Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 134 of 222
Found at i:43589403 original size:15 final size:14
Alignment explanation
Indices: 43589384--43589410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43589374 ATGTAATAGA
43589384 AAAAAATTTTTCCC
1 AAAAAATTTTTCCC
43589398 AAAAAATTTTTCC
1 AAAAAATTTTTCC
43589411 TTGTATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAATTTTTCCC
Found at i:43590313 original size:15 final size:15
Alignment explanation
Indices: 43590293--43590323 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43590283 ATGATTAAAA
43590293 TGTAAGTATTCATGT
1 TGTAAGTATTCATGT
*
43590308 TGTAAGTATTTATGT
1 TGTAAGTATTCATGT
43590323 T
1 T
43590324 ATCTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TGTAAGTATTCATGT
Found at i:43590896 original size:23 final size:22
Alignment explanation
Indices: 43590868--43591186 Score: 96
Period size: 23 Copynumber: 14.0 Consensus size: 22
43590858 TTTATCATTG
43590868 TAATTGAGGTGTATAAATGTTGT
1 TAATTGAGGTGT-TAAATGTTGT
43590891 TAATTG-GGATGTTAAAGTGTTG-
1 TAATTGAGG-TGTTAAA-TGTTGT
43590913 TAAGTTGAGGTGTTTAAATGTTGT
1 TAA-TTGAGGTG-TTAAATGTTGT
* * * *
43590937 AAATTGAAGTGTTTAATTGCTGT
1 TAATTGAGGTG-TTAAATGTTGT
* * * *
43590960 AAATGGAGGTGCTCAAATGATGT
1 TAATTGAGGTG-TTAAATGTTGT
* * * ****
43590983 AAATTGAAGTGTTTAAGTGCAAC
1 TAATTGAGGTG-TTAAATGTTGT
* ** *
43591006 AAATTGAATTGTT-TA-GTTGCT
1 TAATTGAGGTGTTAAATGTTG-T
* * * *
43591027 AGAATTTGAGATGTT-TATCGCTG-
1 -TAA-TTGAGGTGTTAAAT-GTTGT
43591050 TAATTGAGGTGTATAAATGTTGT
1 TAATTGAGGTGT-TAAATGTTGT
43591073 TAATTG-GGATGTTAAAGTGTTG-
1 TAATTGAGG-TGTTAAA-TGTTGT
*
43591095 TAAGTTGAGGTGTTTAATTGTTGT
1 TAA-TTGAGGTG-TTAAATGTTGT
* * * *
43591119 AAATTGAAGTGTTTAATTTCTGT
1 TAATTGAGGTGTTAAATGT-TGT
* * *
43591142 AAATTGAGGTGTTCAACTGATGT
1 TAATTGAGGTGTT-AAATGTTGT
* * *
43591165 AAATTGAAGTGTTTAAGTGTTG
1 TAATTGAGGTG-TTAAATGTTG
43591187 GAAACTATGT
Statistics
Matches: 225, Mismatches: 48, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.00
21 8 0.04
22 33 0.15
23 159 0.71
24 21 0.09
25 3 0.01
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (22 bp):
TAATTGAGGTGTTAAATGTTGT
Found at i:43591119 original size:182 final size:182
Alignment explanation
Indices: 43590833--43591183 Score: 614
Period size: 182 Copynumber: 1.9 Consensus size: 182
43590823 CAATTTAAAG
*
43590833 TGTTTAGTTGCTGAAAATTGAGATGTTTATCATTGTAATTGAGGTGTATAAATGTTGTTAATTGG
1 TGTTTAGTTGCTGAAAATTGAGATGTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGG
43590898 GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTAAA
66 GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTAAA
43590963 TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
131 TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
* *
43591015 TGTTTAGTTGCT-AGAATTTGAGATGTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTG
1 TGTTTAGTTGCTGA-AAATTGAGATGTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAATTG
* *
43591079 GGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAATTGTTGTAAATTGAAGTGTTTAATTTCTGTAA
65 GGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTAA
* * *
43591144 ATTGAGGTGTTCAACTGATGTAAATTGAAGTGTTTAAGTG
130 ATGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTG
43591184 TTGGAAACTA
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 1 0.01
182 159 0.99
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (182 bp):
TGTTTAGTTGCTGAAAATTGAGATGTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGG
GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTAAA
TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
Found at i:43591171 original size:46 final size:46
Alignment explanation
Indices: 43590869--43591180 Score: 244
Period size: 46 Copynumber: 6.8 Consensus size: 46
43590859 TTATCATTGT
* * * * * *
43590869 AATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAG-TGTTTAATTGCTGTA
*
43590915 AGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
* * * * * ***
43590961 AATGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
** *
43591007 AATTGAATTGTTT--A-GTTGCTAGAATTTG-AGATGTTT-ATCGCTGT-
1 AATTGAGGTGTTTAAATGTTG-TA-AA-TTGAAG-TGTTTAATTGCTGTA
* * * * * *
43591051 AATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAG-TGTTTAATTGCTGTA
* * *
43591097 AGTTGAGGTGTTTAATTGTTGTAAATTGAAGTGTTTAATTTCTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
* * *
43591143 AATTGAGGTGTTCAACTGATGTAAATTGAAGTGTTTAA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAA
43591181 GTGTTGGAAA
Statistics
Matches: 206, Mismatches: 49, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
43 3 0.01
44 22 0.11
45 14 0.07
46 161 0.78
47 6 0.03
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.41
Consensus pattern (46 bp):
AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
Found at i:43592170 original size:36 final size:36
Alignment explanation
Indices: 43592123--43592194 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
43592113 GGCAGAGCCA
43592123 ATTACAGCTAATTCTACAGACCCAAGGTGGAAATGG
1 ATTACAGCTAATTCTACAGACCCAAGGTGGAAATGG
43592159 ATTACAGCTAATTCTACAGACCCAAGGTGGAAATGG
1 ATTACAGCTAATTCTACAGACCCAAGGTGGAAATGG
43592195 TTCAAGGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (36 bp):
ATTACAGCTAATTCTACAGACCCAAGGTGGAAATGG
Found at i:43594772 original size:55 final size:54
Alignment explanation
Indices: 43594682--43594829 Score: 163
Period size: 55 Copynumber: 2.6 Consensus size: 54
43594672 TTTTTATAGT
* * * *
43594682 ATTATATATTATAATTT-TTTAATTCATATAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATAT-TTAATAATTATATTAA-AATATGATTAA
* *
43594740 ATTATATATTATTTTATTAAATTATATTTAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATTATATTAAAATATGATTAA
* *
43594794 ATTATTTATTATTTTTATTAAATTATTTTTAATAAT
1 ATTATATATTA-TTTTATTAAATTATATTTAATAAT
43594830 AACCTTATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
54 18 0.22
55 37 0.46
56 7 0.09
57 6 0.08
58 12 0.15
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (54 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATTATATTAAAATATGATTAA
Found at i:43596014 original size:22 final size:22
Alignment explanation
Indices: 43595988--43596035 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43595978 TTTTTCTTTT
* *
43595988 ATTTAATTGGTTT-TTATGTTCA
1 ATTTAATTGATTTATTA-GATCA
43596010 ATTTAATTGATTTATTAGATCA
1 ATTTAATTGATTTATTAGATCA
43596032 ATTT
1 ATTT
43596036 TTTATTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.56
Consensus pattern (22 bp):
ATTTAATTGATTTATTAGATCA
Found at i:43598598 original size:21 final size:21
Alignment explanation
Indices: 43598572--43598633 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
43598562 CGGGTGGATC
43598572 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTT
*
43598593 AGCTCTTTTGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTT
43598614 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
43598634 GGTGTGTTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTT
Found at i:43599211 original size:79 final size:79
Alignment explanation
Indices: 43599125--43599286 Score: 315
Period size: 79 Copynumber: 2.1 Consensus size: 79
43599115 ATGTAATATG
*
43599125 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTGCGTATGTTATGGTTG
1 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
43599190 AACTTACCTATGTT
66 AACTTACCTATGTT
43599204 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
1 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
43599269 AACTTACCTATGTT
66 AACTTACCTATGTT
43599283 ATGA
1 ATGA
43599287 CTAAATATAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (79 bp):
ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
AACTTACCTATGTT
Found at i:43605347 original size:30 final size:29
Alignment explanation
Indices: 43605308--43605374 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
43605298 ACCAATAAAA
*
43605308 GCCGTTTTTTTTCAA-ATTTTACCGAAATGG
1 GCCGATTTTTTT-AATA-TTTACCGAAATGG
* *
43605338 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAATATTTACCGAAATGG
43605367 GCC-ATTTT
1 GCCGATTTT
43605375 CCGCGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.15
29 16 0.48
30 12 0.36
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (29 bp):
GCCGATTTTTTTAATATTTACCGAAATGG
Found at i:43616707 original size:21 final size:21
Alignment explanation
Indices: 43616663--43616707 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
43616653 TAATTATATT
* *
43616663 AATTATATATGCTAAATAATA
1 AATTATATATACTAAATAACA
* *
43616684 AATTATATATATTAAATCACA
1 AATTATATATACTAAATAACA
43616705 AAT
1 AAT
43616708 CCAATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTATATATACTAAATAACA
Found at i:43619273 original size:18 final size:17
Alignment explanation
Indices: 43619241--43619274 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43619231 CAACCGCAAT
*
43619241 AAACGCAATGCGACCGA
1 AAACGCAACGCGACCGA
43619258 AAACGCAACCGCGACCG
1 AAACGCAA-CGCGACCG
43619275 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.35, G:0.24, T:0.03
Consensus pattern (17 bp):
AAACGCAACGCGACCGA
Found at i:43619753 original size:30 final size:31
Alignment explanation
Indices: 43619718--43619778 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
43619708 TTTATATCTA
*
43619718 TATAATTTTTAAA-AAATTAAATTA-AATTTT
1 TATAA-TTTTAAAGAAATTAAAATATAATTTT
*
43619748 TATAATTTTAAAGTAATTAAAATATAATTTT
1 TATAATTTTAAAGAAATTAAAATATAATTTT
43619779 ATTTTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 7 0.26
30 14 0.52
31 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
TATAATTTTAAAGAAATTAAAATATAATTTT
Found at i:43624662 original size:27 final size:27
Alignment explanation
Indices: 43624631--43624682 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
43624621 CCTTTAAACA
*
43624631 TTATTTTATGTTTCCTCGACTTAAATG
1 TTATTTTATGTTTCCTCAACTTAAATG
43624658 TTATTTTATGTTTCCTCAACTTAAA
1 TTATTTTATGTTTCCTCAACTTAAA
43624683 GATTTTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (27 bp):
TTATTTTATGTTTCCTCAACTTAAATG
Found at i:43625333 original size:25 final size:25
Alignment explanation
Indices: 43625305--43625369 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
43625295 GCCTTCCCCA
43625305 ATAATATGCCACATAGGTCTTTC-AG
1 ATAATATGCCACATAGG-CTTTCTAG
* * *
43625330 ATAACT-CGCCATAAAGGCTTTCTAG
1 ATAA-TATGCCACATAGGCTTTCTAG
*
43625355 ACAATATGCCACATA
1 ATAATATGCCACATA
43625370 TTTCTTTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.20
25 23 0.77
26 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (25 bp):
ATAATATGCCACATAGGCTTTCTAG
Found at i:43625670 original size:24 final size:24
Alignment explanation
Indices: 43625605--43625670 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
43625595 TTTTCTCGTC
*
43625605 TTTATTGTCCCAATA-GACCTCATG
1 TTTACTGTCCCAA-AGGACCTCATG
* **
43625629 TTTACTGTACCAGTGGACCTCATG
1 TTTACTGTCCCAAAGGACCTCATG
43625653 TTTAC-GATCCCAAAGGAC
1 TTTACTG-TCCCAAAGGAC
43625671 TACATTTTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (24 bp):
TTTACTGTCCCAAAGGACCTCATG
Found at i:43627480 original size:72 final size:72
Alignment explanation
Indices: 43627350--43627519 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 72
43627340 CAAGATGTGT
* ** * * * * *
43627350 TGTGGATTCTCTGAAGCTTGTGTGATTAGCTTTAAATCATTCTTTATCAATGGTTTGAGA-TCAA
1 TGTGGATTCTCTAAAGCTTGTGTGAGCAACATTAAATCATTCTCTACCAATGGCTTGAGATTC-A
43627414 GCACATGA
65 GCACATGA
** *
43627422 TGTGGATTCTCTAAAGCTTGTGTGAGCAACATTAAATTGTTCTCTACCGATGGCTTGAGATTCAG
1 TGTGGATTCTCTAAAGCTTGTGTGAGCAACATTAAATCATTCTCTACCAATGGCTTGAGATTCAG
* *
43627487 CACGTGT
66 CACATGA
*
43627494 TGTGAATTCTCTAAAGCTTGTGTGAG
1 TGTGGATTCTCTAAAGCTTGTGTGAG
43627520 TAGCCCAAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 81 0.98
73 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (72 bp):
TGTGGATTCTCTAAAGCTTGTGTGAGCAACATTAAATCATTCTCTACCAATGGCTTGAGATTCAG
CACATGA
Found at i:43639493 original size:25 final size:25
Alignment explanation
Indices: 43639420--43639483 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
43639410 GATTTCTAAA
* * *
43639420 ACTATTATTGATAGTATATCCTG-G
1 ACTACTATAGATAGTATATACTGAG
*
43639444 AACTACTATAGGTAGTATATACTGAG
1 -ACTACTATAGATAGTATATACTGAG
43639470 ACTACTATAGATAG
1 ACTACTATAGATAG
43639484 ACTGTACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (25 bp):
ACTACTATAGATAGTATATACTGAG
Found at i:43646058 original size:469 final size:467
Alignment explanation
Indices: 43644961--43646362 Score: 2274
Period size: 469 Copynumber: 3.0 Consensus size: 467
43644951 TGCCGCAACT
43644961 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTCGTCTCTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTC--CTCTTGTCTTTTGTTTCT
* * ** *
43645026 TGGTTGGTGACTAAGGGGATTGTTGTACTTATGGTAGGCGAAAGACAGTGATTAGTTTTTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
43645091 TGCTGAGGTTGGAGCGTTGAA-GACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCG
129 TGCTGAGGTTGGAGCGTT-AAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCG
* * *
43645155 CCTTCAAAACGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTCTG
193 CCTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTG
* *
43645220 GTTTTTAAATAAGTAATTAGGGACCCTTTTGTTAACTGTGATGACAGTTGAAAGTCTGGAGTGAA
258 GTTTTTAAATAAGTAATTGGGGA-CCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAA
* *
43645285 GGGCTGGGCTGGTACTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGGGAT
322 GGGCTGGGCTGGTGCTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGAT
* * *
43645350 TGCTTTGGAAGTACATTCAGCTTTGTGTTGTTGTGCTAATCATGACTTGAGATTAAC----AAGT
387 TGATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGT
*
43645411 TGAAGTGTTCAATTCC
452 TGAAATGTTCAATTCC
* * * * *
43645427 CGTAATTCCCATTTTGTTGTTGTGCGTTCGATAAGTAATGTTTTTGCTTTTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATG-TTTT-CCTCTTGTCTTTTGTTTCT
43645492 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
** *
43645557 TATTGAGGTTGGAGTGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
129 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
* *
43645622 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAATATTATTAATGGTGTTTTAAATGTTTGA
194 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGG
*
43645687 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACAGTGATGACAGCTGAAAGTCTGGAGTGAAGG
259 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGG
43645752 GCTGGGCTGGTGCTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTG
324 GCTGGGCTGGTGCTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTG
*
43645817 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTACTAATCATGAGTTGAGATTAACAATTAAGTTG
389 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTG
*
43645882 AAATGCTCAATTCC
454 AAATGTTCAATTCC
*
43645896 CGTCATTCCTGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTCTACCTCTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTT-T-CCTCTTGTCTTTTGTTTCT
* *
43645961 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCTAAAGGTAGTGATCGGTTTGTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
* * *
43646026 TGCTGAGGTTGGAGCGTTAAGGATAATGTTTATCGTTTGTAAGTGAATCATGCGTATTGAATCGC
129 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
* * * * * *
43646091 CTTCGGAATAGGGGTCTTACTTAAATCATTGATTTAAGATTATTAATGGTATTTTAAATATTCGG
194 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGG
*
43646156 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAATTCTGGAGTGAAGG
259 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGG
* *
43646221 GCTGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGTGGTTTATAAGGTAGGTATCATGCGATTG
324 GCTGGGCTGGTGCTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTG
* * *
43646286 ATTTGGGAGTACATTCGGCTTTGTGTTGTTGTGGTAATCATGAGTTGAGATTAACAATTAGGTTG
389 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTG
43646351 AAATGTTCAATT
454 AAATGTTCAATT
43646363 GTAGGTATTA
Statistics
Matches: 867, Mismatches: 61, Indels: 13
0.92 0.06 0.01
Matches are distributed among these distances:
465 157 0.18
466 253 0.29
467 4 0.00
468 4 0.00
469 449 0.52
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (467 bp):
CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTCCTCTTGTCTTTTGTTTCTTG
GTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTACTG
CTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGCCT
TCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGGTT
TTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGGGC
TGGGCTGGTGCTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTGAT
TTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTGAA
ATGTTCAATTCC
Found at i:43647557 original size:28 final size:27
Alignment explanation
Indices: 43647516--43647568 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
43647506 ACGCCATCTA
* *
43647516 TTTTAAAAGCTTTCGCATAGATTAATCG
1 TTTTAAAAGATTTCGAATA-ATTAATCG
*
43647544 TTTTGAAAGATTTCGAATAATTAAT
1 TTTTAAAAGATTTCGAATAATTAAT
43647569 TAACACAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (27 bp):
TTTTAAAAGATTTCGAATAATTAATCG
Found at i:43650206 original size:12 final size:12
Alignment explanation
Indices: 43650191--43650219 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
43650181 GAAAAAAAGC
43650191 AAAAACCGCAAA
1 AAAAACCGCAAA
43650203 AAAAACCGCAAA
1 AAAAACCGCAAA
43650215 AAAAA
1 AAAAA
43650220 GTTGCCTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.21, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAACCGCAAA
Found at i:43656407 original size:19 final size:20
Alignment explanation
Indices: 43656371--43656413 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
43656361 AAATGAAAAG
43656371 TGAAATGTGGAATGGAAC-A
1 TGAAATGTGGAATGGAACTA
*
43656390 TGAAATGGTGG-ATTGAACTA
1 TGAAAT-GTGGAATGGAACTA
43656410 TGAA
1 TGAA
43656414 TATTGATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAAATGTGGAATGGAACTA
Found at i:43663427 original size:13 final size:13
Alignment explanation
Indices: 43663411--43663455 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
43663401 GGGGGTAGGA
43663411 TTCTGTATATCTG
1 TTCTGTATATCTG
*
43663424 TTCTGCATATCTG
1 TTCTGTATATCTG
43663437 ATTCTGT-TATCTG
1 -TTCTGTATATCTG
43663450 TATCTG
1 T-TCTG
43663456 ATTGTATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 5 0.18
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.51
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:43665757 original size:50 final size:50
Alignment explanation
Indices: 43665633--43665871 Score: 223
Period size: 50 Copynumber: 4.7 Consensus size: 50
43665623 GATAATAACA
* * * *
43665633 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATTTTTCTTGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--CTTCTCGTATCGG
* * *
43665682 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCGTATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCGTATCGG
* * * * *
43665732 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCGTATCGG
* * * **
43665782 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCGT-A--TC---GG
*
43665838 TGCCAATGCCATGTCCCAGACTTGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
43665872 AGATCTCTTT
Statistics
Matches: 159, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
47 7 0.04
48 1 0.01
49 33 0.21
50 84 0.53
53 2 0.01
56 32 0.20
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCGTATCGG
Found at i:43675046 original size:26 final size:26
Alignment explanation
Indices: 43674967--43675079 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
43674957 GGTATAACAG
* *
43674967 TCATTTTACCTTATGGGGTTATTT-TA
1 TCATTTTACCCTATGGGG-TATTTCGA
43674993 GTCATTTTACCCTATGAGGGTATTTCGA
1 -TCATTTTACCCTATG-GGGTATTTCGA
* *
43675021 TCATTCTACCCTCTGGGGTATTTCGA
1 TCATTTTACCCTATGGGGTATTTCGA
* *
43675047 TCGTTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
43675074 TCATTT
1 TCATTT
43675080 ATCGATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.30
27 48 0.65
28 4 0.05
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:43677124 original size:50 final size:50
Alignment explanation
Indices: 43677000--43677245 Score: 221
Period size: 49 Copynumber: 4.8 Consensus size: 50
43676990 GATAATAACA
* ** * * *
43677000 TGCCAAAT-CCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
43677049 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
43677099 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
43677148 TGGCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
43677204 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43677246 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 27, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
48 4 0.03
49 76 0.47
50 40 0.25
53 2 0.01
56 38 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:43678538 original size:12 final size:12
Alignment explanation
Indices: 43678521--43678562 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
43678511 ATCCTAAAAT
43678521 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
43678533 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
43678545 TCCCTCCTCAAA
1 TCTCTCCTCAAA
43678557 TCTCTC
1 TCTCTC
43678563 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:43689348 original size:101 final size:102
Alignment explanation
Indices: 43689233--43689417 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
43689223 AAAGTGATGG
*
43689233 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGCAGT
43689296 ACTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
* *
43689334 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
*
43689399 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
43689418 TGAACTGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
Found at i:43689363 original size:51 final size:49
Alignment explanation
Indices: 43689230--43689415 Score: 212
Period size: 51 Copynumber: 3.7 Consensus size: 49
43689220 GTGAAAGTGA
* *
43689230 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAT--T
* * *
43689280 AGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAACTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-A-TT
* * * *
43689331 TGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-T-T
* *
43689382 TGGTCACATGTGCAGTACTATGTGTAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
43689416 TGTGAACTGG
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 42 0.37
51 71 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATT
Found at i:43691694 original size:44 final size:44
Alignment explanation
Indices: 43691642--43691749 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
43691632 GGTATACAGT
* * *
43691642 GTAAGACCATAGAT-ATAAGATGAAATGACAGCTAGGTATGATAA
1 GTAAGACCATAGATGA-AAGATGAAAAGACAGCCAAGTATGATAA
* *
43691686 GTAAGACCATGGATGAAAGATGAAAAGACAGCCAAGTATGATGA
1 GTAAGACCATAGATGAAAGATGAAAAGACAGCCAAGTATGATAA
*
43691730 GTAAGACCATGGATGAAAGA
1 GTAAGACCATAGATGAAAGA
43691750 CTCCATAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (44 bp):
GTAAGACCATAGATGAAAGATGAAAAGACAGCCAAGTATGATAA
Found at i:43691821 original size:33 final size:33
Alignment explanation
Indices: 43691767--43691872 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
43691757 GCATCCACAA
* *
43691767 AGATAG-CCTGCTAGGATAGTAAA-AGCAAAATAG
1 AGATAGTCC-GCTAGGACAGTAAACA-CAAAACAG
*
43691800 AGATAGTCCGCTGGGACAGTAAACACAAAACAG
1 AGATAGTCCGCTAGGACAGTAAACACAAAACAG
* * * * * *
43691833 AGATAGTCCACTTGGACTGTAAACATAGAACAA
1 AGATAGTCCGCTAGGACAGTAAACACAAAACAG
43691866 AGATAGT
1 AGATAGT
43691873 TTATCAGGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
33 59 0.95
34 3 0.05
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (33 bp):
AGATAGTCCGCTAGGACAGTAAACACAAAACAG
Found at i:43697240 original size:51 final size:50
Alignment explanation
Indices: 43697111--43697298 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 50
43697101 TATCATTCGA
* * * *
43697111 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAAATTTTTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACTTCTGG
* * *
43697161 TTCACGTAGTAGCTTGCACATAGTACTACACACATGACCAAAACCTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAA-CTTCTGG
* * * * *
43697212 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATC-GA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AAACT-TCTGG
* *
43697263 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
43697299 TTTATAGGCA
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
50 38 0.33
51 75 0.65
52 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACTTCTGG
Found at i:43704966 original size:29 final size:27
Alignment explanation
Indices: 43704891--43704972 Score: 96
Period size: 26 Copynumber: 3.0 Consensus size: 27
43704881 ACCAATTTCT
43704891 GTAAAAGTGAGCCTTTGTGGCTATCTC
1 GTAAAAGTGAGCCTTTGTGGCTATCTC
*
43704918 -TGAAAG-GACGCCTTTGTGGCTATCTC
1 GTAAAAGTGA-GCCTTTGTGGCTATCTC
* *
43704944 AAGTAAAAGTGAGTCTTCGTGGCTATCTC
1 --GTAAAAGTGAGCCTTTGTGGCTATCTC
43704973 TATTAAAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 2 0.04
26 22 0.48
29 20 0.43
30 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (27 bp):
GTAAAAGTGAGCCTTTGTGGCTATCTC
Found at i:43713845 original size:23 final size:23
Alignment explanation
Indices: 43713817--43713860 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43713807 CTTTCTTACT
* *
43713817 GTAGTAATTTTTGGGGTATTATA
1 GTAGTAATTTTCGGGATATTATA
43713840 GTAGTAATTTTCGGGATATTA
1 GTAGTAATTTTCGGGATATTA
43713861 CAAGTACAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTATA
Found at i:43714057 original size:42 final size:42
Alignment explanation
Indices: 43713987--43714125 Score: 172
Period size: 42 Copynumber: 3.3 Consensus size: 42
43713977 AGTTAACTCA
* * *
43713987 TATGAGTTTCAGTTTAACCCTAATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * *
43714029 TTTGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * *
43714071 TATGAGCTT-TCGTTTAACACTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCT-GTTTAACCCTTATGGGTTTCCGTTTAGCTCT
*
43714113 TATGTGCTTCTGT
1 TATGAGCTTCTGT
43714126 GCAACCTTCG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 80 0.98
43 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:43714106 original size:21 final size:21
Alignment explanation
Indices: 43713987--43714125 Score: 84
Period size: 21 Copynumber: 6.6 Consensus size: 21
43713977 AGTTAACTCA
* * *
43713987 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCTGTTTAACACT
* * * *
43714008 AATGGGTTTCCGTTTAGCTCT
1 TATGGGTTTCTGTTTAACACT
* * * *
43714029 TTTGAGCTTCTGTTTAACCCT
1 TATGGGTTTCTGTTTAACACT
* * *
43714050 TATGGGTTT-TCGTTCAGCTCT
1 TATGGGTTTCT-GTTTAACACT
*
43714071 TATGAGCTTTC-GTTTAACACT
1 TATG-GGTTTCTGTTTAACACT
*
43714092 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTTAACACT
* *
43714113 TATGTGCTTCTGT
1 TATGGGTTTCTGT
43714126 GCAACCTTCG
Statistics
Matches: 88, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
20 6 0.07
21 78 0.89
22 4 0.05
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (21 bp):
TATGGGTTTCTGTTTAACACT
Found at i:43716393 original size:50 final size:50
Alignment explanation
Indices: 43716284--43716582 Score: 232
Period size: 50 Copynumber: 5.9 Consensus size: 50
43716274 ACATTAAGAG
* *
43716284 GATGAGA--TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
43716335 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * ** **
43716388 GATGAGAGGTCACATGTAAGACAATGTCTGGGACATGGTGTTGGCACTAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
43716438 GATGAGAGGTCTCCCA--TATGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGG--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * * * *
43716488 TATGAGAACTCTCATGTAAGACCATATTTGGGATATGGGATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * * *
43716537 CAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43716583 TGTTATATTC
Statistics
Matches: 198, Mismatches: 40, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
48 4 0.02
49 34 0.17
50 109 0.55
51 1 0.01
52 4 0.02
53 3 0.02
54 6 0.03
55 1 0.01
56 36 0.18
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:43719596 original size:19 final size:20
Alignment explanation
Indices: 43719572--43719634 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
43719562 CTTGCATTAA
43719572 ATGTC-TGCATCTTTAAAAC
1 ATGTCTTGCATCTTTAAAAC
*
43719591 ATGTCTTGCA---TT---AT
1 ATGTCTTGCATCTTTAAAAC
43719605 ATGTC-TGCATCTTTAAAAC
1 ATGTCTTGCATCTTTAAAAC
43719624 ATGTCTTGCAT
1 ATGTCTTGCAT
43719635 TAAGAGTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
16 2 0.06
17 2 0.06
19 11 0.32
20 9 0.26
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTCTTGCATCTTTAAAAC
Found at i:43719598 original size:33 final size:33
Alignment explanation
Indices: 43719561--43719637 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
43719551 TTTAATTATA
43719561 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
*
43719594 TCTTGCATTATATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
43719627 TCTTGCATTAA
1 TCTTGCATTAA
43719638 GAGTTTGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (33 bp):
TCTTGCATTAAATGTCTGCATCTTTAAAACATG
Found at i:43719647 original size:33 final size:32
Alignment explanation
Indices: 43719561--43719647 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 32
43719551 TTTAATTATA
43719561 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAA-GTCTGCATCTTTAAAACATG
*
43719594 TCTTGCATTATATGTCTGCATCTTTAAAACATG
1 TCTTGCATTA-AAGTCTGCATCTTTAAAACATG
*
43719627 TCTTGCATTAAGAGTTTGCAT
1 TCTTGCATTAA-AGTCTGCAT
43719648 TTAACTAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 1 0.02
33 47 0.96
34 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (32 bp):
TCTTGCATTAAAGTCTGCATCTTTAAAACATG
Found at i:43719731 original size:16 final size:18
Alignment explanation
Indices: 43719699--43719733 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43719689 ATTATGAGTT
43719699 TGTGTCATATAAGTTAAG
1 TGTGTCATATAAGTTAAG
43719717 TGTGTCAT-TAA-TTAAG
1 TGTGTCATATAAGTTAAG
43719733 T
1 T
43719734 TTTATTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (18 bp):
TGTGTCATATAAGTTAAG
Found at i:43733176 original size:5 final size:5
Alignment explanation
Indices: 43733166--43733200 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
43733156 TTTACCTTGA
* *
43733166 TATTC TATTC TATTC TATTC TATTA TATTA TATTC
1 TATTC TATTC TATTC TATTC TATTC TATTC TATTC
43733201 ACTGAAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTC
Found at i:43735442 original size:26 final size:25
Alignment explanation
Indices: 43735413--43735478 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
43735403 TAATAATGGC
43735413 ATAATATGCATAATAAAATATAAAAT
1 ATAATATGCATAATAAAAT-TAAAAT
**
43735439 ATAATA-GCAATAAT-AAATTATGAT
1 ATAATATGC-ATAATAAAATTAAAAT
43735463 ACTAATATGCATAATA
1 A-TAATATGCATAATA
43735479 GAACAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.15
25 16 0.47
26 13 0.38
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (25 bp):
ATAATATGCATAATAAAATTAAAAT
Found at i:43735609 original size:17 final size:17
Alignment explanation
Indices: 43735583--43735619 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
43735573 TAATAATAAC
*
43735583 AATAATA-AAAGATA-A
1 AATAATATAAAAATATA
43735598 AATAATATAAAAATATA
1 AATAATATAAAAATATA
43735615 AATAA
1 AATAA
43735620 AAGGAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAATATAAAAATATA
Found at i:43737397 original size:44 final size:44
Alignment explanation
Indices: 43737330--43737823 Score: 325
Period size: 44 Copynumber: 11.0 Consensus size: 44
43737320 AGGGATTGCC
* * * * *
43737330 GCTTTAATCTACTCCGCTTCAACTTCAAGGAGATAAGATTAGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
*
43737374 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* ** * * * * ***
43737418 ACTTGTAGCTGTTCCACTGCAACTTCAGGGAAATAAGAAGATTCACA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT---AAGATTTGTA
* * *
43737465 CCTTCAATCTGCTCCACTGTAACTT-AAGGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAA-GGAGATAAGATTTGTA
* * *
43737509 GCTTTAGAT-TGCCCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTGTA
1 GCTTCA-ATCTGCTCCACTGCAACTTCAAGGAGATAAGA----T---TTGTA
* ** * * *
43737560 GCTTTAATCTATTCCACTACAACTTCAGAGGA-ATAAGATTCGCA
1 GCTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTA
** * *
43737604 TATTCAATCTACTCCACTGCAAATTCAAGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* * * * * *
43737648 ACTTCAATCTACTCTACTACAACTTCAGGGAGATACA-ATTTGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATA-AGATTTGTA
* * * *
43737692 GCTTTAATCTACTTCACTGCAACTTCAGGGAGATAAGATTTGCT-
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-TA
* * * *
43737736 GTCTTCAATCTGCTCCATTGCAACTT-TAGGAAGGTAAGATTTGTG
1 G-CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTA
* * * * * *
43737781 GCTTTAATTTGCTTCGCTGCAACTTCAAGGATATAATATTTGT
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT
43737824 CACGATAACT
Statistics
Matches: 353, Mismatches: 74, Indels: 46
0.75 0.16 0.10
Matches are distributed among these distances:
43 5 0.01
44 237 0.67
45 40 0.11
46 1 0.00
47 33 0.09
48 1 0.00
50 2 0.01
51 31 0.09
52 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
Found at i:43737501 original size:91 final size:91
Alignment explanation
Indices: 43737375--43737546 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
43737365 AGATTAGTAG
* * **
43737375 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAG-CTGTTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTT-TAGACTGCCCCACTGCA
43737439 ACTTCAGGGAAATAAGAAGATTCACAC
65 ACTTCAGGGAAATAAGAAGATTCACAC
* * *
43737466 CTTCAATCTGCTCCACTGTAACTTAAGGGAAATAAGATTTGTAGCTTTAGATTGCCCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTTTAGACTGCCCCACTGCAA
*
43737531 CTTCAGGGAGATAAGA
66 CTTCAGGGAAATAAGA
43737547 TCTGTGACTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 3 0.04
91 69 0.96
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (91 bp):
CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTTTAGACTGCCCCACTGCAA
CTTCAGGGAAATAAGAAGATTCACAC
Found at i:43750009 original size:20 final size:21
Alignment explanation
Indices: 43749970--43750009 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43749960 TATGTACCAA
*
43749970 AATTTACTTCAATGTAAATTG
1 AATTTACTTCAATATAAATTG
*
43749991 AATTTA-TTTAATATAAATT
1 AATTTACTTCAATATAAATT
43750010 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
AATTTACTTCAATATAAATTG
Found at i:43754009 original size:83 final size:83
Alignment explanation
Indices: 43753870--43754041 Score: 317
Period size: 83 Copynumber: 2.1 Consensus size: 83
43753860 TTCCACATCA
43753870 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
1 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
43753935 ATCTATTCTAAATGGTGT
66 ATCTATTCTAAATGGTGT
* *
43753953 AATATTCTTTCAAAACTTCTTGGAGTTGGATACATATAACAATATACACTGTCTATAAACAAAAC
1 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
43754018 ATCTATTCTAAATGGTGT
66 ATCTATTCTAAATGGTGT
43754036 ATATAT
1 A-ATAT
43754042 ACGAGAATAA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 82 0.95
84 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (83 bp):
AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
ATCTATTCTAAATGGTGT
Found at i:43757976 original size:114 final size:114
Alignment explanation
Indices: 43757789--43758239 Score: 690
Period size: 114 Copynumber: 4.0 Consensus size: 114
43757779 GAAAATAAGA
* *
43757789 TTAGCGGCGTTTTCT-AGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTTTTCGGAGCT
1 TTAGCGGCGTTTT-TGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
43757852 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
** * * * * *
43757902 TTAGCGGCGTTTTTGAGAAAGCGCCATAAAAAAATCTAAGCCTAACAACGCCGTCTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
43757967 TCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
43758016 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTATGCCCAACGATGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
43758081 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTGATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
43758130 TTAGCAGCATTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACTCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
43758195 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG
43758240 AGATTTAAAA
Statistics
Matches: 304, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
112 1 0.00
113 23 0.08
114 280 0.92
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:43758867 original size:14 final size:14
Alignment explanation
Indices: 43758848--43758890 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
43758838 TTAATGTGAT
*
43758848 TTAAGGTTTATGGG
1 TTAAGGTTTAGGGG
*
43758862 TTAAGGGTTAGGGG
1 TTAAGGTTTAGGGG
43758876 TT-AGG-TTAGGGG
1 TTAAGGTTTAGGGG
43758888 TTA
1 TTA
43758891 GATGTTAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 3 0.12
14 14 0.54
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:43758884 original size:12 final size:12
Alignment explanation
Indices: 43758867--43758891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43758857 ATGGGTTAAG
43758867 GGTTAGGGGTTA
1 GGTTAGGGGTTA
43758879 GGTTAGGGGTTA
1 GGTTAGGGGTTA
43758891 G
1 G
43758892 ATGTTAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:43758897 original size:19 final size:20
Alignment explanation
Indices: 43758860--43758907 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
43758850 AAGGTTTATG
* *
43758860 GGTTAAGGGTTAGGGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
43758879 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
43758899 GAGTTAGGG
1 G-GTTAGGG
43758908 ATTTAGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:43759039 original size:95 final size:93
Alignment explanation
Indices: 43758934--43759261 Score: 374
Period size: 95 Copynumber: 3.6 Consensus size: 93
43758924 TTTGGTGTTA
* *
43758934 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TTATATATTAAATAAGGTTTAGGGG
1 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
* *
43758998 TTAGGGGTTAAGGGTTAAGGATTTAGGATC
66 TTAGGGGTTAA-GGTT-AGGATTTGGGGTC
* * * * *
43759028 GGGTTATAGTTTAGGGTTTAGATTAATTACTATTTTTTAATTTATATAGTCAATAAAGTTTAGGG
1 -GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGG
43759093 GTTAGGGGTT-A-G---GGATTTGGGGTC
65 GTTAGGGGTTAAGGTTAGGATTTGGGGTC
43759117 -G---G-GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATT-AATAAAGTTTAGGGG
1 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
*
43759176 TTAGGGGTTACGAGTTAGGGATTTGGGGTC
66 TTAGGGGTTAAG-GTTA-GGATTTGGGGTC
* * * * **
43759206 AGGTTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 -GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA
43759262 GTTCTTTATA
Statistics
Matches: 199, Mismatches: 19, Indels: 29
0.81 0.08 0.12
Matches are distributed among these distances:
82 24 0.12
83 39 0.20
85 1 0.01
87 1 0.01
89 22 0.11
91 1 0.01
93 1 0.01
94 1 0.01
95 73 0.37
96 36 0.18
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (93 bp):
GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGG
TTAGGGGTTAAGGTTAGGATTTGGGGTC
Found at i:43759363 original size:21 final size:21
Alignment explanation
Indices: 43759310--43759363 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
43759300 TAAAGATTAC
43759310 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
43759331 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
43759352 TAATTTAAAATT
1 TAATTTAAAATT
43759364 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:43759378 original size:8 final size:8
Alignment explanation
Indices: 43759353--43759396 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
43759343 TGAATATAAT
43759353 AATT-TAA
1 AATTGTAA
43759360 AATTGTAAA
1 AATTGT-AA
43759369 AATTGTAA
1 AATTGTAA
43759377 AATTGTAAAA
1 AATTGT--AA
43759387 AATTGTAA
1 AATTGTAA
43759395 AA
1 AA
43759397 ATTATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (8 bp):
AATTGTAA
Found at i:43759390 original size:10 final size:9
Alignment explanation
Indices: 43759358--43759406 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
43759348 ATAATAATTT
43759358 AAAATTGTA
1 AAAATTGTA
43759367 AAAATTGT-
1 AAAATTGTA
43759375 AAAATTGTAA
1 AAAATTGT-A
43759385 AAAATTGTA
1 AAAATTGTA
*
43759394 AAAATTATA
1 AAAATTGTA
43759403 AAAA
1 AAAA
43759407 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (9 bp):
AAAATTGTA
Found at i:43759438 original size:19 final size:20
Alignment explanation
Indices: 43759394--43759433 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43759384 AAAAATTGTA
43759394 AAAATTATAAAAAATAAAAAT
1 AAAATTA-AAAAAATAAAAAT
*
43759415 AAAATTAAAAAATTAAAAA
1 AAAATTAAAAAAATAAAAA
43759434 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATTAAAAAAATAAAAAT
Found at i:43759443 original size:19 final size:19
Alignment explanation
Indices: 43759402--43759443 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
43759392 TAAAAATTAT
43759402 AAAAAATAAAAATAAAATTA
1 AAAAAATAAAAATAAAA-TA
* *
43759422 AAAAATTAAAAA-GAAATA
1 AAAAAATAAAAATAAAATA
43759440 AAAA
1 AAAA
43759444 CACTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATA
Found at i:43760323 original size:397 final size:397
Alignment explanation
Indices: 43759590--43760339 Score: 1349
Period size: 397 Copynumber: 1.9 Consensus size: 397
43759580 AGTGGCGTTT
* * *
43759590 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGCGAATTTAA
1 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTACGAATTTAA
* *
43759655 TGGGTTTTGCGGCGCTAAGGTAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
66 TGGGTTTTGCAGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
*
43759720 CGCTGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGCGCTA
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGCGCTA
43759785 CTAAAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATT
196 CTAAAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATT
* *
43759850 TAATGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAA
261 TAATGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAAGTGGTCATTAGCGGCGCTAAGGAAA
43759915 AAACGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCATTTTGCCTGGGCATTAGTGGC
326 AAACGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCATTTTGCCTGGGCATTAGTGGC
43759980 GCTACTA
391 GCTACTA
* * *
43759987 AAAAACGCCGCAAAA-ATTTTTAATAATGAAGACAAAACGATGCAATTTTTGGCTATGAATTTAA
1 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTACGAATTTAA
*
43760051 TGGGTTTTGCAGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCAGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
*
43760116 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGT-GCGCT
*
43760181 ACTAAAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTTGCTGTGAAT
195 ACTAAAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAAT
43760246 TTAATGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAAGTGGTCATTAGCGGCGCTAAGGAA
260 TTAATGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAAGTGGTCATTAGCGGCGCTAAGGAA
*
43760311 CAAACGCCGCAAAGTTCTGTTCTCAGTTT
325 AAAACGCCGCAAAGTTCTGTTCTCAGTTT
43760340 ATATATCTAT
Statistics
Matches: 337, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
396 163 0.48
397 174 0.52
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (397 bp):
AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTACGAATTTAA
TGGGTTTTGCAGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGCGCTA
CTAAAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATT
TAATGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAAGTGGTCATTAGCGGCGCTAAGGAAA
AAACGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCATTTTGCCTGGGCATTAGTGGC
GCTACTA
Found at i:43760338 original size:199 final size:199
Alignment explanation
Indices: 43759590--43760339 Score: 1324
Period size: 198 Copynumber: 3.8 Consensus size: 199
43759580 AGTGGCGTTT
* * *
43759590 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGCGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
* *
43759655 TGGGTTTTGCGGCGCTAAGGTAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
*
43759720 CGCTGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGT-GCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
43759784 ACTA
196 ACTA
43759788 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
43759853 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
* *
43759918 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCATTTTGCCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
43759983 ACTA
196 ACTA
* * * *
43759987 AAAAACGCCGC-AAAAATTTTTAATAATGAAGACAAAACGATGCAATTTTTGGCTATGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
*
43760051 TGGGTTTTGCAGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
*
43760116 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
43760181 ACTA
196 ACTA
*
43760185 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTTGCTGTGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
* * *
43760250 TGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAAGTGGTCATTAGCGGCGCTAAGGAACAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
43760315 CGCCGCAAAGTTCTGTTCTCAGTTT
131 CGCCGCAAAGTTCTGTTCTCAGTTT
43760340 ATATATCTAT
Statistics
Matches: 525, Mismatches: 25, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
198 371 0.71
199 154 0.29
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (199 bp):
AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
ACTA
Found at i:43762175 original size:21 final size:21
Alignment explanation
Indices: 43762132--43762178 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
43762122 ACCTTCTAGA
* *
43762132 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
43762153 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
43762174 AATTT
1 AATTT
43762179 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:43762499 original size:28 final size:28
Alignment explanation
Indices: 43762439--43762493 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
43762429 TTGTCATTCT
* ***
43762439 GCTATAATTCATGCCTTGTCTTTTAATC
1 GCTATAATTCATGCCATGTCTACAAATC
43762467 GCTATAATTCATGCCATGTCTACAAAT
1 GCTATAATTCATGCCATGTCTACAAAT
43762494 GACTATGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (28 bp):
GCTATAATTCATGCCATGTCTACAAATC
Found at i:43762847 original size:46 final size:46
Alignment explanation
Indices: 43762794--43762967 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 46
43762784 AAAAATTGTC
* * *
43762794 CAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 CAACTTAACAACTCACATAATTCACATAATAACTTACATAACTTAA
* * *
43762840 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATA-TGTCATA
1 CAACTTAACAACTCACATAATTCACATAATAACTTACATA-ACT-T-A-A
* * *
43762888 CCATATAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 -C----AACTTAACAACTCACATAATTCACATAATAACTTACATAACTTAA
* *
43762939 TAACTTAACAACTCACATAATTTACATAA
1 CAACTTAACAACTCACATAATTCACATAA
43762968 CTTAATAATT
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
45 8 0.08
46 52 0.52
47 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
52 1 0.01
53 27 0.27
54 8 0.08
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (46 bp):
CAACTTAACAACTCACATAATTCACATAATAACTTACATAACTTAA
Found at i:43762905 original size:8 final size:8
Alignment explanation
Indices: 43762892--43762975 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
43762882 GTCATACCAT
43762892 ATAACTTA
1 ATAACTTA
43762900 ATAACTTA
1 ATAACTTA
*
43762908 TATAA-TTC
1 -ATAACTTA
*
43762916 A-CA-T-A
1 ATAACTTA
43762921 ATAACTTA
1 ATAACTTA
43762929 CATAACTTA
1 -ATAACTTA
43762938 ATAACTTA
1 ATAACTTA
* *
43762946 ACAACTCA
1 ATAACTTA
*
43762954 CATAATTTA
1 -ATAACTTA
43762963 CATAACTTA
1 -ATAACTTA
43762972 ATAA
1 ATAA
43762976 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 29 0.48
9 25 0.42
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAACTTA
Found at i:43762912 original size:17 final size:17
Alignment explanation
Indices: 43762892--43763133 Score: 65
Period size: 17 Copynumber: 13.6 Consensus size: 17
43762882 GTCATACCAT
*
43762892 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
43762909 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
43762930 ATAACTTAATAACTTA-
1 ATAACTTAATAACTTAC
* * *
43762946 ACAACTCACATAATTTAC
1 ATAACTTA-ATAACTTAC
* *
43762964 ATAACTTAATAATTTTAAA
1 ATAACTTAATAA-CTT-AC
*
43762983 ATATATCATTCCATAACTTAC
1 ATA-A-C-TT-AATAACTTAC
43763004 A-AA-TT-A-AA--TAC
1 ATAACTTAATAACTTAC
* *
43763015 AATAA-TTAACAACTCAC
1 -ATAACTTAATAACTTAC
*
43763032 ATAACTTAATAAGTTATATC
1 ATAACTTAATAA-CT-TA-C
43763052 ATAACTCACATAATAACTTAC
1 ATAACT----TAATAACTTAC
*
43763073 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
**
43763090 ATATA-TGCATAACTTA-
1 ATA-ACTTAATAACTTAC
* * *
43763106 ATAACTCATATTATTTAC
1 ATAACTTA-ATAACTTAC
43763124 ATAACTTAAT
1 ATAACTTAAT
43763134 CATTGTAAAA
Statistics
Matches: 170, Mismatches: 23, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
11 3 0.02
12 1 0.01
13 6 0.04
14 2 0.01
15 3 0.02
16 18 0.11
17 60 0.35
18 20 0.12
19 6 0.04
20 11 0.06
21 21 0.12
22 8 0.05
23 5 0.03
24 6 0.04
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:43762933 original size:9 final size:8
Alignment explanation
Indices: 43762919--43762975 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
43762909 ATAATTCACA
43762919 TAATAACT
1 TAATAACT
43762927 TACATAACT
1 TA-ATAACT
43762936 TAATAACT
1 TAATAACT
*
43762944 TAACAACT
1 TAATAACT
* *
43762952 CACATAATT
1 TA-ATAACT
43762961 TACATAACT
1 TA-ATAACT
43762970 TAATAA
1 TAATAA
43762976 TTTTAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (8 bp):
TAATAACT
Found at i:43762951 original size:25 final size:26
Alignment explanation
Indices: 43762923--43762972 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
43762913 TTCACATAAT
*
43762923 AACTTACATAACTTA-ATAACTTAAC
1 AACTCACATAACTTACATAACTTAAC
*
43762948 AACTCACATAATTTACATAACTTAA
1 AACTCACATAACTTACATAACTTAA
43762973 TAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (26 bp):
AACTCACATAACTTACATAACTTAAC
Found at i:43762969 original size:34 final size:36
Alignment explanation
Indices: 43762892--43762975 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 36
43762882 GTCATACCAT
* *
43762892 ATAACTTAATAACTTATATAATTCACATAATAACTTAC
1 ATAACTTAATAACTTATACAACTCACATAAT-A-TTAC
43762930 ATAACTTAATAACTTA-ACAACTCACATAAT-TTAC
1 ATAACTTAATAACTTATACAACTCACATAATATTAC
43762964 ATAACTTAATAA
1 ATAACTTAATAA
43762976 TTTTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.36
37 12 0.27
38 16 0.36
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (36 bp):
ATAACTTAATAACTTATACAACTCACATAATATTAC
Found at i:43763106 original size:25 final size:26
Alignment explanation
Indices: 43763070--43763133 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
43763060 CATAATAACT
*
43763070 TACATAACTTAATAACTTATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
43763095 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
43763121 TACATAACTTAAT
1 TACATAACTTAAT
43763134 CATTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:43763700 original size:43 final size:43
Alignment explanation
Indices: 43763639--43763907 Score: 407
Period size: 43 Copynumber: 6.3 Consensus size: 43
43763629 CACCAAACAA
* *
43763639 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
43763682 TAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
43763725 TAGCGGCGTTT-TCGGGAAAAGCGCCGGTGAAGAACATGGCCTT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
*
43763768 TAGCGGCGTTT-TCGGGAAAAGCGCCGCTAAAGAACATGGCCAT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
* **
43763811 TAGCTGCGTTTGCAGGAAAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
*
43763854 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
43763897 TAGCGGCGTTT
1 TAGCGGCGTTT
43763908 ATTTCTATAA
Statistics
Matches: 205, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.00
43 204 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:43767202 original size:45 final size:44
Alignment explanation
Indices: 43767137--43767226 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
43767127 GAATAGAGGC
* *
43767137 GTAATGGATTAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGT-AATC-ATGTGTTTGGTTGAAT
*
43767182 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
43767226 G
1 G
43767227 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 22 0.54
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
Found at i:43767241 original size:39 final size:43
Alignment explanation
Indices: 43767137--43767243 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 43
43767127 GAATAGAGGC
*
43767137 GTAATGGATTAGAGGTGTAATAGTAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTT--AT
* *
43767182 GTAATGGAATAGAGGCGTAATAGT-AATC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTAT
43767222 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGTGTAATAG
43767244 CATAATGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 2 0.04
44 11 0.19
45 22 0.39
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTTAT
Found at i:43767408 original size:16 final size:16
Alignment explanation
Indices: 43767371--43767412 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43767361 TTAATCATAT
*
43767371 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
43767387 TT-AAATATATTATAA
1 TTAAAATATATTATAA
43767402 TTAAAATATAT
1 TTAAAATATAT
43767413 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:43767419 original size:14 final size:15
Alignment explanation
Indices: 43767380--43767421 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43767370 TTTAAACATA
*
43767380 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43767395 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43767409 A-TATAATTTAATA
1 ATTATAATTAAATA
43767422 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43767532 original size:18 final size:17
Alignment explanation
Indices: 43767511--43767545 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43767501 TTATTATTAA
*
43767511 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43767529 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43767546 TCTAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43767603 original size:60 final size:60
Alignment explanation
Indices: 43767419--43767605 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 60
43767409 ATATAATTTA
* *
43767419 ATAAAATTCTTAATAGTCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
** * * * * ** * * * *
43767480 ATAAAA-GATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAATTCTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
43767538 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
43767599 ATAAAAT
1 ATAAAAT
43767606 ATAATTTGAA
Statistics
Matches: 92, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
58 4 0.04
59 39 0.42
60 40 0.43
61 9 0.10
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:43767603 original size:119 final size:121
Alignment explanation
Indices: 43767369--43767665 Score: 510
Period size: 119 Copynumber: 2.5 Consensus size: 121
43767359 ATTTAATCAT
*
43767369 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
43767434 GTCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
43767490 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
43767553 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
* * *
43767609 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
43767666 TAAAATAATT
Statistics
Matches: 169, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 110 0.65
120 55 0.33
121 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATA
Found at i:43767664 original size:59 final size:58
Alignment explanation
Indices: 43767467--43767654 Score: 173
Period size: 59 Copynumber: 3.2 Consensus size: 58
43767457 CTCAAATCAT
*
43767467 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATTAA
* * * * * * * * * ** * *
43767526 AATATATAAT-TTAATAAAATTCTAATAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAA-TATAAT-TTAAATAATTATTAT-TAAATATATTTTAATTAA
*
43767586 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATTAA
43767645 AATATATGAT
1 AATATATGAT
43767655 TTAATAAAAT
Statistics
Matches: 94, Mismatches: 28, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
58 2 0.02
59 51 0.54
60 38 0.40
61 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATTAA
Found at i:43775613 original size:18 final size:19
Alignment explanation
Indices: 43775582--43775623 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
43775572 TTTTTTTAAA
*
43775582 TTTTTATTGAATTTCGTCTT
1 TTTTTATT-AATTTCGACTT
*
43775602 TTTTTATT-ATTTTGACTT
1 TTTTTATTAATTTCGACTT
43775620 TTTT
1 TTTT
43775624 GACTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTATTAATTTCGACTT
Found at i:43791577 original size:27 final size:27
Alignment explanation
Indices: 43791523--43791577 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
43791513 TTCTGTTGCT
* *
43791523 AATAAATATTCATATTACTATAGTAAA
1 AATAAATATTCATATTAATATACTAAA
* *
43791550 AATAAATTTTCA-ATTAATATACTGAA
1 AATAAATATTCATATTAATATACTAAA
43791576 AA
1 AA
43791578 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (27 bp):
AATAAATATTCATATTAATATACTAAA
Found at i:43791610 original size:15 final size:16
Alignment explanation
Indices: 43791577--43791616 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
43791567 TATACTGAAA
* *
43791577 AGAAAAGAAAAGAATT
1 AGAAAAAAAAACAATT
43791593 AGAAAAAAAAACAA-T
1 AGAAAAAAAAACAATT
43791608 AGAAAAAAA
1 AGAAAAAAA
43791617 CCATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (16 bp):
AGAAAAAAAAACAATT
Found at i:43792180 original size:46 final size:46
Alignment explanation
Indices: 43792130--43792277 Score: 104
Period size: 46 Copynumber: 3.1 Consensus size: 46
43792120 TTTTAAGAAA
43792130 AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
1 AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
* * * * * * **
43792176 AAAAATTATTTAAAAATCAGATAAGGGTTTAGAGTTA--AGGGT-TTTTAAGG
1 AAAAATCAATT--AAAT----T-AGGGTTTAGGGTTACTTGAGTAATTTAATT
* * *
43792226 AAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATT
1 AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
*
43792272 ATAAAT
1 AAAAAT
43792278 TTTTATAAAA
Statistics
Matches: 72, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
43 12 0.17
44 1 0.01
45 3 0.04
46 18 0.25
48 8 0.11
50 13 0.18
51 3 0.04
52 1 0.01
53 13 0.18
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (46 bp):
AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
Found at i:43792247 original size:96 final size:96
Alignment explanation
Indices: 43792130--43792351 Score: 306
Period size: 96 Copynumber: 2.3 Consensus size: 96
43792120 TTTTAAGAAA
* *
43792130 AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTATTTA-AAAA-T
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATT-TTTATAAAACT
43792193 CAGATAAGGGTTTAGAG-TTAAGGGTTTTTAAGG
65 -AGATAAGGGTTTAGAGTTTAA-GGTTTTTAAGG
* * *
43792226 AAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTATAAAACTT
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTTATAAAACTA
* * *
43792291 GATTAGGGTTTAGTGTTTAAGGTTTTTAAGT
66 GATAAGGGTTTAGAGTTTAAGGTTTTTAAGG
*
43792322 AAAAACTCAAATAAATTAGGGTTTGGGGTT
1 AAAAA-TCAAATAAATTAGGGTTTAGGGTT
43792352 TAGGGTTACT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
95 4 0.04
96 81 0.72
97 27 0.24
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.37
Consensus pattern (96 bp):
AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTTATAAAACTA
GATAAGGGTTTAGAGTTTAAGGTTTTTAAGG
Found at i:43792607 original size:125 final size:126
Alignment explanation
Indices: 43792384--43792799 Score: 672
Period size: 126 Copynumber: 3.3 Consensus size: 126
43792374 TTGTTAATTT
* * *
43792384 AAAGAAGCTCTCACGTGGACGCACTTTTACTACAGTAGCTCTTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
* * * *
43792449 GTTTCTGAGCAAATGGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
43792510 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-AAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
43792574 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAACAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
43792635 AAAGAAGCTCCCACGTGGATGCACTTTTGCTACAGTTGCTACTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
43792700 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTTAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
43792761 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGC
43792800 GTATGTTTGA
Statistics
Matches: 270, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
125 115 0.43
126 155 0.57
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:43796907 original size:11 final size:11
Alignment explanation
Indices: 43796893--43796985 Score: 107
Period size: 11 Copynumber: 8.5 Consensus size: 11
43796883 TCTTTTAAAT
43796893 AGAAATTTGAG
1 AGAAATTTGAG
*
43796904 AGAAAATTGAG
1 AGAAATTTGAG
*
43796915 AGGAATTTGAG
1 AGAAATTTGAG
**
43796926 AGGGATTTGAG
1 AGAAATTTGAG
*
43796937 AGGAATTTGAG
1 AGAAATTTGAG
*
43796948 AGGAATTTGAG
1 AGAAATTTGAG
*
43796959 AGAATATTAGAG
1 AGAA-ATTTGAG
43796971 AGAAA-TTGAG
1 AGAAATTTGAG
43796981 AGAAA
1 AGAAA
43796986 GGATTTAGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
10 9 0.12
11 54 0.74
12 10 0.14
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:43797439 original size:15 final size:14
Alignment explanation
Indices: 43797409--43797448 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
43797399 CAAACCATCT
43797409 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
43797423 TCTTTTT-TTTTTC
1 TCTTTTTCTTTTTC
43797436 TCTCTTCTTCTTT
1 TCT-TT-TTCTTT
43797449 AAACTTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 9 0.39
15 2 0.09
16 3 0.13
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:43801910 original size:6 final size:6
Alignment explanation
Indices: 43801899--43801927 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43801889 CAAATAATCT
43801899 TTTTCC TTTTCC TTTTCC TTTTCC TTTTC
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTC
43801928 TTTCTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCC
Found at i:43802358 original size:29 final size:29
Alignment explanation
Indices: 43802316--43802376 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
43802306 TTCATATTTA
*
43802316 ATTATCTATATTTAATCCTATAATAAATT
1 ATTATCTATATTTAATACTATAATAAATT
* * *
43802345 ATTA-CTATAATTTATTATTTTAATAAATT
1 ATTATCTAT-ATTTAATACTATAATAAATT
43802374 ATT
1 ATT
43802377 TAATATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTATCTATATTTAATACTATAATAAATT
Found at i:43816833 original size:101 final size:102
Alignment explanation
Indices: 43816718--43816902 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 102
43816708 AAAGTGATGG
* * * * *
43816718 TCACGTGTGTAGTACTATGTGTAGGCTACCAAGTGTACCAGAATGAT-A-GGTCGCATGTGCAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACCAAGTGTACC-GAATGATAATGGCCACATGTACAGT
43816781 ACTATGTGCAGGCTACTATGCGTACTGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACTGGATAGTTTCGA
* * * * * *
43816819 TCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATGGCCACATGTATAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACCAAGTGTACCGAATGATAATGGCCACATGTACAGTA
43816884 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
43816903 TGAACTGAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 5 0.07
101 35 0.49
102 31 0.44
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACCAAGTGTACCGAATGATAATGGCCACATGTACAGTA
CTATGTGCAGGCTACTATGCGTACTGGATAGTTTCGA
Found at i:43816962 original size:45 final size:45
Alignment explanation
Indices: 43816911--43816999 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
43816901 TGTGAACTGA
* *
43816911 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
43816956 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
43817000 AGTATCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:43822687 original size:26 final size:25
Alignment explanation
Indices: 43822607--43822687 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
43822597 TTCGATCAAG
43822607 TGTGTAATACTATGTGCAGGCTACTA
1 TGTGT-ATACTATGTGCAGGCTACTA
* * * *
43822633 CGTGTAT-CGAATG-GTAATGGCCAC-A
1 TGTGTATAC-TATGTG-CA-GGCTACTA
43822658 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTA-TACTATGTGCAGGCTACTA
43822684 TGTG
1 TGTG
43822688 AACAAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 17 0.43
26 19 0.47
27 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (25 bp):
TGTGTATACTATGTGCAGGCTACTA
Found at i:43822781 original size:45 final size:46
Alignment explanation
Indices: 43822694--43822783 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 46
43822684 TGTGAACAAA
* * *
43822694 ACATCGTTGATTAGTAAGGTGGTTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTGAATCCACCGG
43822740 ACATCATTGATTAATAAGGTGG-TTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTGAATCCACCG
43822784 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (46 bp):
ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTGAATCCACCGG
Found at i:43826598 original size:36 final size:36
Alignment explanation
Indices: 43826551--43826657 Score: 137
Period size: 36 Copynumber: 3.0 Consensus size: 36
43826541 GCAGAGTAGA
43826551 TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
1 TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
* * * *
43826587 TTAAAATTGAAGGCAGCGAATCTTATCTCCCTGGTG
1 TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
*
43826623 TTAAAGCTG-AGGACAACGAATCTTAT-TTCCCTGGC
1 TTAAAGTTGAAGG-CAACGAATCTTATCTT-CCTGGC
43826658 TTTGCAGTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
35 4 0.07
36 56 0.93
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
Found at i:43826740 original size:21 final size:21
Alignment explanation
Indices: 43826714--43826757 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43826704 CTGGCGTTGT
*
43826714 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
*
43826735 AGTGGAACGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
43826756 AG
1 AG
43826758 GCAGCGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:43826815 original size:51 final size:51
Alignment explanation
Indices: 43826735--43827158 Score: 267
Period size: 51 Copynumber: 8.1 Consensus size: 51
43826725 TTAAAGCTGA
* * * *
43826735 AGTGGAACGGATTAAAGCTGAAGGCAGCGAATCCTATCTTCTTGGCATTAC
1 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * *
43826786 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGC
1 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* ** * * * * * *
43826837 AGCGGAGTAGA-TCAAGACTGAAGATAGTGAGTCGTATCTCCCTAGCATTAAAGC
1 AGTGGAACAGATTAAAG-CTGAAGGTAGCGAATCCTATCTCCCTGGCATT--A-C
* * * * * * *
43826891 TGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTAGCGTTAT
1 ---AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * * *
43826945 AGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGGCATTGC
1 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * * *
43826996 AGCGGAGCAGA-TCAAGACTGAAGATAGCGAATCGTATCTCCCTAGCATTAA
1 AGTGGAACAGATTAAAG-CTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * *
43827047 AGTTGAAGTTGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCCTTGGCATTAC
1 AG-T---G--GAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * *
43827104 AGTGGAATAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTAC
1 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
43827155 AGTG
1 AGTG
43827159 AGCAGATCAA
Statistics
Matches: 279, Mismatches: 78, Indels: 32
0.72 0.20 0.08
Matches are distributed among these distances:
50 8 0.03
51 188 0.67
53 1 0.00
54 1 0.00
55 2 0.01
56 1 0.00
57 70 0.25
58 8 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (51 bp):
AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
Found at i:43826848 original size:123 final size:123
Alignment explanation
Indices: 43826623--43826848 Score: 339
Period size: 123 Copynumber: 1.8 Consensus size: 123
43826613 CTCCCTGGTG
* * *
43826623 TTAAAGCTGAGGACAACGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGT
1 TTAAAGCTGAGGACAACGAATCCTATTTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGT
* * *
43826688 AGTGAATCTTGTTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAACGGA
66 AGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGATTAAAGCTGAAGTGGAACGGA
* *
43826746 TTAAAGCTGAAGG-CAGCGAATCCTATCTT-CTTGGCATTACAGTGGAACAGATTAAAGCTAAAG
1 TTAAAGCTG-AGGACAACGAATCCTAT-TTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAG
*
43826809 GTAGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAGTAGAT
64 GTAGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGAT
43826849 CAAGACTGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
123 87 0.95
124 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (123 bp):
TTAAAGCTGAGGACAACGAATCCTATTTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGT
AGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGATTAAAGCTGAAGTGGAACGGA
Found at i:43827013 original size:159 final size:159
Alignment explanation
Indices: 43826724--43827179 Score: 752
Period size: 159 Copynumber: 2.9 Consensus size: 159
43826714 AGTGGAATAG
* *
43826724 ATTAAAGCTGAAGTGGAACGGATTAAAGCTGAAGGCAGCGAATCCTATCTTCTTGGCATTACAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGT
* * *
43826789 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAGTAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
* *
43826854 CTGAAGATAGTGAGTCGTATCTCCCTAGC
131 CTGAAGATAGCGAATCGTATCTCCCTAGC
* * *
43826883 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTAGCGTTATAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGT
*
43826948 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGGCATTGCAGCGGAGCAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
43827013 CTGAAGATAGCGAATCGTATCTCCCTAGC
131 CTGAAGATAGCGAATCGTATCTCCCTAGC
* * *
43827042 ATTAAAGTTGAAGTTGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCCTTGGCATTACAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGT
* * *
43827107 GGAATAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTACAG-TGAGCAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
43827171 CTGAAGATA
131 CTGAAGATA
43827180 ACAAACCTTA
Statistics
Matches: 276, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
158 22 0.08
159 254 0.92
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (159 bp):
ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGT
GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
CTGAAGATAGCGAATCGTATCTCCCTAGC
Found at i:43827477 original size:138 final size:138
Alignment explanation
Indices: 43827229--43827477 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
43827219 AAGATACCAA
* * ** * *
43827229 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTAAAGTTGCA
** *
43827294 GTAGAGCAGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACC
66 GTAGAGCAGATTAAAATGACCAATCCTATACCTCTGAACTTGCAGTAGGTCGGATTAAATCTACC
43827359 ATAACAAG
131 ATAACAAG
*
43827367 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACATTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAAC-TTATCTCCCTAAAGTTGC
* * * *
43827432 AGTGGAGCAGGTTGAAGAT-ACCAAT-CT-TATCTCCTGAACTTGCAGT
65 AGTAGAGCAGATT-AAAATGACCAATCCTATACCT-CTGAACTTGCAGT
43827478 GGAGCAGATT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
137 4 0.04
138 55 0.59
139 31 0.33
140 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (138 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTAAAGTTGCA
GTAGAGCAGATTAAAATGACCAATCCTATACCTCTGAACTTGCAGTAGGTCGGATTAAATCTACC
ATAACAAG
Found at i:43827485 original size:182 final size:182
Alignment explanation
Indices: 43827177--43827534 Score: 472
Period size: 182 Copynumber: 2.0 Consensus size: 182
43827167 AAGACTGAAG
** * * *
43827177 ATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTG
1 ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTG
* ** * *
43827242 AAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCAGATT-
66 AAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATTG
* *
43827306 AAAATGATGAATCCTATAC-CTCTGAAGTTGCAGTAG-GTCGGATTAAATCTACC
131 AAAAT-ATGAATCCTAT-CTCCCTGAAGTTGAAGTAGAG-CGGATTAAATCTACC
**
43827359 ATAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACATTATCTCCCT
1 ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAAC-TTATCTCCCT
* * *
43827424 GAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT-CCTGAACTTGCAGTGGAGCAGATT
65 GAAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATT
** *
43827488 GAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAA
130 GAAAATATGAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAA
43827535 ATGATTAATC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
181 1 0.01
182 101 0.66
183 50 0.33
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (182 bp):
ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATTG
AAAATATGAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAATCTACC
Found at i:43827548 original size:44 final size:44
Alignment explanation
Indices: 43827172--43827531 Score: 314
Period size: 44 Copynumber: 8.0 Consensus size: 44
43827162 AGATCAAGAC
* * * *
43827172 TGAAGATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGT
1 TGAAGATATC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
43827217 TGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
43827261 TGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
43827305 T-AAAATGATGAATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGAT
1 TGAAGAT-ATCAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGAT
* * * *
43827349 TAAATCTACCATAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
1 T-GA---A-GATATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
43827399 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGT
1 TGAAGATATCAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
43827444 TGAAGATACCAATCTTATCT-CCTGAACTTGCAGTGGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
43827487 TGAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
43827531 T
1 T
43827532 AAAATGATTA
Statistics
Matches: 256, Mismatches: 45, Indels: 29
0.78 0.14 0.09
Matches are distributed among these distances:
43 40 0.16
44 123 0.48
45 58 0.23
46 2 0.01
49 8 0.03
50 25 0.10
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:43827567 original size:226 final size:227
Alignment explanation
Indices: 43827172--43827619 Score: 763
Period size: 226 Copynumber: 2.0 Consensus size: 227
43827162 AGATCAAGAC
* *
43827172 TGAAGATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAATCTTATCT
1 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* * *
43827237 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCA
66 CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
*
43827302 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCATAACAAG
131 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
*
43827367 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
196 TCTTATCTCCCTAAAGTTACAGTGGAGCAGAT
43827399 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
1 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* *
43827464 -CCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCG
66 CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
* *
43827528 GATTAAAATGATTAATCCTATACCTCTGAATTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
131 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
* **
43827593 TCTTATCTCTCTAAAGTTGTAGTGGAG
196 TCTTATCTCCCTAAAGTTACAGTGGAG
43827620 TAGACTGTAG
Statistics
Matches: 207, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
226 144 0.70
227 63 0.30
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (227 bp):
TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
TCTTATCTCCCTAAAGTTACAGTGGAGCAGAT
Found at i:43827577 original size:44 final size:44
Alignment explanation
Indices: 43827494--43827578 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
43827484 GATTGAAGCT
*
43827494 ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAAATG
1 ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGAATTAAAATG
* * *
43827538 ATTAATCCTATAC-CTCTGAATTTGCAGTAG-GTCGAATTAAA
1 ATTAATCCTAT-CTCCCTGAAGTTGAAGTAGAG-CGAATTAAA
43827579 TCTACCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 33 0.94
45 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGAATTAAAATG
Found at i:43827714 original size:44 final size:44
Alignment explanation
Indices: 43827650--43827733 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
43827640 TTATCATATC
* *
43827650 AAACCTTATCTTTCTGAAGTTACAATAGAGCAGGTTGAAGTACT
1 AAACCTTATCTTCCTAAAGTTACAATAGAGCAGGTTGAAGTACT
* *
43827694 AAACCTTATCTTCCTAAAGTTGCAGTAGAGCAGGTTGAAG
1 AAACCTTATCTTCCTAAAGTTACAATAGAGCAGGTTGAAG
43827734 AAAAAAAGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AAACCTTATCTTCCTAAAGTTACAATAGAGCAGGTTGAAGTACT
Found at i:43827762 original size:45 final size:44
Alignment explanation
Indices: 43827675--43827801 Score: 128
Period size: 45 Copynumber: 2.8 Consensus size: 44
43827665 GAAGTTACAA
* ** * * *
43827675 TAGAGCAGGTTGAAGTACTAAACCTTATCTTCCTAAAGTTGCAG
1 TAGAGCAGGTTGAAGAAAAAAATCTTATCTCCCTAAACTTGCAG
*
43827719 TAGAGCAGGTTGAAGAAAAAAAGTCTTATCTCCCTGAACTTGCAG
1 TAGAGCAGGTTGAAGAAAAAAA-TCTTATCTCCCTAAACTTGCAG
* ** * *
43827764 TGGAGCAGACTGAAGATAGAAAATCTTATTTCCCTAAA
1 TAGAGCAGGTTGAAGA-AAAAAATCTTATCTCCCTAAA
43827802 GTTGTAGTGG
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 19 0.28
45 44 0.65
46 5 0.07
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (44 bp):
TAGAGCAGGTTGAAGAAAAAAATCTTATCTCCCTAAACTTGCAG
Found at i:43827811 original size:45 final size:45
Alignment explanation
Indices: 43827698--43827823 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 45
43827688 AGTACTAAAC
* *
43827698 CTTATCTT-CCTAAAGTTGCAGTAGAGCAGGTTGAAGAAAAAAAGT
1 CTTAT-TTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAAAAGT
* * * * *
43827743 CTTATCTCCCTGAACTTGCAGTGGAGCAGACTGAAGATAGAAAA-T
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA-AAAAAAGT
* *
43827788 CTTATTTCCCTAAAGTTGTAGTGGAGTAGATTGAAG
1 CTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
43827824 CCATTAATCC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
44 1 0.02
45 60 0.91
46 5 0.08
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
CTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAAAAGT
Found at i:43827880 original size:44 final size:45
Alignment explanation
Indices: 43827794--43827899 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
43827784 AAATCTTATT
* * * * * * *
43827794 TCCCTAAAGTTGTAGTGGAGTAGATTGAAGCCATTAATCCTAT-C
1 TCCCTGAAGTTGTAGTAGAGAAGATTAAAACCATGAAGCCTATAC
*
43827838 TCCCTGAAGTTGTAGTAGAGAAGATTAAAACGATGAAGCCTATAC
1 TCCCTGAAGTTGTAGTAGAGAAGATTAAAACCATGAAGCCTATAC
* *
43827883 -CTCTGAAGTTGCAGTAG
1 TCCCTGAAGTTGTAGTAG
43827900 GTCTGATTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
TCCCTGAAGTTGTAGTAGAGAAGATTAAAACCATGAAGCCTATAC
Found at i:43833160 original size:17 final size:18
Alignment explanation
Indices: 43833134--43833167 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43833124 ATTAATCATT
43833134 TTTTTCTTT-CCCTTAGC
1 TTTTTCTTTCCCCTTAGC
*
43833151 TTTTTGTTTCCCCTTAG
1 TTTTTCTTTCCCCTTAG
43833168 AGGACAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.59
Consensus pattern (18 bp):
TTTTTCTTTCCCCTTAGC
Found at i:43834552 original size:19 final size:19
Alignment explanation
Indices: 43834528--43834566 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43834518 TTTTTGGTTT
43834528 TTAAATGAATAAACCTCTA
1 TTAAATGAATAAACCTCTA
43834547 TTAAATGAATAAACCTCTA
1 TTAAATGAATAAACCTCTA
43834566 T
1 T
43834567 CTCTAACCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAAATGAATAAACCTCTA
Found at i:43842408 original size:27 final size:28
Alignment explanation
Indices: 43842299--43842448 Score: 205
Period size: 27 Copynumber: 5.4 Consensus size: 28
43842289 GAGATTGGCG
* * * * *
43842299 CTAAGTGTGCGGGTTTAAATTGTACAACA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
43842328 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43842356 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43842384 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43842411 CTAAGTGTGCGAG-TTGATTATATAACA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43842438 CTGAGTGTGCG
1 CTAAGTGTGCG
43842449 GACTTAATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 50 0.45
28 47 0.42
29 15 0.13
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:43842414 original size:55 final size:56
Alignment explanation
Indices: 43842299--43842448 Score: 214
Period size: 55 Copynumber: 2.7 Consensus size: 56
43842289 GAGATTGGCG
* * * * *
43842299 CTAAGTGTGCGGGTTTAAATTGTACAACACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAACACTAAGTGTGCGAGTTTGATTATATAGCA
*
43842356 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAACACTAAGTGTGCGAGTTTGATTATATAGCA
*
43842411 CTAAGTGTGCGAG-TTGATTATATAACACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAACACTAAGTGTGCG
43842449 GACTTAATAT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 23 0.27
55 26 0.31
56 21 0.25
57 15 0.18
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAACACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:43849222 original size:19 final size:19
Alignment explanation
Indices: 43849200--43849237 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43849190 AGGCTCTCGG
*
43849200 GTCCAATTTACAATTTCAA
1 GTCCAATTTACAAGTTCAA
*
43849219 GTCCAATTTTCAAGTTCAA
1 GTCCAATTTACAAGTTCAA
43849238 TTACCTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (19 bp):
GTCCAATTTACAAGTTCAA
Found at i:43849330 original size:18 final size:19
Alignment explanation
Indices: 43849290--43849331 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
43849280 AAAATATTAT
* *
43849290 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTC
*
43849309 ATTAA-TTTAATTTACTTC
1 ATTAATTTTAATTGACTTC
43849327 ATTAA
1 ATTAA
43849332 AATTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTC
Found at i:43851367 original size:17 final size:17
Alignment explanation
Indices: 43851340--43851386 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
43851330 GTCCCTATAC
43851340 TATTAATATAATGTTCTA
1 TATT-ATATAATGTTCTA
43851358 TATTATATAATGTTCTA
1 TATTATATAATGTTCTA
**
43851375 TAAAATATAATG
1 TATTATATAATG
43851387 CATAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (17 bp):
TATTATATAATGTTCTA
Found at i:43851798 original size:19 final size:20
Alignment explanation
Indices: 43851770--43851808 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43851760 TAATTAAATT
43851770 TTAATGAAG-TAAAACATAA
1 TTAATGAAGTTAAAACATAA
*
43851789 TTAATTAAGTTAAAACATAA
1 TTAATGAAGTTAAAACATAA
43851809 ACTAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
TTAATGAAGTTAAAACATAA
Found at i:43854859 original size:17 final size:18
Alignment explanation
Indices: 43854821--43854885 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 18
43854811 CAAATTAGAA
*
43854821 ATTAATATAAAGATAATAAT
1 ATTAATA-AAA-ATATTAAT
*
43854841 ATTAATTAAAAT-TTAAT
1 ATTAATAAAAATATTAAT
* *
43854858 ATTCATAAAAATATTAAAC
1 ATTAATAAAAATATT-AAT
43854877 ATTAATAAA
1 ATTAATAAA
43854886 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
17 14 0.38
18 4 0.11
19 13 0.35
20 6 0.16
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (18 bp):
ATTAATAAAAATATTAAT
Found at i:43855165 original size:16 final size:15
Alignment explanation
Indices: 43855139--43855168 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43855129 AAACATAACA
43855139 ACTTTATTATTAATT
1 ACTTTATTATTAATT
43855154 ACTTTCATTATTAAT
1 ACTTT-ATTATTAAT
43855169 AAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ACTTTATTATTAATT
Found at i:43857067 original size:20 final size:20
Alignment explanation
Indices: 43857042--43857113 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
43857032 ATGTGCAAGC
* * *
43857042 AGAGGCTCCGAGGTGTGAAT
1 AGAGGCACCGAAGTGCGAAT
43857062 AGAGGCACCGAAGTGCGAAT
1 AGAGGCACCGAAGTGCGAAT
* * *
43857082 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCGAAGTGCGAAT
*
43857102 AGAGCCACCGAA
1 AGAGGCACCGAA
43857114 ATACAGAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.32, T:0.10
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCGAAT
Found at i:43860957 original size:44 final size:44
Alignment explanation
Indices: 43860909--43861151 Score: 267
Period size: 44 Copynumber: 5.6 Consensus size: 44
43860899 CCTCTATCTG
*
43860909 CTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
* * * * * *
43860953 CTCCATTACTGCTTAGGGAGATAAG-GCTG-ATATCTTCGATCAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCA-ATTTTCAACCTA
*
43860996 CTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
* * * * *** * * * *
43861040 CTCTACTGCTGCTCAGGGAGATAAG-GCTGGTGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
43861083 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
* *
43861127 CTCCGCTACTGCTCAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
43861152 GCTTGTGACT
Statistics
Matches: 156, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
42 1 0.01
43 66 0.42
44 88 0.56
45 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
Found at i:43861000 original size:87 final size:87
Alignment explanation
Indices: 43860909--43861154 Score: 393
Period size: 87 Copynumber: 2.8 Consensus size: 87
43860899 CCTCTATCTG
* * *
43860909 CTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTACTCCATTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
43860974 TAAGGCTGATATCTTCGATCAA
66 TAAGGCTGATATCTTCGATCAA
* * *
43860996 CTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTTCAACCTACTCTACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
* * **
43861061 TAAGGCTGGTGTCTTCGATCTG
66 TAAGGCTGATATCTTCGATCAA
*
43861083 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCGCTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
43861148 TAAGGCT
66 TAAGGCT
43861155 TGTGACTAAA
Statistics
Matches: 145, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 145 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
TAAGGCTGATATCTTCGATCAA
Done.