAGATGC
* * * *
37012554 TTTGATTTATCAGATGATGCATAC--TGTGTGCTAGTATAGATGC
1 TTCGGTTTATCCGATGATG-A-ACTGTGTGTGCCAGTATAGATGC
* * ** *
37012597 TTCGGTTTATCTGATGATGCACAATGTGTGCCAGTATAGATGT
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
* * * * *
37012640 TTTGGTTTATCCGATGATGCATTGTGTGTTCCAATATATG-TGC
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATA-GATGC
* * * * *
37012683 TTCAGTTCATCCGATGATGAATTGTATGCGCCAGTA
1 TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTA
37012719 AAACTGCTTC
Statistics
Matches: 203, Mismatches: 42, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
43 198 0.98
44 3 0.01
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (43 bp):
TTCGGTTTATCCGATGATGAACTGTGTGTGCCAGTATAGATGC
Found at i:37012563 original size:86 final size:85
Alignment explanation
Indices: 37012425--37012718 Score: 303
Period size: 86 Copynumber: 3.4 Consensus size: 85
37012415 TAGGTTATAT
* * * *
37012425 TTCGGTTTATCTGATGATG-AACTGTGTGTGCCAATATAGATGCTTCGGTTTATCCGATGATGCA
1 TTCGGTTTATCTGATGATGCAA-TGTGTGTGCCAGTATAGTTTCTTTGGTTTATCCGATGATGCA
37012489 CTATGTGTGCCAGTATATATGC
65 -TATGTGTGCCAGTATATATGC
* * *
37012511 TTCGGTTTAT-TCGATGACGCAATGTGTGTGCCAGTATAGTTTCTTTGATTTATCAGATGATGCA
1 TTCGGTTTATCT-GATGATGCAATGTGTGTGCCAGTATAGTTTCTTTGGTTTATCCGATGATGCA
* *
37012575 TACTGTGTGCTAGTATAGATGC
65 TA-TGTGTGCCAGTATATATGC
* *
37012597 TTCGGTTTATCTGATGATGCACA-ATGTGTGCCAGTATAGATGT-TTTGGTTTATCCGATGATGC
1 TTCGGTTTATCTGATGATGCA-ATGTGTGTGCCAGTATAG-TTTCTTTGGTTTATCCGATGATGC
* *
37012660 AT-TGTGTGTTCCAATATATGTGC
64 ATATGTGTG--CCAGTATATATGC
* * * * *
37012683 TTCAGTTCATCCGATGATG-AATTGTATGCGCCAGTA
1 TTCGGTTTATCTGATGATGCAA-TGTGTGTGCCAGTA
37012719 AAACTGCTTC
Statistics
Matches: 174, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
84 7 0.04
85 4 0.02
86 157 0.90
87 6 0.03
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (85 bp):
TTCGGTTTATCTGATGATGCAATGTGTGTGCCAGTATAGTTTCTTTGGTTTATCCGATGATGCAT
ATGTGTGCCAGTATATATGC
Found at i:37012727 original size:129 final size:129
Alignment explanation
Indices: 37012454--37012789 Score: 336
Period size: 129 Copynumber: 2.6 Consensus size: 129
37012444 AACTGTGTGT
* * * *
37012454 GCCAATATAGATGCTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTCGGTTT
1 GCCAGTATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTT
* * * * * * * * *
37012519 ATTCGATGACGCAATGTGTGTGCCAGTATAGTTTCTTTGATTTATCAGATGATGCATACTGTGT
66 ATCCGATGATGCAATGTGTGTGCCAATATAGTTGCTTAGATTCATCAGATGATGAATACTATGC
* * * * *
37012583 GCTAGTATAGATGCTTCGGTTTATCTGATGATGCACAATGTGTGCCAGTATAGATGTTTTGGTTT
1 GCCAGTATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTT
* * * **
37012648 ATCCGATGATGCATTGTGTGTTCCAATATA-TGTGCTTCAG-TTCATCCGATGATGAATTGTATG
66 ATCCGATGATGCAATGTGTGTGCCAATATAGT-TGCTT-AGATTCATCAGATGATGAATACTATG
37012711 C
129 C
** * * ** * * *
37012712 GCCAGTA-AAACTGCTTCTATTAATCTGGTGATGCACTACATGTGCCAGTATATTTCCTTTCGTT
1 GCCAGTATAAA-TGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTT
37012776 TATCCGATGATGCA
65 TATCCGATGATGCA
37012790 CTACATGTAT
Statistics
Matches: 169, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
128 3 0.02
129 165 0.98
130 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (129 bp):
GCCAGTATAAATGCTTCGGTTTATCTGATGATGCACTATGTGTGCCAGTATATATGCTTTGGTTT
ATCCGATGATGCAATGTGTGTGCCAATATAGTTGCTTAGATTCATCAGATGATGAATACTATGC
Found at i:37012797 original size:43 final size:42
Alignment explanation
Indices: 37012429--37012792 Score: 259
Period size: 43 Copynumber: 8.5 Consensus size: 42
37012419 TTATATTTCG
* * * * *
37012429 GTTTATCTGATGATGAACTGTGTGTGCCAATATAGATGCTTC
1 GTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTC
37012471 GGTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTC
1 -GTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTC
* * * * * *
37012514 GGTTTATTCGATGACGCAATGTGTGTGCCAGTATAGT-TTCTTT
1 -GTTTATCCGATGATGCACTATGTGTGCCAGTATA-TATGCTTC
* * *
37012557 GATTTATCAGATGATGCA-TACTGTGTGCTAGTATAGATGCTTC
1 G-TTTATCCGATGATGCACTA-TGTGTGCCAGTATATATGCTTC
* * * * *
37012600 GGTTTATCTGATGATGCACAATGTGTGCCAGTATAGATGTTTTG
1 -GTTTATCCGATGATGCACTATGTGTGCCAGTATATATG-CTTC
* * * * *
37012644 GTTTATCCGATGATGCATTGTGTGTTCCAATATATGTGCTTC
1 GTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTC
* * * * * * *
37012686 AGTTCATCCGATGATGAATTGTATGCGCCAGTA-AAACTGCTTC
1 -GTTTATCCGATGATGCACTATGTGTGCCAGTATATA-TGCTTC
* * ** * *
37012729 -TATTAATCTGGTGATGCACTACATGTGCCAGTATATTTCCTTTC
1 GT-TT-ATCCGATGATGCACTATGTGTGCCAGTATATATGC-TTC
37012773 GTTTATCCGATGATGCACTA
1 GTTTATCCGATGATGCACTA
37012793 CATGTATTAG
Statistics
Matches: 252, Mismatches: 55, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.00
42 6 0.02
43 233 0.92
44 11 0.04
45 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (42 bp):
GTTTATCCGATGATGCACTATGTGTGCCAGTATATATGCTTC
Found at i:37012822 original size:43 final size:43
Alignment explanation
Indices: 37012740--37012835 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
37012730 ATTAATCTGG
* * *
37012740 TGATGCACTACATGTGCCAGTATATTTCCTTTCGTTTATCCGA
1 TGATGCACTACATGTACCAGTATATTTCCTTACGATTATCCGA
** * *
37012783 TGATGCACTACATGTATTAGTATATTTCC-TAGGAATTATCCGG
1 TGATGCACTACATGTACCAGTATATTTCCTTACG-ATTATCCGA
37012826 TGATGCACTA
1 TGATGCACTA
37012836 AGTGTGCCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (43 bp):
TGATGCACTACATGTACCAGTATATTTCCTTACGATTATCCGA
Found at i:37015447 original size:29 final size:29
Alignment explanation
Indices: 37015414--37015469 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
37015404 CACATCCAAG
37015414 TGGCCATGTGGCAGAC-AGTGTGGGTCATA
1 TGGCCATGTGGCAGACTA-TGTGGGTCATA
37015443 TGGCCATGTGGCAGACTATGTGGGTCA
1 TGGCCATGTGGCAGACTATGTGGGTCA
37015470 CATGATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.25
Consensus pattern (29 bp):
TGGCCATGTGGCAGACTATGTGGGTCATA
Found at i:37017044 original size:15 final size:15
Alignment explanation
Indices: 37017024--37017064 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
37017014 AGTAAGTATG
37017024 TGTACTTTAGTTAAC-
1 TGTACTTTAGTT-ACT
37017039 TGTACTTTAGTTACT
1 TGTACTTTAGTTACT
*
37017054 TTTACTTTAGT
1 TGTACTTTAGT
37017065 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (15 bp):
TGTACTTTAGTTACT
Found at i:37019236 original size:40 final size:40
Alignment explanation
Indices: 37019176--37019406 Score: 183
Period size: 41 Copynumber: 5.6 Consensus size: 40
37019166 TAGCGTTACT
*
37019176 GGCATTTTTCCCATAAACGCCGCAAAAGGTAAAGCAACAGC
1 GGCATTTTT-CCATAAACGCCGCAAAAGGTAAAGCAATAGC
* * ** *** *
37019217 GGCGTTTTTGCATAAACGCCATAAAAGGTTAAAATGATAGT
1 GGCATTTTTCCATAAACGCCGCAAAAGG-TAAAGCAATAGC
* * * * *
37019258 GACATTTTTTTCATAAACGCCACTAAAGGTAAAGCAATGGC
1 GGCA-TTTTTCCATAAACGCCGCAAAAGGTAAAGCAATAGC
* * * *
37019299 AGCATTTTTGCATAAACTCCGCAAAAGGTTAAAACAATAGC
1 GGCATTTTTCCATAAACGCCGCAAAAGG-TAAAGCAATAGC
* * * * *
37019340 TGCATTTTTCCCATAAATGCCGCTAAAGTTAAAGCAATAGT
1 GGCATTTTT-CCATAAACGCCGCAAAAGGTAAAGCAATAGC
* *
37019381 GGCGTTTTTCCCATAAATGCCGCAAA
1 GGCATTTTT-CCATAAACGCCGCAAA
37019407 TATTTTTATT
Statistics
Matches: 148, Mismatches: 38, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
40 36 0.24
41 77 0.52
42 35 0.24
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (40 bp):
GGCATTTTTCCATAAACGCCGCAAAAGGTAAAGCAATAGC
Found at i:37019389 original size:82 final size:81
Alignment explanation
Indices: 37019177--37019406 Score: 264
Period size: 82 Copynumber: 2.8 Consensus size: 81
37019167 AGCGTTACTG
* * * **
37019177 GCATTTTTCCCATAAACGCCGCAAAAGGTAAAGCAACAGCGGCGTTTTTGCATAAACGCCATAAA
1 GCATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACTCCGCAAA
**
37019242 AGGTTAAAATGATAGT
66 AGGTTAAAACAATAGT
** * * * *
37019258 GACATTTTTTTCATAAACGCCACTAAAGGTAAAGCAATGGCAGCATTTTTGCATAAACTCCGCAA
1 G-CATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACTCCGCAA
37019323 AAGGTTAAAACAATAGCT
65 AAGGTTAAAACAATAG-T
* * * *
37019341 GCATTTTTCCCATAAATGCCGCTAAAGTTAAAGCAATAGTGGCGTTTTTCCCATAAA-TGCCGCA
1 GCATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTT-GCATAAACT-CCGCA
37019405 AA
64 AA
37019407 TATTTTTATT
Statistics
Matches: 122, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
81 1 0.01
82 106 0.87
83 15 0.12
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (81 bp):
GCATTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACTCCGCAAA
AGGTTAAAACAATAGT
Found at i:37024198 original size:12 final size:12
Alignment explanation
Indices: 37024181--37024207 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37024171 AACCAGTTTT
37024181 AAACTAGTATTA
1 AAACTAGTATTA
37024193 AAACTAGTATTA
1 AAACTAGTATTA
37024205 AAA
1 AAA
37024208 TCAAAAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACTAGTATTA
Found at i:37024324 original size:51 final size:51
Alignment explanation
Indices: 37024234--37024471 Score: 343
Period size: 51 Copynumber: 4.6 Consensus size: 51
37024224 GGTGGATAAC
*
37024234 ATTAAATAAATAACCATATTTCATAATAATTAATTAATTAATTAATTTTTGATTA
1 ATTAAATAAATAATCATATTTCATAATAA-T-A--AATTAATTAATTTTTGATTA
*
37024289 ATTAAATAAATAATAATATTTCATAATAATAAATTAATTAATTTTTGATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
* * *
37024340 ACTAAATAAATAATCATATTTCATAATAATTAATTAATTAATTTTCGATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
* *
37024391 ATTAAATAAATAATCATATTTCATAATAATTAATTAACTAATTTTCT-ATTA
1 ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTT-TGATTA
* *
37024442 TTTAATTAAATAATCATATTTCATAATAAT
1 ATTAAATAAATAATCATATTTCATAATAAT
37024472 CATAAAAATC
Statistics
Matches: 171, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
51 142 0.83
53 1 0.01
54 1 0.01
55 27 0.16
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (51 bp):
ATTAAATAAATAATCATATTTCATAATAATAAATTAATTAATTTTTGATTA
Found at i:37036052 original size:390 final size:390
Alignment explanation
Indices: 37035343--37036106 Score: 1100
Period size: 390 Copynumber: 2.0 Consensus size: 390
37035333 CCCCAAGCAA
* * * * ** *
37035343 CACAGATAACCTAAATGGTCATAACGGTTCAAATTGGCCCAAGGCTCATATTTGGCCCGAGTGGG
1 CACAGATAACCTAAATGGTCATAACGGTGCAAATCGACCCAAGGCCCATATTCAGCCCAAGTGGG
* ** * *
37035408 CCCACACACTCATGTGGCCCATTTAGCCCAAATTTTGTCACAACTATGTGAACTGCATAGCTCAG
66 CCCACACACACATGTGGCCCATTTAGCCCAAATTCAGTCACAACTATGCGAACTACATAGCTCAG
* * * *
37035473 TCCAGTATTTGTCACTTAACATGGATTTTATTTATGTGGGGCCCATGAGCCCTCTGGGCCTACAT
131 TCCAATATTTGTCACTTAACATGGATTTTATTCATGTGGGGCCCATGAGCCCTCTGGGCCCACAC
* * ** * *
37035538 GACCTATTTCAGCCCAACGTGGCCCATAACGGCCCAAGAGCACGAGAATGCTTGCGGCGGCCTCT
196 GACCCATTTCAGCCCAACGTGGCCCATAACGGCCCAAGAGCACGAGAACGCTCACGGCAGCCTCG
* *
37035603 ACAGTCTAACACCATGTTTCGTGTGCTCGGTTCACCACACGAGCGTTCACACACCCATGTGGCCT
261 ACAGTCTAACACCATGTTACGTGTGCTCGGTTCACCACAAGAGCGTTCACACACCCATGTGGCCT
* * *
37035668 CAATCGTCGTATTTTTTACTTTTTAGCTTTTGTCGATTTGCAGTAAAGAAAGTCACCTCGAGTAG
326 CAATCGTCGTATTTCTGACTTTTCAGCTTTTGTCGATTTGCAGTAAAGAAAGTCACCTCGAGTAG
* *
37035733 CACAGATAACCTAAATGGTCATAACGGTGCAAATCGATCTAAGGCCCATATTCAGCCCAAGTGGG
1 CACAGATAACCTAAATGGTCATAACGGTGCAAATCGACCCAAGGCCCATATTCAGCCCAAGTGGG
* * * *
37035798 CCCATACACACGTGTGGCTCATTTAGCCCAAATTCAGTCACGACTATGCGAACTACATAGCTCAG
66 CCCACACACACATGTGGCCCATTTAGCCCAAATTCAGTCACAACTATGCGAACTACATAGCTCAG
* * *
37035863 TCCAATATTTTTCACTTAACGTGGATTTTATTCATGT-GGG-CCATACGAGCCCTTTGGGCCCAC
131 TCCAATATTTGTCACTTAACATGGATTTTATTCATGTGGGGCCCAT--GAGCCCTCTGGGCCCAC
* * * *
37035926 ACGACCCATTTTAGCCCAATGTGGCCCATAACGGCCCAGGAGCACGAGAACGCTCACGGCATCCT
194 ACGACCCATTTCAGCCCAACGTGGCCCATAACGGCCCAAGAGCACGAGAACGCTCACGGCAGCCT
* *
37035991 CGACAGTCTAACACCATGTTACGTGTGCTCGGTTCACCACAAGAGCGTTCGCACGCCCATGTGGC
259 CGACAGTCTAACACCATGTTACGTGTGCTCGGTTCACCACAAGAGCGTTCACACACCCATGTGGC
* *
37036056 CTCAATCGTCGTATTTCTGGCTTTTCAGCTTTTGTTGATTTGCAGTAAAGA
324 CTCAATCGTCGTATTTCTGACTTTTCAGCTTTTGTCGATTTGCAGTAAAGA
37036107 CAGTGTGATT
Statistics
Matches: 328, Mismatches: 44, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
388 4 0.01
389 3 0.01
390 321 0.98
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (390 bp):
CACAGATAACCTAAATGGTCATAACGGTGCAAATCGACCCAAGGCCCATATTCAGCCCAAGTGGG
CCCACACACACATGTGGCCCATTTAGCCCAAATTCAGTCACAACTATGCGAACTACATAGCTCAG
TCCAATATTTGTCACTTAACATGGATTTTATTCATGTGGGGCCCATGAGCCCTCTGGGCCCACAC
GACCCATTTCAGCCCAACGTGGCCCATAACGGCCCAAGAGCACGAGAACGCTCACGGCAGCCTCG
ACAGTCTAACACCATGTTACGTGTGCTCGGTTCACCACAAGAGCGTTCACACACCCATGTGGCCT
CAATCGTCGTATTTCTGACTTTTCAGCTTTTGTCGATTTGCAGTAAAGAAAGTCACCTCGAGTAG
Found at i:37043947 original size:43 final size:43
Alignment explanation
Indices: 37043900--37043982 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
37043890 ATTAATACAG
* **
37043900 TGATGCACTACATGTGTCAATATATTTCCTTCAGT-TTATCCGA
1 TGATGCACAACATGTACCAATATATTTCCTTC-GTATTATCCGA
*
37043943 TGATGCACAACATGTACCAGTATATTTCCTTCGTATTATC
1 TGATGCACAACATGTACCAATATATTTCCTTCGTATTATC
37043983 TTATCATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (43 bp):
TGATGCACAACATGTACCAATATATTTCCTTCGTATTATCCGA
Found at i:37043992 original size:43 final size:43
Alignment explanation
Indices: 37043902--37043992 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
37043892 TAATACAGTG
* ** *
37043902 ATGCACTACATGTGTCAATATATTTCCTTCAGTTTATCCGATG
1 ATGCACAACATGTACCAATATATTTCCTTCAGTTTATCCGATC
* **
37043945 ATGCACAACATGTACCAGTATATTTCCTTC-GTATTATCTTATC
1 ATGCACAACATGTACCAATATATTTCCTTCAGT-TTATCCGATC
37043988 ATGCA
1 ATGCA
37043993 TTGAGTGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.05
43 38 0.95
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (43 bp):
ATGCACAACATGTACCAATATATTTCCTTCAGTTTATCCGATC
Done.