Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 49 of 284
Found at i:17440625 original size:37 final size:37
Alignment explanation
Indices: 17440575--17440756 Score: 285
Period size: 37 Copynumber: 4.9 Consensus size: 37
17440565 GGAAATATAT
17440575 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
17440612 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
* *
17440649 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
* * * *
17440686 TCCAGGTAAGACCCGATGACTACGTGTGGATATTTTG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
*
17440723 TCCGGGTAAGACCCGATAACTT-CGTGTGGAGATT
1 TCCGGGTAAGACCCGATGA-TTACGTGTGGAGATT
17440757 TCATCTGAGC
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
37 133 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
Found at i:17441941 original size:32 final size:32
Alignment explanation
Indices: 17441873--17441942 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
17441863 GTGATGCAAT
* * *
17441873 TTTGAAAGAGTGTTATGACTATAAATGTGATT
1 TTTGTAAGAGTGTTACGACTATAAATGTGATC
17441905 TTTGTAAGAGTGTTACGACTATAAATGTGATC
1 TTTGTAAGAGTGTTACGACTATAAATGTGATC
17441937 TTTGTA
1 TTTGTA
17441943 TGTGGCTAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (32 bp):
TTTGTAAGAGTGTTACGACTATAAATGTGATC
Found at i:17442181 original size:138 final size:138
Alignment explanation
Indices: 17441933--17442188 Score: 512
Period size: 138 Copynumber: 1.9 Consensus size: 138
17441923 CTATAAATGT
17441933 GATCTTTGTATGTGGCTAGGGAACTGAAAGTTAATTGGTCGATAAGCATGTTGTGTTTGTATTCA
1 GATCTTTGTATGTGGCTAGGGAACTGAAAGTTAATTGGTCGATAAGCATGTTGTGTTTGTATTCA
17441998 AGTAATGTAAATGATATACTAAGGTGTATTGTTATATATGTATATGTACATGAGAATTGAGAGAT
66 AGTAATGTAAATGATATACTAAGGTGTATTGTTATATATGTATATGTACATGAGAATTGAGAGAT
17442063 ATATAGTC
131 ATATAGTC
17442071 GATCTTTGTATGTGGCTAGGGAACTGAAAGTTAATTGGTCGATAAGCATGTTGTGTTTGTATTCA
1 GATCTTTGTATGTGGCTAGGGAACTGAAAGTTAATTGGTCGATAAGCATGTTGTGTTTGTATTCA
17442136 AGTAATGTAAATGATATACTAAGGTGTATTGTTATATATGTATATGTACATGA
66 AGTAATGTAAATGATATACTAAGGTGTATTGTTATATATGTATATGTACATGA
17442189 TTCGTGCTGG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (138 bp):
GATCTTTGTATGTGGCTAGGGAACTGAAAGTTAATTGGTCGATAAGCATGTTGTGTTTGTATTCA
AGTAATGTAAATGATATACTAAGGTGTATTGTTATATATGTATATGTACATGAGAATTGAGAGAT
ATATAGTC
Found at i:17442232 original size:40 final size:40
Alignment explanation
Indices: 17442188--17442444 Score: 370
Period size: 40 Copynumber: 6.3 Consensus size: 40
17442178 TATGTACATG
17442188 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
* *
17442228 ATTCGTGCTAGTGATATATAGCCGGGCTAAGTCCCGAAGAGC
1 ATTCGTGCTGGTG-T-TATATCCGGGCTAAGTCCCGAAGAGC
*
17442270 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGC
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
* * * *
17442310 ATTCGTGCTAGTGATATATAGCTGGGCTAAGTTCCGAAGAGC
1 ATTCGTGCTGGTG-T-TATATCCGGGCTAAGTCCCGAAGAGC
* *
17442352 ACTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGC
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
*
17442392 ATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGC
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
* *
17442432 AATCATGCTGGTG
1 ATTCGTGCTGGTG
17442445 ATGTGTATTC
Statistics
Matches: 192, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
40 119 0.62
41 4 0.02
42 69 0.36
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGC
Found at i:17442325 original size:82 final size:82
Alignment explanation
Indices: 17442188--17442444 Score: 410
Period size: 82 Copynumber: 3.2 Consensus size: 82
17442178 TATGTACATG
17442188 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGG
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGG
17442253 GCTAAGTCCCGAAGAGC
66 GCTAAGTCCCGAAGAGC
* *
17442270 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATATAGCTGG
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGG
*
17442335 GCTAAGTTCCGAAGAGC
66 GCTAAGTCCCGAAGAGC
* * * *
17442352 ACTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T-TATATCCGG
1 ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGG
*
17442415 GCTAGGTCCCGAAGAGC
66 GCTAAGTCCCGAAGAGC
* *
17442432 AATCATGCTGGTG
1 ATTCGTGCTGGTG
17442445 ATGTGTATTC
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 32 0.20
81 1 0.01
82 128 0.80
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (82 bp):
ATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCGG
GCTAAGTCCCGAAGAGC
Found at i:17442405 original size:122 final size:123
Alignment explanation
Indices: 17442188--17442446 Score: 382
Period size: 122 Copynumber: 2.1 Consensus size: 123
17442178 TATGTACATG
* *
17442188 ATTCGTGCTGGTG-TTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCG
1 ATTCGTGCTGGTGATTATAGCCGGGCTAAGTCCCGAAGAGCACTCGTGCTAGTGATATATAGCCG
17442252 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGC
66 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGC
* * * *
17442310 ATTCGTGCTAGTGATATATAGCTGGGCTAAGTTCCGAAGAGCACTCGTGCT-GATG-T-TATATC
1 ATTCGTGCTGGTGAT-TATAGCCGGGCTAAGTCCCGAAGAGCACTCGTGCTAG-TGATATATAGC
* *
17442372 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGC
64 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGC
* *
17442432 AATCATGCTGGTGAT
1 ATTCGTGCTGGTGAT
17442447 GTGTATTCGG
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
122 87 0.71
123 3 0.02
124 33 0.27
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (123 bp):
ATTCGTGCTGGTGATTATAGCCGGGCTAAGTCCCGAAGAGCACTCGTGCTAGTGATATATAGCCG
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAGC
Found at i:17442658 original size:25 final size:25
Alignment explanation
Indices: 17442608--17442658 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
17442598 TGTGTAACAA
* *
17442608 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
17442633 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
17442658 C
1 C
17442659 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:17446098 original size:48 final size:48
Alignment explanation
Indices: 17446023--17446455 Score: 731
Period size: 48 Copynumber: 9.0 Consensus size: 48
17446013 CAAGATAAAT
*
17446023 ATATGTATATGTGGTAAAGCCGCATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17446071 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17446119 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
17446167 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGCATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17446215 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
17446263 ATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17446311 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
17446359 ATATGTATATGTGGTAAAGCCGAATGCCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
17446407 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17446455 A
1 A
17446456 CGTGTGTATA
Statistics
Matches: 364, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 364 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:17446647 original size:37 final size:37
Alignment explanation
Indices: 17446597--17446778 Score: 294
Period size: 37 Copynumber: 4.9 Consensus size: 37
17446587 GGAAATATAT
17446597 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
17446634 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
*
17446671 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
* *
17446708 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
* * *
17446745 TCTGGGTAAGACACGATAACTT-CGTGTGGAGATT
1 TCCGGGTAAGACCCGATGA-TTACGTGTGGAGATT
17446779 TCATCTGAGC
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
37 137 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
Found at i:17448961 original size:43 final size:42
Alignment explanation
Indices: 17448891--17449003 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
17448881 TATAACATAT
* * * *
17448891 CGATTCCAATGTCCTAGATATGGTCTTATACGAAAT-CATATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCCA-AT-A
* * *
17448934 CGATGCCAATGTCCCAAACATGATCTTACACGTAATCGCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATC-CAATA
*
17448977 TGATGCCAATGTCCCAGACATGGTCTT
1 CGATGCCAATGTCCCAGACATGGTCTT
17449004 TCAAATAATC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
43 54 0.93
44 2 0.03
45 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCCAATA
Found at i:17451069 original size:15 final size:17
Alignment explanation
Indices: 17451039--17451071 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
17451029 GAAAACATCT
17451039 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
17451056 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
17451071 C
1 C
17451072 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:17455578 original size:31 final size:31
Alignment explanation
Indices: 17455540--17455604 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
17455530 CGAGGGTGTA
17455540 TGTTTGCCTTAGTAGTTTAGTGCTCTAGGAG
1 TGTTTGCCTTAGTAGTTTAGTGCTCTAGGAG
17455571 TGTTTGCCTTAGTAGTTTAGTGCTCTAGGAG
1 TGTTTGCCTTAGTAGTTTAGTGCTCTAGGAG
17455602 TGT
1 TGT
17455605 CTAGGAAGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.43
Consensus pattern (31 bp):
TGTTTGCCTTAGTAGTTTAGTGCTCTAGGAG
Found at i:17457388 original size:27 final size:27
Alignment explanation
Indices: 17457358--17457416 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
17457348 GTACACTTAG
** *
17457358 ACCCCTTATTGATAAAATGACTGTTAT
1 ACCCCTTAAAGATAAAATGACTGATAT
*
17457385 ACCCC-TAAAGGTAAAATGACTGATAT
1 ACCCCTTAAAGATAAAATGACTGATAT
17457411 ACCCCT
1 ACCCCT
17457417 ATGCTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (27 bp):
ACCCCTTAAAGATAAAATGACTGATAT
Found at i:17460751 original size:12 final size:12
Alignment explanation
Indices: 17460723--17460780 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
17460713 TATCTTTGTC
17460723 TTTAATTTTAA-
1 TTTAATTTTAAT
17460734 TTTAATTTTAAT
1 TTTAATTTTAAT
17460746 TTTAATCTTTAAT
1 TTTAAT-TTTAAT
17460759 TTTAATTTTAAT
1 TTTAATTTTAAT
* *
17460771 GTTAGTTTTA
1 TTTAATTTTA
17460781 TTTATTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
11 11 0.26
12 20 0.47
13 12 0.28
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:17460754 original size:36 final size:35
Alignment explanation
Indices: 17460674--17460780 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 35
17460664 TTTCGAATTC
* * *
17460674 ATTTTAATCTTTTC-TTAGTTTTATTTTTATTTCCT-
1 ATTTTAATCTTTTCTTTAATTTTAATTTAATTT--TA
17460709 ATTTT-ATCTTTGTCTTTAATTTTAATTTAATTTTA
1 ATTTTAATCTTT-TCTTTAATTTTAATTTAATTTTA
*
17460744 ATTTTAATCTTTAAT-TTTAATTTTAATGTTAGTTTTA
1 ATTTTAATCTTT--TCTTTAATTTTAAT-TTAATTTTA
17460781 TTTATTTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
34 7 0.11
35 12 0.20
36 33 0.54
37 9 0.15
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (35 bp):
ATTTTAATCTTTTCTTTAATTTTAATTTAATTTTA
Found at i:17460758 original size:19 final size:18
Alignment explanation
Indices: 17460723--17460780 Score: 82
Period size: 19 Copynumber: 3.2 Consensus size: 18
17460713 TATCTTTGTC
17460723 TTTAATTTTAA-TTTAAT
1 TTTAATTTTAATTTTAAT
17460740 TTTAATTTTAATCTTTAAT
1 TTTAATTTTAAT-TTTAAT
* *
17460759 TTTAATTTTAATGTTAGT
1 TTTAATTTTAATTTTAAT
17460777 TTTA
1 TTTA
17460781 TTTATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 11 0.30
18 8 0.22
19 18 0.49
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTTAATTTTAAT
Found at i:17463757 original size:53 final size:53
Alignment explanation
Indices: 17463677--17463783 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
17463667 TTGCCATTCC
* *
17463677 TCACTTTTCCATTATCCCTCATCACTCAACATTCCTCTCTCAGTCTCAATAGT
1 TCACTTTTCCATCATCCCTCATCACTCAACATTCCTCTCTCACTCTCAATAGT
*
17463730 TCACTTTTCCATCATCCTTCATCACTCAACATTCCTCTCTCACTCTCAATAGT
1 TCACTTTTCCATCATCCCTCATCACTCAACATTCCTCTCTCACTCTCAATAGT
17463783 T
1 T
17463784 TTCTCTTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.22, C:0.36, G:0.03, T:0.38
Consensus pattern (53 bp):
TCACTTTTCCATCATCCCTCATCACTCAACATTCCTCTCTCACTCTCAATAGT
Found at i:17467337 original size:23 final size:23
Alignment explanation
Indices: 17467297--17467367 Score: 133
Period size: 23 Copynumber: 3.0 Consensus size: 23
17467287 CGTATCTAAG
17467297 GGTCGAGGAGGAGAGGCCAAGGAA
1 GGTCGAGGA-GAGAGGCCAAGGAA
17467321 GGTCGAGGAGAGAGGCCAAGGAA
1 GGTCGAGGAGAGAGGCCAAGGAA
17467344 GGTCGAGGAGAGAGGCCAAGGAA
1 GGTCGAGGAGAGAGGCCAAGGAA
17467367 G
1 G
17467368 CCTTCTTCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 38 0.81
24 9 0.19
ACGTcount: A:0.34, C:0.13, G:0.49, T:0.04
Consensus pattern (23 bp):
GGTCGAGGAGAGAGGCCAAGGAA
Found at i:17470198 original size:55 final size:55
Alignment explanation
Indices: 17470101--17470226 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 55
17470091 ATCACGTGTG
* ** **
17470101 CAACACTGACTTTAAAACACGGCCATGGCACATGCTTATGTGGCCTGCCCATGTA
1 CAACACTGACTTTAAAACACGACCATGGCACACACCCATGTGGCCTGCCCATGTA
* *
17470156 CAATACTGACTTTAAAACACGACCATGGCACACACCCGTGTGGCCTGCCCATGTA
1 CAACACTGACTTTAAAACACGACCATGGCACACACCCATGTGGCCTGCCCATGTA
*
17470211 CAACAATGAC-TTAAAA
1 CAACACTGACTTTAAAA
17470227 TTTTAAGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
54 6 0.10
55 56 0.90
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (55 bp):
CAACACTGACTTTAAAACACGACCATGGCACACACCCATGTGGCCTGCCCATGTA
Found at i:17471489 original size:30 final size:30
Alignment explanation
Indices: 17471455--17471511 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17471445 AATTCACATT
* * *
17471455 TTTGGTAAAATGATCATTTTGCCCCTAGAC
1 TTTGGCAAAATGACCATTTTACCCCTAGAC
17471485 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
17471512 TGCTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:17474682 original size:40 final size:40
Alignment explanation
Indices: 17474500--17474675 Score: 316
Period size: 40 Copynumber: 4.4 Consensus size: 40
17474490 ATAGCAACTC
*
17474500 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
17474540 GCACAGATGCCTTCGGGACTTAGCCTGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
17474580 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
17474620 GCACAAATGCCTTCGGGACTTAGCCCAGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
17474660 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
17474676 ATCTTAGTCC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:17476065 original size:13 final size:13
Alignment explanation
Indices: 17476047--17476072 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17476037 ATTTTTATTT
17476047 TTAACATAAAATA
1 TTAACATAAAATA
17476060 TTAACATAAAATA
1 TTAACATAAAATA
17476073 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:17478087 original size:25 final size:25
Alignment explanation
Indices: 17478040--17478087 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17478030 TTACAATATG
* * * *
17478040 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17478065 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17478088 GTTTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17478171 original size:11 final size:11
Alignment explanation
Indices: 17478135--17478190 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17478125 CATGGTATGT
17478135 ATGATATGCAC
1 ATGATATGCAC
* *
17478146 ATGACATG--T
1 ATGATATGCAC
17478155 ATGATATGCAC
1 ATGATATGCAC
*
17478166 ATGATATG--T
1 ATGATATGCAC
17478175 ATGATATGCAC
1 ATGATATGCAC
17478186 ATGAT
1 ATGAT
17478191 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17478190 original size:20 final size:20
Alignment explanation
Indices: 17478124--17478190 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17478114 ATTTTGATAA
*
17478124 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17478144 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17478164 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17478184 ACATGAT
1 ACATGAT
17478191 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17478323 original size:24 final size:24
Alignment explanation
Indices: 17478239--17478370 Score: 158
Period size: 25 Copynumber: 5.4 Consensus size: 24
17478229 GGAGAAAGTG
* *
17478239 TAAAAGGGCTTATGCCCTAGTTAG
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
17478263 GATAAAGGGCTTATGCCCCAATTAC
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
17478288 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
17478313 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
17478337 TAAAAGGGCTT-TTCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
17478360 TAAAAGAGGCT
1 TAAAAG-GGCT
17478371 AGGCCTTTAG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.16
24 38 0.39
25 43 0.44
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:17478384 original size:48 final size:48
Alignment explanation
Indices: 17478239--17478375 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 48
17478229 GGAGAAAGTG
* * ** * * *
17478239 TAAAAGGGCTTATGCCCTAGTTAGGATAAAGGGCTTATGCCCCAATTAC
1 TAAAAGGGCTTATGCCCCAATTATTA-AAAGGGCTTAGGCCCCAGTTAT
* * *
17478288 GATAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAATTATTAAAAGGGCTTAGGCCCCAGTTAT
*
17478337 TAAAAGGGCTT-TTCCCCAATTATTAAAAGAGGC-TAGGCC
1 TAAAAGGGCTTATGCCCCAATTATTAAAAG-GGCTTAGGCC
17478376 TTTAGTTATA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
47 21 0.28
48 12 0.16
49 22 0.29
50 21 0.28
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTAGGCCCCAGTTAT
Found at i:17481120 original size:17 final size:17
Alignment explanation
Indices: 17481095--17481179 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
17481085 ATGACTTATG
*
17481095 AATTAATTATGTTGATA
1 AATTTATTATGTTGATA
* *
17481112 AATTTATTATATATGACA
1 AATTTATTATGT-TGATA
*
17481130 TATTGGTATGTATGACTT-ATA
1 AATT--TAT-TATG--TTGATA
*
17481151 AATTAATTATGTTGATA
1 AATTTATTATGTTGATA
17481168 AATTTATTATGT
1 AATTTATTATGT
17481180 ATGACATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.04
17 24 0.46
18 11 0.21
19 2 0.04
20 3 0.06
21 8 0.15
22 1 0.02
23 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (17 bp):
AATTTATTATGTTGATA
Found at i:17481139 original size:56 final size:56
Alignment explanation
Indices: 17481073--17481188 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
17481063 AATTAGTCGA
*
17481073 ATATTGGTATGTATGACTTATGAATTAATTATGTTGATAAATTTATTATATATGAC
1 ATATTGGTATGTATGACTTATAAATTAATTATGTTGATAAATTTATTATATATGAC
*
17481129 ATATTGGTATGTATGACTTATAAATTAATTATGTTGATAAATTTATTATGTATGAC
1 ATATTGGTATGTATGACTTATAAATTAATTATGTTGATAAATTTATTATATATGAC
17481185 ATAT
1 ATAT
17481189 ATGTGATAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (56 bp):
ATATTGGTATGTATGACTTATAAATTAATTATGTTGATAAATTTATTATATATGAC
Found at i:17481177 original size:28 final size:28
Alignment explanation
Indices: 17481090--17481177 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
17481080 TATGTATGAC
*
17481090 TTATGAATTAATTATGTTGATAAATTTA
1 TTATAAATTAATTATGTTGATAAATTTA
* * * ** *
17481118 TTATATATGACA-TA--TTGGTATGTATGA
1 TTATAAATTA-ATTATGTTGATAAAT-TTA
17481145 CTTATAAATTAATTATGTTGATAAATTTA
1 -TTATAAATTAATTATGTTGATAAATTTA
17481174 TTAT
1 TTAT
17481178 GTATGACATA
Statistics
Matches: 41, Mismatches: 13, Indels: 12
0.62 0.20 0.18
Matches are distributed among these distances:
26 6 0.15
27 3 0.07
28 23 0.56
29 3 0.07
30 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (28 bp):
TTATAAATTAATTATGTTGATAAATTTA
Found at i:17483706 original size:70 final size:70
Alignment explanation
Indices: 17483586--17483727 Score: 203
Period size: 70 Copynumber: 2.0 Consensus size: 70
17483576 AAGAGAAAGT
*
17483586 GAAAGTAATTCGTGATAGTTTAAAAGCAGCCTCAGGTCAACAAAAATCGTATATGGATTTGAAAC
1 GAAAGTAATTCGTGATAGTTTAAAAGCAGCCTCAGATCAACAAAAATCGTATATGGATTTGAAAC
17483651 ATAAG
66 ATAAG
* * * * * * *
17483656 GAAAGTAATTCGTGATAGTTTGAAGGTAGCTTCAGATCGACAGAAGTCGTATATGGATTTGAAAC
1 GAAAGTAATTCGTGATAGTTTAAAAGCAGCCTCAGATCAACAAAAATCGTATATGGATTTGAAAC
*
17483721 GTAAG
66 ATAAG
17483726 GA
1 GA
17483728 TATTGAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (70 bp):
GAAAGTAATTCGTGATAGTTTAAAAGCAGCCTCAGATCAACAAAAATCGTATATGGATTTGAAAC
ATAAG
Found at i:17489558 original size:37 final size:37
Alignment explanation
Indices: 17489501--17489603 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
17489491 CGAATAGTCC
17489501 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
* * *
17489538 CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
*
17489575 CCACACGCAGTTATCGGGTCTTACCCGGA
1 CCACACGTAGTTATCGGGTCTTACCCGGA
17489604 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
Found at i:17489806 original size:48 final size:48
Alignment explanation
Indices: 17489750--17490609 Score: 1621
Period size: 48 Copynumber: 17.9 Consensus size: 48
17489740 ACACATCCAC
* *
17489750 TACATATTTCACATTAGCCATTCTGCTTTACCAAATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17489798 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17489846 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17489894 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17489942 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17489990 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490038 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490086 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490134 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490182 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490230 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490278 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490326 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490374 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
17490422 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
17490470 TATATATTTCACATTAGCCATTCGGCTTCACCACATATATATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
17490518 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
17490566 TACATGTTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
17490610 ATTTTTCTTG
Statistics
Matches: 798, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 798 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:17492787 original size:93 final size:93
Alignment explanation
Indices: 17492679--17492849 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
17492669 GCCCCTAAGT
* * * * *
17492679 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCGATAAGTGAACTCGGACT-CAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCCAA-TCA
*
17492743 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACAAGTTCGGATGCCTAGTTACATTTCAC
* *
17492772 GAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTGAACTCGGGCTCCAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCCAATCAA
17492837 CAAGTTCGGATGC
66 CAAGTTCGGATGC
17492850 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 66 0.96
94 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCCAATCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:17500332 original size:46 final size:46
Alignment explanation
Indices: 17500265--17500437 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
17500255 AACCCGCCCC
* * *
17500265 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* ** * * *
17500311 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATCCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
* *
17500357 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
17500404 TAAGTGAACTCGGACTCAAATCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17500438 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 65 0.63
47 34 0.33
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:17500382 original size:93 final size:93
Alignment explanation
Indices: 17500270--17500438 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
17500260 GCCCCTAAGT
* * *
17500270 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAAATCAA
17500335 CGAGTTCGGATCCCTAGTTACATTTCAC
66 CGAGTTCGGATCCCTAGTTACATTTCAC
* *
17500363 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAAATCAA
17500428 CGAGTTCGGAT
66 CGAGTTCGGAT
17500439 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAAATCAA
CGAGTTCGGATCCCTAGTTACATTTCAC
Found at i:17503918 original size:4 final size:4
Alignment explanation
Indices: 17503909--17503933 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17503899 GAGGTTACCA
17503909 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
17503934 AGAACCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:17504446 original size:29 final size:29
Alignment explanation
Indices: 17504414--17504584 Score: 127
Period size: 29 Copynumber: 5.9 Consensus size: 29
17504404 TTACGCAAGA
*
17504414 CATTCCTTTAACTGAGATAGCTACAAAAG
1 CATTCCTTTAACTGAGATAGCCACAAAAG
* * *
17504443 CATTCATTTAACTGAGATAGCGACAAAGG
1 CATTCCTTTAACTGAGATAGCCACAAAAG
* * *
17504472 CATCCCTTTAACAGAGATCGCCAC-AAAG
1 CATTCCTTTAACTGAGATAGCCACAAAAG
* * * * *
17504500 ACATTCTTTTAACTAAGATAACCATAAAGG
1 -CATTCCTTTAACTGAGATAGCCACAAAAG
*
17504530 CA-TCCTCTTAA-TAGAGATCA-CCACAAAGG
1 CATTCCT-TTAACT-GAGAT-AGCCACAAAAG
* *
17504559 C-TTCCTTATAACAGAGATTGCCACAA
1 CATTCCTT-TAACTGAGATAGCCACAA
17504585 CGGCTACCTT
Statistics
Matches: 111, Mismatches: 22, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
28 8 0.07
29 99 0.89
30 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (29 bp):
CATTCCTTTAACTGAGATAGCCACAAAAG
Found at i:17504489 original size:58 final size:57
Alignment explanation
Indices: 17504417--17504611 Score: 159
Period size: 58 Copynumber: 3.4 Consensus size: 57
17504407 CGCAAGACAT
* * *
17504417 TCCTTTAACTGAGATAGCTACAAAAGCATTCATTTAACTGAGATAGCGACAAAGGCA
1 TCCTTTAACAGAGATAGCCACAAAAGCATTCATTTAACTGAGATAGCCACAAAGGCA
* * * * *
17504474 TCCCTTTAACAGAGATCGCCAC-AAAGACATTCTTTTAACTAAGATAACCATAAAGGCA
1 T-CCTTTAACAGAGATAGCCACAAAAG-CATTCATTTAACTGAGATAGCCACAAAGGCA
* * * * * *
17504532 TCCTCTTAATAGAGATCA-CCACAAAGGC-TTCCTTATAACAGAGATTGCCACAACGGC-
1 TCCT-TTAACAGAGAT-AGCCACAAAAGCATTCATT-TAACTGAGATAGCCACAAAGGCA
*
17504589 TACCTTT--CAGAGATAGCTACAAA
1 T-CCTTTAACAGAGATAGCCACAAA
17504612 GGTTTCCTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
54 1 0.01
55 12 0.11
57 16 0.15
58 78 0.71
59 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (57 bp):
TCCTTTAACAGAGATAGCCACAAAAGCATTCATTTAACTGAGATAGCCACAAAGGCA
Found at i:17504610 original size:26 final size:26
Alignment explanation
Indices: 17504542--17504639 Score: 90
Period size: 26 Copynumber: 3.7 Consensus size: 26
17504532 TCCTCTTAAT
*
17504542 AGAGATCA-CCACAAAGGCTTCCTTATAAC
1 AGAGAT-AGCCACAAAGGCTACCTT-T--C
* *
17504571 AGAGATTGCCACAACGGCTACCTTTC
1 AGAGATAGCCACAAAGGCTACCTTTC
* * *
17504597 AGAGATAGCTACAAAGGTTTCCTTTC
1 AGAGATAGCCACAAAGGCTACCTTTC
*
17504623 AAAGATAGCCACAAAGG
1 AGAGATAGCCACAAAGG
17504640 ATCACTTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 37 0.64
28 1 0.02
29 20 0.34
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (26 bp):
AGAGATAGCCACAAAGGCTACCTTTC
Found at i:17511458 original size:93 final size:93
Alignment explanation
Indices: 17511346--17511518 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
17511336 CGCCCATAAG
* * *
17511346 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
*
17511411 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
17511439 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
*
17511504 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
17511519 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:17511514 original size:46 final size:46
Alignment explanation
Indices: 17511347--17511514 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
17511337 GCCCATAAGC
* * *
17511347 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
* * * * * ** *
17511393 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCATCCAT-AAAT
*
17511440 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
*
17511486 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
17511515 TGCCCAAATA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 65 0.66
47 34 0.34
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
Found at i:17514370 original size:12 final size:12
Alignment explanation
Indices: 17514355--17514380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17514345 AGCCACACGC
17514355 CCGTGTGCTAGG
1 CCGTGTGCTAGG
17514367 CCGTGTGCTAGG
1 CCGTGTGCTAGG
17514379 CC
1 CC
17514381 ATATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:17516765 original size:42 final size:43
Alignment explanation
Indices: 17516698--17516797 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
17516688 GACTTATGAT
* *
17516698 TTACGTGTAAGACCATGTCTAGGACATTACCATC-ATATTTAA
1 TTACATGTAAGACCATGTCTAGGACAGTACCATCGATATTTAA
* * * * ** *
17516740 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGTACCATCGATATTTAA
17516783 TTACATGTAAGACCA
1 TTACATGTAAGACCA
17516798 CGTCAGGGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGACAGTACCATCGATATTTAA
Found at i:17516807 original size:43 final size:43
Alignment explanation
Indices: 17516659--17516815 Score: 108
Period size: 43 Copynumber: 3.7 Consensus size: 43
17516649 TGTGTTTTTG
* * * * *
17516659 TGTAAGACCACATCTGGGAC-GTTGGCATTGACT-TATGATTTACG
1 TGTAAGACCACGTCAGGGACAG-TGGCATCGA-TATTTGA-TTACA
* * ** * *
17516703 TGTAAGACCATGTCTA-GGACATTACCATC-ATATTTAATTTCA
1 TGTAAGACCACGTC-AGGGACAGTGGCATCGATATTTGATTACA
**
17516745 TGTAAGACC-CTGTTTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCAGGGACAGTGGCATCGATATTTGATTACA
*
17516788 TGTAAGACCACGTCAGGGACATTGGCAT
1 TGTAAGACCACGTCAGGGACAGTGGCAT
17516816 TATATGAGCT
Statistics
Matches: 84, Mismatches: 22, Indels: 15
0.69 0.18 0.12
Matches are distributed among these distances:
42 25 0.30
43 38 0.45
44 21 0.25
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCAGGGACAGTGGCATCGATATTTGATTACA
Found at i:17518953 original size:27 final size:26
Alignment explanation
Indices: 17518916--17519032 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 26
17518906 CAGCATGGCT
* * *
17518916 ACCAGCACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGGCAGAGCC
17518942 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGGCAGAGCC
*
17518969 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGGCAGAGCC
*
17518996 ACCAGAAACAGATATCTGTGGCATAGCC
1 ACCAG-AACAGATAT-TGTGGCAGAGCC
17519024 ACCAGAACA
1 ACCAGAACA
17519033 CTTCCTCCAT
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
26 12 0.14
27 46 0.55
28 25 0.30
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCAGAGCC
Found at i:17519264 original size:27 final size:27
Alignment explanation
Indices: 17519234--17519374 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
17519224 GGGCAAAATG
* * * * *
17519234 GTAATTTTACCCCACAAGGGTATCTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
*
17519261 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
17519288 GTATTTCTATCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
17519314 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
17519342 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
17519369 GTAATT
1 GTAATT
17519375 TGGTAAACTA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:17527853 original size:21 final size:21
Alignment explanation
Indices: 17527828--17527867 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17527818 TTATTCTTTG
*
17527828 GTGGACTTTATTGATCAATCC
1 GTGGAATTTATTGATCAATCC
17527849 GTGGAATTTATTGATCAAT
1 GTGGAATTTATTGATCAAT
17527868 TAGCCTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (21 bp):
GTGGAATTTATTGATCAATCC
Found at i:17528472 original size:95 final size:94
Alignment explanation
Indices: 17528329--17528533 Score: 297
Period size: 95 Copynumber: 2.2 Consensus size: 94
17528319 GCCATAGCTG
* ** *
17528329 AGCTATGGTCTTACACAATCTACCCCATGTTTAACTTATTGGCAGACTACCCCATGTTTATTGTC
1 AGCTATGGTCTTACACAATCTACCCCATGTTTAACTCATTGGCAGACTACAACATATTTATTGTC
*
17528394 CCGACAGACTCCATATGCTACCAAAGCCA
66 CCGACAAACTCCATATGCTACCAAAGCCA
17528423 A-CTTATGGTCTTACACAATCTAACCCCATGTTTAACATCA-TGGCAGACTACAACATATTTATT
1 AGC-TATGGTCTTACACAATCT-ACCCCATGTTTAAC-TCATTGGCAGACTACAACATATTTATT
* *
17528486 GTCCCGACAAACTCCATATGCTACCATAGTCA
63 GTCCCGACAAACTCCATATGCTACCAAAGCCA
*
17528518 AGCAATGGTCTTACAC
1 AGCTATGGTCTTACAC
17528534 CTTAAACCTC
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
93 1 0.01
94 19 0.19
95 76 0.77
96 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (94 bp):
AGCTATGGTCTTACACAATCTACCCCATGTTTAACTCATTGGCAGACTACAACATATTTATTGTC
CCGACAAACTCCATATGCTACCAAAGCCA
Found at i:17528725 original size:19 final size:19
Alignment explanation
Indices: 17528701--17528738 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17528691 TATCATCCTG
17528701 AAGGACTAATCAATACCAT
1 AAGGACTAATCAATACCAT
*
17528720 AAGGACTAATCGATACCAT
1 AAGGACTAATCAATACCAT
17528739 TCCCTTTCAC
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:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (19 bp):
AAGGACTAATCAATACCAT
Found at i:17534139 original size:18 final size:18
Alignment explanation
Indices: 17534105--17534145 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
17534095 TTAAGATGGC
17534105 ATTTAATCCTTGTTTTTT
1 ATTTAATCCTTGTTTTTT
17534123 ATTTCAATCCTTGTTTTTT
1 ATTT-AATCCTTGTTTTTT
17534142 ATTT
1 ATTT
17534146 TTTTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTAATCCTTGTTTTTT
Found at i:17534484 original size:19 final size:20
Alignment explanation
Indices: 17534460--17534505 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
17534450 CATCCAAACA
17534460 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
17534479 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
17534499 CCAGAAA
1 CCAGAAA
17534506 TTATTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:17537728 original size:38 final size:38
Alignment explanation
Indices: 17537695--17537874 Score: 288
Period size: 38 Copynumber: 4.7 Consensus size: 38
17537685 CTATTCAAGG
*
17537695 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGT
1 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGC
* *
17537733 TATGTGCTTAGCAGGCTTTGTTCCGGTGATATTCGGGC
1 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGC
*
17537771 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGC
1 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGC
* *
17537809 TATGTGCCTAGTAGGCTTTGTGCCGATGATATTCGGGC
1 TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGC
* *
17537847 TATGTCCCTAGCAGGCTTTGCGCCGGTG
1 TATGTGCCTAGCAGGCTTTGTGCCGGTG
17537875 TAATGCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 129 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (38 bp):
TATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGC
Found at i:17539729 original size:9 final size:11
Alignment explanation
Indices: 17539703--17539742 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
17539693 CAAGTTAATT
17539703 TAGCTCATTCG
1 TAGCTCATTCG
17539714 TAGCTCATT-G
1 TAGCTCATTCG
17539724 -AGCTCAATTC-
1 TAGCTC-ATTCG
17539734 TAGCTCATT
1 TAGCTCATT
17539743 TTTTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.19
10 7 0.27
11 14 0.54
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (11 bp):
TAGCTCATTCG
Found at i:17539729 original size:20 final size:20
Alignment explanation
Indices: 17539704--17539742 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17539694 AAGTTAATTT
17539704 AGCTC-ATTCGTAGCTCATTG
1 AGCTCAATTC-TAGCTCATTG
17539724 AGCTCAATTCTAGCTCATT
1 AGCTCAATTCTAGCTCATT
17539743 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCTAGCTCATTG
Found at i:17549831 original size:22 final size:22
Alignment explanation
Indices: 17549806--17549848 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17549796 ATTATTAACC
*
17549806 TAATGAATTTTAGA-TAATTTTA
1 TAATAAATTTT-GATTAATTTTA
17549828 TAATAAATTTTGATTAATTTT
1 TAATAAATTTTGATTAATTTT
17549849 TATTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TAATAAATTTTGATTAATTTTA
Found at i:17553303 original size:14 final size:14
Alignment explanation
Indices: 17553284--17553314 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17553274 GCATTAGAAC
*
17553284 TTTATTTTATTTTA
1 TTTATTTTACTTTA
17553298 TTTATTTTACTTTA
1 TTTATTTTACTTTA
17553312 TTT
1 TTT
17553315 TCTAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTACTTTA
Found at i:17554833 original size:13 final size:13
Alignment explanation
Indices: 17554797--17554838 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
17554787 CTACTCTCCC
*
17554797 AAATCCCCATCCA
1 AAATCCCCATGCA
*
17554810 AAATCCTCATGCA
1 AAATCCCCATGCA
*
17554823 AAATCCCCATGTA
1 AAATCCCCATGCA
17554836 AAA
1 AAA
17554839 ACTCCTCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.43, C:0.33, G:0.05, T:0.19
Consensus pattern (13 bp):
AAATCCCCATGCA
Found at i:17556588 original size:20 final size:20
Alignment explanation
Indices: 17556559--17556616 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
17556549 AATGTGAACT
*
17556559 AGCCACCAGTATTGTAGAAA
1 AGCCACCAGTAATGTAGAAA
* * *
17556579 AGCTACCAGTAATGTGGACA
1 AGCCACCAGTAATGTAGAAA
17556599 AGCCACCAGTAATGTAGA
1 AGCCACCAGTAATGTAGA
17556617 TAATGTAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
AGCCACCAGTAATGTAGAAA
Found at i:17561383 original size:19 final size:19
Alignment explanation
Indices: 17561348--17561385 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17561338 GTGTGAGGCC
*
17561348 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTAGGCCCA
17561367 CACGA-CCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
17561386 ACGCGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:17563468 original size:12 final size:12
Alignment explanation
Indices: 17563451--17563475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17563441 GCTTATCAAT
17563451 TTTTGTAGATTA
1 TTTTGTAGATTA
17563463 TTTTGTAGATTA
1 TTTTGTAGATTA
17563475 T
1 T
17563476 CATCGCTGAC
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTTGTAGATTA
Found at i:17568442 original size:29 final size:27
Alignment explanation
Indices: 17568372--17568465 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 27
17568362 AAGTCTGCAT
*
17568372 ACATACATATCGCCCACTAGGCCCAATC
1 ACATACATATGGCCCA-TAGGCCCAATC
* *
17568400 TCATACATACGGCCCATTAGGCCCAAATC
1 ACATACATATGGCCCA-TAGGCCC-AATC
* *
17568429 ACATTCATATGGCCCATCGGCCCCAATC
1 ACATACATATGGCCCATAGG-CCCAATC
*
17568457 ACATTCATA
1 ACATACATA
17568466 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 36 0.64
29 20 0.36
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (27 bp):
ACATACATATGGCCCATAGGCCCAATC
Found at i:17571725 original size:30 final size:30
Alignment explanation
Indices: 17571670--17571731 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
17571660 CATTAAGGAA
17571670 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
17571699 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
17571730 GT
1 GT
17571732 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:17576447 original size:81 final size:81
Alignment explanation
Indices: 17576312--17576473 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
17576302 GTGACGCCAT
17576312 AGAGGAAGCAAGGGGTCCAAGGTTCAAGTCTTGGCTCTTGCAATATATTTTGGTTTTTCTTTTCA
1 AGAGGAAGCAAGGGGTCCAAGGTTCAAGTCTTGGCTCTTGCAATATATTTTGGTTTTTCTTTTCA
*
17576377 ATAAATCTGGAAGCAA
66 ATAAATCTAGAAGCAA
*
17576393 AGAGGAAGCAAGGTGTCCAAGGTTCAAGTCTTGGCTCTTGCAATATATTTTGGTTTTTCTTTTCA
1 AGAGGAAGCAAGGGGTCCAAGGTTCAAGTCTTGGCTCTTGCAATATATTTTGGTTTTTCTTTTCA
17576458 ATAAATCTAGAAGCAA
66 ATAAATCTAGAAGCAA
17576474 GTAGGTGCGC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (81 bp):
AGAGGAAGCAAGGGGTCCAAGGTTCAAGTCTTGGCTCTTGCAATATATTTTGGTTTTTCTTTTCA
ATAAATCTAGAAGCAA
Found at i:17577686 original size:32 final size:32
Alignment explanation
Indices: 17577649--17577719 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 32
17577639 GGCTCGCCAC
* * *
17577649 ATATATCTGTTCTGGTGGCTTCGTCACAATAT
1 ATATATCTGTTCTGGTGGCCTAGCCACAATAT
17577681 ATATA--TGTTCTGGTGGCCTAGCCACAATAT
1 ATATATCTGTTCTGGTGGCCTAGCCACAATAT
*
17577711 CTATATCTG
1 ATATATCTG
17577720 GTGACTTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 26 0.79
32 7 0.21
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (32 bp):
ATATATCTGTTCTGGTGGCCTAGCCACAATAT
Found at i:17585175 original size:33 final size:32
Alignment explanation
Indices: 17585126--17585189 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
17585116 CTCGCTGTAA
* *
17585126 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
17585159 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
17585190 GTGATTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:17591406 original size:14 final size:14
Alignment explanation
Indices: 17591383--17591417 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
17591373 TAATCTCACT
*
17591383 ATCTGCAAGTTATA
1 ATCTGTAAGTTATA
17591397 ATCTGTAAGTTATA
1 ATCTGTAAGTTATA
17591411 ATCTGTA
1 ATCTGTA
17591418 TTCACCAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (14 bp):
ATCTGTAAGTTATA
Found at i:17592155 original size:55 final size:55
Alignment explanation
Indices: 17592089--17592200 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
17592079 CACCCAAAAA
17592089 ATGTACATAAACACAAGCTATAATAAGGCATCCAAAACAAGTATAATCAAGCCTT
1 ATGTACATAAACACAAGCTATAATAAGGCATCCAAAACAAGTATAATCAAGCCTT
17592144 ATGTACATAAACACAAGCTATAATAAGGCATCCAAAACAAGTATAATCAAGCCTT
1 ATGTACATAAACACAAGCTATAATAAGGCATCCAAAACAAGTATAATCAAGCCTT
17592199 AT
1 AT
17592201 ACAAATGGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (55 bp):
ATGTACATAAACACAAGCTATAATAAGGCATCCAAAACAAGTATAATCAAGCCTT
Found at i:17592182 original size:26 final size:26
Alignment explanation
Indices: 17592097--17592182 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 26
17592087 AAATGTACAT
17592097 AAACACAAGCTATAATAAGGCATCC-
1 AAACACAAGCTATAATAAGGCATCCA
* *
17592122 AAA-ACAAG-TATAATCAAGCCTTATGTACA
1 AAACACAAGCTATAAT-AAGGC--A--TCCA
17592151 TAAACACAAGCTATAATAAGGCATCCA
1 -AAACACAAGCTATAATAAGGCATCCA
17592178 AAACA
1 AAACA
17592183 AGTATAATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
23 6 0.12
24 9 0.19
25 3 0.06
26 6 0.12
27 3 0.06
28 2 0.04
29 1 0.02
30 3 0.06
31 9 0.19
32 6 0.12
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (26 bp):
AAACACAAGCTATAATAAGGCATCCA
Found at i:17592995 original size:30 final size:31
Alignment explanation
Indices: 17592961--17593019 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
17592951 AGCAAGTTTC
17592961 ATATAT-ATGT-ATCATCCATTT-CATGTATCA
1 ATATATCATGTAAT-AT-CATTTCCATGTATCA
17592991 ATATATCATGTAATATCATTTCCATGTAT
1 ATATATCATGTAATATCATTTCCATGTAT
17593020 TTCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 11 0.42
31 13 0.50
32 2 0.08
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (31 bp):
ATATATCATGTAATATCATTTCCATGTATCA
Found at i:17593143 original size:51 final size:52
Alignment explanation
Indices: 17593083--17593186 Score: 165
Period size: 51 Copynumber: 2.0 Consensus size: 52
17593073 CATTGCCCGT
*
17593083 TGAACCATTTAGAATATCGTTTGATACTCGAGATAGCTCACACATAGT-TGC
1 TGAACCATTTAGAATATCGTTGGATACTCGAGATAGCTCACACATAGTGTGC
* * *
17593134 TGAACCATTTAGAATATCGTTGGATACTTGGGATATCTCACACATAGTGTGC
1 TGAACCATTTAGAATATCGTTGGATACTCGAGATAGCTCACACATAGTGTGC
17593186 T
1 T
17593187 AAACTGTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 44 0.92
52 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
TGAACCATTTAGAATATCGTTGGATACTCGAGATAGCTCACACATAGTGTGC
Found at i:17593253 original size:25 final size:25
Alignment explanation
Indices: 17593219--17593297 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
17593209 GTACATGTAT
*
17593219 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATACGAGCTATGAATCGGTAA
* * *
17593244 GCTC-TCACGAGTTGTAAATCGGTAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
*
17593269 GCTCATACGAGCTGA-GAATCGATAA
1 GCTCATACGAGCT-ATGAATCGGTAA
17593294 GCTC
1 GCTC
17593298 TCAAGAGATG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCGGTAA
Found at i:17593280 original size:50 final size:49
Alignment explanation
Indices: 17593219--17593324 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 49
17593209 GTACATGTAT
* * * * *
17593219 GCTCATACGAGCT-ATGAATCGGTATGCTCTCACGAGTTGTAAATCGGTAA
1 GCTCATACGAGCTGA-GAATCGATAAGCTCTCAAGAGATG-AAACCGGTAA
17593269 GCTCATACGAGCTGAGAATCGATAAGCTCTCAAGAGATGAAACCGGTAA
1 GCTCATACGAGCTGAGAATCGATAAGCTCTCAAGAGATGAAACCGGTAA
17593318 GCTCATA
1 GCTCATA
17593325 AGAGTTGTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 16 0.32
50 33 0.66
51 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTGAGAATCGATAAGCTCTCAAGAGATGAAACCGGTAA
Found at i:17593327 original size:24 final size:25
Alignment explanation
Indices: 17593263--17593328 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
17593253 AGTTGTAAAT
* * *
17593263 CGGTAAGCTCATACGAGCTGAGAAT
1 CGGTAAGCTCATAAGAGATGAGAAC
*
17593288 CGATAAGCTC-TCAAGAGATGA-AAC
1 CGGTAAGCTCAT-AAGAGATGAGAAC
17593312 CGGTAAGCTCATAAGAG
1 CGGTAAGCTCATAAGAG
17593329 TTGTGGTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 17 0.50
25 17 0.50
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
CGGTAAGCTCATAAGAGATGAGAAC
Found at i:17595408 original size:60 final size:60
Alignment explanation
Indices: 17595332--17595451 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 60
17595322 AAAATTGATA
*
17595332 GCAGGAATGAGGAGTGTAAACTCCTT-ACACCACCATGACCACG-AAGCAAAAAGGTAAGTC
1 GCAGGAATGAGAAGTGTAAACT-CTTCACACCACCATGACCACGCAA-CAAAAAGGTAAGTC
* * *
17595392 GCAGGAATGAGAAGTGTAAACTTTTCACACCACCATGACCACGCAACAGAGAGGTAAGTC
1 GCAGGAATGAGAAGTGTAAACTCTTCACACCACCATGACCACGCAACAAAAAGGTAAGTC
17595452 TAGCTTAGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
59 2 0.04
60 50 0.93
61 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (60 bp):
GCAGGAATGAGAAGTGTAAACTCTTCACACCACCATGACCACGCAACAAAAAGGTAAGTC
Found at i:17597720 original size:29 final size:29
Alignment explanation
Indices: 17597687--17597760 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
17597677 GTTGTGAGAT
* *
17597687 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
17597716 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
17597745 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17597761 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:17600147 original size:18 final size:19
Alignment explanation
Indices: 17600112--17600148 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
17600102 CTGCCTTAGA
17600112 GCAGATCCAACTCGCTGAC
1 GCAGATCCAACTCGCTGAC
17600131 GCAG-TCCAAGCTC-CTGAC
1 GCAGATCCAA-CTCGCTGAC
17600149 TACTGACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.38, G:0.22, T:0.16
Consensus pattern (19 bp):
GCAGATCCAACTCGCTGAC
Found at i:17603520 original size:40 final size:39
Alignment explanation
Indices: 17603474--17603606 Score: 203
Period size: 40 Copynumber: 3.3 Consensus size: 39
17603464 GCTACTCATT
* *
17603474 CAAATGCCTTCGGGACATAGCCCAGTTCTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGTT-TAGTAACTCGCA
*
17603514 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAG-TTTAGTAACTCGCA
*
17603554 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-AGTTTAGTAACTCGCA
17603594 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17603607 ATCTTAGTCC
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
40 84 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCAGTTTAGTAACTCGCA
Found at i:17603586 original size:80 final size:82
Alignment explanation
Indices: 17603474--17603657 Score: 243
Period size: 80 Copynumber: 2.3 Consensus size: 82
17603464 GCTACTCATT
* *
17603474 CAAATGCCTTCGGGACATAGCCC-AGTTCTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGAATTCTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
17603537 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
17603554 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATTCTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
17603618 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
17603635 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
17603658 GACATCATTC
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 3 0.03
80 77 0.85
81 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTCTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:17611689 original size:40 final size:40
Alignment explanation
Indices: 17611576--17611692 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
17611566 ATAACCGCAA
* * * *
17611576 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17611616 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
17611656 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
17611693 ATGCTCATGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:17613640 original size:36 final size:37
Alignment explanation
Indices: 17613565--17613669 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 37
17613555 GTATATCGGT
** **
17613565 TGGATTAGCTCTTCGGAGCCA-TTGGTGTG-TTCCGAA
1 TGGATTAGCTCTTATGA-CCATTTGGTGTGTTTTAGAA
17613601 TGGATTAGCTCTTATGACCATTTGGTGTGTTTTAG-A
1 TGGATTAGCTCTTATGACCATTTGGTGTGTTTTAGAA
* * *
17613637 TGGACTAGCTCTTATGAGCATCTGGTGTGTTTT
1 TGGATTAGCTCTTATGACCATTTGGTGTGTTTT
17613670 GGTGGGATTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
35 3 0.05
36 54 0.90
37 3 0.05
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (37 bp):
TGGATTAGCTCTTATGACCATTTGGTGTGTTTTAGAA
Found at i:17617581 original size:29 final size:29
Alignment explanation
Indices: 17617548--17617606 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17617538 GAATTACATG
17617548 TTTGAGTATGTTTGTGATTGCCTAAAAGC
1 TTTGAGTATGTTTGTGATTGCCTAAAAGC
17617577 TTTGAGTATGTTTGTGATTGCCTAAAAGC
1 TTTGAGTATGTTTGTGATTGCCTAAAAGC
17617606 T
1 T
17617607 ATGTCTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (29 bp):
TTTGAGTATGTTTGTGATTGCCTAAAAGC
Found at i:17618072 original size:42 final size:42
Alignment explanation
Indices: 17618013--17618101 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
17618003 GGTAGTATAT
* *
17618013 GGCCTAGCACATAGGCGTGTGAAGCTATTTCGAGAGTTACAC
1 GGCCTAGCACACAGGCGTGTGAAGCTATTACGAGAGTTACAC
**
17618055 GGCCTAGCACACAGGCGTGTGGGGCTATTACGAGAGTTACAC
1 GGCCTAGCACACAGGCGTGTGAAGCTATTACGAGAGTTACAC
17618097 GGCCT
1 GGCCT
17618102 GACTATAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (42 bp):
GGCCTAGCACACAGGCGTGTGAAGCTATTACGAGAGTTACAC
Found at i:17618517 original size:38 final size:38
Alignment explanation
Indices: 17618475--17618552 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
17618465 TAATTAAAGT
17618475 ATGATAAAAGAAATATCATCTTATTTTATCTCATCTTC
1 ATGATAAAAGAAATATCATCTTATTTTATCTCATCTTC
17618513 ATGATAAAAGAAATATCATCTTATTTTATCTCATCTTC
1 ATGATAAAAGAAATATCATCTTATTTTATCTCATCTTC
17618551 AT
1 AT
17618553 CCCCAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.42
Consensus pattern (38 bp):
ATGATAAAAGAAATATCATCTTATTTTATCTCATCTTC
Found at i:17620917 original size:39 final size:40
Alignment explanation
Indices: 17620843--17620935 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 40
17620833 GCGAGATTAA
* * *
17620843 GTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAT
1 GTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAT
*
17620883 GTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTAT
1 GTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAT
17620922 GTCCCGAAGGCATT
1 GTCCCGAAGGCATT
17620936 TGAACGAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.71
40 14 0.29
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAT
Found at i:17625544 original size:46 final size:47
Alignment explanation
Indices: 17625431--17625654 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 47
17625421 ATTCGTGTGT
* * * *
17625431 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACATTGAAACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGACGA
* * *
17625479 GGGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
17625526 -AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGA
* * * * *
17625571 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA-TA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * * *
17625617 TGAGCCAATGTAAGATCGTGTCTAGGACATGGCATCGG
1 -GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
17625655 TGCCTTACCC
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 60 0.41
47 64 0.44
48 19 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:17627673 original size:28 final size:28
Alignment explanation
Indices: 17627633--17627733 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
17627623 TATATATATA
17627633 AATGGCACTTAGTGTGCAAAGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * *
17627661 AATGGCACTTAGTGTGTGAAA-CATCCAG
1 AATGGCACTTAGTGTG-CAAAGTATCGAG
* * * *
17627689 AATAGCACTTAGTGTACGAGGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * *
17627717 TATGGTACATAGTGTGC
1 AATGGCACTTAGTGTGC
17627734 GAGACATCGA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
27 1 0.02
28 52 0.93
29 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (28 bp):
AATGGCACTTAGTGTGCAAAGTATCGAG
Found at i:17629778 original size:21 final size:21
Alignment explanation
Indices: 17629754--17629802 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
17629744 TTGAATTGGC
* *
17629754 CACACGGGCGTGTGGCTCTTT
1 CACACGGGCGTGTGCCCCTTT
17629775 CACACGGGCGTGTGCCCCTTT
1 CACACGGGCGTGTGCCCCTTT
17629796 CACACGG
1 CACACGG
17629803 CCGTATACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.31, T:0.22
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCCTTT
Found at i:17629813 original size:21 final size:21
Alignment explanation
Indices: 17629771--17629814 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17629761 GCGTGTGGCT
* * *
17629771 CTTTCACACGGGCGTGTGCCC
1 CTTTCACACGGCCGTATACCC
17629792 CTTTCACACGGCCGTATACCC
1 CTTTCACACGGCCGTATACCC
17629813 CT
1 CT
17629815 ATGTCAAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.41, G:0.20, T:0.25
Consensus pattern (21 bp):
CTTTCACACGGCCGTATACCC
Found at i:17631795 original size:13 final size:13
Alignment explanation
Indices: 17631738--17631805 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
17631728 CCAATTTGGC
17631738 AATGCTTTTGAAA
1 AATGCTTTTGAAA
* *
17631751 AGTACTTTTGAAA
1 AATGCTTTTGAAA
** *
17631764 AGCGC-TGTGAAA
1 AATGCTTTTGAAA
*
17631776 AAGTGCTTTTGAGA
1 AA-TGCTTTTGAAA
17631790 AATGCTTTTGAAA
1 AATGCTTTTGAAA
17631803 AAT
1 AAT
17631806 TTAAGTGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 7 0.16
13 29 0.67
14 7 0.16
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (13 bp):
AATGCTTTTGAAA
Found at i:17632010 original size:21 final size:19
Alignment explanation
Indices: 17631966--17632022 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
17631956 TTATAACTTT
17631966 TTATTAATATTTTAATATA
1 TTATTAATATTTTAATATA
17631985 TTATTAATATTTTAATATA
1 TTATTAATATTTTAATATA
*
17632004 TAATATTAAT-TTTAAATAT
1 T--TATTAATATTTTAATAT
17632023 TTCTAAGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 20 0.57
20 8 0.23
21 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTAATATTTTAATATA
Found at i:17634107 original size:72 final size:72
Alignment explanation
Indices: 17633845--17634081 Score: 374
Period size: 71 Copynumber: 3.3 Consensus size: 72
17633835 AAAATCATAT
**
17633845 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAA-TCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
17633907 TACCAAAC
65 AACCAAAC
*
17633915 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCC-AAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
17633979 ACCAAAC
66 ACCAAAC
* *
17633986 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
17634051 ACCAAAC
66 ACCAAAC
*
17634058 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
17634082 TTTAGTATTT
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
70 25 0.16
71 88 0.58
72 40 0.26
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:17634528 original size:18 final size:18
Alignment explanation
Indices: 17634507--17634554 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
17634497 TCCATCAATT
17634507 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
17634525 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
17634543 TGAACATCATTT
1 TGAACATCATTT
17634555 CTCACATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:17635530 original size:22 final size:23
Alignment explanation
Indices: 17635478--17635539 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
17635468 CGCATAAGAT
* **
17635478 AATATATATAAATATATATGGTC
1 AATATATAAAAATATATACAGTC
17635501 -ATAGTATAAAAATAT-TACAGTC
1 AATA-TATAAAAATATATACAGTC
*
17635523 AATATATAAATATATAT
1 AATATATAAAAATATAT
17635540 GGTTATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATATAAAAATATATACAGTC
Found at i:17637569 original size:28 final size:28
Alignment explanation
Indices: 17637537--17637606 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
17637527 AATGAGATTG
17637537 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
17637565 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
17637593 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17637607 GGCTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:17639502 original size:28 final size:28
Alignment explanation
Indices: 17639462--17639517 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
17639452 AATCCAGTGA
17639462 TTGATTGCTTGCACATTTATGACATACT
1 TTGATTGCTTGCACATTTATGACATACT
17639490 TTGATTGCTTGCACATTTATGACATACT
1 TTGATTGCTTGCACATTTATGACATACT
17639518 ATCAGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (28 bp):
TTGATTGCTTGCACATTTATGACATACT
Found at i:17642670 original size:19 final size:18
Alignment explanation
Indices: 17642648--17642687 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17642638 TTAATAAAAC
17642648 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
* *
17642667 TTATTTACTTAAATAAAT
1 TTATCTACCTAAATAAAT
17642685 TTA
1 TTA
17642688 AAATATGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:17645959 original size:42 final size:42
Alignment explanation
Indices: 17645870--17645960 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
17645860 TCCTAATTGG
* * **
17645870 GAAAATAATTCCCTTATTTTAATAAACTACTAAAACATTAGG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
* * *
17645912 GAAAATAGTTCCTTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
17645954 TAAAATA
1 GAAAATA
17645961 TTTGTAGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:17646004 original size:19 final size:18
Alignment explanation
Indices: 17645982--17646021 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
17645972 TTAATAAAAC
*
17645982 TTATCTAGCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
17646001 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
17646019 TTA
1 TTA
17646022 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:17646675 original size:3 final size:3
Alignment explanation
Indices: 17646667--17646735 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
17646657 CGCAGCAACT
* * * * * *
17646667 GCA GCA GCA GCA ACA ACA CCA GCA GCA GCA GCA GCA GCA ACA ACA CCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
17646715 GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA
17646736 AAGGCAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.39, C:0.36, G:0.25, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:17646682 original size:27 final size:27
Alignment explanation
Indices: 17646647--17646732 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
17646637 ACCATCTCCT
* *
17646647 CAGCAACAA-ACGCAGCAACTGCAGCAG
1 CAGCAACAACAC-CAGCAGCAGCAGCAG
17646674 CAGCAACAACACCAGCAGCAGCAGCAG
1 CAGCAACAACACCAGCAGCAGCAGCAG
17646701 CAGCAACAACACCAGCAGCAGCAGCAG
1 CAGCAACAACACCAGCAGCAGCAGCAG
17646728 CAGCA
1 CAGCA
17646733 GCAAAGGCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.36, G:0.22, T:0.01
Consensus pattern (27 bp):
CAGCAACAACACCAGCAGCAGCAGCAG
Found at i:17649630 original size:22 final size:22
Alignment explanation
Indices: 17649603--17649647 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17649593 ATTATAAATG
17649603 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
17649625 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
17649647 T
1 T
17649648 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:17654231 original size:22 final size:22
Alignment explanation
Indices: 17654203--17654247 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17654193 AGGGGGAGTG
17654203 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
17654225 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
17654247 T
1 T
17654248 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:17655400 original size:6 final size:6
Alignment explanation
Indices: 17655389--17655448 Score: 111
Period size: 6 Copynumber: 10.0 Consensus size: 6
17655379 ATGCATGCAC
*
17655389 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATTCAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
17655437 ATACAT ATACAT
1 ATACAT ATACAT
17655449 GTATTGATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (6 bp):
ATACAT
Found at i:17655904 original size:23 final size:23
Alignment explanation
Indices: 17655874--17655922 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
17655864 GATAGTTTTG
17655874 TTTTGTGGATGACATGCTAAAGC
1 TTTTGTGGATGACATGCTAAAGC
17655897 TTTTGTGGATGACATGCTAAAGC
1 TTTTGTGGATGACATGCTAAAGC
17655920 TTT
1 TTT
17655923 GTTTATGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (23 bp):
TTTTGTGGATGACATGCTAAAGC
Found at i:17656209 original size:29 final size:28
Alignment explanation
Indices: 17656163--17656217 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
17656153 AACGTGCCAT
*
17656163 TTTTATAACCCATTGGATTTATAATAAGG
1 TTTTATAACCCATGGGA-TTATAATAAGG
* *
17656192 TTTTATCACGCATGGGATTATAATAA
1 TTTTATAACCCATGGGATTATAATAA
17656218 AGATTAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (28 bp):
TTTTATAACCCATGGGATTATAATAAGG
Found at i:17661495 original size:46 final size:47
Alignment explanation
Indices: 17661319--17661535 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 47
17661309 TGTGAGCTAA
* * * * *
17661319 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACG--AAGGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGATGATAAGTC-AG
* * *
17661367 TGTAAGA-CATGTCTGGGACATGCATTGGCCTCAAGATG-TAAGTCAG
1 TGTAAGACCATGTCTGGGACATGCA-TCGACTCGAGATGATAAGTCAG
17661413 TGTAAGA-CATGTCTGGGACATGCATC-AGCTACGAGATGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGA-CT-CGAGATGATAAGTCAG
* * *
17661459 TGTAA-ACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATGATAAGTCAG
** *
17661505 TGTAATTCCATGTCTAGGACATAGCATCGAC
1 TGTAAGACCATGTCTGGGACAT-GCATCGAC
17661536 ACCTTACCCT
Statistics
Matches: 144, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
45 6 0.04
46 79 0.55
47 51 0.35
48 8 0.06
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGATAAGTCAG
Found at i:17667798 original size:21 final size:21
Alignment explanation
Indices: 17667769--17667840 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
17667759 CACATACGTG
* *
17667769 CCCTTAATTGTACTTCGGTAC
1 CCCTGAATTGTACTTCAGTAC
*
17667790 CCCTGAATTGCACTT-A-TATGC
1 CCCTGAATTGTACTTCAGTA--C
*
17667811 CCTTG-ATTGTACTTCAGTAC
1 CCCTGAATTGTACTTCAGTAC
*
17667831 CTCTGAATTG
1 CCCTGAATTG
17667841 CAAATATGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 2 0.05
20 12 0.31
21 23 0.59
22 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (21 bp):
CCCTGAATTGTACTTCAGTAC
Found at i:17667873 original size:41 final size:41
Alignment explanation
Indices: 17667751--17667874 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
17667741 TAATTATTCC
* * *
17667751 CTGAATTGCACATACGTGCCCTTAATTGTACTTCGGTACCC
1 CTGAATTGCACATATGTGCCCTTGATTGTACTTCGGTACCT
* * *
17667792 CTGAATTGCACTTATATGCCCTTGATTGTACTTCAGTACCT
1 CTGAATTGCACATATGTGCCCTTGATTGTACTTCGGTACCT
* * *
17667833 CTGAATTGCAAATATGTGCCCCTGGTTGTACTTCGGTACCT
1 CTGAATTGCACATATGTGCCCTTGATTGTACTTCGGTACCT
17667874 C
1 C
17667875 AAAATTCATA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATATGTGCCCTTGATTGTACTTCGGTACCT
Found at i:17668457 original size:13 final size:13
Alignment explanation
Indices: 17668439--17668464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17668429 TTGGATGCAC
17668439 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
17668452 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
17668465 CACACGGCCA
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:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:17672498 original size:27 final size:27
Alignment explanation
Indices: 17672467--17672644 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17672457 TAAATTGTAC
17672467 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17672494 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17672520 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17672548 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17672576 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17672603 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17672630 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17672645 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17672581 original size:82 final size:81
Alignment explanation
Indices: 17672468--17672623 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17672458 AAATTGTACA
* *
17672468 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17672532 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17672549 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17672614 TGCGAGTTGA
65 TGCGAATTGA
17672624 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17672635 original size:82 final size:81
Alignment explanation
Indices: 17672464--17672644 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17672454 GATTAAATTG
* *
17672464 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17672529 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17672545 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17672609 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17672627 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17672645 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17680687 original size:27 final size:27
Alignment explanation
Indices: 17680656--17680833 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17680646 TAAATTGTAC
17680656 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17680683 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17680709 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17680737 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17680765 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17680792 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17680819 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17680834 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17680770 original size:82 final size:81
Alignment explanation
Indices: 17680657--17680812 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17680647 AAATTGTACA
* *
17680657 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17680721 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17680738 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17680803 TGCGAGTTGA
65 TGCGAATTGA
17680813 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17680824 original size:82 final size:81
Alignment explanation
Indices: 17680653--17680833 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17680643 GATTAAATTG
* *
17680653 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17680718 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17680734 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17680798 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17680816 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17680834 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17686876 original size:28 final size:27
Alignment explanation
Indices: 17686813--17686964 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
17686803 ATATTAAGTC
* *
17686813 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
17686840 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
17686868 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
17686895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
17686923 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
17686950 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17686965 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17686897 original size:55 final size:55
Alignment explanation
Indices: 17686813--17686989 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
17686803 ATATTAAGTC
* * *
17686813 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
17686868 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
17686923 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
17686979 CGCACACTTAG
1 CGCACACTTAG
17686990 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:17687455 original size:12 final size:12
Alignment explanation
Indices: 17687438--17687463 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17687428 ATGGCATACT
17687438 TATGTATATATA
1 TATGTATATATA
17687450 TATGTATATATA
1 TATGTATATATA
17687462 TA
1 TA
17687464 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:17693314 original size:46 final size:46
Alignment explanation
Indices: 17693264--17693439 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
17693254 TGGTTGAGCA
*
17693264 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17693310 TCCGAACTCGCTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17693355 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17693403 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17693440 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.