Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 169 of 295
Found at i:53593613 original size:27 final size:27
Alignment explanation
Indices: 53593555--53593776 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
53593545 GGGGTAAAAT
* * * *
53593555 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53593581 GATAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53593608 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53593635 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53593662 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53593689 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53593716 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53593743 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53593770 GGTAATT
1 GGTAATT
53593777 TTGTAAATCG
Statistics
Matches: 171, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 13 0.08
27 158 0.92
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53593686 original size:81 final size:81
Alignment explanation
Indices: 53593559--53593776 Score: 323
Period size: 81 Copynumber: 2.7 Consensus size: 81
53593549 TAAAATGGTA
* * * * *
53593559 ATTT-TACCCCACAA-GGTATCTCGATAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
53593622 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* *
53593638 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
53593703 ACAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * *
53593719 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
53593777 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 9 0.07
81 111 0.90
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:53593829 original size:27 final size:27
Alignment explanation
Indices: 53593812--53594262 Score: 449
Period size: 27 Copynumber: 16.7 Consensus size: 27
53593802 TTTTGTAAAT
* **
53593812 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
53593839 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** ** * *
53593866 TGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
53593893 C-AGAGGTATTTTGGTAATTTT-CGAAAC
1 CAAG-GGTATTTTGGTAATTTTAC-AAAC
* * *
53593920 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53593947 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53593974 TAGGGGTATTTTGGTAAATTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53594001 CAAGGGAATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ***
53594028 TAGGGGTATTTTGGTAATTTGGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53594055 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53594082 CAGGGGTATTCTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53594109 CAAGGGTATTTTAGG-AATTTTACAAAC
1 CAAGGGTATTTT-GGTAATTTTACAAAC
* **
53594136 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53594163 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
53594190 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53594217 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53594244 CAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
53594263 CGGTTAACTA
Statistics
Matches: 353, Mismatches: 65, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.01
27 344 0.97
28 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53593927 original size:54 final size:54
Alignment explanation
Indices: 53593897--53594262 Score: 538
Period size: 54 Copynumber: 6.8 Consensus size: 54
53593887 ACAAATCAGA
* * * * *
53593897 GGTATTTTGGTAATTTT-CGAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTAC-AAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
53593951 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAAATTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* * * **
53594005 GGAATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* * *
53594059 GGTATTTTAGTAATTTTACAAACCAGGGGTATTCTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53594113 GGTATTTTAGG-AATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTT-GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53594167 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53594221 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATT
53594263 CGGTTAACTA
Statistics
Matches: 285, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 281 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
Found at i:53596269 original size:6 final size:6
Alignment explanation
Indices: 53596239--53596437 Score: 149
Period size: 6 Copynumber: 32.3 Consensus size: 6
53596229 AAGAAACATT
* * *
53596239 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
53596286 GTGACAGA ATAAAA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
53596337 ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
53596386 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
53596436 AT
1 AT
53596438 GTCAATGTAA
Statistics
Matches: 153, Mismatches: 23, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.07
6 122 0.80
7 14 0.09
8 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53596301 original size:43 final size:43
Alignment explanation
Indices: 53596248--53596437 Score: 172
Period size: 43 Copynumber: 4.4 Consensus size: 43
53596238 TATCAGAACT
* * * *
53596248 AGAATCAAAATGAGAATTAGAATCAGAATCAGAATCAGGTGAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
53596291 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
53596334 AGAATCAGAATCAGTATCAGGTAA-CAGAATTAGAATCA-G-AACC
1 AGAATAAAAATCAGAATCA-G-AATCAGAATCAGAATCAGGTAA-C
* * * *
53596377 AGAATCAGAATTAGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 AGAATAAAAATCA-G-AATCAGAATCAGAATCAGAATCAGGTAAC
* *
53596421 AGAATCAGAATCAGAAT
1 AGAATAAAAATCAGAAT
53596438 GTCAATGTAA
Statistics
Matches: 123, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
42 6 0.05
43 82 0.67
44 30 0.24
45 5 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (43 bp):
AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:53596338 original size:25 final size:25
Alignment explanation
Indices: 53596266--53596374 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
53596256 AATGAGAATT
*
53596266 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
53596291 AGAAT---AA--A-AATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
53596309 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
53596334 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
53596359 AGAATTAGAATCAGAA
1 AGAATCAGAATCAGAA
53596375 CCAGAATCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
17 1 0.01
18 7 0.10
19 5 0.07
20 1 0.01
21 2 0.03
22 2 0.03
23 1 0.01
24 4 0.06
25 44 0.64
26 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:53596369 original size:62 final size:62
Alignment explanation
Indices: 53596266--53596437 Score: 254
Period size: 62 Copynumber: 2.7 Consensus size: 62
53596256 AATGAGAATT
* *
53596266 AGAATCAGAATCAGAATCAGGTGACAGAATAAAAATCAGAATCAGAATCAGAATCAGAATTAGGT
1 AGAATCAGAATCAGTATCAGGTAACAGAAT-----T-AGAATCAGAATCAGAATCAGAATTAGGT
53596331 AAC
60 AAC
*
53596334 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAATCAGAATCAGAATTAGGTAAC
*
53596396 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAAT
53596438 GTCAATGTAA
Statistics
Matches: 99, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
62 70 0.71
63 1 0.01
68 28 0.28
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:53596404 original size:25 final size:25
Alignment explanation
Indices: 53596358--53596437 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
53596348 TATCAGGTAA
*
53596358 CAGAATTA-G-AATCAGAACCAGAAT
1 CAGAATTAGGTAA-CAGAATCAGAAT
53596382 CAGAATTAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
* *
53596407 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
53596432 CAGAAT
1 CAGAAT
53596438 GTCAATGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 8 0.16
25 40 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATTAGGTAACAGAATCAGAAT
Found at i:53596428 original size:19 final size:19
Alignment explanation
Indices: 53596299--53596409 Score: 95
Period size: 19 Copynumber: 5.6 Consensus size: 19
53596289 ACAGAATAAA
53596299 AATCAGAATCA-G-AATCAG
1 AATCAGAATCAGGTAA-CAG
*
53596317 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
53596336 AATCAGAATCAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
*
53596361 AATTAGAATCA-G-AACCAG
1 AATCAGAATCAGGTAA-CAG
*
53596379 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
53596398 AATCAGAATCAG
1 AATCAGAATCAG
53596410 TATCAGGTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
17 2 0.03
18 23 0.30
19 29 0.38
20 4 0.05
21 1 0.01
23 1 0.01
25 16 0.21
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:53596658 original size:71 final size:67
Alignment explanation
Indices: 53596583--53596724 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
53596573 TCACCAGAGA
* * * *
53596583 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGTAACGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
53596648 GGCTGC
62 GGCTGC
* * *
53596654 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
53596719 GC
66 GC
53596721 CAGA
1 CAGA
53596725 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:53596702 original size:27 final size:26
Alignment explanation
Indices: 53596654--53596705 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53596644 ACGAGGCTGC
*
53596654 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53596680 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53596706 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53597008 original size:27 final size:27
Alignment explanation
Indices: 53596950--53597171 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
53596940 GGGGTAAAAT
* * * *
53596950 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53596976 GATAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53597003 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53597030 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53597057 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53597084 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53597111 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53597138 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53597165 GGTAATT
1 GGTAATT
53597172 TTGTAAATCG
Statistics
Matches: 171, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 13 0.08
27 158 0.92
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53597081 original size:81 final size:81
Alignment explanation
Indices: 53596954--53597171 Score: 323
Period size: 81 Copynumber: 2.7 Consensus size: 81
53596944 TAAAATGGTA
* * * * *
53596954 ATTT-TACCCCACAA-GGTATCTCGATAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
53597017 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* *
53597033 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
53597098 ACAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * *
53597114 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
53597172 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 9 0.07
81 111 0.90
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:53597224 original size:27 final size:27
Alignment explanation
Indices: 53597207--53597657 Score: 449
Period size: 27 Copynumber: 16.7 Consensus size: 27
53597197 TTTTGTAAAT
* **
53597207 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
53597234 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** ** * *
53597261 TGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
53597288 C-AGAGGTATTTTGGTAATTTT-CGAAAC
1 CAAG-GGTATTTTGGTAATTTTAC-AAAC
* * *
53597315 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53597342 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53597369 TAGGGGTATTTTGGTAAATTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53597396 CAAGGGAATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ***
53597423 TAGGGGTATTTTGGTAATTTGGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53597450 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53597477 CAGGGGTATTCTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53597504 CAAGGGTATTTTAGG-AATTTTACAAAC
1 CAAGGGTATTTT-GGTAATTTTACAAAC
* **
53597531 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53597558 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
53597585 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53597612 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53597639 CAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
53597658 CGGTTAACTA
Statistics
Matches: 353, Mismatches: 65, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.01
27 344 0.97
28 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53597322 original size:54 final size:54
Alignment explanation
Indices: 53597292--53597657 Score: 538
Period size: 54 Copynumber: 6.8 Consensus size: 54
53597282 ACAAATCAGA
* * * * *
53597292 GGTATTTTGGTAATTTT-CGAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTAC-AAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
53597346 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAAATTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* * * **
53597400 GGAATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* * *
53597454 GGTATTTTAGTAATTTTACAAACCAGGGGTATTCTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53597508 GGTATTTTAGG-AATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTT-GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53597562 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53597616 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATT
53597658 CGGTTAACTA
Statistics
Matches: 285, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 281 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
Found at i:53599664 original size:6 final size:6
Alignment explanation
Indices: 53599634--53599832 Score: 140
Period size: 6 Copynumber: 32.3 Consensus size: 6
53599624 AAGAAACATT
* * *
53599634 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
53599681 GTGACAGA ATAAAA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
53599732 ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
53599781 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
53599831 AT
1 AT
53599833 GTCAATGTAA
Statistics
Matches: 151, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
5 10 0.07
6 120 0.79
7 14 0.09
8 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53599696 original size:43 final size:43
Alignment explanation
Indices: 53599643--53599832 Score: 145
Period size: 43 Copynumber: 4.4 Consensus size: 43
53599633 TATCAGAACT
* * *
53599643 AGAATCAAAATGAGAATTAGAATCAGAATCAGAATCAGGTGAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
53599686 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * * * * *
53599729 AAAATCAGAATCAGTATCAGGTAA-CAGAATTAGAATCA-G-AACC
1 AGAATAAAAATCAGAATCA-G-AATCAGAATCAGAATCAGGTGA-C
* * * * *
53599772 AGAATCAGAATTAGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 AGAATAAAAATCA-G-AATCAGAATCAGAATCAGAATCAGGTGAC
* *
53599816 AGAATCAGAATCAGAAT
1 AGAATAAAAATCAGAAT
53599833 GTCAATGTAA
Statistics
Matches: 121, Mismatches: 17, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
42 6 0.05
43 80 0.66
44 30 0.25
45 5 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (43 bp):
AGAATAAAAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:53599736 original size:25 final size:25
Alignment explanation
Indices: 53599706--53599769 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
53599696 TCAGAATCAG
*
53599706 AATCAGAATCAGAATTAGGTAACAA
1 AATCAGAATCAGAATCAGGTAACAA
* *
53599731 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAA
*
53599756 AATTAGAATCAGAA
1 AATCAGAATCAGAA
53599770 CCAGAATCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAA
Found at i:53599764 original size:62 final size:62
Alignment explanation
Indices: 53599694--53599832 Score: 251
Period size: 62 Copynumber: 2.2 Consensus size: 62
53599684 ACAGAATAAA
53599694 AATCAGAATCAGAATCAGAATCAGAATTAGGTAACAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGAATTAGGTAACAAAATCAGAATCAGTATCAGGTAACAG
* * *
53599756 AATTAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGAATTAGGTAACAAAATCAGAATCAGTATCAGGTAACAG
53599818 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
53599833 GTCAATGTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (62 bp):
AATCAGAATCAGAATCAGAATCAGAATTAGGTAACAAAATCAGAATCAGTATCAGGTAACAG
Found at i:53599799 original size:25 final size:25
Alignment explanation
Indices: 53599753--53599832 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
53599743 TATCAGGTAA
*
53599753 CAGAATTA-G-AATCAGAACCAGAAT
1 CAGAATTAGGTAA-CAGAATCAGAAT
53599777 CAGAATTAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
* *
53599802 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATTAGGTAACAGAATCAGAAT
53599827 CAGAAT
1 CAGAAT
53599833 GTCAATGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 8 0.16
25 40 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATTAGGTAACAGAATCAGAAT
Found at i:53599829 original size:19 final size:19
Alignment explanation
Indices: 53599734--53599804 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
53599724 GTAACAAAAT
*
53599734 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGGTAA
*
53599753 CAGAATTAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
53599770 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
53599790 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
53599805 TATCAGGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 27 0.61
20 2 0.05
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:53600053 original size:71 final size:67
Alignment explanation
Indices: 53599978--53600119 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
53599968 TCACCAGAGA
* * * *
53599978 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGTAACGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
53600043 GGCTGC
62 GGCTGC
* * *
53600049 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
53600114 GC
66 GC
53600116 CAGA
1 CAGA
53600120 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:53600097 original size:27 final size:26
Alignment explanation
Indices: 53600049--53600100 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53600039 ACGAGGCTGC
*
53600049 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53600075 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53600101 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53600403 original size:27 final size:27
Alignment explanation
Indices: 53600345--53600566 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
53600335 GGGGTAAAAT
* * * *
53600345 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
53600371 GATAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53600398 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53600425 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53600452 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53600479 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53600506 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53600533 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53600560 GGTAATT
1 GGTAATT
53600567 TTGTAAATCG
Statistics
Matches: 171, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 13 0.08
27 158 0.92
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53600476 original size:81 final size:81
Alignment explanation
Indices: 53600349--53600566 Score: 323
Period size: 81 Copynumber: 2.7 Consensus size: 81
53600339 TAAAATGGTA
* * * * *
53600349 ATTT-TACCCCACAA-GGTATCTCGATAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
53600412 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* *
53600428 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
53600493 ACAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * *
53600509 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
53600567 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 9 0.07
81 111 0.90
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:53600619 original size:27 final size:27
Alignment explanation
Indices: 53600602--53601105 Score: 523
Period size: 27 Copynumber: 18.7 Consensus size: 27
53600592 TTTTGTAAAT
* **
53600602 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
53600629 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** ** * *
53600656 TGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
53600683 C-AGAGGTATTTTGGTAATTTT-CGAAAC
1 CAAG-GGTATTTTGGTAATTTTAC-AAAC
* * *
53600710 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53600737 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53600764 TAGGGGTATTTTGGTAAATTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53600791 CAAGGGAATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ***
53600818 CAGGGGTATTTTGGTAATTTGGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53600845 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53600872 CAGGGGTATTTTGGTAATTTGGTA-AAA-
1 CAAGGGTATTTTGGTAATTT--TACAAAC
* *
53600899 TAAGGGCATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
53600926 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53600953 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
53600980 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
53601007 CAAGGGTA-TTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
53601033 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53601060 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
53601087 CAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
53601106 CGGTAAACTA
Statistics
Matches: 401, Mismatches: 67, Indels: 18
0.83 0.14 0.04
Matches are distributed among these distances:
25 2 0.00
26 29 0.07
27 363 0.91
28 5 0.01
29 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53601113 original size:27 final size:27
Alignment explanation
Indices: 53600659--53601105 Score: 551
Period size: 27 Copynumber: 16.6 Consensus size: 27
53600649 TACAGGTTGA
** * *
53600659 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
53600686 AGGTATTTTGGTAATTTT-CGAAACTAG
1 GGGTATTTTGGTAATTTTAC-AAACCAG
* *
53600713 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53600740 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
53600767 GGGTATTTTGGTAAATTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
53600794 GGGAATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
53600821 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53600848 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
53600875 GGGTATTTTGGTAATTTGGTA-AAA-TAA
1 GGGTATTTTGGTAATTT--TACAAACCAG
*
53600902 GGGCATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
53600929 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53600956 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
53600983 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
53601010 GGGTA-TTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
53601036 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
53601063 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
53601090 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
53601106 CGGTAAACTA
Statistics
Matches: 357, Mismatches: 56, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
25 2 0.01
26 27 0.08
27 322 0.90
28 4 0.01
29 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:53601113 original size:54 final size:54
Alignment explanation
Indices: 53600687--53601105 Score: 626
Period size: 54 Copynumber: 7.8 Consensus size: 54
53600677 ACAAATCAGA
* * * * * *
53600687 GGTATTTTGGTAATTTT-CGAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTAGTAATTTTAC-AAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* * *
53600741 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAAATTTATAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* **
53600795 GGAATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
** **
53600849 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAATAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
53600903 GGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
*
53600957 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
* *
53601011 GGTA-TTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
53601064 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
53601106 CGGTAAACTA
Statistics
Matches: 335, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
53 50 0.15
54 284 0.85
55 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAG
Found at i:53613486 original size:47 final size:47
Alignment explanation
Indices: 53613402--53613903 Score: 772
Period size: 47 Copynumber: 10.6 Consensus size: 47
53613392 TATTTGAATA
53613402 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53613451 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53613498 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53613547 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53613594 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTCATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53613643 AATGTGAAATTGTTTATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53613690 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53613736 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53613783 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
53613830 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53613877 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53613904 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 31, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
46 46 0.11
47 273 0.65
49 98 0.24
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53613514 original size:96 final size:96
Alignment explanation
Indices: 53613402--53613903 Score: 811
Period size: 96 Copynumber: 5.3 Consensus size: 96
53613392 TATTTGAATA
53613402 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53613467 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53613498 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53613563 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53613594 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTCATGAATGTGAAATTGTTTA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
53613659 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
53613690 AATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53613752 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
53613783 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
53613846 TATGCGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
53613877 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
53613904 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
93 89 0.23
94 95 0.25
95 1 0.00
96 198 0.52
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53614123 original size:37 final size:37
Alignment explanation
Indices: 53614022--53614123 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
53614012 CCGAGCTCTA
*
53614022 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
53614059 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
53614096 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
53614124 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:53615455 original size:40 final size:40
Alignment explanation
Indices: 53615411--53615619 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
53615401 GGCTAAATTT
53615411 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* *
53615451 CGAAGAGCATTCATGCTAGTGATGTATTCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
53615491 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
53615531 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * * * *
53615571 CGAAGAGCATTTGTGCTGGTGTTATATTCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
53615611 CGAAGAGCA
1 CGAAGAGCA
53615620 ATCATGCTGG
Statistics
Matches: 152, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 150 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:53615521 original size:80 final size:79
Alignment explanation
Indices: 53615411--53615643 Score: 286
Period size: 80 Copynumber: 2.9 Consensus size: 79
53615401 GGCTAAATTT
53615411 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
***
53615476 ATTCGGACTAAGTTC
66 ATTCGG-CTAAACCC
* *
53615491 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
53615556 ATCCGTGCTAAACCC
66 ATTCG-GCTAAACCC
* * * * * * * * * *
53615571 CGAAGAGCATTTGTGCTGGTGTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACGT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGA--T
53615636 GTATTCGG
64 GTATTCGG
53615644 GCCTTCGTGC
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 123 0.94
81 2 0.02
82 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
ATTCGGCTAAACCC
Found at i:53619766 original size:47 final size:47
Alignment explanation
Indices: 53619682--53620228 Score: 834
Period size: 47 Copynumber: 11.6 Consensus size: 47
53619672 TATTTGAATA
53619682 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53619731 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53619778 AATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
53619827 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53619874 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53619923 AATGTGAAATTGTATATATGTGATAAGGCCT-ATAG-CGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53619968 AATGTG-AAGTGTATATATGTG-TAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53620012 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53620061 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53620108 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
53620155 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53620202 AATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53620229 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 28, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
43 9 0.02
44 32 0.07
45 20 0.04
46 3 0.01
47 262 0.57
48 11 0.02
49 122 0.27
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53619794 original size:96 final size:94
Alignment explanation
Indices: 53619682--53620228 Score: 807
Period size: 96 Copynumber: 5.8 Consensus size: 94
53619672 TATTTGAATA
53619682 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53619747 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
53619778 AATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53619843 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCGATGTGATG
* *
53619874 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53619939 TATGTGATAAGGCC-TATAG-CGATGTGATG
64 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
53619968 AATGTG-AAGTGTATATATGTG-TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
53620030 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
53620061 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
53620126 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCGAATGGCCGATGTGATG
* * * * * * * * *
53620155 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATAAA
1 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
53620220 TGTGATAAG
66 TGTGATAAG
53620229 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 18, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
89 22 0.05
90 11 0.03
91 30 0.07
92 3 0.01
93 18 0.04
94 132 0.31
95 14 0.03
96 191 0.45
98 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:53620448 original size:37 final size:37
Alignment explanation
Indices: 53620347--53620448 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
53620337 CCGAGCTCTA
*
53620347 AAGACCCGATGACTACGTGTGGAGATTATGTACGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTACGGGT
* *
53620384 AAGACCCAATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTACGGGT
* * *
53620421 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
53620449 CGTCTGAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTACGGGT
Found at i:53622597 original size:19 final size:19
Alignment explanation
Indices: 53622574--53622620 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
53622564 ATTTAATCTA
*
53622574 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
53622592 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
53622612 ATTTTTATT
1 ATTTTTATT
53622621 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:53622987 original size:43 final size:43
Alignment explanation
Indices: 53622879--53622990 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 43
53622869 TAATTTTTAT
* * * * *
53622879 TAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
* *
53622922 TAAAGGT--T-CTCTTTAGCGGCGTTTTTAGAAAAAGTGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
*
53622962 TAAAGGTCATGTTCTTTAGCAGCGTTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
53622991 CACATAAACG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
40 32 0.56
41 1 0.02
42 1 0.02
43 23 0.40
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
Found at i:53631651 original size:27 final size:27
Alignment explanation
Indices: 53631572--53631731 Score: 110
Period size: 27 Copynumber: 6.0 Consensus size: 27
53631562 TATGAGCCAC
* *
53631572 CCACATTAGATAGTCCTGTCGGACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
* * * * *
53631599 CCATAGATA-ATAGT-CTTAGTGGACTTT
1 CCACA-TTAGATAGTCCTGA-CGAACTTT
* * *
53631626 CCACGTTAGGTAGTCCTGACGAACTTC
1 CCACATTAGATAGTCCTGACGAACTTT
* * *
53631653 CCACATAAGATAGTCTTGACGGACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
* *
53631680 CCACATTAGATAGTACTGAAG-ACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
** * *
53631706 ATACATTAGATAGTTCTGACAAACTT
1 CCACATTAGATAGTCCTGACGAACTT
53631732 CTACATATAC
Statistics
Matches: 100, Mismatches: 28, Indels: 10
0.72 0.20 0.07
Matches are distributed among these distances:
26 25 0.25
27 70 0.70
28 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (27 bp):
CCACATTAGATAGTCCTGACGAACTTT
Found at i:53649514 original size:96 final size:94
Alignment explanation
Indices: 53649238--53649516 Score: 328
Period size: 96 Copynumber: 2.9 Consensus size: 94
53649228 CATAGGGTGA
* * * * ** *
53649238 ATTGCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCGCATGTTGAGGTTGATGCCATGTC
1 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATCCCATGTC
* * *
53649303 ACAGACATGGTCTTACACTAGCTCTCGTCTC
65 CCAGACATGGTCTTACACTGGCTCTC-TCAC
* * * *
53649334 ATTG-TCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGATGCGGCCGATCCCATGT
1 ATTGCT-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATCCCATGT
*
53649398 CCAAGACATGGTCTTACACTGGCTCT-TACAAC
64 CCCAGACATGGTCTTACACTGGCTCTCT-C-AC
* *
53649430 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATTCCATGTC
1 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAT-GAGGCCGATCCCATGTC
53649495 CCAGACATGGTCTTACACTGGC
65 CCAGACATGGTCTTACACTGGC
53649517 ACACATATCA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 152 0.97
97 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATGAGGCCGATCCCATGTCC
CAGACATGGTCTTACACTGGCTCTCTCAC
Found at i:53649524 original size:48 final size:48
Alignment explanation
Indices: 53649241--53649525 Score: 275
Period size: 48 Copynumber: 5.9 Consensus size: 48
53649231 AGGGTGAATT
* * * * * * *
53649241 GCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCGCATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
** * * * * * *
53649289 GTTGATGCCATGTCACAGACATGGTCTTACACTAGCTCTCGTCTCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
53649337 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGAT-GCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTG
* * * * * * *
53649385 GCCGATCCCATGTCCAAGACATGGTCTTACACTGGCTCTTACAACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
53649433 GCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
53649481 GCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACACATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
53649526 ACCCAAATGT
Statistics
Matches: 186, Mismatches: 49, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
47 1 0.01
48 184 0.99
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
Found at i:53653060 original size:40 final size:40
Alignment explanation
Indices: 53653000--53653468 Score: 839
Period size: 40 Copynumber: 11.7 Consensus size: 40
53652990 TGAGCATTGG
53653000 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653040 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
53653080 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653120 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
53653160 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653200 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653240 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
53653280 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653320 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653360 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
53653400 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
53653440 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
53653469 ATGTGTTTGC
Statistics
Matches: 420, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 420 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:53661896 original size:40 final size:40
Alignment explanation
Indices: 53661836--53662299 Score: 803
Period size: 40 Copynumber: 11.7 Consensus size: 40
53661826 TGAGCATTGG
*
53661836 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
53661876 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
53661916 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
53661956 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
53661996 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
53662036 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
53662076 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG-T
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
53662115 GATATAT-C-GGCT-AGA-CCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
53662151 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
53662191 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
53662231 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
53662271 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
53662300 ATGTGTTTGC
Statistics
Matches: 411, Mismatches: 8, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
35 19 0.05
36 10 0.02
37 5 0.01
38 5 0.01
39 11 0.03
40 361 0.88
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:53666305 original size:41 final size:41
Alignment explanation
Indices: 53666171--53666430 Score: 346
Period size: 41 Copynumber: 6.3 Consensus size: 41
53666161 ACATAAAATT
* * *
53666171 TGCTAGGC-ATAAAGCCT-AGTATAATACACTGACACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
* *
53666212 TGCAAGGC-ATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
53666254 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
53666295 TGCTAGGCAATAACCCTGATTTAATACACCGGAACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
53666336 TGCTAGGCAATAACCCTGATATAATACACCGTCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
53666377 TGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
53666418 TGCTAGGCAATAA
1 TGCTAGGCAATAA
53666431 AGCCCGAATA
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
40 18 0.09
41 142 0.72
42 13 0.07
43 24 0.12
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:53673195 original size:27 final size:26
Alignment explanation
Indices: 53673147--53673206 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
53673137 GCGAGGCTGC
*
53673147 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAG-TA
* * *
53673174 CAGATATTGTGGCTAGGCCACCAGTA
1 CAGATATTGTGACGAAGCCACCAGTA
53673200 CAGATAT
1 CAGATAT
53673207 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGTA
Found at i:53673912 original size:54 final size:54
Alignment explanation
Indices: 53673854--53673966 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
53673844 TTAACACCCT
*
53673854 AGGGGAAAAATGGCAATTT-TACCCCACAAGGGTATCTCGATAATTTTACCCTAC
1 AGGGGAAAAATGG-AATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
* *** * * * * *
53673908 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTAC
1 AGGGGAAAAATGGAATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
53673962 AGGGG
1 AGGGG
53673967 TATTTCGGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 4 0.08
54 44 0.92
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (54 bp):
AGGGGAAAAATGGAATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:53673967 original size:54 final size:54
Alignment explanation
Indices: 53673869--53674010 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
53673859 AAAAATGGCA
* * * *
53673869 ATTT-TACCCCACAAGGGTATCTCGATAATTTTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* *
53673922 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* * * * * *
53673976 AATTCTAACTTATAGGGGTATTTCAATAATTCTAC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTAC
53674011 AACTTATCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.05
54 70 0.95
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:53673980 original size:27 final size:27
Alignment explanation
Indices: 53673868--53674010 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
53673858 GAAAAATGGC
* * * * *
53673868 AATTTTACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
53673895 AATTTTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
53673922 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
53673949 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * * **
53673976 AATTCTAACTTATAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
53674003 AATTCTAC
1 AATTCTAC
53674011 AACTTATCCA
Statistics
Matches: 98, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:53675364 original size:15 final size:14
Alignment explanation
Indices: 53675341--53675376 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
53675331 AAATAATCCA
*
53675341 AATAAAAATGAATT
1 AATAAAAATGAATG
53675355 AATAAGAAATGAATG
1 AATAA-AAATGAATG
53675370 AATAAAA
1 AATAAAA
53675377 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:53676679 original size:24 final size:24
Alignment explanation
Indices: 53676621--53676688 Score: 111
Period size: 23 Copynumber: 2.9 Consensus size: 24
53676611 GAAATGACTT
*
53676621 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
*
53676645 -GACACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
53676668 TGGCACTATGTGTGCGGATTT
1 TGGCACTATGTGTGCGGATTT
53676689 CAATGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGTA
Found at i:53676701 original size:24 final size:24
Alignment explanation
Indices: 53676650--53676702 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
53676640 TTGTAGACAC
** *
53676650 TATGTGTGCGGATTTGTATGGCAC
1 TATGTGTGCGGATTTCAATGGCAA
*
53676674 TATGTGTGCGGATTTCAATGTCAA
1 TATGTGTGCGGATTTCAATGGCAA
53676698 TATGT
1 TATGT
53676703 ATGTGAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (24 bp):
TATGTGTGCGGATTTCAATGGCAA
Found at i:53683712 original size:27 final size:27
Alignment explanation
Indices: 53683682--53683934 Score: 292
Period size: 27 Copynumber: 9.4 Consensus size: 27
53683672 GGGGGAAAAT
* * *
53683682 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53683709 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53683736 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
53683763 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
53683790 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53683817 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
53683844 GATAATTCTATACTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53683871 GGTAA-TCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
53683897 AATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53683924 GGTAATTCTAC
1 GGTAATTCTAC
53683935 AACTTATCCA
Statistics
Matches: 194, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 20 0.10
27 174 0.90
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53688652 original size:64 final size:64
Alignment explanation
Indices: 53688504--53688756 Score: 190
Period size: 68 Copynumber: 3.8 Consensus size: 64
53688494 TACAGATAGT
* ** * * * * * *
53688504 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
53688568 TATA
62 TA-A
* * *
53688572 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
53688636 ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACAACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTAC-ACCATGTAGACAAGAGAGCTACGAGA
53688701 TAA
62 TAA
* * * *
53688704 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
53688757 CGAACTATAT
Statistics
Matches: 149, Mismatches: 29, Indels: 19
0.76 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 27 0.18
65 3 0.02
66 4 0.03
67 21 0.14
68 75 0.50
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53691787 original size:18 final size:19
Alignment explanation
Indices: 53691745--53691793 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
53691735 TTATTTTCTC
*
53691745 AAAAATTTAA-AAATTATT
1 AAAAATTTAATAAATTATA
*
53691763 AATAATTTAATAAATTA-A
1 AAAAATTTAATAAATTATA
*
53691781 AAAAATTAAATAA
1 AAAAATTTAATAA
53691794 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTAATAAATTATA
Found at i:53705358 original size:48 final size:48
Alignment explanation
Indices: 53705220--53705455 Score: 230
Period size: 48 Copynumber: 4.9 Consensus size: 48
53705210 ATAGGATGAA
* * *
53705220 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCG
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
** * * * *
53705268 AGGCCAATGCCAT-ATCCTAGACATGGTCTTACACTAGCTCTCATCTCC
1 TTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATCTCC
* * *
53705316 TTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCTCACAACATCC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGG--CTCTCATC-TCC
* * **
53705367 TT---GATGCTATGTTCCAAACATGGTCTTACACTGGTTCTCA-CAAC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
* *
53705411 ATCCCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT
1 TTGCC-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT
53705456 ATTACCCAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 4 0.03
47 3 0.02
48 128 0.85
49 2 0.01
50 6 0.04
51 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (48 bp):
TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
Found at i:53705411 original size:25 final size:25
Alignment explanation
Indices: 53705335--53705412 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
53705325 CCATGTCCCA
53705335 AACATGGTCTTACACTGGTTCTCAC
1 AACATGGTCTTACACTGGTTCTCAC
* ** *
53705360 AACAT--CCTTGATGCTATGTTC-CA-
1 AACATGGTCTT-ACACT-GGTTCTCAC
53705383 AACATGGTCTTACACTGGTTCTCAC
1 AACATGGTCTTACACTGGTTCTCAC
53705408 AACAT
1 AACAT
53705413 CCCTGATGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
23 12 0.31
24 10 0.26
25 17 0.44
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (25 bp):
AACATGGTCTTACACTGGTTCTCAC
Found at i:53706890 original size:26 final size:26
Alignment explanation
Indices: 53706850--53706923 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 26
53706840 CCTTTACATA
53706850 TATGCTCACATGAGCTATGAAAAGAG
1 TATGCTCACATGAGCTATGAAAAGAG
* **
53706876 TATGCTCACACGAGCCGTG-AAAGAG
1 TATGCTCACATGAGCTATGAAAAGAG
*
53706901 TATGCTTACATGAGCTATGAAAA
1 TATGCTCACATGAGCTATGAAAA
53706924 TGGGTCAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
TATGCTCACATGAGCTATGAAAAGAG
Found at i:53715205 original size:27 final size:27
Alignment explanation
Indices: 53715175--53715352 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
53715165 ATATTGAGCC
* *
53715175 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
53715202 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53715229 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
53715257 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53715284 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
53715311 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
53715338 CGCACACTTGGTGCT
1 CGCACACTTAGTGCT
53715353 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53715314 original size:82 final size:81
Alignment explanation
Indices: 53715196--53715351 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
53715186 TGCTATATAA
* * *
53715196 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
53715261 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53715278 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
*
53715342 CACTTGGTGC
65 CACTTAGTGC
53715352 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53723249 original size:27 final size:27
Alignment explanation
Indices: 53723219--53723396 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
53723209 ATATTGAGCC
* *
53723219 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
53723246 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
53723273 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
53723301 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53723328 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
53723355 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
53723382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53723397 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53723358 original size:82 final size:81
Alignment explanation
Indices: 53723240--53723395 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
53723230 TGCTATATAA
* * *
53723240 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
53723305 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53723322 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
53723386 CACTTAGTGC
65 CACTTAGTGC
53723396 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53728378 original size:18 final size:18
Alignment explanation
Indices: 53728347--53728389 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
53728337 CCTATTACAA
53728347 TAACAATAAATAGTGCAG
1 TAACAATAAATAGTGCAG
* *
53728365 TAACAGTAATTAGTGCAG
1 TAACAATAAATAGTGCAG
53728383 TAACAAT
1 TAACAAT
53728390 TTAAACAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (18 bp):
TAACAATAAATAGTGCAG
Found at i:53728753 original size:27 final size:26
Alignment explanation
Indices: 53728723--53728871 Score: 99
Period size: 26 Copynumber: 5.5 Consensus size: 26
53728713 ACATAGGGAA
*
53728723 AAAAAAGTCATCTTACTACATAAGGGT
1 AAAAAAGTCAT-TTACTACATAAGGGC
**
53728750 AAAACAA-TCATTTTTTATCATATGTAGGGC
1 AAAA-AAGTCATTTACTA-CATA---AGGGC
* *
53728780 -AAAGAGTCATTCTACCACATAAGGGC
1 AAAAAAGTCATT-TACTACATAAGGGC
*
53728806 AAAATAGTCATTTTACTA-ATAAGGGC
1 AAAAAAGTCA-TTTACTACATAAGGGC
* *
53728832 AAAATAGTCATTTTACCACATAAGGGC
1 AAAAAAGTCA-TTTACTACATAAGGGC
*
53728859 TAAACAA-TCATTT
1 -AAAAAAGTCATTT
53728872 TATCAATTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
26 37 0.37
27 35 0.35
28 9 0.09
29 12 0.12
30 6 0.06
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (26 bp):
AAAAAAGTCATTTACTACATAAGGGC
Found at i:53728872 original size:27 final size:27
Alignment explanation
Indices: 53728775--53728873 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
53728765 TATCATATGT
* *
53728775 AGGGC-AAAGAGTCATTCTACCACATA
1 AGGGCAAAATAGTCATTTTACCACATA
*
53728801 AGGGCAAAATAGTCATTTTACTA-ATA
1 AGGGCAAAATAGTCATTTTACCACATA
53728827 AGGGCAAAATAGTCATTTTACCACATA
1 AGGGCAAAATAGTCATTTTACCACATA
* * *
53728854 AGGGCTAAACAATCATTTTA
1 AGGGCAAAATAGTCATTTTA
53728874 TCAATTTTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
26 30 0.47
27 34 0.53
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (27 bp):
AGGGCAAAATAGTCATTTTACCACATA
Found at i:53736462 original size:13 final size:13
Alignment explanation
Indices: 53736444--53736469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53736434 AGGATTTGTT
53736444 TTAACTAAACTAA
1 TTAACTAAACTAA
53736457 TTAACTAAACTAA
1 TTAACTAAACTAA
53736470 GAATGCACAA
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:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:53737290 original size:13 final size:13
Alignment explanation
Indices: 53737269--53737306 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
53737259 ACTCGATAGG
*
53737269 GACATGCCCGTGC
1 GACACGCCCGTGC
53737282 GACACGCCCGTGC
1 GACACGCCCGTGC
53737295 GACACGCCCGTG
1 GACACGCCCGTG
53737307 TGAGTTGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.42, G:0.32, T:0.11
Consensus pattern (13 bp):
GACACGCCCGTGC
Found at i:53737406 original size:48 final size:48
Alignment explanation
Indices: 53737295--53737407 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 48
53737285 ACGCCCGTGC
* *
53737295 GACACGCCCGTGTGAGTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
1 GACACGGCTGTGTG-GTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
* * *
53737344 GACACGGCTATGTGGTGTGGCTTAGGCTGTG-TTACAAG-CTGTTAAATA
1 GACACGGCTGTGTGGT-TGGCTTAGGCCGTGTTTA-AAGTCTGCTAAATA
53737392 GACACAGG-TGTGTGGT
1 GACAC-GGCTGTGTGGT
53737408 CTACCTGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
48 26 0.47
49 29 0.53
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (48 bp):
GACACGGCTGTGTGGTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
Found at i:53745557 original size:13 final size:13
Alignment explanation
Indices: 53745539--53745564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53745529 AGGATTTGTT
53745539 TTAACTAAACTAA
1 TTAACTAAACTAA
53745552 TTAACTAAACTAA
1 TTAACTAAACTAA
53745565 GAATGCACAA
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:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:53747896 original size:26 final size:27
Alignment explanation
Indices: 53747842--53747900 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
53747832 CAAAACAGTC
* * * *
53747842 ATTTTACCCTACAGGGGTATTTTGGTA
1 ATTTTACACTACAGAGGTATTTCGATA
53747869 ATTTTACACTACA-AGGTATTTCGATA
1 ATTTTACACTACAGAGGTATTTCGATA
53747895 ATTTTA
1 ATTTTA
53747901 TAAATTGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAGAGGTATTTCGATA
Found at i:53747969 original size:27 final size:27
Alignment explanation
Indices: 53747856--53748030 Score: 130
Period size: 27 Copynumber: 6.6 Consensus size: 27
53747846 TACCCTACAG
* *
53747856 GGGTATTTTGGTAATTTTAC-ACTAC-A
1 GGGTATTTCGGTAATTTTACAAAT-CTA
* * * *
53747882 AGGTATTTCGATAATTTTATAAAT-TGG
1 GGGTATTTCGGTAATTTTACAAATCT-A
* * * * *
53747909 GGGAATTTAGGTAATTTGATAAA-CCA
1 GGGTATTTCGGTAATTTTACAAATCTA
*
53747935 GAGGTATTTCGATAATTTTAC-AATCTA
1 G-GGTATTTCGGTAATTTTACAAATCTA
*
53747962 GGGATATTTTGGTAATTTTACAAAT-TA
1 GGG-TATTTCGGTAATTTTACAAATCTA
53747989 GGGTATTTCGGTAATTTTACAAATC-A
1 GGGTATTTCGGTAATTTTACAAATCTA
*
53748015 GGGGTATTTCAGTAAT
1 -GGGTATTTCGGTAAT
53748031 CTAAACAGTT
Statistics
Matches: 116, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
26 42 0.36
27 71 0.61
28 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCTA
Found at i:53748008 original size:53 final size:53
Alignment explanation
Indices: 53747854--53748023 Score: 159
Period size: 53 Copynumber: 3.2 Consensus size: 53
53747844 TTTACCCTAC
* * * *
53747854 AGGGGTATTTTGGTAATTTTAC-ACTACAAGGTATTTCGATAATTTTATAAAT-T
1 AGGGATATTTTGGTAATTTTACAAAT-CAGGGTATTTCGATAATTTTA-CAATCT
* * * * *
53747907 GGGGGA-ATTTAGGTAATTTGATAAACCAGAGGTATTTCGATAATTTTACAATCT
1 -AGGGATATTTTGGTAATTTTACAAATCAG-GGTATTTCGATAATTTTACAATCT
* *
53747961 AGGGATATTTTGGTAATTTTACAAATTAGGGTATTTCGGTAATTTTACAAATC-
1 AGGGATATTTTGGTAATTTTACAAATCAGGGTATTTCGATAATTTTAC-AATCT
*
53748014 AGGGGTATTT
1 AGGGATATTT
53748024 CAGTAATCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
53 49 0.52
54 45 0.48
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGATATTTTGGTAATTTTACAAATCAGGGTATTTCGATAATTTTACAATCT
Found at i:53748030 original size:53 final size:53
Alignment explanation
Indices: 53747882--53748030 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 53
53747872 TTACACTACA
* ** * *
53747882 AGGTATTTCGATAATTTTATAAATTGGGGGAATTTAGGTAATTTGATAAACCAG
1 AGGTATTTCGATAATTTTACAAATCAGGGGTATTTA-GTAATTTGACAAACCAG
* * * **
53747936 AGGTATTTCGATAATTTTAC-AATCTAGGGATATTTTGGTAATTTTACAAATTAG
1 AGGTATTTCGATAATTTTACAAATC-AGGGGTA-TTTAGTAATTTGACAAACCAG
*
53747990 -GGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAAT
1 AGGTATTTCGATAATTTTACAAATCAGGGGTATTT-AGTAAT
53748031 CTAAACAGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
52 3 0.04
53 32 0.41
54 40 0.51
55 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGTATTTCGATAATTTTACAAATCAGGGGTATTTAGTAATTTGACAAACCAG
Found at i:53751245 original size:39 final size:39
Alignment explanation
Indices: 53751191--53751316 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
53751181 TTCAGTGATG
*
53751191 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
53751230 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* ** *
53751269 TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
53751308 TATGTCCGG
1 TATATCCGG
53751317 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:53751343 original size:78 final size:78
Alignment explanation
Indices: 53751191--53751350 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 78
53751181 TTCAGTGATG
* * ** * ** *
53751191 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGTCCGCAAGC
*
53751256 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
53751269 TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAAG
1 TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGT-CCGCAAG
*
53751333 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
53751347 TATA
1 TATA
53751351 CCAAGTTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 5 0.07
78 63 0.93
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATATATCCGGACTTAAAGTCCGCAAGC
TATGAGCTGGAAT
Found at i:53753203 original size:24 final size:24
Alignment explanation
Indices: 53753175--53753241 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
53753165 TTCCTCAAAT
* *
53753175 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
53753199 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
* *
53753223 CACTCTATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
53753242 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:53756978 original size:15 final size:15
Alignment explanation
Indices: 53756958--53756988 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53756948 ACTTGAACTA
53756958 AGTTGTGTGATAAAT
1 AGTTGTGTGATAAAT
53756973 AGTTGTGTGATAAAT
1 AGTTGTGTGATAAAT
53756988 A
1 A
53756989 ATCTAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTTGTGTGATAAAT
Found at i:53757240 original size:40 final size:40
Alignment explanation
Indices: 53757196--53757357 Score: 204
Period size: 40 Copynumber: 4.0 Consensus size: 40
53757186 TGATACTTGA
* *
53757196 GGAATGTTATCTGGGCTTAAAGACCTGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
53757236 GGAAT-TGTATCTGGGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
*
53757276 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * *
53757316 AGAACTG-TATCCGGGCTTAAAGACCCGCAGGCTACGAGCT
1 GGAA-TGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
53757356 GG
1 GG
53757358 TATTATACTG
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.02
40 101 0.94
41 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:53757332 original size:80 final size:80
Alignment explanation
Indices: 53757196--53757349 Score: 254
Period size: 80 Copynumber: 1.9 Consensus size: 80
53757186 TGATACTTGA
* * * * * *
53757196 GGAATGTTATCTGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
53757261 CGCAGGCTATATGCT
66 CGCAGGCTATATGCT
53757276 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
53757341 CGCAGGCTA
66 CGCAGGCTA
53757350 CGAGCTGGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
CGCAGGCTATATGCT
Found at i:53758794 original size:20 final size:19
Alignment explanation
Indices: 53758748--53758794 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
53758738 GTAATTCATG
*
53758748 TTTAATTGCTGAATGGAGT
1 TTTAATTGATGAATGGAGT
*
53758767 TTTGAATTGATAGAATTGAGT
1 TTT-AATTGAT-GAATGGAGT
53758788 TTTAATT
1 TTTAATT
53758795 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTAATTGATGAATGGAGT
Found at i:53764258 original size:40 final size:40
Alignment explanation
Indices: 53764184--53764365 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
53764174 AACCCAAGTA
* *
53764184 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
53764223 CCTTCGGGTCTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53764263 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53764303 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53764343 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
53764366 CATTCGAATA
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.09
40 122 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53766494 original size:23 final size:22
Alignment explanation
Indices: 53766464--53766507 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
53766454 TCTCAATTCA
*
53766464 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
53766486 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
53766508 ATACGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:53780594 original size:19 final size:19
Alignment explanation
Indices: 53780570--53780607 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
53780560 ATGCATAGAA
53780570 GTGCTTTAGTTTAGGGTCG
1 GTGCTTTAGTTTAGGGTCG
53780589 GTGCTTTAGTTTAGGGTCG
1 GTGCTTTAGTTTAGGGTCG
53780608 ACCAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.37, T:0.42
Consensus pattern (19 bp):
GTGCTTTAGTTTAGGGTCG
Found at i:53784385 original size:41 final size:41
Alignment explanation
Indices: 53784328--53784407 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
53784318 ATTGCTCAGA
* *
53784328 GGATAGGTGCTGGAATTAATTAACAACACGTCAACAAAAAT
1 GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAAAT
*
53784369 GGATAGGTGTTAGAATTAATTAACAACACATCAACAAAA
1 GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAA
53784408 TATAACGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (41 bp):
GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAAAT
Found at i:53784601 original size:13 final size:13
Alignment explanation
Indices: 53784583--53784616 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
53784573 CATACATTTT
*
53784583 ATATTCATTTCTC
1 ATATTCAATTCTC
53784596 ATATTCAATTCTC
1 ATATTCAATTCTC
53784609 ATATTCAA
1 ATATTCAA
53784617 ACAAAAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTCAATTCTC
Found at i:53784996 original size:13 final size:13
Alignment explanation
Indices: 53784978--53785011 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
53784968 ACTAACTTGT
53784978 GCCACACGACCAA
1 GCCACACGACCAA
53784991 GCCACACGACCAA
1 GCCACACGACCAA
53785004 GCCACACG
1 GCCACACG
53785012 TCCGTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.47, G:0.18, T:0.00
Consensus pattern (13 bp):
GCCACACGACCAA
Found at i:53786905 original size:24 final size:24
Alignment explanation
Indices: 53786851--53786941 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
53786841 GACTCACCAA
* *
53786851 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTA-CTAT-TATC
53786877 AGCTCGTAAGAGCTTACTATTATC
1 AGCTCGTAAGAGCTTACTATTATC
* * * *
53786901 AGCTCATAAGAACTTACTGTTTTC
1 AGCTCGTAAGAGCTTACTATTATC
*
53786925 AGCTCGTTAGAGCTTAC
1 AGCTCGTAAGAGCTTAC
53786942 CGTTTCAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 38 0.68
25 3 0.05
26 15 0.27
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTATTATC
Found at i:53786937 original size:48 final size:47
Alignment explanation
Indices: 53786875--53786967 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
53786865 TACCGATATA
*
53786875 TCAGCTCGTAAGAGCTTACTATTATCAGCTC-ATAAGAACTTACTGTTT
1 TCAGCTCGTAAGAGCTTACCATT-TCAGCTCAAT-AGAACTTACTGTTT
* * *
53786923 TCAGCTCGTTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGTAAGAGCTTACCATTTCAGCTCAATAGAACTTACTGT
53786968 CCATTAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 18 0.45
48 22 0.55
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (47 bp):
TCAGCTCGTAAGAGCTTACCATTTCAGCTCAATAGAACTTACTGTTT
Found at i:53786946 original size:24 final size:24
Alignment explanation
Indices: 53786851--53786964 Score: 97
Period size: 24 Copynumber: 4.7 Consensus size: 24
53786841 GACTCACCAA
53786851 AGCTCG-TATGAGCTTACCGATATATC
1 AGCTCGTTA-GAGCTTACCG-T-TATC
* **
53786877 AGCTCGTAAGAGCTTACTATTATC
1 AGCTCGTTAGAGCTTACCGTTATC
* * * * *
53786901 AGCTCATAAGAACTTACTGTTTTC
1 AGCTCGTTAGAGCTTACCGTTATC
53786925 AGCTCGTTAGAGCTTACCGTT-TC
1 AGCTCGTTAGAGCTTACCGTTATC
**
53786948 AGCTCAATAGAGCTTAC
1 AGCTCGTTAGAGCTTAC
53786965 TGTCCATTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
23 17 0.23
24 41 0.55
25 1 0.01
26 14 0.19
27 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (24 bp):
AGCTCGTTAGAGCTTACCGTTATC
Found at i:53796287 original size:21 final size:21
Alignment explanation
Indices: 53796263--53796304 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53796253 TCATCAGATC
*
53796263 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
53796284 TACATGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
53796305 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:53799636 original size:27 final size:27
Alignment explanation
Indices: 53799595--53799767 Score: 175
Period size: 27 Copynumber: 6.4 Consensus size: 27
53799585 TGGATAAGTT
* *
53799595 GTAGAATTACCGAAATACCCCTATCGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
53799622 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
53799649 GTAGAATTACCGAAATACCCCTGTACG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
53799676 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
53799703 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** * * * *
53799730 ACAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
53799757 GCAAAATTACC
1 GTAGAATTACC
53799768 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:53799681 original size:54 final size:54
Alignment explanation
Indices: 53799595--53799767 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
53799585 TGGATAAGTT
* * *
53799595 GTAGAATTACCGAAATACCCCTAT-CGGGTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAC-GATAGAATTACTGAAATACCCTTGTAGG
*
53799649 GTAGAATTACCGAAATACCCCTGTACGATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
* * * * * *
53799703 GTAGAAATACCAAAATACCCCTATAGGACAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
* *
53799757 GCAAAATTACC
1 GTAGAATTACC
53799768 ATTTTGCCCC
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
54 103 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
Found at i:53806778 original size:38 final size:39
Alignment explanation
Indices: 53806679--53806805 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 39
53806669 TCGAATGATG
* * * *
53806679 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGACCGAAGGCATTTGTGC-GAGTTACTAAT
* *
53806717 ATCCGGACTAAGATCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTACTAAT
* *
53806757 TCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTACTAAT
*
53806795 TCCGGGTTAAG
1 TCCGGGCTAAG
53806806 TCCTGTGACA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
38 34 0.45
39 32 0.43
40 9 0.12
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:53809602 original size:49 final size:47
Alignment explanation
Indices: 53809512--53809783 Score: 375
Period size: 47 Copynumber: 5.7 Consensus size: 47
53809502 TTAGGATTCT
* * *
53809512 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
53809559 GTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
53809608 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
53809655 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
53809702 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGTCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
53809749 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53809784 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 161 0.78
49 44 0.21
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:53809956 original size:37 final size:37
Alignment explanation
Indices: 53809901--53809978 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53809891 CCGAGCTCTA
* * *
53809901 AAGA-CCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53809937 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53809974 AAGAC
1 AAGAC
53809979 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53811870 original size:43 final size:43
Alignment explanation
Indices: 53811822--53812010 Score: 378
Period size: 43 Copynumber: 4.4 Consensus size: 43
53811812 TTGGTTTTCA
53811822 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53811865 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53811908 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53811951 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53811994 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53812011 TTGAAATGCA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53812027 original size:29 final size:29
Alignment explanation
Indices: 53811992--53812065 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53811982 GTTGTGAGAT
* *
53811992 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53812021 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53812050 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53812066 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53812459 original size:40 final size:40
Alignment explanation
Indices: 53812377--53812505 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 40
53812367 TCGAATGATG
* *
53812377 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCTAAGTGACCAAA
* * *
53812416 TCCGGACTAAGATCCGAAGGCATTGGTGC-AAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCTAAGTGACCAAA
** * *
53812456 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
1 TCCGGGCTAAGT-CCGAAG-GCATTGGTGCTAAGTGACCAAA
53812496 TCCGGGCTAA
1 TCCGGGCTAA
53812506 ACCCCAAAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
39 11 0.15
40 46 0.61
41 18 0.24
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCTAAGTGACCAAA
Found at i:53812566 original size:39 final size:40
Alignment explanation
Indices: 53812455--53812570 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
53812445 AAGTTACTAA
* *
53812455 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGTGATAT
** * *
53812495 ATCCGGGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGTGATAT
* * *
53812535 ATCCGGGCTAGGTCCC-AAGAGTAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGTGA
53812571 CGTGTATTCG
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 16 0.25
40 47 0.75
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGTGATAT
Found at i:53816415 original size:47 final size:47
Alignment explanation
Indices: 53816364--53816682 Score: 478
Period size: 47 Copynumber: 6.7 Consensus size: 47
53816354 TTAGGATTCT
* * *
53816364 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
53816411 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
53816460 ATGTGATGAATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
53816507 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
53816554 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
53816601 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
53816648 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53816683 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 208 0.82
49 45 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:53816857 original size:37 final size:37
Alignment explanation
Indices: 53816801--53816879 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53816791 CCGAGCTCTA
* * *
53816801 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53816838 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53816875 AAGAC
1 AAGAC
53816880 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53822774 original size:28 final size:28
Alignment explanation
Indices: 53822709--53822890 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
53822699 CATGAGATTG
* * * *
53822709 GCACTAAGTGTACGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
53822738 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53822766 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53822794 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* * *
53822822 GCACTAACTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53822850 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53822877 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
53822891 GACTTAATAT
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 23 0.16
28 102 0.72
29 17 0.12
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53825333 original size:27 final size:27
Alignment explanation
Indices: 53825292--53825464 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
53825282 TGGATAAGTT
53825292 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
53825319 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
53825346 GTAGAATTACCGAAATAGCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
53825373 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
53825400 GTAGAAATATCGAAGTACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
53825427 GTAGAATTACC-AAGATACCCTTGTGGG
1 GTAGAATTACCGAA-ATACCCCTGTAGG
*
53825454 GTAAAATTACC
1 GTAGAATTACC
53825465 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 2 0.02
27 122 0.98
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:53826170 original size:26 final size:27
Alignment explanation
Indices: 53826141--53826200 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
53826131 CCACATATAT
* *
53826141 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGATGACCTAGCCACA
* * *
53826167 ATATTTGTATCTGATGACTTAGTCACA
1 ATATCTGTATCTGATGACCTAGCCACA
53826194 ATATCTG
1 ATATCTG
53826201 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGATGACCTAGCCACA
Found at i:53828325 original size:55 final size:54
Alignment explanation
Indices: 53828230--53828379 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
53828220 CTACTTTGTT
* ** * *
53828230 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
53828284 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
53828339 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
53828380 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:53828342 original size:27 final size:27
Alignment explanation
Indices: 53828202--53828379 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
53828192 TAAATTGTAC
53828202 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
53828229 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
53828255 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
53828283 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
53828311 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
53828338 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
53828365 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53828380 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:53828343 original size:82 final size:81
Alignment explanation
Indices: 53828203--53828358 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
53828193 AAATTGTACA
* * * *
53828203 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
53828268 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
53828284 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
53828347 TGTGCGAGTTGA
63 TGTGCGAATTGA
53828359 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:53845604 original size:55 final size:54
Alignment explanation
Indices: 53845509--53845658 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
53845499 CTACTTTGTT
* ** * *
53845509 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
53845563 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
53845618 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
53845659 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:53845621 original size:27 final size:27
Alignment explanation
Indices: 53845481--53845658 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
53845471 TAAATTGTAC
53845481 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
53845508 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
53845534 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
53845562 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
53845590 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
53845617 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
53845644 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53845659 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:53845622 original size:82 final size:81
Alignment explanation
Indices: 53845482--53845637 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
53845472 AAATTGTACA
* * * *
53845482 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
53845547 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
53845563 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
53845626 TGTGCGAGTTGA
63 TGTGCGAATTGA
53845638 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:53859845 original size:27 final size:26
Alignment explanation
Indices: 53859784--53859894 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
53859774 AGCATGGCTG
* *
53859784 CCAGAACAG-TAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
53859809 CCAGATACAGATAATCGTGGCAGACCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
53859837 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
53859864 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
53859891 CCAG
1 CCAG
53859895 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
25 5 0.07
26 5 0.07
27 49 0.65
28 16 0.21
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:53859892 original size:54 final size:53
Alignment explanation
Indices: 53859784--53859894 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 53
53859774 AGCATGGCTG
*
53859784 CCAGAACAGTAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGACCCA
1 CCAGAACAGTAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
* * * *
53859837 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAG-TA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
53859891 CCAG
1 CCAG
53859895 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 9 0.18
54 24 0.47
55 18 0.35
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (53 bp):
CCAGAACAGTAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
Found at i:53860062 original size:28 final size:26
Alignment explanation
Indices: 53860000--53860062 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
53859990 AAAGTAACCC
** *
53860000 TAGGGGTATAATGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
53860026 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
53860054 TAGGGGTAT
1 TAGGGGTAT
53860063 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 19 0.61
28 12 0.39
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:53866514 original size:19 final size:19
Alignment explanation
Indices: 53866486--53866523 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
53866476 GAGCGAGACT
*
53866486 TTGCTGCTTTAGTGGATAA
1 TTGCTACTTTAGTGGATAA
53866505 TTGCTACTTTAGTGGATAA
1 TTGCTACTTTAGTGGATAA
53866524 GGCGAAGATC
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:0.11, G:0.24, T:0.42
Consensus pattern (19 bp):
TTGCTACTTTAGTGGATAA
Found at i:53877014 original size:148 final size:148
Alignment explanation
Indices: 53876746--53877047 Score: 577
Period size: 148 Copynumber: 2.0 Consensus size: 148
53876736 ACAATATCAT
53876746 TTCATCCATCATGGTAAGAACACATAATTATGCTTCAGAAGCATGGACTCATAATCACAAGGTCA
1 TTCATCCATCATGGTAAGAACACATAATTATGCTTCAGAAGCATGGACTCATAATCACAAGGTCA
*
53876811 TCACAAAAGCATTCTCATGAACATTCTTACCACACAATTACAACATATCATGTTCTCTACTAGAG
66 TCACAAAAGCATTCTCATGAACACTCTTACCACACAATTACAACATATCATGTTCTCTACTAGAG
53876876 AGGTTACGCACATACCTG
131 AGGTTACGCACATACCTG
53876894 TTCATCCATCATGGTAAGAACACATAATTATGCTTCAGAAGCATGGACTCATAATCACAAGGTCA
1 TTCATCCATCATGGTAAGAACACATAATTATGCTTCAGAAGCATGGACTCATAATCACAAGGTCA
*
53876959 TCACAAAAGCATTCTCATGAACACTCTTACCACACAATTACAACATATCGTGTTCTCTACTAGAG
66 TCACAAAAGCATTCTCATGAACACTCTTACCACACAATTACAACATATCATGTTCTCTACTAGAG
*
53877024 AGGTTACGCACATACTTG
131 AGGTTACGCACATACCTG
53877042 TTCATC
1 TTCATC
53877048 GTACTCATTC
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 151 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (148 bp):
TTCATCCATCATGGTAAGAACACATAATTATGCTTCAGAAGCATGGACTCATAATCACAAGGTCA
TCACAAAAGCATTCTCATGAACACTCTTACCACACAATTACAACATATCATGTTCTCTACTAGAG
AGGTTACGCACATACCTG
Found at i:53877301 original size:47 final size:46
Alignment explanation
Indices: 53877183--53877311 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 46
53877173 TTTCACCCAT
* * * * * **
53877183 AATGAACTTGGAACGCAACTCAACGAGCTCGGGTGGTCACATCCAC
1 AATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCATCCAC
* * *
53877229 AATGATCTCGGAACACAACTCAACGAGTTTGGATGCTTGCATCCAT
1 AATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCATCCAC
* * *
53877275 AAGTGAACTCGGAATATAACTTAACGAGTTCGGATGC
1 AA-TGAACTCGGAACACAACTCAACGAGTTCGGATGC
53877312 CTCATAATTC
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
46 38 0.57
47 29 0.43
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (46 bp):
AATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCATCCAC
Found at i:53881105 original size:17 final size:17
Alignment explanation
Indices: 53881083--53881125 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
53881073 GAGATGATTT
*
53881083 GTGAATTGGTATGTTTA
1 GTGAATTGATATGTTTA
*
53881100 GTGAATTGATATGTTTG
1 GTGAATTGATATGTTTA
*
53881117 GGGAATTGA
1 GTGAATTGA
53881126 GCATAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.42
Consensus pattern (17 bp):
GTGAATTGATATGTTTA
Found at i:53885755 original size:33 final size:33
Alignment explanation
Indices: 53885718--53885784 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
53885708 CTAAGCCCGG
* *
53885718 ATCAGTAACAAT-TGGGCCTGAGCCCTATTCAGT
1 ATCAGT-ACAATCTCGGCCTGAGCCCTATACAGT
* *
53885751 ATCAGTACAGTCTCGGCCTTAGCCCTATACAGT
1 ATCAGTACAATCTCGGCCTGAGCCCTATACAGT
53885784 A
1 A
53885785 ATAGCGTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (33 bp):
ATCAGTACAATCTCGGCCTGAGCCCTATACAGT
Found at i:53888010 original size:44 final size:44
Alignment explanation
Indices: 53887960--53888080 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 44
53887950 TCAGGCCTCA
*
53887960 GCCTAGCAAGCTT-TAA-GTTGGTGA-ATAATATTATCGGGCTTCGG
1 GCCTAGCAAGCTTATAATGCTGGTGAGAT-A-A-TATCGGGCTTCGG
*
53888004 GCCTAGC-AGGTTATAATGCTGGTGAGATAATATCGGGCTTCGG
1 GCCTAGCAAGCTTATAATGCTGGTGAGATAATATCGGGCTTCGG
* * * *
53888047 GCCTAGCAGGC-TATAATGCCGGTGAAATGATATC
1 GCCTAGCAAGCTTATAATGCTGGTGAGATAATATC
53888081 ATGCTTCAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
43 44 0.67
44 12 0.18
45 8 0.12
46 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (44 bp):
GCCTAGCAAGCTTATAATGCTGGTGAGATAATATCGGGCTTCGG
Found at i:53888041 original size:43 final size:43
Alignment explanation
Indices: 53887986--53888114 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
53887976 GTTGGTGAAT
* * *
53887986 AATATTATCGGGCTTCGGGCCTAGCAGGTTATAATGCTGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
*
53888029 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* ** ** * *
53888072 AATGATATCATGCTTCAAGTCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
53888114 A
1 A
53888115 TGAGTTCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 12 0.16
43 62 0.84
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Done.