Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 201 of 228
Found at i:59027634 original size:4 final size:4
Alignment explanation
Indices: 59027625--59027682 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
59027615 AATAAACAAG
* * *
59027625 AAAT AAAT AAAAT AAAAT AACT -AAT -AAT AAAT -AAT AAAT AAAT AGAG
1 AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
59027672 AAAT AAAT AAA
1 AAAT AAAT AAA
59027683 GAAAGGAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 8 0.18
4 28 0.62
5 9 0.20
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:59033970 original size:25 final size:25
Alignment explanation
Indices: 59033942--59034003 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
59033932 GCTGAAGCTC
*
59033942 TAGTTGCATTTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
59033967 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
59033992 TAGTTGCAATTC
1 TAGTTGCAATTC
59034004 CAGTAAATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:59034248 original size:32 final size:32
Alignment explanation
Indices: 59034207--59034269 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
59034197 TCTTGCACTA
59034207 GTGTATATTCATATACAACGCATTAATTAAAT
1 GTGTATATTCATATACAACGCATTAATTAAAT
*
59034239 GTGTATATTCATTTACAACGCATTAATTAAA
1 GTGTATATTCATATACAACGCATTAATTAAA
59034270 AATATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (32 bp):
GTGTATATTCATATACAACGCATTAATTAAAT
Found at i:59034287 original size:24 final size:26
Alignment explanation
Indices: 59034263--59034312 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
59034253 ACAACGCATT
59034263 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
*
59034289 AATTAAAAATATTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
59034313 ATTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:59034454 original size:64 final size:64
Alignment explanation
Indices: 59034385--59034562 Score: 329
Period size: 65 Copynumber: 2.8 Consensus size: 64
59034375 AAATAAAATA
*
59034385 AAAATTGGATCATTAGATATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
*
59034449 AAAATTGGATCATTAAATATAATCAAGTAAACAACTTGATTAAAAAAACATATGGATAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATT-AAAAAACATATGGATAATATATT
59034514 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACA
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACA
59034563 AATATTCATT
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
64 47 0.43
65 63 0.57
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
Found at i:59034621 original size:56 final size:56
Alignment explanation
Indices: 59034556--59034672 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
59034546 AACTTGATTA
* * *
59034556 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTGTAAAAATTGTTTAAAG
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAC
59034612 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAC
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAC
59034668 AAAAA
1 AAAAA
59034673 TGTGGTTTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (56 bp):
AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAC
Found at i:59034835 original size:49 final size:49
Alignment explanation
Indices: 59034778--59034881 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
59034768 TCATGTGCTA
* * ** * *
59034778 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
59034827 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
59034876 TAATTT
1 TAATTT
59034882 ATTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:59036398 original size:18 final size:18
Alignment explanation
Indices: 59036359--59036398 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
59036349 TAAGAATTTT
*
59036359 ATTAAATTATATATTATT
1 ATTAAATTATATATTATA
59036377 ATTAAATTATAT-TTAATA
1 ATTAAATTATATATT-ATA
59036395 ATTA
1 ATTA
59036399 TTATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAAATTATATATTATA
Found at i:59036454 original size:39 final size:41
Alignment explanation
Indices: 59036355--59036455 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 41
59036345 AGAATAAGAA
* *
59036355 TTTTATTAAATTATATATTATTATTAAATTATATTTAATAAT
1 TTTTATTAAATTATATTTTATTAGT-AATTATATTTAATAAT
* *
59036397 TATTATTTTAAATTATATTTTA-TAGT-ATTATATATT-ATGAT
1 T-TT-TATTAAATTATATTTTATTAGTAATTATAT-TTAATAAT
59036438 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
59036456 AATAACAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
39 14 0.27
40 2 0.04
41 12 0.24
42 3 0.06
43 5 0.10
44 15 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (41 bp):
TTTTATTAAATTATATTTTATTAGTAATTATATTTAATAAT
Found at i:59036489 original size:110 final size:108
Alignment explanation
Indices: 59036266--59036482 Score: 307
Period size: 110 Copynumber: 2.0 Consensus size: 108
59036256 AATAAAGTAG
59036266 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
* *
59036330 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATATAAGAATAACAATTATATTAAA-TATATATT
*
59036374 ATTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
* ** *
59036439 TTTATTAAATT-ATAT-TTAATAACAATTATGTTAAA-ATATGATT
64 TTTAGTAAATTCATATAAGAATAACAATTATATTAAATATAT-ATT
59036482 A
1 A
59036483 AATTATTTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
107 4 0.04
108 8 0.08
109 37 0.38
110 38 0.39
111 11 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (108 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
TAGTAAATTCATATAAGAATAACAATTATATTAAATATATATT
Found at i:59036520 original size:110 final size:108
Alignment explanation
Indices: 59036266--59036520 Score: 304
Period size: 110 Copynumber: 2.3 Consensus size: 108
59036256 AATAAAGTAG
59036266 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
1 ATTATTAAATTATATTTAATAAT-ATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
* * *
59036330 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
65 TAGTAAATTCATATAAGAATAACAATTATATTAAATTATAAATT
59036374 ATTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAA-TATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
* ** *
59036439 TTTATTAAATT-ATAT-TTAATAACAATTATGTTAAAATATGATTAAATT
63 TTTAGTAAATTCATATAAGAATAACAATTATATT-AAAT-T-A-TAAATT
* * *
59036487 ATTTATT-ATTTATA-TTAATAATCTTATTAAAATT
1 A-TTATTAAATTATATTTAATAATATTATTTAAATT
59036521 TAATAACAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
108 4 0.03
109 33 0.26
110 50 0.39
111 16 0.12
112 8 0.06
113 12 0.09
114 5 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (108 bp):
ATTATTAAATTATATTTAATAATATTATTTAAATTATATTTTATAGTATTATATATTATGATTTT
AGTAAATTCATATAAGAATAACAATTATATTAAATTATAAATT
Found at i:59036644 original size:39 final size:41
Alignment explanation
Indices: 59036601--59036709 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 41
59036591 TCCTTATGCT
* *
59036601 ATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC-C
1 ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACTC
*
59036640 ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACTT
1 ATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTACTC
59036686 ATTACGCCTCTATTCCATTACAAC
1 ATTACGCCTCTATTCCATT-CAAC
59036710 GAACCAAACG
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
39 9 0.15
41 8 0.14
42 5 0.08
43 1 0.02
44 23 0.39
45 3 0.05
46 10 0.17
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (41 bp):
ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACTC
Found at i:59036679 original size:44 final size:46
Alignment explanation
Indices: 59036612--59036704 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
59036602 TTACACCTCT
*
59036612 ATTCCATTCAACCAAACACAAGAA-TAC-CATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
*
59036656 ATTCCATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
59036702 ATT
1 ATT
59036705 ACAACGAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
Found at i:59036715 original size:46 final size:44
Alignment explanation
Indices: 59036620--59036718 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 44
59036610 CTATTCCATT
* * *
59036620 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTCCATT
1 CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATA
*
59036664 CAACCAAACAAAAGAATTACTTATTACGCCTCTATTCCATTACA-A
1 CAACCAAACAAAAGAA-TAC-CATTACGCCTCTATTCCATTACATA
59036709 CGAACCAAAC
1 C-AACCAAAC
59036719 GTGGCCTTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.31
45 4 0.08
46 29 0.60
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.23
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATA
Found at i:59040244 original size:22 final size:22
Alignment explanation
Indices: 59040199--59040248 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
59040189 TATTCACTAA
*
59040199 TTAATTT-TTGTAATGGATGTT
1 TTAATTTCTTGTAATAGATGTT
59040220 TTAATTTCTTGATAATAG-TGTT
1 TTAATTTCTTG-TAATAGATGTT
59040242 TT-ATTTC
1 TTAATTTC
59040249 AATAATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (22 bp):
TTAATTTCTTGTAATAGATGTT
Found at i:59043746 original size:28 final size:30
Alignment explanation
Indices: 59043705--59043771 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
59043695 TTCTTATATA
*
59043705 TATTTTATTAAATAT-AAAAAAGTTAACAT
1 TATTTTATTAAATATAAAAAAACTTAACAT
59043734 TATTTT-TTAAATATAAAAAAACTTAACAT
1 TATTTTATTAAATATAAAAAAACTTAACAT
59043763 TATTTTATT
1 TATTTTATT
59043772 TAAACACATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 8 0.23
29 25 0.71
30 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
TATTTTATTAAATATAAAAAAACTTAACAT
Found at i:59058069 original size:18 final size:20
Alignment explanation
Indices: 59058037--59058074 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
59058027 TTAGGATGAT
*
59058037 TTTTCTAAAATATA-TAAAA
1 TTTTCTAAAAAATATTAAAA
59058056 TTTT-TAAAAAATATTAAAA
1 TTTTCTAAAAAATATTAAAA
59058075 ATTATTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTCTAAAAAATATTAAAA
Found at i:59060947 original size:9 final size:9
Alignment explanation
Indices: 59060933--59060981 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
59060923 GTAGTGATTC
59060933 AATTCGGTT
1 AATTCGGTT
*
59060942 AATTCGGGT
1 AATTCGGTT
*
59060951 AATTCAGTT
1 AATTCGGTT
*
59060960 AATTCGGAT
1 AATTCGGTT
59060969 AATTCGGTT
1 AATTCGGTT
59060978 AATT
1 AATT
59060982 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:59060960 original size:18 final size:18
Alignment explanation
Indices: 59060933--59060981 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
59060923 GTAGTGATTC
*
59060933 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGAT
*
59060951 AATTCAGTTAATTCGGAT
1 AATTCGGTTAATTCGGAT
59060969 AATTCGGTTAATT
1 AATTCGGTTAATT
59060982 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGGAT
Found at i:59062078 original size:17 final size:17
Alignment explanation
Indices: 59062058--59062207 Score: 114
Period size: 17 Copynumber: 8.7 Consensus size: 17
59062048 AAAAATTTTG
*
59062058 TTTTGAAAACACGAGAA
1 TTTTGAAAACACGAAAA
***
59062075 TTTTG-AAACA--ATTT
1 TTTTGAAAACACGAAAA
*
59062089 TTTTTGAAAACATGAAAAA
1 TT-TTGAAAACACG-AAAA
* *
59062108 TTTTTAAAACACGAGAA
1 TTTTGAAAACACGAAAA
59062125 TTTT-AGAAACACGAAAA
1 TTTTGA-AAACACGAAAA
59062142 TTCTT-AAAACACGAAAA
1 TT-TTGAAAACACGAAAA
*
59062159 TTTTTGAAAACACGACAA
1 -TTTTGAAAACACGAAAA
59062177 TTTTG-AAACACGAGAAA
1 TTTTGAAAACACGA-AAA
59062194 TTTTTTGAAAACAC
1 --TTTTGAAAACAC
59062208 AAATTTTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.03
15 3 0.03
16 19 0.18
17 44 0.41
18 25 0.23
19 8 0.07
20 6 0.06
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:59062116 original size:18 final size:17
Alignment explanation
Indices: 59062089--59062215 Score: 118
Period size: 17 Copynumber: 7.3 Consensus size: 17
59062079 GAAACAATTT
*
59062089 TTTTTGAAAACATGAAAAA
1 TTTTT-AAAACACG-AAAA
*
59062108 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
59062125 -TTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAAAA
*
59062142 TTCTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
59062159 TTTTTGAAAACACGACAA
1 TTTTT-AAAACACGAAAA
*
59062177 -TTTTGAAACACGAGAAA
1 TTTTTAAAACACGA-AAA
59062194 TTTTTTGAAAACAC--AAA
1 -TTTTT-AAAACACGAAAA
59062211 TTTTT
1 TTTTT
59062216 TTTGAAACAC
Statistics
Matches: 92, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
16 18 0.20
17 37 0.40
18 22 0.24
19 9 0.10
20 6 0.07
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:59062142 original size:34 final size:35
Alignment explanation
Indices: 59062089--59062269 Score: 127
Period size: 35 Copynumber: 5.1 Consensus size: 35
59062079 GAAACAATTT
* *
59062089 TTTTTGAAAACATGAAAAATTTTTAAAACACGAGAA
1 TTTTAGAAAACACG-AAAATTTTTAAAACACGAGAA
* *
59062125 TTTTAG-AAACACGAAAATTCTTAAAACACGAAAA
1 TTTTAGAAAACACGAAAATTTTTAAAACACGAGAA
* * *
59062159 TTTTTGAAAACACGACAA-TTTTGAAACACGAGAAA
1 TTTTAGAAAACACGAAAATTTTTAAAACACGAG-AA
* * * * ***
59062194 TTTTTTGAAAACAC-AAATTTTTTTTGAAACACAATTT
1 -TTTTAGAAAACACGAAA--ATTTTTAAAACACGAGAA
* * *
59062231 TTTTTGAAAACAC-AGAAATTTGTGAAACACGAGAA
1 TTTTAGAAAACACGA-AAATTTTTAAAACACGAGAA
59062266 TTTT
1 TTTT
59062270 TTTTGAAAAC
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
34 35 0.30
35 36 0.31
36 32 0.27
37 2 0.02
38 12 0.10
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (35 bp):
TTTTAGAAAACACGAAAATTTTTAAAACACGAGAA
Found at i:59062169 original size:52 final size:53
Alignment explanation
Indices: 59062058--59062207 Score: 175
Period size: 51 Copynumber: 2.9 Consensus size: 53
59062048 AAAAATTTTG
*** * *
59062058 TTTTGAAAACACGAGAATTTTGAAACA--ATTTTTTTTGAAAACATGAAAAAT
1 TTTTGAAAACACGAGAATTTTGAAACACGAAAATTCTTGAAAACACGAAAAAT
59062109 TTTT-AAAACACGAGAATTTTAGAAACACGAAAATTCTT-AAAACACG-AAAAT
1 TTTTGAAAACACGAGAATTTT-GAAACACGAAAATTCTTGAAAACACGAAAAAT
* *
59062160 TTTTGAAAACACGACAATTTTGAAACACGAGAAATTTTTTGAAAACAC
1 TTTTGAAAACACGAGAATTTTGAAACACGA-AAA-TTCTTGAAAACAC
59062208 AAATTTTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
50 16 0.19
51 28 0.33
52 25 0.29
53 9 0.11
54 7 0.08
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (53 bp):
TTTTGAAAACACGAGAATTTTGAAACACGAAAATTCTTGAAAACACGAAAAAT
Found at i:59062212 original size:52 final size:51
Alignment explanation
Indices: 59062058--59062215 Score: 166
Period size: 52 Copynumber: 3.1 Consensus size: 51
59062048 AAAAATTTTG
** *
59062058 TTTTGAAAACACGAGAATTTTG-AA-AC-AATTTTTTTTGAAAACATGAAAAAT
1 TTTTGAAAACACGAGAATTTTGAAACACGAAAATTTTTTGAAAAC---ACAAAT
*
59062109 TTTT-AAAACACGAGAATTTTAGAAACACGAAAA-TTCTT-AAAACACGAAAAT
1 TTTTGAAAACACGAGAATTTT-GAAACACGAAAATTTTTTGAAAACAC--AAAT
*
59062160 TTTTGAAAACACGACAATTTTGAAACACGAGAAATTTTTTGAAAACACAAAT
1 TTTTGAAAACACGAGAATTTTGAAACACGA-AAATTTTTTGAAAACACAAAT
59062212 TTTT
1 TTTT
59062216 TTTGAAACAC
Statistics
Matches: 91, Mismatches: 6, Indels: 19
0.78 0.05 0.16
Matches are distributed among these distances:
49 1 0.01
50 16 0.18
51 22 0.24
52 33 0.36
53 10 0.11
54 9 0.10
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (51 bp):
TTTTGAAAACACGAGAATTTTGAAACACGAAAATTTTTTGAAAACACAAAT
Found at i:59062270 original size:35 final size:34
Alignment explanation
Indices: 59062058--59062270 Score: 143
Period size: 34 Copynumber: 6.1 Consensus size: 34
59062048 AAAAATTTTG
***
59062058 TTTTGAAAACAC-GAGAATTTTGAAACA--ATTTT
1 TTTTGAAAACACAGA-AATTTTGAAACACGAGAAT
* * *
59062090 TTTTGAAAACATGAAAAATTTTTAAAACACGAGAAT
1 TTTTGAAAACA-CAGAAA-TTTTGAAACACGAGAAT
* * *
59062126 TTTAG-AAACAC-GAAAATTCTTAAAACACGAAAAT
1 TTTTGAAAACACAG-AAATT-TTGAAACACGAGAAT
59062160 TTTTGAAAACAC-GACAATTTTGAAACACGAGAAATT
1 TTTTGAAAACACAGA-AATTTTGAAACACGAG-AA-T
* * ***
59062196 TTTTGAAAACACA-AATTTTTTTTGAAACACAATTTT
1 TTTTGAAAACACAGAA---ATTTTGAAACACGAGAAT
59062232 TTTTGAAAACACAGAAATTTGTGAAACACGAGAAT
1 TTTTGAAAACACAGAAATTT-TGAAACACGAGAAT
59062267 TTTT
1 TTTT
59062271 TTTGAAAACA
Statistics
Matches: 141, Mismatches: 23, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
32 11 0.08
33 4 0.03
34 45 0.32
35 33 0.23
36 34 0.24
37 2 0.01
38 12 0.09
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (34 bp):
TTTTGAAAACACAGAAATTTTGAAACACGAGAAT
Found at i:59062337 original size:17 final size:17
Alignment explanation
Indices: 59062105--59062339 Score: 106
Period size: 17 Copynumber: 12.9 Consensus size: 17
59062095 AAAACATGAA
*
59062105 AAATTTTTAAAACAC-G
1 AAATTTTTGAAACACGG
* *
59062121 AGAATTTTAGAAACACGA
1 A-AATTTTTGAAACACGG
* * *
59062139 AAATTCTTAAAACACGA
1 AAATTTTTGAAACACGG
59062156 AAATTTTTGAAAACAC-G
1 AAATTTTTG-AAACACGG
59062173 ACAA-TTTTGAAACACGAG
1 A-AATTTTTGAAACACG-G
59062191 AAATTTTTTGAAAACAC--
1 AAA-TTTTTG-AAACACGG
59062208 AAATTTTTTTTGAAACAC--
1 AAA---TTTTTGAAACACGG
* *
59062226 AATTTTTTTTGAAAACACAG
1 AA--ATTTTTG-AAACACGG
*
59062246 AAATTTGTGAAACACGAG
1 AAATTTTTGAAACACG-G
*
59062264 AATTTTTTTTGAAAACACGG
1 AA--ATTTTTG-AAACACGG
*
59062284 AAAGTTTTTTGAAAACATGG
1 AAA--TTTTTG-AAACACGG
*
59062304 AAATTTTTTTTTAAAACACGG
1 AAA----TTTTTGAAACACGG
59062325 AAATTTTTGAAACAC
1 AAATTTTTGAAACAC
59062340 AAAGAATTTT
Statistics
Matches: 174, Mismatches: 21, Indels: 47
0.72 0.09 0.19
Matches are distributed among these distances:
16 7 0.04
17 66 0.38
18 33 0.19
19 12 0.07
20 33 0.19
21 17 0.10
22 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
AAATTTTTGAAACACGG
Found at i:59062347 original size:18 final size:18
Alignment explanation
Indices: 59062326--59062414 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 18
59062316 AAAACACGGA
59062326 AATTTTTGAAACACAAAG
1 AATTTTTGAAACACAAAG
* * *
59062344 AATTTTTTCAAAAACAAAAA
1 AA-TTTTTGAAACAC-AAAG
* **
59062364 AATTTTTGACACAC-CGG
1 AATTTTTGAAACACAAAG
*
59062381 AATTTTTGAAAGCACGAAG
1 AATTTTTGAAA-CACAAAG
59062400 -ATTTTTG-AACACAAA
1 AATTTTTGAAACACAAA
59062415 ATTTTTTAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
16 5 0.09
17 12 0.22
18 12 0.22
19 20 0.37
20 5 0.09
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTTTTGAAACACAAAG
Found at i:59062351 original size:20 final size:19
Alignment explanation
Indices: 59062177--59062351 Score: 121
Period size: 20 Copynumber: 9.2 Consensus size: 19
59062167 AACACGACAA
*
59062177 TTTTG-AAACACGAGAAATT
1 TTTTGAAAACAC-AGAATTT
59062196 TTTTGAAAACACA-AATTTT
1 TTTTGAAAACACAGAA-TTT
*
59062215 TTTTG-AAACACA-ATTTT
1 TTTTGAAAACACAGAATTT
*
59062232 TTTTGAAAACACAGAA-AT
1 TTTTGAAAACACAGAATTT
*
59062250 TTGTG-AAACACGAGAATTTT
1 TTTTGAAAACAC-AGAA-TTT
* *
59062270 TTTTGAAAACACGGAAAGTT
1 TTTTGAAAACACAG-AATTT
**
59062290 TTTTGAAAACATGGAAATTTT
1 TTTTGAAAACACAG-AA-TTT
* * *
59062311 TTTTTAAAACACGGAA-AT
1 TTTTGAAAACACAGAATTT
*
59062329 TTTTGAAACACAAAGAATTT
1 TTTTGAAA-ACACAGAATTT
59062349 TTT
1 TTT
59062352 CAAAAACAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
17 14 0.11
18 34 0.27
19 20 0.16
20 36 0.29
21 22 0.17
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (19 bp):
TTTTGAAAACACAGAATTT
Found at i:59062480 original size:18 final size:17
Alignment explanation
Indices: 59062457--59062548 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 17
59062447 AACATGGAAA
59062457 AAAACACGAAAATTTGTG
1 AAAACACGAAAATTT-TG
*
59062475 AAAACATGGAAAAAAAATTTT-
1 AAAACA-CG---A-AAATTTTG
*
59062496 -AAACACG-AATTTTTG
1 AAAACACGAAAATTTTG
*
59062511 AAAACATGAAAATTTTG
1 AAAACACGAAAATTTTG
*
59062528 AAAACACGGAAATTTTTG
1 AAAACAC-GAAAATTTTG
59062546 AAA
1 AAA
59062549 TAGGGGAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
14 6 0.10
16 6 0.10
17 13 0.22
18 18 0.31
19 2 0.03
20 5 0.09
22 2 0.03
23 6 0.10
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (17 bp):
AAAACACGAAAATTTTG
Found at i:59062878 original size:5 final size:5
Alignment explanation
Indices: 59062868--59062900 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
59062858 AAATTACTTA
59062868 AAATT AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAA
59062901 AATATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:59063102 original size:11 final size:10
Alignment explanation
Indices: 59063074--59063107 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
59063064 TTCTTCTTCC
*
59063074 TCTTTCTTCT
1 TCTTTTTTCT
59063084 TCTTTTTTCT
1 TCTTTTTTCT
59063094 TCATTTTTTCT
1 TC-TTTTTTCT
59063105 TCT
1 TCT
59063108 CCTTCGGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:59063647 original size:29 final size:29
Alignment explanation
Indices: 59063604--59063711 Score: 110
Period size: 28 Copynumber: 3.7 Consensus size: 29
59063594 AAAACTTTTG
* * * *
59063604 GGGTTAAAGTATAATTTTGAGAACGTTTA
1 GGGTTAAAATGTAATTTTGAGAAAGTTAA
59063633 GGGTTAAAATGTAATTTT-AGAAAGTTAA
1 GGGTTAAAATGTAATTTTGAGAAAGTTAA
* * *
59063661 GGGTTAAAATGTAATTTTGGAAAAATTTAG
1 GGGTTAAAATGTAATTTT-GAGAAAGTTAA
* *
59063691 GGGTCAAAAATATAATTTTGA
1 GGGT-TAAAATGTAATTTTGA
59063712 AAAAAATTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
28 26 0.39
29 16 0.24
30 13 0.19
31 12 0.18
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGAGAAAGTTAA
Found at i:59065928 original size:19 final size:20
Alignment explanation
Indices: 59065904--59065949 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
59065894 AAATTTTAAA
* *
59065904 AAAAAAGTTAT-AAATTTAT
1 AAAAAAGTAATAAAAATTAT
59065923 AAAAAA-TAATAAAAATTAT
1 AAAAAAGTAATAAAAATTAT
59065942 AAAAAAGT
1 AAAAAAGT
59065950 CATTTAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 19 0.83
20 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAAAAGTAATAAAAATTAT
Found at i:59067298 original size:85 final size:85
Alignment explanation
Indices: 59067155--59067323 Score: 277
Period size: 85 Copynumber: 2.0 Consensus size: 85
59067145 GTCATAAAAG
*
59067155 TATGAGTCAAAAAGGTTGTTTGTTTGTTATGAAACGGAGATTCCTCCTTATCATATTCGCCTGTA
1 TATGAGTCAAAAAGGTTGTTTGTTTGTTATGAAACGGAGAGTCCTCCTTATCATATTCGCCTGTA
59067220 AAAATAGTCTTAGGGATAAA
66 AAAATAGTCTTAGGGATAAA
* * **
59067240 TATGAGTCAAAAAGGTTGTTTGTTTGTTATGTAAA-GGAGAGTCCTCTTTTTCATATTCGTTTGT
1 TATGAGTCAAAAAGGTTGTTTGTTTGTTATG-AAACGGAGAGTCCTCCTTATCATATTCGCCTGT
59067304 AAAAATAGTCTTAGGGATAA
65 AAAAATAGTCTTAGGGATAA
59067324 GTCAAAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 75 0.96
86 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (85 bp):
TATGAGTCAAAAAGGTTGTTTGTTTGTTATGAAACGGAGAGTCCTCCTTATCATATTCGCCTGTA
AAAATAGTCTTAGGGATAAA
Found at i:59069476 original size:42 final size:42
Alignment explanation
Indices: 59069417--59069502 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
59069407 TTTTATGAAC
59069417 GAAAGAGAACTTTCTGTGGGTCCTTGCCCGCTGCTTGAAATT
1 GAAAGAGAACTTTCTGTGGGTCCTTGCCCGCTGCTTGAAATT
59069459 GAAAGAGAACTTTCTGTGGGTCCTTGCCCGCTGCTTGAAATT
1 GAAAGAGAACTTTCTGTGGGTCCTTGCCCGCTGCTTGAAATT
59069501 GA
1 GA
59069503 CATTGCTGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
GAAAGAGAACTTTCTGTGGGTCCTTGCCCGCTGCTTGAAATT
Found at i:59075323 original size:6 final size:6
Alignment explanation
Indices: 59075312--59075343 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
59075302 TAATTGAAAA
59075312 TCAATT TCAATT TCAATT TCAATT TCAATT TC
1 TCAATT TCAATT TCAATT TCAATT TCAATT TC
59075344 TTTTCCTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (6 bp):
TCAATT
Found at i:59076844 original size:23 final size:22
Alignment explanation
Indices: 59076805--59076860 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
59076795 ATGATAATGG
59076805 AAAATTTTCTATTTAAGTCTATTT
1 AAAATTTT-TATTTAAGTCT-TTT
59076829 AAAATTTTTATTTAAGTCTTTT
1 AAAATTTTTATTTAAGTCTTTT
*
59076851 AAAGTTTTTA
1 AAAATTTTTA
59076861 AAATTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 12 0.39
23 11 0.35
24 8 0.26
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
AAAATTTTTATTTAAGTCTTTT
Found at i:59077732 original size:6 final size:6
Alignment explanation
Indices: 59077718--59077751 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
59077708 ATGATTGCAA
* *
59077718 ATTTCC ATTTTC ATTTTC ATTTTC ATTTCC ATTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTT
59077752 CTTGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTC
Found at i:59077738 original size:12 final size:12
Alignment explanation
Indices: 59077718--59077751 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
59077708 ATGATTGCAA
59077718 ATTTCCATTTTC
1 ATTTCCATTTTC
*
59077730 ATTTTCATTTTC
1 ATTTCCATTTTC
59077742 ATTTCCATTT
1 ATTTCCATTT
59077752 CTTGAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:59080215 original size:11 final size:11
Alignment explanation
Indices: 59080199--59080277 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
59080189 TAAAATACCA
59080199 AAAAATATTTT
1 AAAAATATTTT
**
59080210 AAAAATA--AA
1 AAAAATATTTT
59080219 AAAAAGTATTTT
1 AAAAA-TATTTT
59080231 AAAAATATTTT
1 AAAAATATTTT
* **
59080242 -TAAAT-TTAA
1 AAAAATATTTT
59080251 AAAAAGTATTTT
1 AAAAA-TATTTT
59080263 AAAAATATTTT
1 AAAAATATTTT
59080274 AAAA
1 AAAA
59080278 TTAAAAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 7 0.13
10 9 0.17
11 24 0.46
12 12 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:59080221 original size:20 final size:21
Alignment explanation
Indices: 59080198--59080237 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59080188 ATAAAATACC
59080198 AAAAAA-TATTTTAAAAATAA
1 AAAAAAGTATTTTAAAAATAA
59080218 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
59080238 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATAA
Found at i:59080235 original size:32 final size:32
Alignment explanation
Indices: 59080199--59080286 Score: 149
Period size: 32 Copynumber: 2.8 Consensus size: 32
59080189 TAAAATACCA
*
59080199 AAAAATATTTTAAAAATAAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAAGTATTTT
* *
59080231 AAAAATATTTTTAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAAGTATTTT
59080263 AAAAATATTTTAAAATTAAAAAAA
1 AAAAATATTTTAAAATTAAAAAAA
59080287 TTTAAAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (32 bp):
AAAAATATTTTAAAATTAAAAAAAAGTATTTT
Found at i:59080283 original size:17 final size:17
Alignment explanation
Indices: 59080261--59080305 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
59080251 AAAAAGTATT
59080261 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
59080278 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
59080294 ATAAATATATTT
1 TTAAAAATATTT
59080306 ATTATATCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:59080766 original size:108 final size:106
Alignment explanation
Indices: 59080517--59080925 Score: 552
Period size: 107 Copynumber: 3.8 Consensus size: 106
59080507 TTGGGGGAAA
* * * *
59080517 TTTTTTAACTTTTCTCGTATACTGATACCTGTTATTGACACGAAAAAAGTAAAAAAAAATTCTCA
1 TTTTTTTACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAATTC-CC
* *
59080582 CAAAAAAGGTGGTGCCGACCGTTGGCAGGCCACCA-CAATTTT
65 CAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAA-TTT
59080624 TTTTTTTACTTTTTTCGTATACT-AGTACCTGCTATTGACACGAAAAAAGTGAAAAAAAAATTCC
1 TTTTTTTACTTTTTTCGTATACTGA-TACCTGCTATTGACACGAAAAAAGT-AAAAAAAAATTCC
*
59080688 CCATAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAATTT
64 CCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAATTT
* *
59080731 TTTTTTTACTTTTTTTCGTATATTGATACCAGCTATTGACACGAAAAAAGTAAAAAAAAATTTCT
1 TTTTTTTAC-TTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAA--T-T
* * *
59080796 CCCCCCAAAAAGATGGTGCCGGCCATTGGCAAGCCACCACCAAAATTT
62 -CCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC--AATTT
** * *
59080844 TTTTTTTACTTTTTTTATATACTGATATCTGCTATTGACACGAAAAAAGTGAAAAAAAATTTCCC
1 TTTTTTTACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT-AAAAAAAAATTCCC
59080909 CAAAAAAGGTGGTGCCG
65 CAAAAAAGGTGGTGCCG
59080926 ACTAGAGGTG
Statistics
Matches: 269, Mismatches: 21, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
106 1 0.00
107 99 0.37
108 52 0.19
109 20 0.07
110 2 0.01
111 37 0.14
112 36 0.13
113 22 0.08
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (106 bp):
TTTTTTTACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAATTCCCC
AAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAATTT
Found at i:59081129 original size:11 final size:11
Alignment explanation
Indices: 59081113--59081138 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59081103 TTAAAAATAA
59081113 AAAAGTATTTT
1 AAAAGTATTTT
59081124 AAAAGTATTTT
1 AAAAGTATTTT
59081135 AAAA
1 AAAA
59081139 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:59091261 original size:22 final size:24
Alignment explanation
Indices: 59091208--59091261 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
59091198 ATGATAATGG
* *
59091208 AAAATTTTCCATTTAGGTCCCTTT
1 AAAATTTTCCATTTAAGTCCCTTC
59091232 AAAATTTT-CATTTAAG-CCCTTC
1 AAAATTTTCCATTTAAGTCCCTTC
*
59091254 AAAGTTTT
1 AAAATTTT
59091262 TAAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 7 0.26
24 8 0.30
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (24 bp):
AAAATTTTCCATTTAAGTCCCTTC
Found at i:59091457 original size:19 final size:17
Alignment explanation
Indices: 59091416--59091459 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
59091406 TTCGGCCCTC
59091416 CTAAAAAA-ATTTTTTA
1 CTAAAAAACATTTTTTA
*
59091432 CTCAAAAACATTTTTTTAA
1 CTAAAAAACA-TTTTTT-A
59091451 CTAAAAAAC
1 CTAAAAAAC
59091460 TTGGTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 1 0.04
18 6 0.26
19 9 0.39
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (17 bp):
CTAAAAAACATTTTTTA
Found at i:59092079 original size:23 final size:24
Alignment explanation
Indices: 59092047--59092097 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
59092037 TAATGGAAAA
*
59092047 TTTTCTATTTAGGTCCATTTAAA-T
1 TTTTCTATTTAAGT-CATTTAAAGT
*
59092071 TTTTC-ATTTAAGTCTTTTAAAGT
1 TTTTCTATTTAAGTCATTTAAAGT
59092094 TTTT
1 TTTT
59092098 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTTCTATTTAAGTCATTTAAAGT
Found at i:59108825 original size:62 final size:62
Alignment explanation
Indices: 59108733--59108865 Score: 146
Period size: 62 Copynumber: 2.1 Consensus size: 62
59108723 GAGCTTGATT
* * * *
59108733 AAAATTTTCAAAAATTTGAAGGGGCCTAATT-AAATATTTCTAAAAACTTCAA-GAGAGAAATG
1 AAAATTTCCAAAAATTTGAACGGACCTAATTAAAAT-TTTCTAAAAACTTCAATG-GAGAAATC
* ** *
59108795 AAAATTTCCAAAAATTTTG-ACGGACTTAATTAAAATTTTCTAAAATTTTCAATGGAGAATTC
1 AAAATTTCCAAAAA-TTTGAACGGACCTAATTAAAATTTTCTAAAAACTTCAATGGAGAAATC
59108857 AAAATTTCC
1 AAAATTTCC
59108866 CATTTTTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 51 0.85
63 9 0.15
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (62 bp):
AAAATTTCCAAAAATTTGAACGGACCTAATTAAAATTTTCTAAAAACTTCAATGGAGAAATC
Found at i:59108832 original size:31 final size:31
Alignment explanation
Indices: 59108703--59108843 Score: 81
Period size: 31 Copynumber: 4.5 Consensus size: 31
59108693 GATTAATGAG
* * *
59108703 AATTTCCAAAAATTTTAACAGAGCTTGATTAA
1 AATTTCCAAAAATTTTGACGGA-CTTAATTAA
* * * *
59108735 AATTTTCAAAAA-TTTGAAGGGGCCTAATTAA
1 AATTTCCAAAAATTTTG-ACGGACTTAATTAA
* * * * ** *
59108766 ATATTTCTAAAAA-CTTCAAGAGA-GAAATGAA
1 A-ATTTCCAAAAATTTTGACG-GACTTAATTAA
59108797 AATTTCCAAAAATTTTGACGGACTTAATTAA
1 AATTTCCAAAAATTTTGACGGACTTAATTAA
* *
59108828 AATTTTCTAAAATTTT
1 AATTTCCAAAAATTTT
59108844 CAATGGAGAA
Statistics
Matches: 79, Mismatches: 25, Indels: 11
0.69 0.22 0.10
Matches are distributed among these distances:
30 12 0.15
31 42 0.53
32 25 0.32
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (31 bp):
AATTTCCAAAAATTTTGACGGACTTAATTAA
Found at i:59111825 original size:13 final size:13
Alignment explanation
Indices: 59111807--59111831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59111797 TCAAACTATC
59111807 AAATTTTCACACG
1 AAATTTTCACACG
59111820 AAATTTTCACAC
1 AAATTTTCACAC
59111832 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:59117392 original size:20 final size:19
Alignment explanation
Indices: 59117345--59117392 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
59117335 TTTCACAAAA
* *
59117345 AAAGAAAGAATTTTGATATT
1 AAAGAAA-AATTTAGATAAT
*
59117365 AAATAAAAATTTAGTATAAT
1 AAAGAAAAATTTAG-ATAAT
59117385 AAAGAAAA
1 AAAGAAAA
59117393 GCTTAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAGAAAAATTTAGATAAT
Found at i:59127888 original size:23 final size:24
Alignment explanation
Indices: 59127844--59127888 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
59127834 CATAAATATA
* * *
59127844 TATTTTTTTGAAATTAATATTTAT
1 TATTTTATTGAAAATAAAATTTAT
59127868 TATTTTATT-AAAATAAAATTT
1 TATTTTATTGAAAATAAAATTT
59127889 TTGATAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTATTGAAAATAAAATTTAT
Found at i:59128200 original size:24 final size:24
Alignment explanation
Indices: 59128173--59128218 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59128163 ATTAAGACTC
59128173 AATC-ACCAAATATAATTTTTTTTA
1 AATCAACCAAATAT-ATTTTTTTTA
*
59128197 AATCAACTAAATATATTTTTTT
1 AATCAACCAAATATATTTTTTT
59128219 CCCTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (24 bp):
AATCAACCAAATATATTTTTTTTA
Found at i:59138015 original size:158 final size:159
Alignment explanation
Indices: 59137706--59138062 Score: 549
Period size: 158 Copynumber: 2.3 Consensus size: 159
59137696 AAGTGAGAAA
* * *
59137706 AAGCCAGTGGAGTGCTTATTGTGTCATGGT-TCGCATAAGTTGCGGAAGTGTCCAAGGAAGTCTG
1 AAGCGAGTGGAGTGCTTCTTGTGTCATGGTCT-GCATAAGTTACGGAAGTGTCCAAGGAAGTCTG
* * *
59137770 TCATCGAAGGAAAAGATAGAGTAGACAAGGAGCCCAAGAAGTTTGGTTCGAGTAAGGGAAAAGTC
65 TCATCGAAGGAAAAGATAGAGCAGACAAAGAGCCCAAGAAGTTTGGTTCGAGTAAAGGAAAAGTC
* *
59137835 GAAGCCAAGAGGGCAAAGAGGAGTAAAAAG
130 AAAGCCAAGAGGGCAAAGAGGAGCAAAAAG
59137865 AAGCGAGTGGAGTGCTTCTTGTGTCATGGTCTGCATAAGTTACGGAAGTGTCCAAGGAAGTCTGT
1 AAGCGAGTGGAGTGCTTCTTGTGTCATGGTCTGCATAAGTTACGGAAGTGTCCAAGGAAGTCTGT
*
59137930 CATCGAAGGAAACG-TAGAGCAGACAAAGAGCCCAAGAAGTTTGGTTCGAGTAAAGGAAAAGTCA
66 CATCGAAGGAAAAGATAGAGCAGACAAAGAGCCCAAGAAGTTTGGTTCGAGTAAAGGAAAAGTCA
59137994 AAGCCAAGAGGGCAAAGAGGAGCAAAAAG
131 AAGCCAAGAGGGCAAAGAGGAGCAAAAAG
* ** * * *
59138023 AAACGAGTAAAGTGCTTCTTGTG-CCTGGTCTACATGAGTT
1 AAGCGAGTGGAGTGCTTCTTGTGTCATGGTCTGCATAAGTT
59138063 GCGAAATTGT
Statistics
Matches: 182, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
157 14 0.08
158 94 0.52
159 73 0.40
160 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (159 bp):
AAGCGAGTGGAGTGCTTCTTGTGTCATGGTCTGCATAAGTTACGGAAGTGTCCAAGGAAGTCTGT
CATCGAAGGAAAAGATAGAGCAGACAAAGAGCCCAAGAAGTTTGGTTCGAGTAAAGGAAAAGTCA
AAGCCAAGAGGGCAAAGAGGAGCAAAAAG
Found at i:59140001 original size:17 final size:17
Alignment explanation
Indices: 59139981--59140014 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59139971 CTTGTAAATC
*
59139981 ATTTATTTTAAATTGTT
1 ATTTACTTTAAATTGTT
*
59139998 ATTTGCTTTAAATTGTT
1 ATTTACTTTAAATTGTT
59140015 TTGCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTACTTTAAATTGTT
Found at i:59147916 original size:89 final size:87
Alignment explanation
Indices: 59147755--59147922 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 87
59147745 AAAATCAAGG
* * *
59147755 GTGTGATAAAACTTAGTATTAATAATGTTGTTGATTGAGTTGGTGTCACAAAATTTTATTATATG
1 GTGTGATAAAACTTAGTATTAATAATATTGTTGATTGAGTTGGTGTCACAAAATTTTATTACATA
59147820 TTATTTTTAAACATGCATACAC
66 TTATTTTTAAACATGCATACAC
* * *
59147842 GTGTGATAAAATTTTTAGTATTAATAATATTGTTGATTGAGTTGGTGTCACAAATTTTTATTGCA
1 GTGTGATAAAA--CTTAGTATTAATAATATTGTTGATTGAGTTGGTGTCACAAAATTTTATTACA
* *
59147907 TATTCTTTTTAGACAT
64 TATTATTTTTAAACAT
59147923 ATCTCTATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 11 0.15
89 60 0.85
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (87 bp):
GTGTGATAAAACTTAGTATTAATAATATTGTTGATTGAGTTGGTGTCACAAAATTTTATTACATA
TTATTTTTAAACATGCATACAC
Found at i:59151008 original size:7 final size:7
Alignment explanation
Indices: 59150996--59151036 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
59150986 TACTTATTTT
59150996 ATTTATA
1 ATTTATA
59151003 ATTTATA
1 ATTTATA
59151010 ATTTATA
1 ATTTATA
59151017 ATTTAATA
1 ATTT-ATA
59151025 ATTTATA
1 ATTTATA
59151032 TATTT
1 -ATTT
59151037 TTATTTATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 21 0.66
8 11 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTATA
Found at i:59151042 original size:22 final size:21
Alignment explanation
Indices: 59150992--59151043 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
59150982 ATAATACTTA
59150992 TTTTATTT-ATAATTTATAAT
1 TTTTATTTAATAATTTATAAT
*
59151012 TTATAATTTAATAATTTATATAT
1 TT-TTATTTAATAATTTATA-AT
59151035 TTTTATTTA
1 TTTTATTTA
59151044 TTCAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 5 0.19
22 16 0.59
23 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTTAATAATTTATAAT
Found at i:59151172 original size:18 final size:18
Alignment explanation
Indices: 59151138--59151171 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
59151128 TGTGTTATAA
59151138 ATTACATAATATAAAAAC
1 ATTACATAATATAAAAAC
59151156 ATTACA-AATATAAAAA
1 ATTACATAATATAAAAA
59151172 AGAAATTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
ATTACATAATATAAAAAC
Found at i:59152640 original size:33 final size:33
Alignment explanation
Indices: 59152603--59152670 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
59152593 GCAATATCAC
59152603 ATTACATCTCTAAGATGACGCTTTCAATCTTGT
1 ATTACATCTCTAAGATGACGCTTTCAATCTTGT
* *
59152636 ATTACATCTTTAAGGTGACGCTTTCAATCTTGT
1 ATTACATCTCTAAGATGACGCTTTCAATCTTGT
59152669 AT
1 AT
59152671 ACTTGTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (33 bp):
ATTACATCTCTAAGATGACGCTTTCAATCTTGT
Found at i:59154209 original size:9 final size:9
Alignment explanation
Indices: 59154195--59154223 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
59154185 CAAGATCTCT
59154195 TTATTTTCA
1 TTATTTTCA
59154204 TTATTTTCA
1 TTATTTTCA
59154213 TTATTTTCA
1 TTATTTTCA
59154222 TT
1 TT
59154224 TTCACTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTTTCA
Found at i:59155334 original size:18 final size:18
Alignment explanation
Indices: 59155311--59155346 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59155301 TGAGAATTCT
59155311 TTAAATTAAAGAAACTTC
1 TTAAATTAAAGAAACTTC
59155329 TTAAATTAAAGAAACTTC
1 TTAAATTAAAGAAACTTC
59155347 GGGTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
TTAAATTAAAGAAACTTC
Found at i:59163033 original size:44 final size:44
Alignment explanation
Indices: 59162967--59163881 Score: 813
Period size: 44 Copynumber: 20.8 Consensus size: 44
59162957 TCCACTTCCT
*
59162967 ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
59163011 ACCAATATATGAATACAAGATCTGCTTTCTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
* * * * *
59163056 ACCAGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTTC-T
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC-TTCAC
* * * * *
59163099 ATCAATACAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59163143 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * *
59163188 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
59163230 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59163275 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
59163320 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
59163362 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
59163407 GCCAATACATGAAGATAAGATCTACT-TCCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTAT-CTTCGATCTACTTC-AC
* * *
59163452 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
** *
59163494 TACCAATATAGGAAGACCGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
59163539 GCCAATACATGAAGACAAGATCTACT-TCCTGCGATTTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTAT-CTTCGATCTACTTC-AC
* * *
59163584 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
59163626 TACCAATATAGGAAGAC-GGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
59163670 GCCAATACATGAAGACAAGATTTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
59163715 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
59163757 TACCAATATAGGAAGATC-GGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGA-CAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59163802 GCCAATACATGAAGACGAGATCTGCT-TTTTCGGTCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
59163844 TACCAATATAGGAAGATAAGATCTGCTTTCTTCGATCT
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCT
59163882 CAATCCATCC
Statistics
Matches: 686, Mismatches: 152, Indels: 66
0.76 0.17 0.07
Matches are distributed among these distances:
42 12 0.02
43 181 0.26
44 357 0.52
45 136 0.20
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:59163131 original size:132 final size:132
Alignment explanation
Indices: 59162956--59163869 Score: 1456
Period size: 132 Copynumber: 6.9 Consensus size: 132
59162946 CTATTTTTCA
* * * *
59162956 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACACCAATATAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * *
59163021 GAATACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
*
59163086 GG
131 CG
* * *
59163088 ATCCACTTTCTATCAATACAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
59163153 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
59163218 CG
131 CG
* *
59163220 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
59163285 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
59163350 CG
131 CG
* *
59163352 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
59163417 GAAGATAAGATCTACTTCCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
59163482 CG
131 CG
**
59163484 ATCCACTTCCTACCAATATAGGAAGACCGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
59163549 GAAGACAAGATCTACTTCCTGCGATTTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
59163614 CG
131 CG
*
59163616 ATCCACTTCCTACCAATATAGGAAGA-CGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
59163680 GAAGACAAGATTTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
59163745 CG
131 CG
* * *
59163747 ATCCACTTCCTACCAATATAGGAAGATCGGACCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * *
59163812 GAAGACGAGATCTGCTTT-TTCGGTCTACTTC-CTACCAATATAGGAAGATAAGATCTGC
66 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
59163870 TTTCTTCGAT
Statistics
Matches: 737, Mismatches: 44, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
130 24 0.03
131 137 0.19
132 576 0.78
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
CG
Found at i:59192425 original size:14 final size:15
Alignment explanation
Indices: 59192406--59192434 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59192396 GTAATATGCC
59192406 AAAATTGCT-GAAAG
1 AAAATTGCTGGAAAG
59192420 AAAATTGCTGGAAAG
1 AAAATTGCTGGAAAG
59192435 CCATATCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (15 bp):
AAAATTGCTGGAAAG
Found at i:59195582 original size:26 final size:25
Alignment explanation
Indices: 59195525--59195575 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
59195515 ATATTAAGAA
*
59195525 AAACATTTTTTATGAAAAAAAAATCT
1 AAACATTTTTTATG-AAAAAAAATCC
59195551 AAACATTTTTTATG-AAAAAAATCC
1 AAACATTTTTTATGAAAAAAAATCC
59195575 A
1 A
59195576 GGTACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
26 14 0.58
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AAACATTTTTTATGAAAAAAAATCC
Found at i:59196111 original size:31 final size:31
Alignment explanation
Indices: 59196083--59196179 Score: 84
Period size: 31 Copynumber: 3.4 Consensus size: 31
59196073 TTAATTATGA
59196083 ATATAAAATATTTTTAATACAATCATTATAT
1 ATATAAAATATTTTTAATACAATCATTATAT
* ** *
59196114 ATATTAAATATAGGTTAAT----T-A-T-GA-
1 ATATAAAATAT-TTTTAATACAATCATTATAT
59196138 ATATAAAATATTTTTAATACAATCATTATAT
1 ATATAAAATATTTTTAATACAATCATTATAT
*
59196169 ATATTAAATAT
1 ATATAAAATAT
59196180 AGGGTAAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 18
0.64 0.12 0.24
Matches are distributed among these distances:
23 5 0.10
24 10 0.21
25 1 0.02
26 1 0.02
27 2 0.04
28 2 0.04
29 1 0.02
30 1 0.02
31 20 0.42
32 5 0.10
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (31 bp):
ATATAAAATATTTTTAATACAATCATTATAT
Found at i:59196139 original size:55 final size:56
Alignment explanation
Indices: 59196073--59196191 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
59196063 AAAAAAAAGA
59196073 TTAATTATGAATATAAAATATTTTTAATACAATCATTATATATATTAAATATA-GG
1 TTAATTATGAATATAAAATATTTTTAATACAATCATTATATATATTAAATATAGGG
59196128 TTAATTATGAATATAAAATATTTTTAATACAATCATTATATATATTAAATATAGGG
1 TTAATTATGAATATAAAATATTTTTAATACAATCATTATATATATTAAATATAGGG
*
59196184 TAAATTAT
1 TTAATTAT
59196192 TAAAATGTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 53 0.85
56 9 0.15
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (56 bp):
TTAATTATGAATATAAAATATTTTTAATACAATCATTATATATATTAAATATAGGG
Found at i:59200729 original size:21 final size:21
Alignment explanation
Indices: 59200708--59200853 Score: 157
Period size: 21 Copynumber: 7.0 Consensus size: 21
59200698 CTTTCTCTTT
** *
59200708 AGCTCTTGTGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTGTTC
59200729 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* * * *
59200750 AACTCTTATGAGTTTCCGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
59200771 AGCTCTTACGAGCTTCTATTT
1 AGCTCTTACGAGCTTCTGTTC
* ** *
59200792 AACTCTTGTGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
*
59200813 AGCTCTTACGAGCTTTTGTTC
1 AGCTCTTACGAGCTTCTGTTC
*
59200834 AGCTCTTACAAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
59200854 AACGATGTAC
Statistics
Matches: 99, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 99 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:59200776 original size:42 final size:42
Alignment explanation
Indices: 59200710--59200841 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
59200700 TTCTCTTTAG
* * *
59200710 CTCTTGTGAGCTTCTGTTTAGCTCTTACGAGCTTCTGTTCAA
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
* * *
59200752 CTCTTATGAGTTTCCGTTCAGCTCTTACGAGCTTCTATTTAA
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
* * *
59200794 CTCTTGTGAGTTTCTGTTCAGCTCTTACGAGCTTTTGTTCAG
1 CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
59200836 CTCTTA
1 CTCTTA
59200842 CAAGCTTCTG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
CTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAA
Found at i:59203931 original size:213 final size:212
Alignment explanation
Indices: 59203474--59204110 Score: 1127
Period size: 213 Copynumber: 3.0 Consensus size: 212
59203464 TAAAATAGGA
** *
59203474 AACAATATAAGTTGATGATCAATGATGTGGC-CTAATAGTAGAGTTTTGGGGTATTATGGGCAGT
1 AACAATAGGAGTTGATGATCAATGAAGTGGCAC-AATAGTAGAGTTTTGGGGTATTATGGGCAGT
* *
59203538 ATAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAATAGAGAGGAATAAGGGAGGGGGACAACAAT
65 ATAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAAGAAGGGAGGGGGACAACAAT
* *
59203603 AGGGAAAGAAAAATGAAAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
130 AGGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
59203668 ATTAAGGGGGGCAACACT
195 ATTAAGGGGGGCAACACT
*
59203686 AACAATAGGAGTTGATGATCAATGAGGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCAGTA
1 AACAATAGGAGTTGATGATCAATGAAGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCAGTA
59203751 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAAGAAGGGAGGGGGACAACAATA
66 TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAAGAAGGGAGGGGGACAACAATA
59203816 GGAAAAGAAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
131 GGAAAAG-AAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
59203881 ATTAAGGGGGGCAACACT
195 ATTAAGGGGGGCAACACT
*
59203899 AACAATAGGAGTTGATGATCAATGAAGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCGGTA
1 AACAATAGGAGTTGATGATCAATGAAGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCAGTA
* *
59203964 TAGAGGGGAAGAAAATAGAGAAAATTGA-AGGAAACGGAGAGGAAGAATGGAGGGGGACAACAAT
66 TAGAGGGGAAGAAAATAGAGAAAATTGAGA-GAAACAGAGAGGAAGAAGGGAGGGGGACAACAAT
59204028 AGGAAAAG-AAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
130 AGGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACA
59204092 ATTAAGGGGGGCAACACT
195 ATTAAGGGGGGCAACACT
59204110 A
1 A
59204111 CTAGGGTTTC
Statistics
Matches: 411, Mismatches: 11, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
211 75 0.18
212 130 0.32
213 206 0.50
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (212 bp):
AACAATAGGAGTTGATGATCAATGAAGTGGCACAATAGTAGAGTTTTGGGGTATTATGGGCAGTA
TAGAGGGGAAGAAAATAGAGAAAATTGAGAGAAACAGAGAGGAAGAAGGGAGGGGGACAACAATA
GGAAAAGAAAAATGAGAAAAGAAGAGGCTGAGTAGAAAATTTTAACATTTATACCTAGGTTACAA
TTAAGGGGGGCAACACT
Found at i:59208805 original size:33 final size:33
Alignment explanation
Indices: 59208768--59208830 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
59208758 TGACCCGAAT
*
59208768 TCTAAAAGATTACTTGCATGTCAAGTTAAAAAA
1 TCTAAAAGATTACTTGCAAGTCAAGTTAAAAAA
*
59208801 TCTAAAAGATTGCTTGCAAGTCAAGTTAAA
1 TCTAAAAGATTACTTGCAAGTCAAGTTAAA
59208831 CAAAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (33 bp):
TCTAAAAGATTACTTGCAAGTCAAGTTAAAAAA
Found at i:59211257 original size:40 final size:40
Alignment explanation
Indices: 59211202--59211282 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
59211192 TTAATTTTAA
*
59211202 TAAACTCATTTTAGTTAATAATTGAGTTGTTGGACTATAT
1 TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
* *
59211242 TAAACTCATCTTAGTTAATAATTGAGTTGTTTGACTTTAT
1 TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
59211282 T
1 T
59211283 TTCATTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (40 bp):
TAAACTCATCTTAGTTAATAATTGAGTTGTTGGACTATAT
Found at i:59211435 original size:21 final size:20
Alignment explanation
Indices: 59211409--59211450 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
59211399 AGCTTATTAA
59211409 GTTTAATATGTGGTTTAATGT
1 GTTTAATATGT-GTTTAATGT
*
59211430 GTTTAATATGTTTTTAATGT
1 GTTTAATATGTGTTTAATGT
59211450 G
1 G
59211451 CTTTGATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (20 bp):
GTTTAATATGTGTTTAATGT
Found at i:59214658 original size:29 final size:28
Alignment explanation
Indices: 59214612--59214669 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
59214602 AATGTTTACA
59214612 TATTTTTTAGTCAATTTAGC-CTTTAATC
1 TATTTTTTAGTCAATTTAGCTC-TTAATC
59214640 TATTTTTTAG-CTAAGTTTAGCTCTTAATC
1 TATTTTTTAGTC-AA-TTTAGCTCTTAATC
59214669 T
1 T
59214670 TTTATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 1 0.04
28 12 0.44
29 13 0.48
30 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (28 bp):
TATTTTTTAGTCAATTTAGCTCTTAATC
Found at i:59223441 original size:118 final size:118
Alignment explanation
Indices: 59223226--59223455 Score: 399
Period size: 118 Copynumber: 2.0 Consensus size: 118
59223216 CTTTTTAACC
*
59223226 AATAATATATTATTTATTAAAACATAAATGTATAAAATGGTTCTTCAATATCTACAACCATAAGT
1 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
* *
59223291 AGGGGTGTGTAAAATTTGGGTAAAACCGAAAAAATTCGATTAACCGACCGATT
66 AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGACCGATT
*
59223344 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAGCCATAAGT
1 AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
* *
59223409 A-GGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTTGGTTAACCGAC
66 AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGAC
59223456 TGAATTCGGT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
117 42 0.40
118 64 0.60
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (118 bp):
AATAATATATTATTTATTAAAACATAAATGTATAAAATGATTCTTCAATATCTACAACCATAAGT
AGGGGTGTGCAAAATTCGGGTAAAACCGAAAAAATTCGATTAACCGACCGATT
Found at i:59223741 original size:6 final size:6
Alignment explanation
Indices: 59223732--59223766 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
59223722 AAATAAAATT
59223732 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
59223767 GTCTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:59223826 original size:9 final size:9
Alignment explanation
Indices: 59223806--59223854 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
59223796 GTAGTGATTC
*
59223806 AATTTGGTT
1 AATTCGGTT
*
59223815 AATTCGGGT
1 AATTCGGTT
*
59223824 AATCCGGTT
1 AATTCGGTT
*
59223833 AATTCGGAT
1 AATTCGGTT
59223842 AATTCGGTT
1 AATTCGGTT
59223851 AATT
1 AATT
59223855 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:59223834 original size:18 final size:18
Alignment explanation
Indices: 59223811--59223854 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
59223801 GATTCAATTT
*
59223811 GGTTAATTCGGGTAATCC
1 GGTTAATTCGGATAATCC
*
59223829 GGTTAATTCGGATAATTC
1 GGTTAATTCGGATAATCC
59223847 GGTTAATT
1 GGTTAATT
59223855 TTTAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (18 bp):
GGTTAATTCGGATAATCC
Found at i:59225102 original size:68 final size:66
Alignment explanation
Indices: 59224956--59225088 Score: 158
Period size: 72 Copynumber: 1.9 Consensus size: 66
59224946 ATTATTTTCA
* *
59224956 TATATTTAATATTTAATATTTAATTTAATACTTATCTTAAAAATATTTTATTAATTTAATATTAA
1 TATA-TTAATA-TTAA-ATTAAATTTAATACTTATCTTAAAAATATTCTATTAATTTAATA-TAA
59225021 AGTGAT
62 AGT-AT
*
59225027 TATATTAATATTAAATTAAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATA
1 TATATTAATATTAAATTAAATTTAATACTTATC-T-TA-A-AAATATTCTATTAATTTAATA
59225089 AGATTTAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
68 17 0.31
69 5 0.09
70 8 0.15
71 5 0.09
72 20 0.36
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (66 bp):
TATATTAATATTAAATTAAATTTAATACTTATCTTAAAAATATTCTATTAATTTAATATAAAGTA
T
Found at i:59226530 original size:21 final size:20
Alignment explanation
Indices: 59226489--59226532 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
59226479 ATGAAATTTA
* * *
59226489 CTCTCCTTTTTTGCTTCCCT
1 CTCTCCCTTTTAGATTCCCT
59226509 CTCTCCCTTTTAGATTCTCCT
1 CTCTCCCTTTTAGATTC-CCT
59226530 CTC
1 CTC
59226533 CTCAAACCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.41, G:0.05, T:0.50
Consensus pattern (20 bp):
CTCTCCCTTTTAGATTCCCT
Found at i:59226880 original size:2 final size:2
Alignment explanation
Indices: 59226873--59226911 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
59226863 TTCCAGTAAG
59226873 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
59226912 TCTGTTTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:59227930 original size:89 final size:89
Alignment explanation
Indices: 59227779--59227958 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
59227769 AATCAAGGCG
59227779 TTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTTCCC
1 TTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTTCCC
59227844 ACTTTTGTTCAAAAATACACAGCT
66 ACTTTTGTTCAAAAATACACAGCT
59227868 TTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTTCCC
1 TTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTTCCC
59227933 ACTTTTGTTCAAAAATACACAGCT
66 ACTTTTGTTCAAAAATACACAGCT
59227957 TT
1 TT
59227959 TGCTTCAGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (89 bp):
TTATAGATTATTTGCTAAATATTCCTTCTGTATAGTTGAGGGGAAATTATTTTAGTTCGTTTCCC
ACTTTTGTTCAAAAATACACAGCT
Found at i:59236849 original size:39 final size:39
Alignment explanation
Indices: 59236795--59236871 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
59236785 TTTAGATGGG
59236795 CGATTGGGTGCGGTGCGGTACGTTTAGCTTACTTTTTGA
1 CGATTGGGTGCGGTGCGGTACGTTTAGCTTACTTTTTGA
59236834 CGATTGGGTGCGGTGCGGTACGTTTAGCTTACTTTTTG
1 CGATTGGGTGCGGTGCGGTACGTTTAGCTTACTTTTTG
59236872 TCTCACGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.12, C:0.16, G:0.34, T:0.39
Consensus pattern (39 bp):
CGATTGGGTGCGGTGCGGTACGTTTAGCTTACTTTTTGA
Found at i:59238116 original size:11 final size:11
Alignment explanation
Indices: 59238086--59238138 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
59238076 AAACTAATCA
59238086 TCTCTCAATTAT
1 TCTCTCAATT-T
*
59238098 TTTCTCAATTT
1 TCTCTCAATTT
59238109 TCTCTCAATTT
1 TCTCTCAATTT
* *
59238120 CCT-TCGAAATT
1 TCTCTC-AATTT
59238131 TCTCTCAA
1 TCTCTCAA
59238139 ATCCATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.06
11 21 0.62
12 11 0.32
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:59246922 original size:24 final size:22
Alignment explanation
Indices: 59246867--59246922 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
59246857 CACCAATCAT
* *
59246867 AATTA-TAATTATAATTATAAA
1 AATTATTAAATATAATAATAAA
*
59246888 AATAATT-AATATAATAATAAATA
1 AATTATTAAATATAATAAT-AA-A
59246911 AATTATTAAATA
1 AATTATTAAATA
59246923 AAGTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 13 0.48
22 3 0.11
23 7 0.26
24 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTATTAAATATAATAATAAA
Found at i:59247750 original size:18 final size:18
Alignment explanation
Indices: 59247716--59247749 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59247706 TCATTTGTTA
59247716 TTTGATATTATAAAAAAG
1 TTTGATATTATAAAAAAG
59247734 TTTGATATT-TAAAAAA
1 TTTGATATTATAAAAAA
59247750 AAATAACTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTTGATATTATAAAAAAG
Found at i:59247751 original size:19 final size:18
Alignment explanation
Indices: 59247716--59247751 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59247706 TCATTTGTTA
*
59247716 TTTGATATTATAAAAAAG
1 TTTGATATTAAAAAAAAG
59247734 TTTGATATTTAAAAAAAA
1 TTTGATA-TTAAAAAAAA
59247752 ATAACTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTTGATATTAAAAAAAAG
Found at i:59248210 original size:23 final size:23
Alignment explanation
Indices: 59248169--59248229 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
59248159 ATATTGTAAA
* *
59248169 ATTCAAAATATTTATAAAATAT-T
1 ATTCAAAA-AATTATAAAACATAT
*
59248192 TTTCTAAAAAATTATAAAACATAT
1 ATTC-AAAAAATTATAAAACATAT
59248216 ATTCAAAAAATTAT
1 ATTCAAAAAATTAT
59248230 TTTTAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTCAAAAAATTATAAAACATAT
Found at i:59248496 original size:21 final size:21
Alignment explanation
Indices: 59248463--59248504 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59248453 GAACAAATTT
*
59248463 ATTTGATTCTACTCAACTTAA
1 ATTTCATTCTACTCAACTTAA
*
59248484 ATTTCATTTTACTCAACTTAA
1 ATTTCATTCTACTCAACTTAA
59248505 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTCATTCTACTCAACTTAA
Found at i:59251405 original size:18 final size:19
Alignment explanation
Indices: 59251369--59251407 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
59251359 AGATTTGAAT
59251369 GAAGAGACTAAATTGTAGTAA
1 GAAGAGACTAAA-T-TAGTAA
59251390 GAAGAGACTAAA-TAGTAA
1 GAAGAGACTAAATTAGTAA
59251408 CACCCTTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (19 bp):
GAAGAGACTAAATTAGTAA
Found at i:59253946 original size:27 final size:27
Alignment explanation
Indices: 59253916--59254093 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
59253906 ATATTGAGCC
* *
59253916 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59253943 CGCACACTTAGTGCCACGTAATCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
* *
59253970 TGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
59253998 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59254025 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59254052 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
59254079 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59254094 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59254057 original size:82 final size:81
Alignment explanation
Indices: 59253937--59254092 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
59253927 TGCTATATAA
* * *
59253937 TCAACTCGCACACTTAGTGCCACGTAATCGAATTGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCGAATTGCACACTTAGTGCAACATAGTC-GAATCGCA
59254002 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * *
59254019 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCGAATTGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCGAATT-GCACACTTAGTGCAACATAGTCGAATCGC
59254082 ACACTTAGTGC
64 ACACTTAGTGC
59254093 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 21 0.32
82 44 0.68
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCGAATTGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59256477 original size:80 final size:80
Alignment explanation
Indices: 59256344--59256505 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
59256334 TGAAATGACA
*
59256344 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACAGAAGGT
1 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
59256409 ATGATAGGTAAATGT
66 ATGATAGGTAAATGT
59256424 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
1 AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
59256489 ATGATAGGTAAATGT
66 ATGATAGGTAAATGT
59256504 AA
1 AA
59256506 ATTATTACAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (80 bp):
AATGATTGTTATATGATAGAATAGTGTACAAGATACGGAAATGCAAATGTGACCAAACACAAGGT
ATGATAGGTAAATGT
Found at i:59257442 original size:11 final size:11
Alignment explanation
Indices: 59257426--59257523 Score: 53
Period size: 11 Copynumber: 8.9 Consensus size: 11
59257416 AATTAATCAC
59257426 ATTAATATTAA
1 ATTAATATTAA
59257437 ATTAATA--AA
1 ATTAATATTAA
* *
59257446 A-TACTATCTAG
1 ATTAATAT-TAA
*
59257457 ATAAATATTAA
1 ATTAATATTAA
*
59257468 ATTAAATATATCAT
1 ATT-AATAT-T-AA
*
59257482 ATTAATATCTAG
1 ATTAATAT-TAA
*
59257494 ATAAATATTAA
1 ATTAATATTAA
59257505 ATT--TATTAA
1 ATTAATATTAA
*
59257514 AATAATATTA
1 ATTAATATTA
59257524 TTTTTGGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
8 4 0.06
9 11 0.17
11 22 0.34
12 17 0.26
13 7 0.11
14 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:59257464 original size:31 final size:31
Alignment explanation
Indices: 59257429--59257521 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 31
59257419 TAATCACATT
*
59257429 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
59257460 AATATTAAATTAAATATATCATATTAATATCTAGATA
1 AATATTAAATT-AATA-A--A-A-TAATATCTAGATA
*
59257497 AATATTAAATTTATTAAAATAATAT
1 AATATTAAA-TTAATAAAATAATAT
59257522 TATTTTTGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
31 11 0.21
32 10 0.19
33 2 0.04
34 1 0.02
35 1 0.02
36 2 0.04
37 24 0.45
38 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:59257844 original size:19 final size:19
Alignment explanation
Indices: 59257829--59257866 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59257819 CGGTTTTGGT
*
59257829 TCTCTGGTTCAATTTTCAA
1 TCTCTGATTCAATTTTCAA
59257848 TCTCTGATTCAATTTTCAA
1 TCTCTGATTCAATTTTCAA
59257867 GTTTAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
TCTCTGATTCAATTTTCAA
Found at i:59264950 original size:13 final size:13
Alignment explanation
Indices: 59264932--59264957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59264922 TAGTTTACTA
59264932 AAATTATTATAAT
1 AAATTATTATAAT
59264945 AAATTATTATAAT
1 AAATTATTATAAT
59264958 TATGATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:59266760 original size:14 final size:15
Alignment explanation
Indices: 59266729--59266768 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
59266719 ATAGAGCTTA
*
59266729 TGAAAACACAA--CT
1 TGAAAACACAATTAT
59266742 TGAAAACA-AATTAT
1 TGAAAACACAATTAT
59266756 TGAAAACACAATT
1 TGAAAACACAATT
59266769 TATAAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 2 0.09
13 8 0.35
14 9 0.39
15 4 0.17
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (15 bp):
TGAAAACACAATTAT
Found at i:59275456 original size:25 final size:25
Alignment explanation
Indices: 59275385--59275494 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
59275375 ATAACTCTTT
* * *
59275385 TGAGCTTCCTGATACTTAGCTTTCA
1 TGAGCTTCCCGATATTTAGCTCTCA
* * *
59275410 TGAGCTTTCCGAT-TAATAGCTCTCT
1 TGAGCTTCCCGATAT-TTAGCTCTCA
* *
59275435 TGAGCTTCCCGATATTTGGCTCGCA
1 TGAGCTTCCCGATATTTAGCTCTCA
* * ** *
59275460 AGAGCTTCCCAATATACAGCTCACA
1 TGAGCTTCCCGATATTTAGCTCTCA
59275485 TGAGCTTCCC
1 TGAGCTTCCC
59275495 ATTATATGGC
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
25 64 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
TGAGCTTCCCGATATTTAGCTCTCA
Found at i:59275506 original size:25 final size:25
Alignment explanation
Indices: 59275408--59275506 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
59275398 ACTTAGCTTT
* *
59275408 CATGAGCTTTCCGATTA-ATAGCTCT
1 CATGAGC-TTCCCATTATATAGCTCA
* * * *
59275433 CTTGAGCTTCCCGA-TATTTGGCTCG
1 CATGAGCTTCCC-ATTATATAGCTCA
* * *
59275458 CAAGAGCTTCCCAATATACAGCTCA
1 CATGAGCTTCCCATTATATAGCTCA
*
59275483 CATGAGCTTCCCATTATATGGCTC
1 CATGAGCTTCCCATTATATAGCTC
59275507 GGAAGAGCTT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
24 7 0.12
25 49 0.88
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (25 bp):
CATGAGCTTCCCATTATATAGCTCA
Found at i:59275514 original size:25 final size:24
Alignment explanation
Indices: 59275436--59275519 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
59275426 TAGCTCTCTT
*
59275436 GAGCTTCCCGATATTTGGCTCGCAA
1 GAGCTTCCC-ATATATGGCTCGCAA
** * *
59275461 GAGCTTCCCAATATACAGCTCACAT
1 GAGCTTCCC-ATATATGGCTCGCAA
*
59275486 GAGCTTCCCATTATATGGCTCGGAA
1 GAGCTTCCCA-TATATGGCTCGCAA
59275511 GAGCTTCCC
1 GAGCTTCCC
59275520 GTTTACAGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (24 bp):
GAGCTTCCCATATATGGCTCGCAA
Found at i:59275517 original size:50 final size:49
Alignment explanation
Indices: 59275435--59275536 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 49
59275425 ATAGCTCTCT
*
59275435 TGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCCAATATACAGCTCACA
1 TGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCC-ATATACAGCTCACA
* * * *
59275485 TGAGCTTCCC-ATTATATGGCTCGGAAGAGCTTCCCGTTTACAGCTCATA
1 TGAGCTTCCCGA-TATATGGCTCGCAAGAGCTTCCCATATACAGCTCACA
59275534 TGA
1 TGA
59275537 ACTTACATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 15 0.33
50 31 0.67
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
TGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCCATATACAGCTCACA
Found at i:59275551 original size:49 final size:50
Alignment explanation
Indices: 59275451--59275551 Score: 116
Period size: 49 Copynumber: 2.0 Consensus size: 50
59275441 TCCCGATATT
* * *
59275451 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAGCTTCCCATTATA
1 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACATCATA
* * * *
59275501 TGGCTCGGAAGAGCTTCCC-GTTTACAGCTCATATGAACTT-ACATGCATA
1 TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACAT-CATA
59275550 TG
1 TG
59275552 AATTGACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.07
49 22 0.51
50 18 0.42
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
TGGCTCGCAAGAGCTTCCCAATATACAGCTCACATGAACTTCACATCATA
Found at i:59278640 original size:17 final size:18
Alignment explanation
Indices: 59278618--59278652 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59278608 TAGAAACCGG
59278618 TCGG-TTAACCGAATTTT
1 TCGGTTTAACCGAATTTT
59278635 TCGGTTTAACCGAATTTT
1 TCGGTTTAACCGAATTTT
59278653 GTAGGGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (18 bp):
TCGGTTTAACCGAATTTT
Found at i:59280189 original size:9 final size:9
Alignment explanation
Indices: 59280175--59280201 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
59280165 CACCTAAAAA
59280175 CGGTTAATT
1 CGGTTAATT
59280184 CGGTTAATT
1 CGGTTAATT
59280193 CGGTTAATT
1 CGGTTAATT
59280202 TTTAACCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
CGGTTAATT
Found at i:59282606 original size:54 final size:54
Alignment explanation
Indices: 59282540--59282650 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
59282530 TGGCAACTCA
59282540 GGAAAGCGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGT
1 GGAAAGCGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGT
59282594 GGAAAGCGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGT
1 GGAAAGCGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGT
59282648 GGA
1 GGA
59282651 GGTTGTGGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.15, C:0.11, G:0.54, T:0.20
Consensus pattern (54 bp):
GGAAAGCGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGT
Found at i:59282643 original size:6 final size:6
Alignment explanation
Indices: 59282634--59282751 Score: 101
Period size: 6 Copynumber: 18.7 Consensus size: 6
59282624 GCTGGAGGTT
* * * * *
59282634 GTGGGG GTGGGG GTGGAGG TTGTGGGG GTGGGG GTGGAG GTTGTG GAGGTG
1 GTGGGG GTGGGG GTGG-GG --GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG
** * *
59282685 GTGGTT GTGGGG GTGGGG GTGGAG GTGGAG GTGGAGG TTGTGGGG GTGGGG
1 GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG GTGG-GG --GTGGGG GTGGGG
59282736 GTGGGG GTGGGG GTGG
1 GTGGGG GTGGGG GTGG
59282752 AGGTTGTTGA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
6 80 0.84
7 3 0.03
8 4 0.04
9 8 0.08
ACGTcount: A:0.05, C:0.00, G:0.72, T:0.23
Consensus pattern (6 bp):
GTGGGG
Found at i:59282650 original size:21 final size:21
Alignment explanation
Indices: 59282626--59282758 Score: 146
Period size: 21 Copynumber: 6.5 Consensus size: 21
59282616 GAGGTGGAGC
59282626 TGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
59282647 TGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
* *
59282668 TGGAGGTTGTGGAGGTGGTGG
1 TGGAGGTTGTGGGGGTGGGGG
* * ** *
59282689 TTGTGGGGGTGGGGGTGGAGG
1 TGGAGGTTGTGGGGGTGGGGG
* * **
59282710 TGGAGGTGGAGGTTGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
59282731 TGG-GG--GTGGGGGTGGGGG
1 TGGAGGTTGTGGGGGTGGGGG
59282749 TGGAGGTTGT
1 TGGAGGTTGT
59282759 TGAGGGTATC
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
18 13 0.14
19 2 0.02
20 2 0.02
21 74 0.81
ACGTcount: A:0.06, C:0.00, G:0.69, T:0.25
Consensus pattern (21 bp):
TGGAGGTTGTGGGGGTGGGGG
Found at i:59282651 original size:33 final size:33
Alignment explanation
Indices: 59282614--59282758 Score: 164
Period size: 33 Copynumber: 4.7 Consensus size: 33
59282604 GCAGACGTTC
*
59282614 TGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
* *
59282647 TGGAGGT---TGTGG-GG--GTGGGGGTGGAGG
1 TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
* *
59282674 T---TGTGGAGGTGGTGGTTGTGGGGGTGGGGG
1 TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
59282704 TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
1 TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
* *
59282737 TGGGGGTGGGGGTGGAGGTTGT
1 TGGAGGTGGAGGTGGAGGTTGT
59282759 TGAGGGTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
24 2 0.02
27 17 0.18
28 2 0.02
29 2 0.02
30 16 0.17
33 54 0.58
ACGTcount: A:0.07, C:0.01, G:0.68, T:0.24
Consensus pattern (33 bp):
TGGAGGTGGAGGTGGAGGTTGTGGGGGTGGGGG
Found at i:59282672 original size:54 final size:54
Alignment explanation
Indices: 59282546--59282710 Score: 161
Period size: 54 Copynumber: 3.0 Consensus size: 54
59282536 CTCAGGAAAG
** *
59282546 CGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGTGGAAAG-
1 CGTCGCAGACGGGCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGTGG-AGGT
**
59282600 CGTCGCAGACGTTCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGTGGAGGT
1 CGTCGCAGACGGGCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGTGGAGGT
* * ** ** * * *
59282654 TGTGGGGGTGGGGGTGGAGGTTGTGGAGGTGGTGGTTGTGGGGGTGGGGGTGGAGGT
1 CGTCGCAGACGGGCTGGA-G--GTGGAGCTGGAGGTTGTGGGGGTGGGGGTGGAGGT
59282711 GGAGGTGGAG
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 59 0.62
55 1 0.01
57 33 0.35
ACGTcount: A:0.10, C:0.07, G:0.59, T:0.23
Consensus pattern (54 bp):
CGTCGCAGACGGGCTGGAGGTGGAGCTGGAGGTTGTGGGGGTGGGGGTGGAGGT
Found at i:59283297 original size:21 final size:21
Alignment explanation
Indices: 59283271--59283316 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
59283261 CCATAATTTA
*
59283271 TTTTTCTATTTCACCTTTTTC
1 TTTTTCTATTTCACCCTTTTC
* **
59283292 TTTTTCTTTTTTTCCCTTTTC
1 TTTTTCTATTTCACCCTTTTC
59283313 TTTT
1 TTTT
59283317 ATTCTTTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCTATTTCACCCTTTTC
Found at i:59283961 original size:30 final size:32
Alignment explanation
Indices: 59283919--59283982 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
59283909 TTATAGATTG
**
59283919 ATGGATTTTTGTTTGTTCTGTTAAATTT-TTA
1 ATGGATTTTTGTTTGTGATGTTAAATTTCTTA
*
59283950 ATGGA-TTTTGTTTGTGATGTTAATTTTCTTA
1 ATGGATTTTTGTTTGTGATGTTAAATTTCTTA
59283981 AT
1 AT
59283983 TTTTTTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.59
Consensus pattern (32 bp):
ATGGATTTTTGTTTGTGATGTTAAATTTCTTA
Found at i:59296877 original size:16 final size:16
Alignment explanation
Indices: 59296856--59296923 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
59296846 TTTGGTTCGC
59296856 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
59296872 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
59296888 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
59296904 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59296920 TGTA
1 TGTA
59296924 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:59297180 original size:18 final size:19
Alignment explanation
Indices: 59297159--59297195 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59297149 TTATTATTAA
59297159 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
59297177 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
59297196 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:59297359 original size:119 final size:121
Alignment explanation
Indices: 59297137--59297425 Score: 440
Period size: 119 Copynumber: 2.4 Consensus size: 121
59297127 ATTTAATCAT
59297137 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TTATAATAAAATTCTTAA
* * *
59297202 TAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
64 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
59297260 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGA-T-TAATAAAATTCTTAAT
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTATAATAAAATTCTTAAT
* *
59297322 ATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
65 AATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
** *
59297379 ATTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATT
59297426 TATCATCATA
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
118 2 0.01
119 105 0.70
120 2 0.01
122 36 0.24
123 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTATAATAAAATTCTTAATA
ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:59306149 original size:20 final size:19
Alignment explanation
Indices: 59306099--59306149 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
59306089 AATAGTTCTT
*
59306099 TCTCTTGATGAACAGTTGTA
1 TCTCTTG-TGAACAATTGTA
59306119 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
59306136 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
59306150 GATTCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:59308394 original size:41 final size:41
Alignment explanation
Indices: 59308367--59308520 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
59308357 CTTATAGCTT
* *
59308367 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59308408 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59308449 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
59308490 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
59308521 CGCTTAGCCT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:59310108 original size:16 final size:19
Alignment explanation
Indices: 59310073--59310111 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
59310063 TATGTTTTGT
59310073 TTTATTATATTATACATTA
1 TTTATTATATTATACATTA
59310092 TTTATTA-ATT-TAC-TTA
1 TTTATTATATTATACATTA
59310108 TTTA
1 TTTA
59310112 ACCTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTATATTATACATTA
Done.