Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 205 of 259
Found at i:65103953 original size:25 final size:25
Alignment explanation
Indices: 65103848--65103965 Score: 69
Period size: 25 Copynumber: 4.8 Consensus size: 25
65103838 TGGCTCTTCA
*
65103848 GAGCTACCCGTTAT-TGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
65103872 GAGCTTCTCGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *** * **
65103896 GAGTTTCCTGTTATACAACCCGGAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
65103921 AAGCTTCCCGTTATATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
65103946 GAGTTTCCCATTATTTGGCT
1 GAGCTTCCCGTTATATGGCT
65103966 AGAGAGAGGG
Statistics
Matches: 64, Mismatches: 28, Indels: 3
0.67 0.29 0.03
Matches are distributed among these distances:
23 1 0.02
24 25 0.39
25 38 0.59
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:65119215 original size:16 final size:17
Alignment explanation
Indices: 65119194--65119231 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
65119184 TATTTTATAC
65119194 TTTCCT-TTCTCTTATT
1 TTTCCTATTCTCTTATT
*
65119210 TTTCCTATTCTTTTATT
1 TTTCCTATTCTCTTATT
65119227 TTTCC
1 TTTCC
65119232 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCCTATTCTCTTATT
Found at i:65119257 original size:10 final size:9
Alignment explanation
Indices: 65119234--65119280 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
65119224 ATTTTTCCAT
65119234 AAATAAATA
1 AAATAAATA
65119243 GAAATAGAA-A
1 -AAATA-AATA
65119253 TAAATAATATA
1 -AAATAA-ATA
65119264 AAATAAATA
1 AAATAAATA
65119273 AAATAAAT
1 AAATAAAT
65119281 TTAAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 12 0.36
10 18 0.55
11 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AAATAAATA
Found at i:65122551 original size:17 final size:17
Alignment explanation
Indices: 65122529--65122564 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
65122519 ACACACTCTT
65122529 GAGGAACATTCAGGATA
1 GAGGAACATTCAGGATA
65122546 GAGGAACATTCAGGATA
1 GAGGAACATTCAGGATA
65122563 GA
1 GA
65122565 AAGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (17 bp):
GAGGAACATTCAGGATA
Found at i:65145849 original size:11 final size:11
Alignment explanation
Indices: 65145835--65145886 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
65145825 TCTTTCAATA
65145835 TTCTCTCAAAT
1 TTCTCTCAAAT
65145846 TTCTCTCAAA-
1 TTCTCTCAAAT
*
65145856 -TCACTCAAAT
1 TTCTCTCAAAT
*
65145866 TTCTCTTAAAT
1 TTCTCTCAAAT
*
65145877 TCCTCTCAAA
1 TTCTCTCAAA
65145887 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:65145864 original size:20 final size:20
Alignment explanation
Indices: 65145839--65145876 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65145829 TCAATATTCT
65145839 CTCAAATTTCTCTCAAATCA
1 CTCAAATTTCTCTCAAATCA
*
65145859 CTCAAATTTCTCTTAAAT
1 CTCAAATTTCTCTCAAAT
65145877 TCCTCTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (20 bp):
CTCAAATTTCTCTCAAATCA
Found at i:65145943 original size:16 final size:15
Alignment explanation
Indices: 65145914--65145944 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65145904 TAAAAAAAAC
*
65145914 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
65145929 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
65145944 T
1 T
65145945 AAAATAAAAA
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:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:65147611 original size:30 final size:30
Alignment explanation
Indices: 65147561--65147624 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
65147551 ACGACGCAGA
*
65147561 CCCATCAACAGCACCCACACAATCACCCGG
1 CCCAGCAACAGCACCCACACAATCACCCGG
* * * *
65147591 CCCAGCAACAGGACCTACACAGTCACCGGG
1 CCCAGCAACAGCACCCACACAATCACCCGG
65147621 CCCA
1 CCCA
65147625 ACAGTTCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (30 bp):
CCCAGCAACAGCACCCACACAATCACCCGG
Found at i:65147701 original size:18 final size:18
Alignment explanation
Indices: 65147678--65147720 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
65147668 TGCCAAGTAC
* *
65147678 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
65147696 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
65147714 GTTTCCT
1 GTATCCT
65147721 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:65148309 original size:116 final size:116
Alignment explanation
Indices: 65148105--65148586 Score: 883
Period size: 116 Copynumber: 4.2 Consensus size: 116
65148095 TATTTGTACA
* *
65148105 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
65148170 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
65148221 AACATTTTGAATATTTTTATATTGTTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
65148286 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
65148337 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTATTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
65148402 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
65148453 AACATTTTAAATATTTTTATATTATTTTATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
65148518 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65148569 AACATTTTGAATATTTTT
1 AACATTTTGAATATTTTT
65148587 GTCGAAACCA
Statistics
Matches: 352, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 352 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:65148447 original size:54 final size:54
Alignment explanation
Indices: 65148383--65148565 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 54
65148373 AGATAAAAGG
65148383 TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
1 TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
* * * * * *
65148437 TTATTTTAAATAAAGCAACATTTTAA-ATATTTTTATATTATTTTATGTAATTAGAT-AAAA
1 TTATTTTAAATAAAG-TA-ATTGTAATTTACTTTTATA-T-TTTTA-ATAA--A-ATGGAAA
* *
65148497 GGTTGTTTTAAATAAAATAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
1 --TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
65148553 TTATTTTAAATAA
1 TTATTTTAAATAA
65148566 GGCAACATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
54 27 0.26
55 12 0.12
56 11 0.11
57 5 0.05
58 6 0.06
59 5 0.05
60 11 0.11
61 12 0.12
62 13 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (54 bp):
TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
Found at i:65151567 original size:22 final size:21
Alignment explanation
Indices: 65151528--65151586 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
65151518 GGTTTGGGTA
65151528 TTATATTTGGGCTATTGGACTT
1 TTATATTTGGGCTATTGGA-TT
*
65151550 TTATATTT-GGTTATTTGGATT
1 TTATATTTGGGCTA-TTGGATT
*
65151571 TTGTTATATTGGGCTA
1 TT-ATAT-TTGGGCTA
65151587 GGGTTTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 8 0.27
22 16 0.53
23 2 0.07
24 4 0.13
ACGTcount: A:0.19, C:0.05, G:0.22, T:0.54
Consensus pattern (21 bp):
TTATATTTGGGCTATTGGATT
Found at i:65155210 original size:125 final size:126
Alignment explanation
Indices: 65154803--65155340 Score: 837
Period size: 126 Copynumber: 4.3 Consensus size: 126
65154793 GCCCAAGTTA
* * * * *
65154803 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* ** *
65154868 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
65154929 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* *
65154994 TGCATCATGCTTGAAGCGTTTTT-ACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
65155055 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* * *
65155120 TGCATCCTGCTTGAAGCGTTTTT-ATACTATTTGCACAGACACGTCTTTTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
65155180 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
*
65155245 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
65155306 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
65155341 AGAAGGTTTT
Statistics
Matches: 378, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 118 0.31
126 260 0.69
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:65155249 original size:251 final size:252
Alignment explanation
Indices: 65154803--65155345 Score: 856
Period size: 251 Copynumber: 2.2 Consensus size: 252
65154793 GCCCAAGTTA
* * * *
65154803 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTAAAAA
***
65154868 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTTTTTC
66 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTC
65154933 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
131 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
*
65154998 TCATGCTTGAAGCGTTTTT-ACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
196 TCATGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
65155055 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTAAAAA
* * * *
65155120 TGCATCCTGCTTGAAGCGTTTTT-ATACTATTTGCACAGACACGTCTTTTCAAAATTATTTTTTC
66 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTC
* * * * *
65155184 AGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAATGCA
131 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
* *
65155249 TCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
196 TCATGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
65155306 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGTAGAAG
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAG
65155346 GTTTTTTAGA
Statistics
Matches: 267, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
251 185 0.69
252 82 0.31
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (252 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTAAAAA
TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTC
AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
TCATGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:65155551 original size:95 final size:96
Alignment explanation
Indices: 65155450--65155622 Score: 242
Period size: 96 Copynumber: 1.8 Consensus size: 96
65155440 CCTAAAATCC
* * * ** * *
65155450 TAATCTATTTTTTTAAATTTA-TAATTAATTTACTCAA-GTAACCTTAAACCCTAATTTATTTGA
1 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAAC-TAAACCCTAATTTATTTAA
65155513 TTTTTTCCTTAAAAACCATAAGCACTAAACCA
65 TTTTTTCCTTAAAAACCATAAGCACTAAACCA
* *
65155545 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATTAACAAAAACTAAACCTTAATTTATTTAAT
1 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAACTAAACCCTAATTTATTTAAT
65155610 TTTTTCCTTAAAA
66 TTTTTCCTTAAAA
65155623 CCCTAAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 19 0.28
96 45 0.67
97 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.44
Consensus pattern (96 bp):
TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAACTAAACCCTAATTTATTTAAT
TTTTTCCTTAAAAACCATAAGCACTAAACCA
Found at i:65155637 original size:15 final size:15
Alignment explanation
Indices: 65155617--65155648 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65155607 AATTTTTTCC
*
65155617 TTAAAACCCTAAAAT
1 TTAAAAACCTAAAAT
65155632 TTAAAAACCTAAAAT
1 TTAAAAACCTAAAAT
65155647 TT
1 TT
65155649 CCAAAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAACCTAAAAT
Found at i:65157638 original size:3 final size:3
Alignment explanation
Indices: 65157630--65157661 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
65157620 ATATTGAAAT
65157630 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65157662 GCAACACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65157639 original size:199 final size:201
Alignment explanation
Indices: 65157376--65157784 Score: 554
Period size: 214 Copynumber: 2.0 Consensus size: 201
65157366 TTTTCATTAT
* *
65157376 ATATAAATATATATTAAAAATATATAATAAAGAATGACACCGTAAAATTTG-A-AAT-TAATAAT
1 ATATAAATATATATTAAAAATATATAATAAACAATGACACCATAAAATTTGAATAATATAATAAT
* * *
65157438 AATAATAATAGCAACACTTTAATAAGGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
66 AATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
* * *
65157503 ATTAAGTTAGTGTTAAATTCACTCGTAACACAAATTTAATCATGCACTTAAATAATAATAATAAC
131 ACTAAGTTAGTGTT-AATTCACTCATAACACAAATTTAATCATGCAATTAAATAATAATAATAAC
65157568 AATAACA
195 AATAACA
* *
65157575 ATATAAATATATATTAGAAATATATAATAAACAATGACACCATAAATATTGAAATTAATAATAAT
1 ATATAAATATATATTAAAAATATATAATAAACAATGACACC----ATA---AAATT--T--GAAT
65157640 AATAATAATAATAATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTA
55 AAT-ATAATAATAATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTA
* * *
65157705 ATAATTTAATTAACTAAGTTGGTGTTGATTTACTCATAACACAAATTTAATCATGCAATTAAATA
119 ATAATTTAATTAACTAAGTTAGTGTTAATTCACTCATAACACAAATTTAATCATGCAATTAAATA
*
65157770 ATAATAATAATAATA
184 ATAATAATAACAATA
65157785 TTATGGATAC
Statistics
Matches: 181, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
199 39 0.22
203 2 0.01
206 5 0.03
208 1 0.01
211 1 0.01
212 3 0.02
213 49 0.27
214 81 0.45
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (201 bp):
ATATAAATATATATTAAAAATATATAATAAACAATGACACCATAAAATTTGAATAATATAATAAT
AATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
ACTAAGTTAGTGTTAATTCACTCATAACACAAATTTAATCATGCAATTAAATAATAATAATAACA
ATAACA
Found at i:65158268 original size:16 final size:16
Alignment explanation
Indices: 65158247--65158279 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65158237 GATTAATTTA
65158247 TTTAAAACAAATAGAT
1 TTTAAAACAAATAGAT
*
65158263 TTTAAAATAAATAGAT
1 TTTAAAACAAATAGAT
65158279 T
1 T
65158280 AATTTACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (16 bp):
TTTAAAACAAATAGAT
Found at i:65171854 original size:26 final size:26
Alignment explanation
Indices: 65171823--65171882 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
65171813 GTGTTTCTCA
*
65171823 ACAAGGGCCTATATGTGGACAACCTC
1 ACAAGGGCCTACATGTGGACAACCTC
*
65171849 ACAAGGGGTCTACATGTGGACAACCTC
1 ACAA-GGGCCTACATGTGGACAACCTC
65171876 ACAAGGG
1 ACAAGGG
65171883 GTGGTTGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.17
Consensus pattern (26 bp):
ACAAGGGCCTACATGTGGACAACCTC
Found at i:65173877 original size:23 final size:23
Alignment explanation
Indices: 65173836--65173888 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
65173826 TTAACTGACT
* * *
65173836 TATTTAAAATATTATAAAATATA
1 TATTTAAAATATGATAAAAAAAA
65173859 TATTTAAAATAATGA-AAAAAAAA
1 TATTTAAAAT-ATGATAAAAAAAA
65173882 TATTTAA
1 TATTTAA
65173889 GTGACTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TATTTAAAATATGATAAAAAAAA
Found at i:65179596 original size:12 final size:11
Alignment explanation
Indices: 65179579--65179611 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65179569 CTATTCTTGC
65179579 TGTTTTTTTTCT
1 TGTTTTTTTT-T
65179591 TG-TTTTTTTT
1 TGTTTTTTTTT
65179601 TGTTTTTTTTT
1 TGTTTTTTTTT
65179612 CACTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 15 0.75
12 2 0.10
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:65179609 original size:10 final size:10
Alignment explanation
Indices: 65179582--65179611 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
65179572 TTCTTGCTGT
65179582 TTTTTTTCTTG
1 TTTTTTT-TTG
65179593 TTTTTTTTTG
1 TTTTTTTTTG
65179603 TTTTTTTTT
1 TTTTTTTTT
65179612 CACTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:65179801 original size:18 final size:18
Alignment explanation
Indices: 65179775--65179817 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
65179765 TTTATTTTTA
*
65179775 ATTTATTGATGT-TTTTAGT
1 ATTT-TTGATGTATTATA-T
65179794 ATTTTTGATGTATTATAT
1 ATTTTTGATGTATTATAT
65179812 ATTTTT
1 ATTTTT
65179818 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (18 bp):
ATTTTTGATGTATTATAT
Found at i:65179841 original size:13 final size:13
Alignment explanation
Indices: 65179817--65179853 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
65179807 TATATATTTT
65179817 TAAAAAATT-ATA
1 TAAAAAATTAATA
65179829 T-AAAAA-TAATA
1 TAAAAAATTAATA
65179840 TAAAAAATTAATA
1 TAAAAAATTAATA
65179853 T
1 T
65179854 GGGTGGAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 6 0.27
13 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:65181583 original size:31 final size:31
Alignment explanation
Indices: 65181548--65181614 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
65181538 CTTCCTGCAT
* *
65181548 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
65181579 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
65181610 TAAAA
1 TAAAA
65181615 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:65187516 original size:9 final size:9
Alignment explanation
Indices: 65187502--65187614 Score: 100
Period size: 9 Copynumber: 11.9 Consensus size: 9
65187492 ATGTATTAGT
65187502 TAAGTTATG
1 TAAGTTATG
65187511 TAAGTTGTTATG
1 TAA---GTTATG
*
65187523 TACGTTATG
1 TAAGTTATG
*
65187532 TGAGTTATG
1 TAAGTTATG
*
65187541 TAAATTATG
1 TAAGTTATG
65187550 TAAGTTATG
1 TAAGTTATG
*
65187559 TAAATTATG
1 TAAGTTATG
65187568 TAAGTTGTTATG
1 TAA---GTTATG
* *
65187580 TAAATTACG
1 TAAGTTATG
*
65187589 TAAGTTATA
1 TAAGTTATG
*
65187598 TGAGTTATG
1 TAAGTTATG
65187607 TAAGTTAT
1 TAAGTTAT
65187615 ATAATTTATT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
9 66 0.80
12 16 0.20
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65187570 original size:57 final size:57
Alignment explanation
Indices: 65187506--65187623 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
65187496 ATTAGTTAAG
** * * * *
65187506 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
* * *
65187563 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTTATATAAT
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
65187620 TTAT
1 TTAT
65187624 TGAAGTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
Found at i:65187578 original size:39 final size:39
Alignment explanation
Indices: 65187535--65187612 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
65187525 CGTTATGTGA
* *
65187535 GTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTT
1 GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
* *
65187574 GTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
65187613 ATATAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
Found at i:65188174 original size:241 final size:241
Alignment explanation
Indices: 65187751--65188392 Score: 1212
Period size: 241 Copynumber: 2.7 Consensus size: 241
65187741 AATATAGTAA
*
65187751 TTTTTAAGATTCATCATACGTGGCGCTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
65187816 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
*
65187881 TTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAAGCTACATGGTAATAAATATT
131 TTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAATATT
*
65187946 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTAAAT
196 CAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTAAAT
65187992 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
65188057 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
*
65188122 TTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAACCTACATGGTAATAAATATT
131 TTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAATATT
65188187 CAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTAAAT
196 CAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTAAAT
65188233 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
* *
65188298 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAATG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
* *
65188363 TTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 TTGGATAGAAGGTCAGCTATTGTTGTAATT
65188393 GCTTATAAAT
Statistics
Matches: 393, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 393 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (241 bp):
TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
TTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAATATT
CAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTAAAT
Found at i:65191233 original size:25 final size:25
Alignment explanation
Indices: 65191205--65191258 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
65191195 GCGGAGAGCA
*
65191205 ACGGCGAAGGGACACAGAAGAGACG
1 ACGGCGAAGAGACACAGAAGAGACG
*
65191230 ACGGCGAAGAGACGCAGAAGAGACG
1 ACGGCGAAGAGACACAGAAGAGACG
65191255 ACGG
1 ACGG
65191259 TGAACAACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.41, T:0.00
Consensus pattern (25 bp):
ACGGCGAAGAGACACAGAAGAGACG
Found at i:65191452 original size:27 final size:26
Alignment explanation
Indices: 65191421--65191475 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
65191411 GCCGTTTTGA
*
65191421 AAAAAAAATAACTGTTTGCGGCGCTTTC
1 AAAAAACA-AACT-TTTGCGGCGCTTTC
* *
65191449 AAAAAACAATCTTTTGCGGCGTTTTC
1 AAAAAACAAACTTTTGCGGCGCTTTC
65191475 A
1 A
65191476 GGTGAACGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.58
27 3 0.12
28 7 0.29
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (26 bp):
AAAAAACAAACTTTTGCGGCGCTTTC
Found at i:65191870 original size:158 final size:156
Alignment explanation
Indices: 65191524--65191871 Score: 377
Period size: 158 Copynumber: 2.2 Consensus size: 156
65191514 CCTATTAAGC
* * *
65191524 ACTAATGT-TTTTTGCGGCGTTTATTTAAAAAACGCCGCTAATCCCTATATACTCAACTAAAACG
1 ACTAATCTGTTTTTGCGGCGTTTTTTTAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACG
* * * **
65191588 ACGACGTGTACTATAAACTTGAATTATTTTGCGGCGTTTTTGAAAGTGCCACTAATACCCGTATA
66 ACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCCGTATA
*
65191653 TACTAAAACGGCGCCGTTTTCGTTAA
131 TACTAAAACGACGCCGTTTTCGTTAA
* * * *
65191679 ACTAATCTGTATTTTGTGGCG-TTTTCTATAAAAACGCCGCAAATCCCCTATATATTGAACTAAA
1 ACTAATCTGT-TTTTGCGGCGTTTTTTTA-AAAAACGCCGCAAAT-CCCTATATACTCAACTAAA
* * * * * *
65191743 ACGACGACGCT-T-CCAGTACACTTTACTTCTGTTGCGGCGTTTTTAAAAACGCCACTAGTACTC
63 ACGACGACG-TGTACCA-TAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCC
* *
65191806 -TATCA-ATCTAAAACGACGCCGTTTTCTTTCA
126 GTAT-ATA-CTAAAACGACGCCGTTTTCGTTAA
65191837 ACT-ATACTGTTTTGTGCGGCGTTTTTTTAAAAAAC
1 ACTAAT-CTGTTTT-TGCGGCGTTTTTTTAAAAAAC
65191872 ACCACTAATC
Statistics
Matches: 159, Mismatches: 23, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
155 7 0.04
156 6 0.04
157 34 0.21
158 105 0.66
159 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (156 bp):
ACTAATCTGTTTTTGCGGCGTTTTTTTAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACG
ACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCCGTATA
TACTAAAACGACGCCGTTTTCGTTAA
Found at i:65192864 original size:14 final size:14
Alignment explanation
Indices: 65192844--65192888 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
65192834 TCCTATACCT
65192844 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
65192858 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
65192872 TAAACCCTAAACTA
1 TAAACCCTAAACTA
65192886 TAA
1 TAA
65192889 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:65192875 original size:21 final size:21
Alignment explanation
Indices: 65192837--65192876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65192827 TAGTAATTCC
* *
65192837 TATACCTTAAACCCTAAACTA
1 TATACCCTAAACCATAAACTA
*
65192858 TATACCCTAAATCATAAAC
1 TATACCCTAAACCATAAAC
65192877 CCTAAACTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
TATACCCTAAACCATAAACTA
Found at i:65193172 original size:7 final size:7
Alignment explanation
Indices: 65193160--65193286 Score: 107
Period size: 7 Copynumber: 18.1 Consensus size: 7
65193150 AAAAATGCCA
65193160 CTAAACC
1 CTAAACC
65193167 CTAAACC
1 CTAAACC
65193174 CTAAACC
1 CTAAACC
65193181 CTAAACC
1 CTAAACC
65193188 CTAAACC
1 CTAAACC
*
65193195 CTAAACT
1 CTAAACC
65193202 CTAAACC
1 CTAAACC
*
65193209 CTTAACC
1 CTAAACC
* *
65193216 ATTAACC
1 CTAAACC
*
65193223 CCAAACAC
1 CTAAAC-C
* *
65193231 TTACACC
1 CTAAACC
*
65193238 TTAAACTC
1 CTAAAC-C
65193246 C--AACC
1 CTAAACC
65193251 CT-AACC
1 CTAAACC
65193257 CTTAAACC
1 C-TAAACC
*
65193265 CTAAATC
1 CTAAACC
* *
65193272 ATAATCC
1 CTAAACC
65193279 CTAAACC
1 CTAAACC
65193286 C
1 C
65193287 ATAATTCATC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
5 2 0.02
6 8 0.08
7 77 0.79
8 10 0.10
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:65193355 original size:21 final size:21
Alignment explanation
Indices: 65193329--65193459 Score: 100
Period size: 21 Copynumber: 5.9 Consensus size: 21
65193319 ACTCCTAAAC
65193329 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
** * *
65193350 CTTAAACTTTAGTTAACTCATAAAC
1 CTTAAACCCTA---AAC-CATATAT
*
65193375 CTTAAACCCTAAACTATATAT
1 CTTAAACCCTAAACCATATAT
** * *
65193396 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCCTA---AAC-CATATAT
65193421 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
*
65193442 CTTAAACCATAAACCATA
1 CTTAAACCCTAAACCATA
65193460 AACTATAGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 44 0.53
22 6 0.07
24 6 0.07
25 27 0.33
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.31
Consensus pattern (21 bp):
CTTAAACCCTAAACCATATAT
Found at i:65193366 original size:46 final size:46
Alignment explanation
Indices: 65193313--65193448 Score: 245
Period size: 46 Copynumber: 3.0 Consensus size: 46
65193303 CTTCAAATAC
* *
65193313 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTT
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
*
65193359 TAGTTAACTCATAAACCTTAAACCCTAAACTATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
65193405 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
65193449 CATAAACCAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.32
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:65193428 original size:7 final size:7
Alignment explanation
Indices: 65193414--65193462 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
65193404 ATAGTTAACT
65193414 CATAAAC
1 CATAAAC
*
65193421 CTTAAAC
1 CATAAAC
*
65193428 CCTAAAC
1 CATAAAC
* *
65193435 CATATAT
1 CATAAAC
*
65193442 CTTAAAC
1 CATAAAC
65193449 CATAAAC
1 CATAAAC
65193456 CATAAAC
1 CATAAAC
65193463 TATAGTGATA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAAAC
Found at i:65193685 original size:41 final size:41
Alignment explanation
Indices: 65193624--65193843 Score: 293
Period size: 41 Copynumber: 5.4 Consensus size: 41
65193614 GTTATATGAC
*
65193624 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
*
65193665 TTTTAGCGGAGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
*
65193706 TTTTAGCGGGGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
65193747 TTTTAGCGGCGTTTTGCCAGAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
65193787 TTTTTGTGGCATTTTTTACTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGC-GTTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
*
65193828 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
65193844 GGTAAAACGC
Statistics
Matches: 160, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 14 0.09
41 142 0.89
42 4 0.03
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:65193872 original size:123 final size:123
Alignment explanation
Indices: 65193624--65193872 Score: 308
Period size: 123 Copynumber: 2.0 Consensus size: 123
65193614 GTTATATGAC
*
65193624 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGAGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGAGTTTTTCCAAAAGC
* *
65193689 GCCGCTAATGCTCTGGTTTTTAGCGGGGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTATGGT
* * * * * *
65193747 TTTTAGCGGCGTTTTGCCAGAAGCGCCGCTAATGCTCT-ATTTTTTGTGGCATTTTTTACTAAAA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGG-AGTTTTT-CCAAAA
* * ** *
65193811 -CGCCGCTATTGCTCT-GTTTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGTGT
64 GCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTATG-GT
65193870 TTT
1 TTT
65193873 ACAATTTTTG
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
122 38 0.35
123 65 0.60
124 5 0.05
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGAGTTTTTCCAAAAGC
GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTATGGT
Found at i:65194016 original size:25 final size:25
Alignment explanation
Indices: 65193988--65194057 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
65193978 TGAGCTTTTA
*
65193988 GATTTACAGCTCGTATGAACTTCTC
1 GATTTACAGCTCGTATGAACTTCCC
** * * *
65194013 GATTTGTATCTCGTTTGAGCTTCCC
1 GATTTACAGCTCGTATGAACTTCCC
* *
65194038 GATTCACAGCTTGTATGAAC
1 GATTTACAGCTCGTATGAAC
65194058 ATACATGAAT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
GATTTACAGCTCGTATGAACTTCCC
Found at i:65197046 original size:34 final size:34
Alignment explanation
Indices: 65197000--65197075 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
65196990 TAGCCTTGCC
65197000 CTTTAAAA--AATGGTAAATATGTTTCTTAGTCT
1 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
65197032 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
1 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
65197066 CTTTAAAATT
1 CTTTAAAATT
65197076 TATGAAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 8 0.19
34 34 0.81
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (34 bp):
CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
Found at i:65206325 original size:17 final size:18
Alignment explanation
Indices: 65206303--65206344 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
65206293 GATAAGATAT
65206303 AATAAAATGAAT-AAAG-A
1 AATAAAAT-AATCAAAGAA
65206320 AATAAAA-AATCAAAGAA
1 AATAAAATAATCAAAGAA
65206337 AATAAAAT
1 AATAAAAT
65206345 TATAAGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 15 0.68
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (18 bp):
AATAAAATAATCAAAGAA
Found at i:65207255 original size:28 final size:29
Alignment explanation
Indices: 65207200--65207255 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
65207190 TACTTCTTTC
*
65207200 ATTAAATATAATTAAACATTTTGTTCATA
1 ATTAAATATAATTAAACATTTTATTCATA
*
65207229 ATTAAATATAATT-TACATTTTATTCAT
1 ATTAAATATAATTAAACATTTTATTCAT
65207256 TTTAGTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAAATATAATTAAACATTTTATTCATA
Found at i:65209858 original size:146 final size:148
Alignment explanation
Indices: 65209565--65209875 Score: 599
Period size: 146 Copynumber: 2.1 Consensus size: 148
65209555 GTTGGTTTGT
65209565 TATATTACTATATTTTGGAATGATAGTTGTTTCAAAATTGTAGACATGAAATTATTAATAAAGTG
1 TATATTACTATA-TTTGGAATGATAGTTGTTTCAAAATTGTAGACATGAAATTATTAATAAAGTG
65209630 AAGTTACTGTTAATAGTATTGTCTGATCACGGACTGGTGAATCGGTTAATAACAAAATGAAACTC
65 AAGTTACTGTTAATAGTATTGTCTGATCACGGACTGGTGAATCGGTTAATAACAAAATGAAACTC
65209695 GACTCCATAGACATAAAGA
130 GACTCCATAGACATAAAGA
65209714 TATATTACTATATTTGGAATGATAG-T-TTTCAAAATTGTAGACATGAAATTATTAATAAAGTGA
1 TATATTACTATATTTGGAATGATAGTTGTTTCAAAATTGTAGACATGAAATTATTAATAAAGTGA
65209777 AGTTACTGTTAATAGTATTGTCTGATCACGGACTGGTGAATCGGTTAATAACAAAATGAAACTCG
66 AGTTACTGTTAATAGTATTGTCTGATCACGGACTGGTGAATCGGTTAATAACAAAATGAAACTCG
65209842 ACTCCATAGACATAAAGA
131 ACTCCATAGACATAAAGA
65209860 TATATTACTATATTTG
1 TATATTACTATATTTG
65209876 AGTTTATGTT
Statistics
Matches: 162, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
146 136 0.84
147 1 0.01
148 13 0.08
149 12 0.07
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (148 bp):
TATATTACTATATTTGGAATGATAGTTGTTTCAAAATTGTAGACATGAAATTATTAATAAAGTGA
AGTTACTGTTAATAGTATTGTCTGATCACGGACTGGTGAATCGGTTAATAACAAAATGAAACTCG
ACTCCATAGACATAAAGA
Found at i:65213388 original size:204 final size:204
Alignment explanation
Indices: 65213038--65213449 Score: 815
Period size: 204 Copynumber: 2.0 Consensus size: 204
65213028 CCCTCCATTT
65213038 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
1 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
65213103 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
66 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
*
65213168 TTGATTTCTGGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
131 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
65213233 TTGCTGCAA
196 TTGCTGCAA
65213242 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
1 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
65213307 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
66 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
65213372 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
131 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
65213437 TTGCTGCAA
196 TTGCTGCAA
65213446 TTTT
1 TTTT
65213450 TCCTTACAAA
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 207 1.00
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.43
Consensus pattern (204 bp):
TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
TTGCTGCAA
Found at i:65216654 original size:19 final size:18
Alignment explanation
Indices: 65216619--65216670 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
65216609 TAAATTATTA
65216619 TTTAATAATTACAATAT-TT
1 TTTAA-AATTA-AATATGTT
65216638 GTTTAAAATTAATATATGTT
1 -TTTAAAATTAA-ATATGTT
*
65216658 TTTAATATTAAAT
1 TTTAAAATTAAAT
65216671 GAAAAGTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTAAAATTAAATATGTT
Found at i:65228227 original size:25 final size:26
Alignment explanation
Indices: 65228199--65228247 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
65228189 TTTATTTATT
65228199 AAAATAATATAA-AAAATTAATTACA
1 AAAATAATATAACAAAATTAATTACA
* *
65228224 AAAATGATATAACTAAATTAATTA
1 AAAATAATATAACAAAATTAATTA
65228248 TAAATATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATAATATAACAAAATTAATTACA
Found at i:65230448 original size:147 final size:147
Alignment explanation
Indices: 65230181--65230478 Score: 551
Period size: 147 Copynumber: 2.0 Consensus size: 147
65230171 GGGTAAAGTA
65230181 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
1 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
* *
65230246 TAAATTGACAGAAGTGTTGACGTGAAATTTTTTATTATTAATCTAATAATAAATTTAGTTTTTTA
66 TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
65230311 AAATTTACACATTATAT
131 AAATTTACACATTATAT
65230328 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
1 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
* * *
65230393 TAATTTGACGGAAGTGTTGACATGAAATTTTTTATTATTAGTCTAATAATAAATTTAATTTTTTA
66 TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
65230458 AAATTTACACATTATAT
131 AAATTTACACATTATAT
65230475 CAAA
1 CAAA
65230479 TTGATTTTAA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (147 bp):
CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
AAATTTACACATTATAT
Found at i:65236507 original size:24 final size:23
Alignment explanation
Indices: 65236478--65236532 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
65236468 TATTTCATGC
65236478 TATTTTTTAA-AAAATATTTTAAG
1 TATTTTTTAATAAAAT-TTTTAAG
**
65236501 TATTTTTTAATTTTAATTTTTAAG
1 TATTTTTTAA-TAAAATTTTTAAG
65236525 TATTTTTT
1 TATTTTTT
65236533 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 10 0.36
24 15 0.54
25 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTTTTAATAAAATTTTTAAG
Found at i:65236545 original size:24 final size:23
Alignment explanation
Indices: 65236493--65236546 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
65236483 TTTAAAAAAT
65236493 ATTTTAAGTATTTTTTAATTTTA
1 ATTTTAAGTATTTTTTAATTTTA
65236516 ATTTTTAAGTATTTTTTTAATTTTA
1 A-TTTTAAGTA-TTTTTTAATTTTA
65236541 ATTTTA
1 ATTTTA
65236547 CTTTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
25 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTAAGTATTTTTTAATTTTA
Found at i:65236559 original size:25 final size:25
Alignment explanation
Indices: 65236494--65236545 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
65236484 TTAAAAAATA
65236494 TTTTAAGTA-TTTTTTAATTTTAAT
1 TTTTAAGTATTTTTTTAATTTTAAT
65236518 TTTTAAGTATTTTTTTAATTTTAAT
1 TTTTAAGTATTTTTTTAATTTTAAT
65236543 TTT
1 TTT
65236546 ACTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTAAGTATTTTTTTAATTTTAAT
Found at i:65253700 original size:11 final size:11
Alignment explanation
Indices: 65253684--65253729 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
65253674 TTCTTTATAT
65253684 ATTTTTTTGAA
1 ATTTTTTTGAA
65253695 ATTTTTTTG-A
1 ATTTTTTTGAA
65253705 ATTTTTTAT-AA
1 ATTTTTT-TGAA
*
65253716 A-TATTTTGAA
1 ATTTTTTTGAA
65253726 ATTT
1 ATTT
65253730 AAAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
9 1 0.03
10 15 0.52
11 13 0.45
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
ATTTTTTTGAA
Found at i:65254529 original size:17 final size:20
Alignment explanation
Indices: 65254509--65254553 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
65254499 ACTATTTAAT
65254509 TAAATAA-AT-TTA-TTTTA
1 TAAATAATATATTAGTTTTA
*
65254526 TAAAATAATGTATTAGTTTTA
1 T-AAATAATATATTAGTTTTA
65254547 TAAATAA
1 TAAATAA
65254554 GAATTCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 6 0.26
19 1 0.04
20 9 0.39
21 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TAAATAATATATTAGTTTTA
Found at i:65256242 original size:18 final size:20
Alignment explanation
Indices: 65256216--65256256 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
65256206 GAAATATTTA
*
65256216 TTTTGATGT-TTTTA-GTAT
1 TTTTGATGTATTATATGTAT
*
65256234 TTTTTATGTATTATATGTAT
1 TTTTGATGTATTATATGTAT
65256254 TTT
1 TTT
65256257 AAAATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTGATGTATTATATGTAT
Found at i:65256287 original size:12 final size:12
Alignment explanation
Indices: 65256257--65256289 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
65256247 TATGTATTTT
65256257 AAAATT-ATATA
1 AAAATTAATATA
65256268 AAAA-TAATATA
1 AAAATTAATATA
65256279 AAAATTAATAT
1 AAAATTAATAT
65256290 TGGTAGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:65272182 original size:6 final size:6
Alignment explanation
Indices: 65272161--65272194 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
65272151 AACCCTAATA
*
65272161 ACCTAT A-CTAT GCCTAT ACCTAT ACCTAT ACCTA
1 ACCTAT ACCTAT ACCTAT ACCTAT ACCTAT ACCTA
65272195 ACCCAGTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (6 bp):
ACCTAT
Found at i:65274396 original size:22 final size:21
Alignment explanation
Indices: 65274353--65274400 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
65274343 TTAGGGTTTT
65274353 ATAATTTTATAAAAATATTTA
1 ATAATTTTATAAAAATATTTA
* *
65274374 ACTAATTTT-TAGAATTATATTA
1 A-TAATTTTATAAAAATAT-TTA
65274396 ATAAT
1 ATAAT
65274401 AAAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTTTATAAAAATATTTA
Found at i:65277295 original size:4 final size:4
Alignment explanation
Indices: 65277286--65277319 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
65277276 AAGTTTTATT
65277286 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
65277320 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:65277327 original size:22 final size:22
Alignment explanation
Indices: 65277269--65277328 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
65277259 AAGTGGCCCA
*
65277269 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
65277293 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
65277314 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
65277329 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:65279676 original size:18 final size:18
Alignment explanation
Indices: 65279655--65279693 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
65279645 GATTGAGAGT
* *
65279655 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
65279673 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
65279691 GAA
1 GAA
65279694 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:65281095 original size:4 final size:4
Alignment explanation
Indices: 65281086--65281119 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
65281076 AAGTTTTATT
65281086 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
65281120 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:65281127 original size:22 final size:22
Alignment explanation
Indices: 65281069--65281128 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
65281059 AAGTGGCCCA
*
65281069 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
65281093 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
65281114 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
65281129 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:65289037 original size:34 final size:34
Alignment explanation
Indices: 65288999--65289094 Score: 83
Period size: 34 Copynumber: 2.8 Consensus size: 34
65288989 GAAGATATAC
*
65288999 ATACATAAAATAATATGAAATCAATAATACATAT
1 ATACATAAAATAATATGAAATCAATAATAAATAT
* *
65289033 ATACACATAAA-AA-ATGAAA--AATTAAAGGAAATAT
1 ATACATA-AAATAATATGAAATCAA-T-AA-TAAATAT
* *
65289067 TTACATAAAATAATAGGAAATCAATAAT
1 ATACATAAAATAATATGAAATCAATAAT
65289095 GTATACTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
31 2 0.04
32 1 0.02
33 11 0.23
34 20 0.43
35 10 0.21
36 1 0.02
37 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.26
Consensus pattern (34 bp):
ATACATAAAATAATATGAAATCAATAATAAATAT
Found at i:65290751 original size:133 final size:133
Alignment explanation
Indices: 65290443--65290740 Score: 434
Period size: 133 Copynumber: 2.2 Consensus size: 133
65290433 GCCACCTTCG
* * * * *
65290443 ATCTGCTCCATAGTCGATACAGGGAAATAAGATCTGTTATTTTCAGTCTGTTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTTATTTTCAGTCTGCTTCCTTACTACCTC
* * * *
65290508 AAGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAGAGAGATAATGCTAGTGGCT
66 AAGAAGATAAGACTTGCATATTGAACCTACTCCACTACAACTTCAGAGAGATAAGGCTAGTGACT
65290573 AAA
131 AAA
* * *
65290576 ATCTGTTCCATAGCCGATACATGAAGATAAGATCTGTTATTTTCAGTCTGCTTCCTTACTACCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTTATTTTCAGTCTGCTTCCTTACTACCTC
* * * *
65290641 AGGAAGATAAGACTTGCATATTGAACCTACTCCACTTCAACTTCAGGGAGATAAGGCTGGTGACT
66 AAGAAGATAAGACTTGCATATTGAACCTACTCCACTACAACTTCAGAGAGATAAGGCTAGTGACT
65290706 AAA
131 AAA
* *
65290709 ATTTGCTCTATAGCCGATACATGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
65290741 CTCGCCATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 145 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (133 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTTATTTTCAGTCTGCTTCCTTACTACCTC
AAGAAGATAAGACTTGCATATTGAACCTACTCCACTACAACTTCAGAGAGATAAGGCTAGTGACT
AAA
Found at i:65290853 original size:177 final size:176
Alignment explanation
Indices: 65290582--65291152 Score: 811
Period size: 177 Copynumber: 3.2 Consensus size: 176
65290572 TAAAATCTGT
* * * *
65290582 TCCATAGCCGATACATGAAGATAAGATCTGTTATTTTCAGTCTGCTTCCTTACTACCTTAGGAAG
1 TCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCC-TACAACTTTAGGAAG
* * *
65290647 ATAAGACTTGCATATTGAACCTACTCCACTTCAACTTCAGGGAGATAAGGCTGGTGACTAAAATT
65 ATAAGACTTGCATATTGAACCTGCTCCACTTCAACTTCAGGGAGATAAGGCTGGTGGCTAAAATC
* *
65290712 TGCTCTATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATCTA
130 TGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCTA
*
65290759 CTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTACAACTTTAGGAAG
1 -TCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTTAGGAAG
* * *
65290824 ATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGCTAAAATC
65 ATAAGACTTGCATATTGAACCTGCTCCACTTCAACTTCAGGGAGATAAGGCTGGTGGCTAAAATC
* * *
65290889 TACTCCGTAGCCGATACATGGAGATAAGACTCACCATTTTCGATCTGA
130 TGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCT-A
* * * *
65290937 TCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAATA
1 TCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTTAGGAAGA
* * * * * * * *
65291002 TAAGACTTGTATCTTCAACCTGCT-CTCTTGCTACCTCAGAGAGATAAAGCTGGTGGCTAAAATC
66 TAAGACTTGCATATTGAACCTGCTCCACTT-CAACTTCAGGGAGATAAGGCTGGTGGCTAAAATC
*
65291066 TGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCTGT
130 TGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCT-A
* *
65291114 TCCATAGCCGATACATGGAGATAAGTTCTATAATTTTCA
1 TCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCA
65291153 TCGATATCGC
Statistics
Matches: 352, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
176 3 0.01
177 302 0.86
178 47 0.13
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (176 bp):
TCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTTAGGAAGA
TAAGACTTGCATATTGAACCTGCTCCACTTCAACTTCAGGGAGATAAGGCTGGTGGCTAAAATCT
GCTCCATAGCCGATACATGGAGATAAGACTCACCATTTTTGATCTA
Found at i:65290997 original size:310 final size:311
Alignment explanation
Indices: 65290350--65290942 Score: 791
Period size: 311 Copynumber: 1.9 Consensus size: 311
65290340 GGTTTGTGAC
* *
65290350 TTCAACCTGCTCCACTGCAACTTCAGGGAGACAAAGCTGGTGGCTAAAATATGCTCCATAGCCGA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGACAAAGCTGGTGACTAAAATATGCTCCATAGCCGA
* *
65290415 TACATGGAGATAAGACTCGCCACCTTCGATCTGCTCCATAGTCGATACAGGGAAATAAGATCTGT
66 TACATGGAGATAAGACTCGCCACCTTCGATCTACTCCATAGCCGATACAGGGAAATAAGATCTGT
* ** * *
65290480 TATTTTCAGTCTGTTTCCTTGCTACCTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCCACTA
131 AATTTTCAGTCTACTTCCTTACAACCTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCCACTA
* **
65290545 CAACTTCAGAGAGATAATGCTAGTGGCTAAAATCTGTTCCATAGCCGATACATGAAGATAAGATC
196 CAACTTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATAGCCGATACATGAAGATAAGATC
*** * * * *
65290610 TGTTATTTTCAGTCTGCTTCCTTACTACCTTAGGAAGATAAGACTTGCATA
261 TACCATTTTCAGTCTGCATCCATACTACCATAGGAAGATAAGACTTGAATA
* * * * * *
65290661 TTGAACCTACTCCACTTCAACTTCAGGGAGATAAGGCTGGTGACTAAAATTTGCTCTATAGCCGA
1 TTCAACCTACTCCACTGCAACTTCAGGGAGACAAAGCTGGTGACTAAAATATGCTCCATAGCCGA
** * * *
65290726 TACATGGAGATAAGACTCGCCATTTTTGATCTACTCCATAGCCGATACATGGAGATAAGATCTGT
66 TACATGGAGATAAGACTCGCCACCTTCGATCTACTCCATAGCCGATACAGGGAAATAAGATCTGT
* * * *
65290791 AATTTTCAGTCTACTTCC-TACAACTTTAGGAAGATAAGACTTGCATATTGAGCCTGCTCCACTG
131 AATTTTCAGTCTACTTCCTTACAACCTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCCACTA
* * *
65290855 CAACTTCA-AGGAGATAAGGCTGGTGGCTAAAATCTACTCCGTAGCCGATACATGGAGATAAGA-
196 CAACTTCAGA-GAGATAAGGCTAGTGGCTAAAATCTACTCCATAGCCGATACATGAAGATAAGAT
65290918 CTCACCATTTTC-GATCTG-ATCCATA
260 CT-ACCATTTTCAG-TCTGCATCCATA
65290943 GCCGATACAT
Statistics
Matches: 244, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
309 9 0.04
310 105 0.43
311 130 0.53
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (311 bp):
TTCAACCTACTCCACTGCAACTTCAGGGAGACAAAGCTGGTGACTAAAATATGCTCCATAGCCGA
TACATGGAGATAAGACTCGCCACCTTCGATCTACTCCATAGCCGATACAGGGAAATAAGATCTGT
AATTTTCAGTCTACTTCCTTACAACCTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCCACTA
CAACTTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATAGCCGATACATGAAGATAAGATC
TACCATTTTCAGTCTGCATCCATACTACCATAGGAAGATAAGACTTGAATA
Found at i:65295812 original size:21 final size:21
Alignment explanation
Indices: 65295787--65295832 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
65295777 GAAATGCAAG
65295787 AAAAGAAAATTTACTCA-AGAT
1 AAAAGAAAATTTACTCAGA-AT
* *
65295808 AAAAGAATATTTGCTCAGAAT
1 AAAAGAAAATTTACTCAGAAT
65295829 AAAA
1 AAAA
65295833 CATGAAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (21 bp):
AAAAGAAAATTTACTCAGAAT
Found at i:65301008 original size:47 final size:47
Alignment explanation
Indices: 65300873--65301043 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 47
65300863 ATAGTAAAAC
* * * *
65300873 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * *
65300922 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
65300968 TATGGTCTTATACAGTAGCACATATCACACCGATGTCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* ** *
65301015 TATGGTCTTATATGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
65301044 TTTCTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 26 0.25
47 54 0.53
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:65304594 original size:22 final size:23
Alignment explanation
Indices: 65304568--65304613 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
65304558 CAACCAAACC
65304568 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
65304590 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
65304613 A
1 A
65304614 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:65304619 original size:23 final size:23
Alignment explanation
Indices: 65304575--65304619 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65304565 ACCAATTCAA
*
65304575 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
65304598 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
65304620 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:65323547 original size:28 final size:28
Alignment explanation
Indices: 65323507--65323571 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
65323497 TGTACTTATT
*
65323507 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
65323535 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
65323563 ATACCCCTA
1 ATACCCCTA
65323572 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:65323736 original size:27 final size:27
Alignment explanation
Indices: 65323678--65323767 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
65323668 AGGAAGCGTC
65323678 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
65323706 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
65323733 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
65323762 CTGGTG
1 CTGGTG
65323768 ACTCTGTCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65323786 original size:55 final size:56
Alignment explanation
Indices: 65323678--65323792 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
65323668 AGGAAGCGTC
* *
65323678 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
65323733 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCATAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
65323789 CTGG
1 CTGG
65323793 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:65327689 original size:5 final size:5
Alignment explanation
Indices: 65327674--65327726 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
65327664 TAACCCAATT
65327674 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA CTATTTA --TTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTTA TTTTA
65327723 TTTT
1 TTTT
65327727 TTTGGATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.07
4 4 0.09
5 31 0.72
6 1 0.02
7 4 0.09
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:65329311 original size:10 final size:10
Alignment explanation
Indices: 65329296--65329345 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
65329286 TAATCTTAGG
65329296 ATTTAT-TTT
1 ATTTATCTTT
65329305 CATTTATCTTT
1 -ATTTATCTTT
*
65329316 AATTATCTTT
1 ATTTATCTTT
65329326 ATTTAT-TTGT
1 ATTTATCTT-T
65329336 ATTTATCTTT
1 ATTTATCTTT
65329346 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:65337260 original size:42 final size:41
Alignment explanation
Indices: 65337174--65337311 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 41
65337164 CATGTAGTAT
* * *
65337174 AATTCGTATTCTATTTTGATTTTTT-TTGAAATAATAGTTC
1 AATTAGTATTATATTTTGATTTTTTATTGAAATAATAGTTA
65337214 AATTAGTATTATATTTTGATTCTTTTATTGAAATAATAGTTA
1 AATTAGTATTATATTTTGATT-TTTTATTGAAATAATAGTTA
* *
65337256 AATTAGTATTGTATTTTTATTTTTATTTTATTGAAATAATAGTTA
1 AATTAGTATTATATTTTGA---TT-TTTTATTGAAATAATAGTTA
* *
65337301 TATAAGTATTA
1 AATTAGTATTA
65337312 AATGAAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 19 0.23
41 4 0.05
42 31 0.37
45 30 0.36
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.54
Consensus pattern (41 bp):
AATTAGTATTATATTTTGATTTTTTATTGAAATAATAGTTA
Found at i:65338196 original size:20 final size:20
Alignment explanation
Indices: 65338171--65338208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65338161 TAAAATAAAG
* *
65338171 ATATTTCAAAATTTATATAA
1 ATATTTAAAAATATATATAA
65338191 ATATTTAAAAATATATAT
1 ATATTTAAAAATATATAT
65338209 TCTTATGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTAAAAATATATATAA
Found at i:65340505 original size:25 final size:26
Alignment explanation
Indices: 65340476--65340534 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
65340466 TTTTTGAATT
65340476 TATATTATAAGATGTAAGATCACT-A
1 TATATTATAAGATGTAAGATCACTGA
65340501 TATATTATAAGATGTAAGATCACTGA
1 TATATTATAAGATGTAAGATCACTGA
*
65340527 TTTATTAT
1 TATATTAT
65340535 GTGTATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.75
26 8 0.25
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (26 bp):
TATATTATAAGATGTAAGATCACTGA
Found at i:65340990 original size:18 final size:18
Alignment explanation
Indices: 65340967--65341028 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
65340957 TGTATTAAAT
65340967 AAATATTATAATAAGTAA
1 AAATATTATAATAAGTAA
* *
65340985 AAATATGTAATGTATTAA-TAT
1 AAATAT-T-A--TAATAAGTAA
*
65341006 AAATATTATTATAAGTAA
1 AAATATTATAATAAGTAA
65341024 AAATA
1 AAATA
65341029 AGAGTGGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 4 0.12
18 13 0.38
19 2 0.06
20 2 0.06
21 8 0.24
22 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATTATAATAAGTAA
Found at i:65341486 original size:13 final size:13
Alignment explanation
Indices: 65341470--65341496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65341460 TAAATTTTAT
65341470 AAAAATAATATAA
1 AAAAATAATATAA
65341483 AAAAATAATATAA
1 AAAAATAATATAA
65341496 A
1 A
65341497 GTACTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATAATATAA
Found at i:65354051 original size:21 final size:21
Alignment explanation
Indices: 65354025--65354065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65354015 AGACGAGCAA
* *
65354025 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65354046 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65354066 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65356947 original size:96 final size:96
Alignment explanation
Indices: 65356783--65356974 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
65356773 TCTGAAAGCA
*
65356783 TTGATCATCCTATTAATTCATTTCGCCTTTGCAAAGCCATTTAGTTCGGGTGCCCTCTCTCATGA
1 TTGATCACCCTATTAATTCATTTCGCCTTTGCAAAGCCATTTAGTTCGGGTGCCCTCTCTCATGA
65356848 GAATTGATCAACCTGGGATAAGATCCACCAT
66 GAATTGATCAACCTGGGATAAGATCCACCAT
65356879 TTGATCACCCTATTAATTCATTTCGCCTTTGCAAAGCCATTTAGTTCGGGTGCCCTCTCTCATGA
1 TTGATCACCCTATTAATTCATTTCGCCTTTGCAAAGCCATTTAGTTCGGGTGCCCTCTCTCATGA
65356944 GAATTGATCAACCTGGGATAAGATCCACCAT
66 GAATTGATCAACCTGGGATAAGATCCACCAT
65356975 AGATAGCAGA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (96 bp):
TTGATCACCCTATTAATTCATTTCGCCTTTGCAAAGCCATTTAGTTCGGGTGCCCTCTCTCATGA
GAATTGATCAACCTGGGATAAGATCCACCAT
Found at i:65362413 original size:42 final size:42
Alignment explanation
Indices: 65362354--65362476 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
65362344 ATTCTTGAAC
* * * *
65362354 ATTAGCTTGCTCACAAACGGGTAGCAAGGAAACATGAAAAAT
1 ATTAGCTTGCTAACAAACGTGCAGCAAGGAAGCATGAAAAAT
* *
65362396 ATTAGCTTGCTAACAAACGTGCAACAAAGAAGCATGAAAAAT
1 ATTAGCTTGCTAACAAACGTGCAGCAAGGAAGCATGAAAAAT
* * *
65362438 ATCAGCTTACTGACAAACGTGCAGCAAGGAAGCATGAAA
1 ATTAGCTTGCTAACAAACGTGCAGCAAGGAAGCATGAAA
65362477 CAATCTGCTC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
ATTAGCTTGCTAACAAACGTGCAGCAAGGAAGCATGAAAAAT
Found at i:65365058 original size:2 final size:2
Alignment explanation
Indices: 65365051--65365077 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65365041 TTCATTTTAT
65365051 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
65365078 TATATATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65384987 original size:38 final size:40
Alignment explanation
Indices: 65384945--65385037 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 40
65384935 AAAAAAACAG
*
65384945 TATATTCTTATTTTGTT-AA-AATA-ATATG-TACAAATATA
1 TATATTCTTATTTTGTTAAACAAAACATATGTTA-AAATA-A
*
65384983 TATATATC-AATTTTGTTAAACAAAACTATATGTTAAAATAA
1 TATAT-TCTTATTTTGTTAAACAAAAC-ATATGTTAAAATAA
65385024 TATATTCTTATTTT
1 TATATTCTTATTTT
65385038 ATAGTAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
38 13 0.29
39 4 0.09
40 5 0.11
41 11 0.24
42 10 0.22
43 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (40 bp):
TATATTCTTATTTTGTTAAACAAAACATATGTTAAAATAA
Found at i:65385494 original size:16 final size:16
Alignment explanation
Indices: 65385472--65385540 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
65385462 TTTGGTTCGC
65385472 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
65385488 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65385504 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
65385521 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65385537 TGTA
1 TGTA
65385541 ATAGCTAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65385518 original size:33 final size:32
Alignment explanation
Indices: 65385472--65385540 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
65385462 TTTGGTTCGC
65385472 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
65385504 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
65385537 TGTA
1 TGTA
65385541 ATAGCTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:65385797 original size:18 final size:17
Alignment explanation
Indices: 65385776--65385810 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65385766 TTATTATTAA
*
65385776 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65385794 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65385811 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65385972 original size:120 final size:120
Alignment explanation
Indices: 65385759--65386021 Score: 508
Period size: 120 Copynumber: 2.2 Consensus size: 120
65385749 ATCATATTTA
65385759 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
65385824 TATTCTTATGTTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
65385879 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
65385944 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65385999 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
65386022 AACTTGAAAA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 141 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:65406707 original size:28 final size:28
Alignment explanation
Indices: 65406667--65406725 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
65406657 AAGTGAGCCT
65406667 TAAGCGTTTTACCTTTTCCTTTAAAAAC
1 TAAGCGTTTTACCTTTTCCTTTAAAAAC
65406695 TAAGCGTTTTACCTTTTCCTTTAAAAAC
1 TAAGCGTTTTACCTTTTCCTTTAAAAAC
65406723 TAA
1 TAA
65406726 CTTGATTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (28 bp):
TAAGCGTTTTACCTTTTCCTTTAAAAAC
Found at i:65416014 original size:16 final size:17
Alignment explanation
Indices: 65415978--65416014 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
65415968 AATTTTATTT
*
65415978 TAATAATAATTTTTAAA
1 TAATAATAATATTTAAA
65415995 -AATAATAA-ATTTAAA
1 TAATAATAATATTTAAA
65416010 TAATA
1 TAATA
65416015 TTCTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATAATATTTAAA
Found at i:65416039 original size:7 final size:7
Alignment explanation
Indices: 65416027--65416053 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65416017 CTTCATTTAA
65416027 AATATTC
1 AATATTC
65416034 AATATTC
1 AATATTC
65416041 AATATTC
1 AATATTC
65416048 AATATT
1 AATATT
65416054 TTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATTC
Found at i:65420640 original size:42 final size:43
Alignment explanation
Indices: 65420496--65420716 Score: 252
Period size: 43 Copynumber: 5.2 Consensus size: 43
65420486 ATATGTAACA
* * *
65420496 CCGCTAAAGACCAGGACTTTTAGCGGCGGTTGTATAAAAAATG
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACG
*
65420539 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAACG
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACG
*
65420582 CTGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAA-G
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACG
* * * * *
65420624 CCACTATAGAACAGGACTTTTAACGGCG-TTTTTTAAAAAAGCG
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAA-CG
* * * * *
65420667 CCGCTAAATGTCCTGGTC-TTTAGTGGCGCTTTT-TATAAAAGCG
1 CCGCTAAA-GACCAGGACTTTTAGCGGCGCTTTTATA-AAAAACG
65420710 CCGCTAA
1 CCGCTAA
65420717 TTTGCCCAGT
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 11 0.07
42 24 0.16
43 105 0.69
44 13 0.08
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTATAAAAAACG
Found at i:65424979 original size:10 final size:11
Alignment explanation
Indices: 65424964--65424992 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65424954 AGGTGATCAT
65424964 GGGCCGGG-TC
1 GGGCCGGGTTC
65424974 GGGCCGGGTTC
1 GGGCCGGGTTC
65424985 GGGCCGGG
1 GGGCCGGG
65424993 CCCATACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.00, C:0.28, G:0.62, T:0.10
Consensus pattern (11 bp):
GGGCCGGGTTC
Found at i:65425111 original size:5 final size:5
Alignment explanation
Indices: 65425095--65425124 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
65425085 AAATTACTAA
65425095 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCC
65425125 ATATTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:65425189 original size:26 final size:24
Alignment explanation
Indices: 65425159--65425208 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
65425149 AAATAAAAAA
*
65425159 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
65425185 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
65425209 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:65425233 original size:21 final size:22
Alignment explanation
Indices: 65425195--65425237 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65425185 ATTTAAAAAC
*
65425195 ATAAAAACAAATATTAAAACAA
1 ATAAAAACAAATACTAAAACAA
*
65425217 ATAAAAATAAA-ACTAAAACAA
1 ATAAAAACAAATACTAAAACAA
65425238 TTCTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (22 bp):
ATAAAAACAAATACTAAAACAA
Found at i:65425314 original size:15 final size:16
Alignment explanation
Indices: 65425284--65425316 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65425274 AAATGGTTAT
65425284 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
65425301 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
65425316 A
1 A
65425317 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:65429075 original size:28 final size:28
Alignment explanation
Indices: 65429022--65429107 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
65429012 CACTTTGTGC
65429022 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
65429051 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
65429079 GATACTGATGTGTTTTGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
65429107 T
1 T
65429108 GGTGTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.48
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:65429117 original size:23 final size:26
Alignment explanation
Indices: 65429025--65429119 Score: 106
Period size: 28 Copynumber: 3.6 Consensus size: 26
65429015 TTTGTGCTAT
65429025 TCTGGTGTGTTTTGGATGGATTATATTA
1 TCTGGTGTGTTTTGGA-GGATTATA-TA
*
65429053 TTCTGGTGTGTTTGGGAGGATTATATGA
1 -TCTGGTGTGTTTTGGAGGATTATAT-A
*
65429081 TACTGATGTGTTTTGGAGGA-T-TATA
1 T-CTGGTGTGTTTTGGAGGATTATATA
65429106 T-TGGTGTGTTTTGG
1 TCTGGTGTGTTTTGG
65429120 TTGGACATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
23 12 0.20
25 2 0.03
26 3 0.05
27 3 0.05
28 25 0.42
29 15 0.25
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (26 bp):
TCTGGTGTGTTTTGGAGGATTATATA
Found at i:65429359 original size:21 final size:21
Alignment explanation
Indices: 65429309--65429391 Score: 96
Period size: 21 Copynumber: 3.9 Consensus size: 21
65429299 GGCTATACTG
* *
65429309 ATCAGGCACTTTATATGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
65429330 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
*
65429353 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
65429374 TTCAGGCA-CTTATGTGTC
1 ATCAGGCACCTTATGTGTC
65429392 ATATACTGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
20 9 0.17
21 26 0.49
23 18 0.34
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:65429372 original size:44 final size:41
Alignment explanation
Indices: 65429309--65429391 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 41
65429299 GGCTATACTG
* * *
65429309 ATCAGGCACTTTATATGTCGTATTTCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTCATATGTCG--TTTCAGGCA-CTTATGTGTCGT
*
65429353 ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTC
1 ATCAGGCACCTCATATGTCGTTTCAGGCACTTATGTGTC
65429392 ATATACTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 9 0.26
44 17 0.49
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCAGGCACCTCATATGTCGTTTCAGGCACTTATGTGTCGT
Found at i:65430635 original size:46 final size:48
Alignment explanation
Indices: 65430477--65430663 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 48
65430467 CGGTTGGACC
65430477 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
** * * * *
65430523 ATGGCATCAGAGATATGTGATTACATGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
65430576 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
65430622 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
65430664 TTTTACTATG
Statistics
Matches: 112, Mismatches: 16, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 7 0.06
48 18 0.16
49 13 0.12
50 1 0.01
51 7 0.06
52 4 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:65434160 original size:9 final size:9
Alignment explanation
Indices: 65434146--65434312 Score: 163
Period size: 9 Copynumber: 17.6 Consensus size: 9
65434136 ATGTATTTGT
65434146 TAAGTTATG
1 TAAGTTATG
65434155 TAAGTTGTTATG
1 TAA---GTTATG
*
65434167 TACGTTATG
1 TAAGTTATG
*
65434176 TGAGTTATG
1 TAAGTTATG
*
65434185 TAAATTATG
1 TAAGTTATG
65434194 TAAGTTATG
1 TAAGTTATG
*
65434203 TGAGTTATG
1 TAAGTTATG
65434212 TAAGTTGTTATG
1 TAA---GTTATG
*
65434224 TAAATTATG
1 TAAGTTATG
65434233 TAAGTTATG
1 TAAGTTATG
*
65434242 TGAGTTATG
1 TAAGTTATG
65434251 TAAGTTGGTATG
1 TAAG-T--TATG
*
65434263 TAAATTATG
1 TAAGTTATG
*
65434272 TAAGTTATA
1 TAAGTTATG
65434281 TAAGTTATG
1 TAAGTTATG
65434290 TAAGTTATG
1 TAAGTTATG
* *
65434299 TAATTTATT
1 TAAGTTATG
65434308 TAAGT
1 TAAGT
65434313 AATGATCAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
9 104 0.80
10 1 0.01
11 1 0.01
12 24 0.18
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65434222 original size:39 final size:39
Alignment explanation
Indices: 65434179--65434295 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
65434169 CGTTATGTGA
65434179 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
65434218 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
* * *
65434257 GGTATGTAAATTATGTAAGTTATATAAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
65434296 ATGTAATTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:65434222 original size:48 final size:43
Alignment explanation
Indices: 65434161--65434300 Score: 170
Period size: 39 Copynumber: 3.4 Consensus size: 43
65434151 TATGTAAGTT
*
65434161 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAG-TATGT-AGTTATGTAAATTATGTAAGTTATGTGA
65434206 GTTATGTAAG--T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
* *
65434245 GTTATGTAAGT-TG--G-TATGTAAATTATGTAAGTTATATAA
1 GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
65434284 GTTATGTAAGTTATGTA
1 GTTATGTAAG-TATGTA
65434301 ATTTATTTAA
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
39 70 0.81
40 3 0.03
41 3 0.03
42 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (43 bp):
GTTATGTAAGTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:65434239 original size:57 final size:58
Alignment explanation
Indices: 65434146--65434312 Score: 198
Period size: 57 Copynumber: 2.9 Consensus size: 58
65434136 ATGTATTTGT
* *
65434146 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGT-TATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTGTATG
* * * *
65434203 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGGTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAG-T-GTATG
* * * *
65434263 TAAATTATGTAA---GTTATATAAGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
65434313 AATGATCAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 78 0.83
58 1 0.01
60 14 0.15
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (58 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTGTATG
Found at i:65434301 original size:48 final size:48
Alignment explanation
Indices: 65434146--65434301 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
65434136 ATGTATTTGT
* * * *
65434146 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
65434194 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTT-GGTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * *
65434242 TGAGTTATGTAAGTTGGTATGTAAATTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
65434290 TAAGTTATGTAA
1 TAAGTTATGTAA
65434302 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.06
48 80 0.90
49 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGGTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:65434915 original size:241 final size:241
Alignment explanation
Indices: 65434492--65434978 Score: 875
Period size: 241 Copynumber: 2.0 Consensus size: 241
65434482 TTAAGGTTAT
*
65434492 ATAAATATTCCATAGTAAATGAGCTCGATAGAACATTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACATTTTCCAAGTCTTTTTGAATTTTTTAAGAT
* *
65434557 TCATCATACGTGGCGTTGTTGCACCTAAGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGACGTTGTTACACCTAAGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
65434622 ACCTGTCAGGTTTCCAGTCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
65434687 GGTCAGGTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGGTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* * * *
65434733 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTTAATTTTTTATGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACATTTTCCAAGTCTTTTTGAATTTTTTAAGAT
*
65434798 TCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGACGTTGTTACACCTAAGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
65434863 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
65434928 GGTCAGGTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGGTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
65434974 ATAAA
1 ATAAA
65434979 ATTAATTCAT
Statistics
Matches: 235, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
241 235 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACATTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGACGTTGTTACACCTAAGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGGTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:65435463 original size:14 final size:13
Alignment explanation
Indices: 65435444--65435473 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
65435434 CAATATAATT
65435444 TTACTTCATATATA
1 TTACTTCATATA-A
65435458 TTACTTCATATAA
1 TTACTTCATATAA
65435471 TTA
1 TTA
65435474 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:65438613 original size:37 final size:37
Alignment explanation
Indices: 65438532--65438647 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 37
65438522 TGCACGGGGC
*
65438532 GAAGGCGATGGAGGCCGAGATGGGTTGCGATGA-AC-GGTGC
1 GAAGGCGATGGAGG--G-GATGGGTTGCGAT-ACACAGG-GA
*
65438572 GAAGGCGATGGAGGGGATGGTTTGCGATACACAGGGA
1 GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
* * *
65438609 GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
1 GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
65438646 GA
1 GA
65438648 TTTGGGGGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.01
37 50 0.74
38 3 0.04
40 14 0.21
ACGTcount: A:0.27, C:0.12, G:0.47, T:0.15
Consensus pattern (37 bp):
GAAGGCGATGGAGGGGATGGGTTGCGATACACAGGGA
Found at i:65440047 original size:21 final size:21
Alignment explanation
Indices: 65440023--65440073 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
65440013 GCCTAACCTC
65440023 TAAAACCATGAACATTAGTAT
1 TAAAACCATGAACATTAGTAT
*
65440044 TAAAACCATGAACATTTGTAT
1 TAAAACCATGAACATTAGTAT
65440065 TAAAACCAT
1 TAAAACCAT
65440074 AAACCCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (21 bp):
TAAAACCATGAACATTAGTAT
Found at i:65440104 original size:14 final size:14
Alignment explanation
Indices: 65440065--65440107 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
65440055 ACATTTGTAT
65440065 TAAAACCATAAACCC
1 TAAAA-CATAAACCC
** *
65440080 TAAAATTTAAACTC
1 TAAAACATAAACCC
65440094 TAAAACATAAACCC
1 TAAAACATAAACCC
65440108 AACCCCCAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAACATAAACCC
Found at i:65440605 original size:40 final size:38
Alignment explanation
Indices: 65440541--65440644 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 38
65440531 CTGAACACTG
*
65440541 TTGCGGCGTTTTCTTAAAAACGCCGCT-AATGTTTGAT-TAT
1 TTGCGGCGTTTT-TTAAAAACGCCGCTAAAAG-TT-ATCT-T
* *
65440581 TTGCGGCGTTTTTTCATAAGCGCCGCTAAAAGTTATCTT
1 TTGCGGCGTTTTTT-AAAAACGCCGCTAAAAGTTATCTT
65440620 TTGCGGCGTTTTTTTAACAAACGCC
1 TTGCGGCG-TTTTTTAA-AAACGCC
65440645 ACTATATCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
39 14 0.26
40 37 0.69
41 3 0.06
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (38 bp):
TTGCGGCGTTTTTTAAAAACGCCGCTAAAAGTTATCTT
Found at i:65441216 original size:25 final size:25
Alignment explanation
Indices: 65441182--65441232 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65441172 AATGAAGGTG
65441182 ATAGATACATGATATATATAAAGTA
1 ATAGATACATGATATATATAAAGTA
65441207 ATAGATACATGATATATATAAAGTA
1 ATAGATACATGATATATATAAAGTA
65441232 A
1 A
65441233 GCATAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (25 bp):
ATAGATACATGATATATATAAAGTA
Found at i:65451833 original size:15 final size:15
Alignment explanation
Indices: 65451815--65451866 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
65451805 ATTTAATATT
*
65451815 AATATATTGATAATA
1 AATATATTAATAATA
*
65451830 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
65451849 AATATATTAATAATA
1 AATATATTAATAATA
65451864 AAT
1 AAT
65451867 GTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 8 0.27
19 9 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:65452262 original size:26 final size:24
Alignment explanation
Indices: 65452225--65452278 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
65452215 TACAAGGACT
65452225 TATGACATATTTTAACTTAGTATAAAA
1 TATGACATATTTTAA-TTA-TAT-AAA
65452252 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
65452275 TATG
1 TATG
65452279 CAGTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.26
24 3 0.11
25 3 0.11
26 9 0.33
27 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (24 bp):
TATGACATATTTTAATTATATAAA
Found at i:65452293 original size:37 final size:37
Alignment explanation
Indices: 65452243--65452315 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
65452233 ATTTTAACTT
65452243 AGTATAAAATATGAATATTTTAATTATATAAATATGC
1 AGTATAAAATATGAATATTTTAATTATATAAATATGC
65452280 AGTATAAAATATGAATATTTTAATTATATAAATATG
1 AGTATAAAATATGAATATTTTAATTATATAAATATG
65452316 TATATTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.41
Consensus pattern (37 bp):
AGTATAAAATATGAATATTTTAATTATATAAATATGC
Done.