Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 204 of 290
Found at i:70223963 original size:50 final size:50
Alignment explanation
Indices: 70223885--70223997 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
70223875 AGACTCACTG
70223885 TAGCTCGTATGAGCTTACCGATTCTCAGCTCGTAA-GAGCTTACCG-TTAT
1 TAGCTCGTATGAGCTTACCGATTCTCAGCTCG-AATGAGCTTACCGTTTAT
* *
70223934 TCAGCTCGTAGGAGCTTACTGATAT-TCAGCTCGAATGAGCTTACCGTTTAT
1 T-AGCTCGTATGAGCTTACCGAT-TCTCAGCTCGAATGAGCTTACCGTTTAT
70223985 T-GCTCGTATGAGC
1 TAGCTCGTATGAGC
70223998 ATACATGTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
49 14 0.25
50 37 0.65
51 6 0.11
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (50 bp):
TAGCTCGTATGAGCTTACCGATTCTCAGCTCGAATGAGCTTACCGTTTAT
Found at i:70235565 original size:14 final size:14
Alignment explanation
Indices: 70235522--70235574 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
70235512 ATATTATAAT
70235522 TTTTATTAATTCATA
1 TTTTATTAATT-ATA
70235537 TTTTAATAATAATTATA
1 TTTT-AT--TAATTATA
70235554 TTTTATTAATTATA
1 TTTTATTAATTATA
*
70235568 TATTATT
1 TTTTATT
70235575 TTATTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 14 0.41
15 4 0.12
16 4 0.12
17 7 0.21
18 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATTAATTATA
Found at i:70235627 original size:37 final size:37
Alignment explanation
Indices: 70235577--70235647 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
70235567 ATATTATTTT
* * * *
70235577 ATTAATTTGTATTTAGTAAAAATTATGTTAAAATATG
1 ATTAAATTATATTTAATAAAAATTATATTAAAATATG
* *
70235614 ATTAAATTATATTTAATAATAATTTTATTAAAAT
1 ATTAAATTATATTTAATAAAAATTATATTAAAAT
70235648 TTAATAACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (37 bp):
ATTAAATTATATTTAATAAAAATTATATTAAAATATG
Found at i:70235830 original size:16 final size:16
Alignment explanation
Indices: 70235811--70235850 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
70235801 CTGATTATAG
70235811 CTCTATTTTATTACAA
1 CTCTATTTTATTACAA
*
70235827 CTCTATTATATTACAA
1 CTCTATTTTATTACAA
*
70235843 CCCTATTT
1 CTCTATTT
70235851 CATTCCCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (16 bp):
CTCTATTTTATTACAA
Found at i:70240262 original size:30 final size:32
Alignment explanation
Indices: 70240228--70240292 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
70240218 AATCCTTATG
*
70240228 TTTTTTTGAAAA-TCTTAATTA-AAC-CTTAAA
1 TTTTTTTGAAAATTC-TAATTAGAACTCTAAAA
*
70240258 TTTTTTTTAAAATTCTAATTAGAACTCTAAAA
1 TTTTTTTGAAAATTCTAATTAGAACTCTAAAA
70240290 TTT
1 TTT
70240293 AAAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 17 0.57
31 5 0.17
32 8 0.27
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (32 bp):
TTTTTTTGAAAATTCTAATTAGAACTCTAAAA
Found at i:70245633 original size:18 final size:18
Alignment explanation
Indices: 70245610--70245669 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
70245600 TTAACAGTAA
70245610 AACCATTAAATCACATTC
1 AACCATTAAATCACATTC
*
70245628 AACCATTCACCAAGCA-A---
1 AACCATT-A--AATCACATTC
70245645 AACCATTAAATCACATTC
1 AACCATTAAATCACATTC
70245663 AACCATT
1 AACCATT
70245670 CACCAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 1 0.03
17 7 0.21
18 14 0.42
19 1 0.03
20 1 0.03
21 4 0.12
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (18 bp):
AACCATTAAATCACATTC
Found at i:70245651 original size:35 final size:35
Alignment explanation
Indices: 70245608--70245675 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
70245598 ATTTAACAGT
70245608 AAAACCATTAAATCACATTCAACCATTCACCAAGC
1 AAAACCATTAAATCACATTCAACCATTCACCAAGC
70245643 AAAACCATTAAATCACATTCAACCATTCACCAA
1 AAAACCATTAAATCACATTCAACCATTCACCAA
70245676 TCATATGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (35 bp):
AAAACCATTAAATCACATTCAACCATTCACCAAGC
Found at i:70255866 original size:63 final size:63
Alignment explanation
Indices: 70255780--70255915 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 63
70255770 AGCCATGTGA
* * * * * **
70255780 CAAGTCATGTAACTCATTGTTTGTGAATCAGAGTCACACGGACCAGGGACACGGGTGTGTGTC
1 CAAGCCATGTAACTCACTATTTGTGAATCAAAGTCACACGGACCAGAGACACAAGTGTGTGTC
* **
70255843 CAAGCCATGTAACTCACTATTTGTGAATCAAAGTCACATGGGTCAGAGACACAAGTGTGTGTC
1 CAAGCCATGTAACTCACTATTTGTGAATCAAAGTCACACGGACCAGAGACACAAGTGTGTGTC
*
70255906 CAGGCCATGT
1 CAAGCCATGT
70255916 GAGAGATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (63 bp):
CAAGCCATGTAACTCACTATTTGTGAATCAAAGTCACACGGACCAGAGACACAAGTGTGTGTC
Found at i:70260770 original size:40 final size:40
Alignment explanation
Indices: 70260726--70261632 Score: 1717
Period size: 40 Copynumber: 22.7 Consensus size: 40
70260716 TGCGAGATAC
*
70260726 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260766 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260806 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260846 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260886 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260926 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70260966 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261006 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261046 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261086 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261126 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261166 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261206 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261246 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261286 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261326 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261366 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261406 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261446 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261486 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
70261526 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
* * * * **
70261566 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
* * *
70261605 TAAATCCGGGCTATGTCCCGAAGGCATT
1 TAAATCTGGGTTAAGTCCCGAAGGCATT
70261633 TGAACGAGGA
Statistics
Matches: 859, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
39 34 0.04
40 825 0.96
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
TAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGT
Found at i:70268370 original size:46 final size:46
Alignment explanation
Indices: 70268208--70268380 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
70268198 AACCCGCCCC
* * *
70268208 TAAGTGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
70268254 TAAATGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * * *
70268302 TCA-CGAACTCGAACTCAGCTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
70268347 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70268381 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.54
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:70268377 original size:93 final size:93
Alignment explanation
Indices: 70268213--70268383 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
70268203 GCCCCTAAGT
*
70268213 GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
70268278 CTAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
70268306 GAACTCGAACTCAGCTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
70268370 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
70268384 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70270751 original size:63 final size:63
Alignment explanation
Indices: 70270555--70270808 Score: 244
Period size: 63 Copynumber: 4.1 Consensus size: 63
70270545 GTGTCAGGTG
* * * * * * * *
70270555 GTGTAACTCATTGTTTATGAATCAGAGTCACACAGGCCAGGGACACAGACGTGTGTCGAGGTC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
* * * * *
70270618 GTGTAACTCACTGTTTGTAAATCAGAGTTACATGGGTTAGGGACACAGATGTGTGTCCAGGCT
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
* * * **
70270681 GTGTAACTCATTGTTTGTAAATTAGAGTCACACGGGCTAAGGACACAGAAGTGTGTCCAAACC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
* * * * * * * *
70270744 ATATAACTTACTGTTTGTGAAT--TAGTCACACGGGCCAGGGACATAAGCA-TGTGTCCAGGCC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACGGGCTAGGGACA-CAGAAGTGTGTCCAGGCC
70270805 GTGT
1 GTGT
70270809 GAGAGATATT
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
61 30 0.19
62 3 0.02
63 121 0.79
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (63 bp):
GTGTAACTCACTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
Found at i:70272220 original size:15 final size:15
Alignment explanation
Indices: 70272200--70272229 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
70272190 TTTGAAAGTT
70272200 GAATTACTTTTTCAC
1 GAATTACTTTTTCAC
70272215 GAATTACTTTTTCAC
1 GAATTACTTTTTCAC
70272230 CCTCATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
GAATTACTTTTTCAC
Found at i:70277265 original size:32 final size:31
Alignment explanation
Indices: 70277216--70277276 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
70277206 CAACAATTTG
* * *
70277216 ACTTTTTTTAGAAGGTTGATGGCCAAATTCA
1 ACTTATTTTAAAAGGTTGAGGGCCAAATTCA
*
70277247 ACTTATTTTAAAATGGTTGAGGGTCAAATT
1 ACTTATTTTAAAA-GGTTGAGGGCCAAATT
70277277 TAGTTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (31 bp):
ACTTATTTTAAAAGGTTGAGGGCCAAATTCA
Found at i:70278165 original size:24 final size:21
Alignment explanation
Indices: 70278138--70278261 Score: 67
Period size: 20 Copynumber: 5.9 Consensus size: 21
70278128 ACTAAAAGCA
70278138 TTGTTGTTTATATGAATCGATTGT
1 TTGTTGTTT-TA--AATCGATTGT
*
70278162 TTGTTGTTTTAAATCGATTTT
1 TTGTTGTTTTAAATCGATTGT
* * *
70278183 TTGCTT-CTTTGAATCGATTGC
1 TTG-TTGTTTTAAATCGATTGT
* * * * **
70278204 TTATTG-TTTGAATTGGTTCA
1 TTGTTGTTTTAAATCGATTGT
* *
70278224 TTATTG-TTTAAATCGATTCT
1 TTGTTGTTTTAAATCGATTGT
*
70278244 TTGTTG-TTTAACTCGATT
1 TTGTTGTTTTAAATCGATT
70278262 CAAACTCCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 44 0.54
21 25 0.30
22 2 0.02
23 2 0.02
24 9 0.11
ACGTcount: A:0.19, C:0.09, G:0.17, T:0.55
Consensus pattern (21 bp):
TTGTTGTTTTAAATCGATTGT
Found at i:70278176 original size:21 final size:20
Alignment explanation
Indices: 70278152--70278262 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
70278142 TGTTTATATG
*
70278152 AATCGATTGTTTGTTGTTTTA
1 AATCGATTCTTTGTTG-TTTA
* * *
70278173 AATCGATTTTTTGCTTCTTTG
1 AATCGATTCTTTG-TTGTTTA
* *
70278194 AATCGATTGC-TTATTGTTTG
1 AATCGATT-CTTTGTTGTTTA
* * * *
70278214 AATTGGTTCATTATTGTTTA
1 AATCGATTCTTTGTTGTTTA
70278234 AATCGATTCTTTGTTGTTTA
1 AATCGATTCTTTGTTGTTTA
*
70278254 ACTCGATTC
1 AATCGATTC
70278263 AAACTCCAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 45 0.62
21 25 0.34
22 2 0.03
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTA
Found at i:70285690 original size:3 final size:3
Alignment explanation
Indices: 70285666--70285718 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
70285656 CGTCACTATT
* * * *
70285666 TCC TCC TCT TCG TCC TCT TCC TCC TCC TCC TCC TCC ACC TCTC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC-C TCC
*
70285712 TAC TCC T
1 TCC TCC T
70285719 ACCGCCACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.04, C:0.57, G:0.02, T:0.38
Consensus pattern (3 bp):
TCC
Found at i:70286275 original size:7 final size:7
Alignment explanation
Indices: 70286263--70286291 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
70286253 TTCCCCAATT
70286263 GTTGAAA
1 GTTGAAA
70286270 GTTGAAA
1 GTTGAAA
70286277 GTTGAAA
1 GTTGAAA
70286284 GTTGAAA
1 GTTGAAA
70286291 G
1 G
70286292 AGAGAGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (7 bp):
GTTGAAA
Found at i:70288576 original size:4 final size:4
Alignment explanation
Indices: 70288569--70288603 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
70288559 TAAATGCTCA
70288569 ATTT ATTT CCATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT --ATTT ATTT ATTT ATTT ATTT ATTT A
70288604 AACAGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 25 0.86
6 4 0.14
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:70291653 original size:13 final size:13
Alignment explanation
Indices: 70291643--70291667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70291633 GCCCACACGG
70291643 GTATGCCACACAA
1 GTATGCCACACAA
70291656 GTATGCCACACA
1 GTATGCCACACA
70291668 GGCGAGTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
GTATGCCACACAA
Found at i:70294025 original size:40 final size:40
Alignment explanation
Indices: 70293966--70294233 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
70293956 GAGCATTGGA
* *
70293966 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70294006 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
70294046 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70294086 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70294126 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70294166 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70294206 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
70294234 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:70302606 original size:40 final size:40
Alignment explanation
Indices: 70302547--70302814 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
70302537 GAGCATTGGA
* *
70302547 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70302587 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
70302627 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70302667 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70302707 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70302747 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70302787 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
70302815 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:70311188 original size:40 final size:40
Alignment explanation
Indices: 70311129--70311396 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
70311119 GAGCATTGGA
* *
70311129 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
70311169 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
70311209 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70311249 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70311289 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70311329 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
70311369 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
70311397 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:70314051 original size:14 final size:15
Alignment explanation
Indices: 70314034--70314064 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
70314024 TTAAAACTAC
70314034 TTTTT-ATTTTATTT
1 TTTTTAATTTTATTT
70314048 TTTTTAATTTTATTT
1 TTTTTAATTTTATTT
70314063 TT
1 TT
70314065 ACTGTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTAATTTTATTT
Found at i:70321451 original size:22 final size:22
Alignment explanation
Indices: 70321423--70321466 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
70321413 AGGAAACCAT
70321423 CAATTTTCTTATTCAAGAGTTC
1 CAATTTTCTTATTCAAGAGTTC
70321445 CAATTTTCTTATTCAAGAGTTC
1 CAATTTTCTTATTCAAGAGTTC
70321467 TACTTGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (22 bp):
CAATTTTCTTATTCAAGAGTTC
Found at i:70328101 original size:41 final size:41
Alignment explanation
Indices: 70328021--70328150 Score: 138
Period size: 41 Copynumber: 3.2 Consensus size: 41
70328011 TGCCCATGTA
* * *
70328021 ACCCA-AATGGGCTACCACATGGCCTACCAAACGACTGTGTG
1 ACCCACAA-GGGCTACCACATGGCCTACCACATGGCTGTGTG
* *
70328062 ACCCACAAGGGCTACCACAAGGCCTACCACATGGTTGTGTG
1 ACCCACAAGGGCTACCACATGGCCTACCACATGGCTGTGTG
** * * *
70328103 ATTCACACA-GTCTGCCACATGGCCTACCACATGGCCGTGTG
1 ACCCACA-AGGGCTACCACATGGCCTACCACATGGCTGTGTG
70328144 ACCCACA
1 ACCCACA
70328151 CAAGTTGCCA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
41 70 0.96
42 3 0.04
ACGTcount: A:0.27, C:0.34, G:0.22, T:0.18
Consensus pattern (41 bp):
ACCCACAAGGGCTACCACATGGCCTACCACATGGCTGTGTG
Found at i:70328151 original size:41 final size:41
Alignment explanation
Indices: 70328035--70328189 Score: 145
Period size: 41 Copynumber: 3.8 Consensus size: 41
70328025 AAATGGGCTA
* * * * * *
70328035 CCACATGGCCTACCAAACGACTGTGTGACCCACA-AGGGCTA
1 CCACATGGCCTACCACATGGCCGTGTGACCCACACA-GTCTG
* ** **
70328076 CCACAAGGCCTACCACATGGTTGTGTGATTCACACAGTCTG
1 CCACATGGCCTACCACATGGCCGTGTGACCCACACAGTCTG
70328117 CCACATGGCCTACCACATGGCCGTGTGACCCACACAAGT-TG
1 CCACATGGCCTACCACATGGCCGTGTGACCCACAC-AGTCTG
* *
70328158 CCACACGGCCTACCACA-GGACCGTGTGGCCCA
1 CCACATGGCCTACCACATGG-CCGTGTGACCCA
70328190 TACGACCTGG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 89 0.94
42 4 0.04
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (41 bp):
CCACATGGCCTACCACATGGCCGTGTGACCCACACAGTCTG
Found at i:70328204 original size:41 final size:41
Alignment explanation
Indices: 70328076--70328206 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 41
70328066 ACAAGGGCTA
* ** ** **
70328076 CCACAAGGCCTACCACATGGTTGTGTGATTCACACAGTCTG
1 CCACACGGCCTACCACATGGCCGTGTGACCCACACAACCTG
* **
70328117 CCACATGGCCTACCACATGGCCGTGTGACCCACACAAGTTG
1 CCACACGGCCTACCACATGGCCGTGTGACCCACACAACCTG
* * *
70328158 CCACACGGCCTACCACA-GGACCGTGTGGCCCATACGACCTG
1 CCACACGGCCTACCACATGG-CCGTGTGACCCACACAACCTG
*
70328199 GCACACGG
1 CCACACGG
70328207 TCATATGACA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 2 0.03
41 72 0.97
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.17
Consensus pattern (41 bp):
CCACACGGCCTACCACATGGCCGTGTGACCCACACAACCTG
Found at i:70336471 original size:40 final size:40
Alignment explanation
Indices: 70336373--70336675 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
70336363 TCCTCGTTCA
* * * * *
70336373 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
70336412 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
70336452 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
70336492 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
70336532 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
70336572 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
70336612 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
70336652 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
70336676 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:70344404 original size:40 final size:40
Alignment explanation
Indices: 70344356--70344823 Score: 918
Period size: 40 Copynumber: 11.7 Consensus size: 40
70344346 GCAAACACAT
* *
70344356 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344396 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344436 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344476 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344516 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344556 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344596 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344636 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344676 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344716 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344756 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
70344796 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
70344824 TCCAATGCTC
Statistics
Matches: 426, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 426 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:70351486 original size:40 final size:40
Alignment explanation
Indices: 70351431--70351517 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
70351421 GTCAGTCCTT
* *
70351431 CGGATATAGTCACTAGCATAAATGCCTTCAGGACTTAGCC
1 CGGATATAGTCACTAGCACAAAGGCCTTCAGGACTTAGCC
*
70351471 CGGATATAGTCACTAGCACAAAGGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAAGGCCTTCAGGACTTAGCC
70351511 CGGATAT
1 CGGATAT
70351518 CATCCGAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAAGGCCTTCAGGACTTAGCC
Found at i:70353869 original size:23 final size:24
Alignment explanation
Indices: 70353811--70353883 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
70353801 GAGCCATAAT
**
70353811 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTATTGAGCTGA-GAA
70353837 CAGTAAGCTCTATTGAGCTGA-AA
1 CAGTAAGCTCTATTGAGCTGAGAA
* * *
70353860 CGGTAAGCTCTATCGAGCTTAGAA
1 CAGTAAGCTCTATTGAGCTGAGAA
70353884 TAAGCTCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 20 0.49
24 2 0.05
25 10 0.24
26 9 0.22
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
CAGTAAGCTCTATTGAGCTGAGAA
Found at i:70361446 original size:20 final size:20
Alignment explanation
Indices: 70361421--70361474 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
70361411 AAATGAATCC
70361421 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
70361441 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
70361461 ATCATGTGCATATC
1 ATCATGTGCATATC
70361475 GTATCAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:70361452 original size:11 final size:11
Alignment explanation
Indices: 70361421--70361474 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
70361411 AAATGAATCC
70361421 ATCATGTGCAT
1 ATCATGTGCAT
*
70361432 ATCA--TACAT
1 ATCATGTGCAT
70361441 ATCATGTGCAT
1 ATCATGTGCAT
*
70361452 ATCA--TACAT
1 ATCATGTGCAT
70361461 ATCATGTGCAT
1 ATCATGTGCAT
70361472 ATC
1 ATC
70361475 GTATCAAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.46
11 19 0.54
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:70361506 original size:40 final size:40
Alignment explanation
Indices: 70361421--70361506 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
70361411 AAATGAATCC
* * * *
70361421 ATCATGTGCATATCATACATATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAAATCATATACATATCATAAAT
* *
70361461 ATCATGTGCATATCGTATCAAATCATATATATATCA-AAAT
1 ATCATGTGCATATCATA-CAAATCATATACATATCATAAAT
*
70361501 CTCATG
1 ATCATG
70361507 CATCAAACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 24 0.63
41 14 0.37
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (40 bp):
ATCATGTGCATATCATACAAATCATATACATATCATAAAT
Found at i:70362563 original size:34 final size:34
Alignment explanation
Indices: 70362520--70362586 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
70362510 CAATGGAATC
70362520 GGCACAACCAAGCTTCACAGGTTTCGGCTTTTGT
1 GGCACAACCAAGCTTCACAGGTTTCGGCTTTTGT
*
70362554 GGCACAACCAAGCTTTACAGGTTTCGGCTTTTG
1 GGCACAACCAAGCTTCACAGGTTTCGGCTTTTG
70362587 CGGCTTTTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (34 bp):
GGCACAACCAAGCTTCACAGGTTTCGGCTTTTGT
Found at i:70367244 original size:31 final size:31
Alignment explanation
Indices: 70367201--70367286 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
70367191 TCAATCTCAG
70367201 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
70367231 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
70367262 CATATCACTGGGTCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
70367287 TGTAACGATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:70369894 original size:22 final size:23
Alignment explanation
Indices: 70369802--70369941 Score: 76
Period size: 23 Copynumber: 6.1 Consensus size: 23
70369792 CCTGAGCTAA
* *
70369802 TGAAA-AGTAAGCTCTATTGAAC
1 TGAAACAGTAAGCTCTATCGAGC
* * *
70369824 -GAAATCAGGAAGCTATATTGAGC
1 TGAAA-CAGTAAGCTCTATCGAGC
*
70369847 TGAAA-TGATAAGCTCTATCGAGC
1 TGAAACAG-TAAGCTCTATCGAGC
*
70369870 TG-AACAGTAAGCT-TATACGATC
1 TGAAACAGTAAGCTCTAT-CGAGC
* *
70369892 TGAAACGGTAAGCTCCAAT-GAGC
1 TGAAACAGTAAGCT-CTATCGAGC
* * * *
70369915 TAAAAATAGTAAGCTCTTTTGAGC
1 T-GAAACAGTAAGCTCTATCGAGC
70369939 TGA
1 TGA
70369942 TATATCGGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
21 7 0.08
22 15 0.17
23 46 0.52
24 19 0.21
25 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (23 bp):
TGAAACAGTAAGCTCTATCGAGC
Found at i:70374716 original size:4 final size:4
Alignment explanation
Indices: 70374707--70375267 Score: 417
Period size: 4 Copynumber: 141.5 Consensus size: 4
70374697 AAAAATATTG
* * * * * *
70374707 GAGA GAGA GAGA GGGG GAGA GAGA GAGA AAGA GGGG GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
70374755 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
70374803 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
70374851 -ATGA GGGA GAGA GGGA GGGA G-GA -AGA GAGA GGGA GAGA GTA-A GAGA
1 GA-GA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA G-AGA GAGA
* * * * * * * *
70374897 GAGA GGGA GAGA GGGA GAGA AAAA GGGA GAGA GGGA GAAA GAGA AAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
70374945 GAAA GAGA GAGA GA-A TGTGA GAGT GAGG GAGA GAGA GAGA GGGA AAGG
1 GAGA GAGA GAGA GAGA -GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
70374993 GAGG GAGA GAGA GAGA GGGG GAGG GAGG GATG- GATA GGGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA GAGA GAGA GAGA
* * * * * * * * * *
70375041 GGGA AAGG GAGA GGGA GAGA GAGA GAGG GGGA GAGA AAGG GAGG GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
70375089 GAGA GACG- GAGG GAGA GAGG GAGA GAGA GA-A G-GA GGGA G-GG GAGA
1 GAGA GA-GA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
70375134 GAAA GGGA GGGA GGGA GAGA CG-GA GGGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA -GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * *
70375182 AAGA GAGG GAGT GGGA GAGG GAGA GGGA GGGA GAGA GGGA -ATGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA
* *
70375230 GGGA GAGA GAGG GAGA GAGA GAGA GAGA GAGA GAGA GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA
70375268 ATGAGGGAGA
Statistics
Matches: 440, Mismatches: 98, Indels: 38
0.76 0.17 0.07
Matches are distributed among these distances:
3 15 0.03
4 419 0.95
5 6 0.01
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:70374732 original size:20 final size:20
Alignment explanation
Indices: 70374707--70375278 Score: 464
Period size: 20 Copynumber: 28.9 Consensus size: 20
70374697 AAAAATATTG
*
70374707 GAGAGAGAGAGAGGGGGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374727 GAGAGAGAAAGAGGG-G-GA
1 GAGAGAGAGAGAGGGAGAGA
*
70374745 GAG-G-GAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374763 GAGAGAGAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374783 GAGAGAGAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374803 GAGAGAGAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374823 GAGAGAGAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
70374843 GAGAGAGA-ATGAGGGAGAGA
1 GAGAGAGAGA-GAGGGAGAGA
70374863 G-G-GAG-G-GA-GGA-AGA
1 GAGAGAGAGAGAGGGAGAGA
* **
70374877 GAGAGGGAGAGAGTAAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70374897 GAGAGGGAGAGAGGGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
* * * *
70374917 AAAAGGGAGAGAGGGAGAAA
1 GAGAGAGAGAGAGGGAGAGA
* * *
70374937 GAGAAAGAGAAAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
* *
70374957 GAATGTGAGAGTGAGGGAGAGA
1 G-A-GAGAGAGAGAGGGAGAGA
* *
70374979 GAGAGAGGGAAAGGGAG-G-
1 GAGAGAGAGAGAGGGAGAGA
* *
70374997 GAGAGAGAGAGAGGGGGAGG
1 GAGAGAGAGAGAGGGAGAGA
* *
70375017 GAGGGATG-GATAGGGAGAGA
1 GAGAGA-GAGAGAGGGAGAGA
* *
70375037 GAGAG-G-GAAAGGGAGAGG
1 GAGAGAGAGAGAGGGAGAGA
*
70375055 GAGAGAGAGAGAGGGGGAGA
1 GAGAGAGAGAGAGGGAGAGA
* * *
70375075 GAAAGGGAGGGAGGGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
*
70375095 CG-GAGGGAGAGAGGGAGAGA
1 -GAGAGAGAGAGAGGGAGAGA
*
70375115 GAGA-AGGAGGGAGGG-GAGA
1 GAGAGA-GAGAGAGGGAGAGA
* * *
70375134 GAAAGGGAGGGAGGGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
* *
70375154 CGGAGGGAGAGAGAGAGAGAGA
1 --GAGAGAGAGAGAGGGAGAGA
* *
70375176 GAGAGAAAGAGAGGGAGTGGGA
1 GAGAGAGAGAGAGGGA--GAGA
* *
70375198 GAGGGAGAGGGAGGGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
* *
70375218 GGGA-ATGGGAGAGGGAGAGA
1 GAGAGA-GAGAGAGGGAGAGA
* *
70375238 GAGGGAGAGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGA
70375258 GAGAGAGAGAATGAGGGAGAG
1 GAGAGAGAG-A-GAGGGAGAG
70375279 GGGGGGGGGG
Statistics
Matches: 446, Mismatches: 74, Indels: 62
0.77 0.13 0.11
Matches are distributed among these distances:
14 4 0.01
15 4 0.01
16 11 0.02
17 3 0.01
18 45 0.10
19 26 0.06
20 294 0.66
21 6 0.01
22 53 0.12
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (20 bp):
GAGAGAGAGAGAGGGAGAGA
Found at i:70375279 original size:6 final size:6
Alignment explanation
Indices: 70374741--70375280 Score: 193
Period size: 6 Copynumber: 86.5 Consensus size: 6
70374731 GAGAAAGAGG
* * * * * *
70374741 GGGAGA GGGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
* * * * * * * *
70374789 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
* * * *
70374837 GAGAGA GAGAGA -GAATGA GGGAGA GAGG-GA GGGAGGAA GAGAGA GGGAGA
1 GGGAGA GGGAGA GGGA-GA GGGAGA G-GGAGA GGGA-G-A GGGAGA GGGAGA
* * ** *
70374887 GAGTAAGA GAGAGA GGGAGAGA GGGAGA GAAAAA GGGAGAGA GGGAGA
1 G-G-GAGA GGGAGA -GG-GAGA GGGAGA GGGAGA -GG-GAGA GGGAGA
** ** ** * * * *
70374935 AAGAGA AAGAGA AAGAGA GAGAGAA TGTGAGA GTGAG- GGAGAGA GAGAGA
1 GGGAGA GGGAGA GGGAGA GGGAG-A -GGGAGA GGGAGA GG-GAGA GGGAGA
* * * * *
70374985 GGGAAA GGGAG- GGAGAGA GAGAGA GGGGGA GGGAGGGA TGGATA GGGAGA
1 GGGAGA GGGAGA GG-GAGA GGGAGA GGGAGA GGGA--GA GGGAGA GGGAGA
* * * * *
70375035 GAGAGA GGGAAA GGGAGA GGGAGA GAGAGAGA GGGGGA GAGAAA GGGAGGGA
1 GGGAGA GGGAGA GGGAGA GGGAGA G-G-GAGA GGGAGA GGGAGA GGGA--GA
* * * *
70375087 GGGAGA GACGGAG- GGAGAGA GGGAGA GAGAGAA GGAGGGA GGG-GA GAGAAA
1 GGGAGA G--GGAGA GG-GAGA GGGAGA GGGAG-A GG-GAGA GGGAGA GGGAGA
* * * * **
70375138 GGGAGGGA GGGAGA GACG-GA GGGAGA GAGAGA GAGAGA GAGAGA AAGAGA
1 GGGA--GA GGGAGA G-GGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
*
70375188 GGGAGT GGGAGA GGGAGA GGGAG- GGAGAGA GGGA-A TGGGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GG-GAGA GGGAGA -GGGAGA GGGAGA
* * * *
70375236 --GAGA GGGAGA GAGAGA GAGAGA GAGAGA GAGAATGA GGGAGA GGG
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA G-GGA-GA GGGAGA GGG
70375281 GGGGGGGGGG
Statistics
Matches: 429, Mismatches: 62, Indels: 86
0.74 0.11 0.15
Matches are distributed among these distances:
4 4 0.01
5 15 0.03
6 329 0.77
7 34 0.08
8 47 0.11
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (6 bp):
GGGAGA
Found at i:70375624 original size:30 final size:30
Alignment explanation
Indices: 70375588--70375647 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
70375578 TTCCCGAGCC
70375588 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
70375618 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
70375648 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:70376374 original size:49 final size:50
Alignment explanation
Indices: 70376294--70376539 Score: 325
Period size: 49 Copynumber: 4.9 Consensus size: 50
70376284 AGCTATTGTG
*
70376294 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
70376344 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
70376394 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
70376444 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
70376494 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
70376540 GCTTCGGCTA
Statistics
Matches: 169, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:70376431 original size:28 final size:28
Alignment explanation
Indices: 70376399--70376482 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
70376389 AACTTCGATC
70376399 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
70376427 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
70376449 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
70376477 ACGTGT
1 ACGTGT
70376483 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:70377835 original size:6 final size:6
Alignment explanation
Indices: 70377817--70377903 Score: 99
Period size: 6 Copynumber: 15.0 Consensus size: 6
70377807 CGTTAAAGGC
* * *
70377817 AGAGGG A-AAGG AGAAGG AGAGGG AGAGGG AGAGGG AGAGAG AGAGGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
* * *
70377864 AGAGGG AGAGAG AGAGGG AGA--G AGAGGG GGAAGG AGAGGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
70377904 GGAAAAAGAG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 60 0.88
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:70377935 original size:12 final size:12
Alignment explanation
Indices: 70377817--70377935 Score: 98
Period size: 12 Copynumber: 9.8 Consensus size: 12
70377807 CGTTAAAGGC
*
70377817 AGAGGGAAAG-G
1 AGAGGGAGAGAG
* *
70377828 AGAAGGAGAGGG
1 AGAGGGAGAGAG
*
70377840 AGAGGGAGAGGG
1 AGAGGGAGAGAG
* *
70377852 AGAGAGAGAGGG
1 AGAGGGAGAGAG
70377864 AGAGGGAGAGAG
1 AGAGGGAGAGAG
70377876 AGAGGGAGAGAG
1 AGAGGGAGAGAG
*
70377888 AGGGGGA-AGGAG
1 AGAGGGAGA-GAG
* *
70377900 AGGGGGAAAAAGAG
1 AGAGGG--AGAGAG
70377914 AGGAGGGAGAGAG
1 A-GAGGGAGAGAG
*
70377927 AGTGGGAGA
1 AGAGGGAGA
70377936 AGGACGGTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
11 9 0.10
12 67 0.73
13 6 0.07
14 5 0.05
15 5 0.05
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (12 bp):
AGAGGGAGAGAG
Found at i:70380817 original size:22 final size:23
Alignment explanation
Indices: 70380777--70380828 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
70380767 TGGACAAGCC
70380777 ACCACATAATTACCAATAAA-TG
1 ACCACATAATTACCAATAAACTG
*
70380799 ACCACATAATT-GCATATAAACTG
1 ACCACATAATTACCA-ATAAACTG
70380822 -CCACATA
1 ACCACATA
70380829 TCTTCCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (23 bp):
ACCACATAATTACCAATAAACTG
Found at i:70384473 original size:24 final size:24
Alignment explanation
Indices: 70384421--70384474 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
70384411 AATGAATAAT
*
70384421 CAGATTTAGATGCGGATACAGACG
1 CAGATTTAGATGCGGATACAGACA
* *
70384445 TAGATTTAGATGTC-GATGCAGACA
1 CAGATTTAGATG-CGGATACAGACA
70384469 CAGATT
1 CAGATT
70384475 CCGATACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (24 bp):
CAGATTTAGATGCGGATACAGACA
Found at i:70393712 original size:46 final size:46
Alignment explanation
Indices: 70393662--70393837 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
70393652 TGGTTGAGCA
70393662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70393708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
70393753 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
70393801 -CCTGAGCTCGTTGTGTTGAGCCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70393838 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70393819 original size:93 final size:93
Alignment explanation
Indices: 70393659--70393830 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
70393649 GGATGGTTGA
*
70393659 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
70393724 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* *
70393752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGTG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
70393816 TTGAGCCCGAGTTCG
65 TTGAGCCCGAGTTCG
70393831 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:70401288 original size:46 final size:46
Alignment explanation
Indices: 70401238--70401414 Score: 327
Period size: 46 Copynumber: 3.8 Consensus size: 46
70401228 TGGTTGAGCA
70401238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
70401284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
70401330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70401376 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
70401415 ATAAAGATAT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70405021 original size:23 final size:23
Alignment explanation
Indices: 70404971--70405033 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
70404961 TTTTATGTGC
70404971 GCAAGTGATAGTGGCATTACAAT
1 GCAAGTGATAGTGGCATTACAAT
* *
70404994 ACAAGTGATAGTGGCACTT-CACT
1 GCAAGTGATAGTGGCA-TTACAAT
* *
70405017 GCAAGTGACAGTAGCAT
1 GCAAGTGATAGTGGCAT
70405034 ACTTGTGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.03
23 31 0.91
24 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTACAAT
Found at i:70405563 original size:24 final size:24
Alignment explanation
Indices: 70405542--70405593 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
70405532 AATCAATGTC
*
70405542 AAATATATTATGCTAACAAATGCT
1 AAATATATTATACTAACAAATGCT
* *
70405566 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAACAAATGCT
70405590 AAAT
1 AAAT
70405594 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAACAAATGCT
Found at i:70405726 original size:29 final size:29
Alignment explanation
Indices: 70405684--70405742 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
70405674 TCCACCTTGA
* * *
70405684 CATGAATTCTCAACGATCAAGTTCTTCAC
1 CATGAACTCTCAACGAGCAAGTTCTCCAC
70405713 CATGAACTCTCAACGAGCAAGTTCTCCAC
1 CATGAACTCTCAACGAGCAAGTTCTCCAC
70405742 C
1 C
70405743 TATTCCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
CATGAACTCTCAACGAGCAAGTTCTCCAC
Found at i:70414621 original size:40 final size:41
Alignment explanation
Indices: 70414559--70414647 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
70414549 AAGAATATCA
* * * *
70414559 ATATTAAAAAACACTACCATAAATATAATAAGTGTTTTATT
1 ATATTAAAAAACACTACAATAAATATAAGAAATATTTTATT
70414600 ATATTAAAAAAGCAC-A-AATAAATATAAGAAATATTTTATT
1 ATATTAAAAAA-CACTACAATAAATATAAGAAATATTTTATT
70414640 ATATTAAA
1 ATATTAAA
70414648 TATAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 28 0.65
41 12 0.28
42 3 0.07
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (41 bp):
ATATTAAAAAACACTACAATAAATATAAGAAATATTTTATT
Found at i:70430796 original size:79 final size:82
Alignment explanation
Indices: 70430685--70430869 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
70430675 GCTACTCGTT
* *
70430685 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
70430748 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
70430765 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
70430828 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
70430845 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70430870 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:70430869 original size:40 final size:40
Alignment explanation
Indices: 70430666--70430869 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
70430656 CGGAATTTAA
** *
70430666 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70430706 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70430746 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70430785 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
70430825 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70430865 CCGGA
1 CCGGA
70430870 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70434230 original size:13 final size:13
Alignment explanation
Indices: 70434212--70434236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70434202 TAAAGGGCAC
70434212 ACGGGCTGGTCAT
1 ACGGGCTGGTCAT
70434225 ACGGGCTGGTCA
1 ACGGGCTGGTCA
70434237 CACAGGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGGCTGGTCAT
Found at i:70436052 original size:285 final size:285
Alignment explanation
Indices: 70435542--70436111 Score: 1140
Period size: 285 Copynumber: 2.0 Consensus size: 285
70435532 TTGATAAAGT
70435542 CTACAAGAATTATCCTTTGATGACTTAGGGTTACTGTTTTTCAAAAAATTTGATGCTTTTACCAT
1 CTACAAGAATTATCCTTTGATGACTTAGGGTTACTGTTTTTCAAAAAATTTGATGCTTTTACCAT
70435607 TTGATGAATTTGATGTGATTTTGGGTATGGATTGGTTGACTCTACATGATGTTGCTGTGAATTGT
66 TTGATGAATTTGATGTGATTTTGGGTATGGATTGGTTGACTCTACATGATGTTGCTGTGAATTGT
70435672 AGACGAAAGACTATTGAATTGAAATGTTAGAATAATGAAATCCTTCGAATTGAATCTAATGAGTC
131 AGACGAAAGACTATTGAATTGAAATGTTAGAATAATGAAATCCTTCGAATTGAATCTAATGAGTC
70435737 GAGTGAATTGTTTGATGTGATATCATTGATTTTAGCTCAGAAATATGTGAGAAAAGGTTGTGATG
196 GAGTGAATTGTTTGATGTGATATCATTGATTTTAGCTCAGAAATATGTGAGAAAAGGTTGTGATG
70435802 CTTACCTTACGTATGTACTGGATAC
261 CTTACCTTACGTATGTACTGGATAC
70435827 CTACAAGAATTATCCTTTGATGACTTAGGGTTACTGTTTTTCAAAAAATTTGATGCTTTTACCAT
1 CTACAAGAATTATCCTTTGATGACTTAGGGTTACTGTTTTTCAAAAAATTTGATGCTTTTACCAT
70435892 TTGATGAATTTGATGTGATTTTGGGTATGGATTGGTTGACTCTACATGATGTTGCTGTGAATTGT
66 TTGATGAATTTGATGTGATTTTGGGTATGGATTGGTTGACTCTACATGATGTTGCTGTGAATTGT
70435957 AGACGAAAGACTATTGAATTGAAATGTTAGAATAATGAAATCCTTCGAATTGAATCTAATGAGTC
131 AGACGAAAGACTATTGAATTGAAATGTTAGAATAATGAAATCCTTCGAATTGAATCTAATGAGTC
70436022 GAGTGAATTGTTTGATGTGATATCATTGATTTTAGCTCAGAAATATGTGAGAAAAGGTTGTGATG
196 GAGTGAATTGTTTGATGTGATATCATTGATTTTAGCTCAGAAATATGTGAGAAAAGGTTGTGATG
70436087 CTTACCTTACGTATGTACTGGATAC
261 CTTACCTTACGTATGTACTGGATAC
70436112 AAAAGTGTCT
Statistics
Matches: 285, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 285 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (285 bp):
CTACAAGAATTATCCTTTGATGACTTAGGGTTACTGTTTTTCAAAAAATTTGATGCTTTTACCAT
TTGATGAATTTGATGTGATTTTGGGTATGGATTGGTTGACTCTACATGATGTTGCTGTGAATTGT
AGACGAAAGACTATTGAATTGAAATGTTAGAATAATGAAATCCTTCGAATTGAATCTAATGAGTC
GAGTGAATTGTTTGATGTGATATCATTGATTTTAGCTCAGAAATATGTGAGAAAAGGTTGTGATG
CTTACCTTACGTATGTACTGGATAC
Found at i:70438520 original size:39 final size:39
Alignment explanation
Indices: 70438403--70438625 Score: 233
Period size: 39 Copynumber: 5.6 Consensus size: 39
70438393 GCTCCTCGTT
* *
70438403 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
70438443 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAATTAGTATCTCGCA
*
70438483 CAAATGCCTTCGGGCTTAGCCCGGAATCAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
70438522 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
70438561 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
70438602 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
70438626 CATCATTCAA
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 93 0.58
40 54 0.34
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:70438580 original size:79 final size:78
Alignment explanation
Indices: 70438403--70438625 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 78
70438393 GCTCCTCGTT
* *
70438403 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-AATAGTAATTCGCACAAATGCCTTCAGGACTTAACCCGG
*
70438468 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
70438483 CAAATGCCTTCGGGCTTAGCCCGGAATCAGT-ATCTCGCACAAATGCCTTC-GGGCTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGAAT-AGTAAT-TCGCACAAATGCCTTCAGGACTTAACCCGG
*
70438546 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
70438561 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATAGT-AATTCGCACAAATGCCTTCAGGACTTAACCCG
70438624 GA
63 GA
70438626 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 18 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGAATAGTAATTCGCACAAATGCCTTCAGGACTTAACCCGGAA
TTAGTAACTCGCA
Found at i:70445457 original size:61 final size:61
Alignment explanation
Indices: 70445362--70445486 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 61
70445352 GACCAATTAG
* *
70445362 TACAGTTCATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTGACCTTTGCGCAT
1 TACAGTTCATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCAT
* * *
70445423 TACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACTGACCTTTTCCCAT
1 TACAGTTCATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCAT
70445484 TAC
1 TAC
70445487 GACTTGGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (61 bp):
TACAGTTCATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCAT
Found at i:70446629 original size:39 final size:40
Alignment explanation
Indices: 70446584--70446715 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
70446574 GCTCCTCGTT
* * *
70446584 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
70446624 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
70446663 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
70446703 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
70446716 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:70446777 original size:41 final size:41
Alignment explanation
Indices: 70446700--70446777 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
70446690 TTAGTATCTC
* * *
70446700 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
70446741 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
70446778 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:70453574 original size:16 final size:17
Alignment explanation
Indices: 70453542--70453575 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
70453532 TTTATTTTTA
70453542 AATTTATAAAACATAAT
1 AATTTATAAAACATAAT
*
70453559 AATTTA-AAATCATAAT
1 AATTTATAAAACATAAT
70453575 A
1 A
70453576 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTTATAAAACATAAT
Found at i:70455992 original size:36 final size:38
Alignment explanation
Indices: 70455903--70455992 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
70455893 AGAATTAACC
*
70455903 TTACAATCTCCCTTAAGATTTCTACCCAACATCTTAAGA
1 TTACAA-CTCCCTTAAGATTTCTACCCAACACCTTAAGA
* *
70455942 TTACAACTCCCTTAAGGTTTCTACCCAA-ACCTTATGA
1 TTACAACTCCCTTAAGATTTCTACCCAACACCTTAAGA
70455979 -TACAAC-CCTCTTAA
1 TTACAACTCC-CTTAA
70455993 AGAGATACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
35 2 0.04
36 11 0.23
37 7 0.15
38 21 0.45
39 6 0.13
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (38 bp):
TTACAACTCCCTTAAGATTTCTACCCAACACCTTAAGA
Found at i:70456935 original size:23 final size:23
Alignment explanation
Indices: 70456909--70457003 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 23
70456899 TGGCGTATTT
*
70456909 TGTTTGGCTTGTGTGGCACATTC
1 TGTTTGGCCTGTGTGGCACATTC
** * *
70456932 TGTTTTTCCTGTGTGGCATATTT
1 TGTTTGGCCTGTGTGGCACATTC
* * **
70456955 TGTTTGGCTTGTATGGCGTATT-
1 TGTTTGGCCTGTGTGGCACATTC
* *
70456977 TTTTTGGCCTATGTGGCACATTC
1 TGTTTGGCCTGTGTGGCACATTC
70457000 TGTT
1 TGTT
70457004 CAGCCTTTGT
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
22 16 0.30
23 38 0.70
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.49
Consensus pattern (23 bp):
TGTTTGGCCTGTGTGGCACATTC
Found at i:70457022 original size:68 final size:69
Alignment explanation
Indices: 70456897--70457030 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 69
70456887 GTATTGCCTT
* * *** * *
70456897 TATGGCGTATTTTGTTTGGCTTGTGTGGCACATTCTGTTTTTCCTGTGTGGCATATTTTGTTTGG
1 TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
70456962 CTTG
66 CTTG
* * *
70456966 TATGGCGTATTTT-TTTGGCCTATGTGGCACATTCTGTTCAGCCTTTGTTACGTATTTTATTTGG
1 TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
70457030 C
66 C
70457031 CTTTAGGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
68 42 0.76
69 13 0.24
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (69 bp):
TATGGCGTATTTTGTTTGGCCTATGTGGCACATTCTGTTCAGCCTGTGTGACATATTTTATTTGG
CTTG
Found at i:70458442 original size:20 final size:18
Alignment explanation
Indices: 70458397--70458443 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
70458387 TTTAAAATAG
*
70458397 TTTTAACTTAATTGAAAA
1 TTTTAACTCAATTGAAAA
70458415 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTCAATTGAAA--A
70458436 TTTTAACT
1 TTTTAACT
70458444 TGATTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 15 0.60
20 7 0.28
21 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTTAACTCAATTGAAAA
Found at i:70462208 original size:56 final size:56
Alignment explanation
Indices: 70462117--70462239 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
70462107 GAGATTGGCG
* * *
70462117 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
70462174 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
70462229 CTGAGTGTGCG
1 CTAAGTGTGCG
70462240 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:70462226 original size:27 final size:28
Alignment explanation
Indices: 70462117--70462239 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
70462107 GAGATTGGCG
* * * *
70462117 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
70462146 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
70462174 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
70462202 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
70462229 CTGAGTGTGCG
1 CTAAGTGTGCG
70462240 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:70462250 original size:27 final size:27
Alignment explanation
Indices: 70462142--70462252 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
70462132 TAAATTGTAC
* * *
70462142 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
70462170 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
70462198 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
70462225 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
70462252 A
1 A
70462253 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:70464415 original size:33 final size:33
Alignment explanation
Indices: 70464373--70464436 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
70464363 TGCAGTAGCA
***
70464373 GTCTGGGCCTGAGCCCTGTTCAGAAACAGTGCT
1 GTCTGGGCCTGAGCCCTAAACAGAAACAGTGCT
*
70464406 GTCTGGGCCTTAGCCCTAAACAGAAACAGTG
1 GTCTGGGCCTGAGCCCTAAACAGAAACAGTG
70464437 TGAGCCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (33 bp):
GTCTGGGCCTGAGCCCTAAACAGAAACAGTGCT
Found at i:70464616 original size:27 final size:27
Alignment explanation
Indices: 70464575--70464642 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
70464565 AATATCGCAA
*
70464575 CAAAGCTACCAGTAACAGT-ATATGTGG
1 CAAAGCCACCAGTAACAGTAAT-TGTGG
*
70464602 CAAAGCCACCGGTAACAGTAATTGTGG
1 CAAAGCCACCAGTAACAGTAATTGTGG
*
70464629 CAGAGCCACCAGTA
1 CAAAGCCACCAGTA
70464643 CAATACTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CAAAGCCACCAGTAACAGTAATTGTGG
Found at i:70470263 original size:27 final size:27
Alignment explanation
Indices: 70470233--70470410 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70470223 ATATTGAGTC
* * * *
70470233 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70470260 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70470287 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70470315 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70470342 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70470369 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70470396 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70470411 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70470372 original size:82 final size:81
Alignment explanation
Indices: 70470254--70470409 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70470244 TGCTATATAA
* *
70470254 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70470319 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70470336 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70470400 CACTTAGTGC
65 CACTTAGTGC
70470410 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70470980 original size:13 final size:13
Alignment explanation
Indices: 70470962--70470986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70470952 TACTAAATTT
70470962 TCATGGATTCAAG
1 TCATGGATTCAAG
70470975 TCATGGATTCAA
1 TCATGGATTCAA
70470987 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:70475512 original size:49 final size:49
Alignment explanation
Indices: 70475440--70475537 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
70475430 AACCGCATCA
70475440 TGCGCGGTTAACCAATCCAAACCAAGAATAACATCAAACTCGTCGAACG
1 TGCGCGGTTAACCAATCCAAACCAAGAATAACATCAAACTCGTCGAACG
70475489 TGCGCGGTTAACCAATCCAAACCAAGAATAACATCAAACTCGTCGAACG
1 TGCGCGGTTAACCAATCCAAACCAAGAATAACATCAAACTCGTCGAACG
70475538 GCAAAAGCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (49 bp):
TGCGCGGTTAACCAATCCAAACCAAGAATAACATCAAACTCGTCGAACG
Found at i:70478582 original size:27 final size:27
Alignment explanation
Indices: 70478552--70478729 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70478542 ATATTGAGTC
* * * *
70478552 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70478579 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70478606 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70478634 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70478661 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70478688 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70478715 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70478730 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70478691 original size:82 final size:81
Alignment explanation
Indices: 70478573--70478728 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70478563 TGCTATATAA
* *
70478573 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70478638 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70478655 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70478719 CACTTAGTGC
65 CACTTAGTGC
70478729 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70479299 original size:13 final size:13
Alignment explanation
Indices: 70479281--70479305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70479271 TACTAAATTT
70479281 TCATGGATTCAAG
1 TCATGGATTCAAG
70479294 TCATGGATTCAA
1 TCATGGATTCAA
70479306 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:70480747 original size:38 final size:38
Alignment explanation
Indices: 70480696--70480771 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
70480686 TTCGTCCTCG
70480696 AAAAGCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
1 AAAAGCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
70480734 AAAAGCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
1 AAAAGCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
70480772 CATCGAACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (38 bp):
AAAAGCTTACCGGTAAATAGGTTTGGGTATCGTTCTTT
Found at i:70480955 original size:27 final size:27
Alignment explanation
Indices: 70480910--70480964 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
70480900 CATAACTCAT
* * *
70480910 ATCGGCTCCACTTTTAACCTCCGCCAG
1 ATCGGCTCCAATTTCAACCTCCGACAG
*
70480937 ATCGGCTCGAATTTCAACCTCCGACAG
1 ATCGGCTCCAATTTCAACCTCCGACAG
70480964 A
1 A
70480965 CTAATTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (27 bp):
ATCGGCTCCAATTTCAACCTCCGACAG
Found at i:70487135 original size:58 final size:58
Alignment explanation
Indices: 70487067--70487888 Score: 1635
Period size: 58 Copynumber: 14.2 Consensus size: 58
70487057 TAATCAACCG
70487067 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487125 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487183 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487241 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487299 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487357 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487415 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487473 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487531 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487589 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487647 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487705 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487763 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
*
70487821 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
70487879 CGCACACTTA
1 CGCACACTTA
70487889 CCTTTTCCGC
Statistics
Matches: 763, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 763 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (58 bp):
CGCACACTTAGTGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTT
Found at i:70488029 original size:29 final size:30
Alignment explanation
Indices: 70487990--70488068 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
70487980 CTTAATAATC
70487990 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
70488020 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
70488049 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
70488069 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:70490695 original size:40 final size:40
Alignment explanation
Indices: 70490640--70490857 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
70490630 CGGATGGTAA
*
70490640 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
*
70490680 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
70490720 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
70490760 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* *
70490800 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
* *
70490840 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
70490858 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 18 0.11
40 147 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:70496842 original size:23 final size:23
Alignment explanation
Indices: 70496808--70496858 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
70496798 AGCTTTATCA
70496808 AGCT-AAATAGTAAGCTCCAATG
1 AGCTGAAATAGTAAGCTCCAATG
**
70496830 AGCTGAAATAGTAAGCTCTTATG
1 AGCTGAAATAGTAAGCTCCAATG
70496853 AGCTGA
1 AGCTGA
70496859 TATATCGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (23 bp):
AGCTGAAATAGTAAGCTCCAATG
Found at i:70498515 original size:13 final size:13
Alignment explanation
Indices: 70498497--70498523 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70498487 TTCTTTTCAA
70498497 ATATTTTATTTTT
1 ATATTTTATTTTT
70498510 ATATTTTATTTTT
1 ATATTTTATTTTT
70498523 A
1 A
70498524 AAATTTTTTA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:70499506 original size:88 final size:87
Alignment explanation
Indices: 70499353--70499518 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 87
70499343 TCCTCTTTTT
* ** ** * *
70499353 TTTTTTGCACTCAATTGATCATTTAAACTTTCAAAATGTATCAAAAAGGCCCTCAAACTTCTTCA
1 TTTTTTGCACTCAATTGATCACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAATTCTTC-
70499418 AAAAAAAGCAATTAAGCCCCTATA
65 -AAAAAAGCAATTAAGCCCCTATA
*
70499442 TTTTTT-CACTCAATTAGAT-ACTTGAACTTTCAAAATCCATCAAAAAAACCCTAAAAAATT-TT
1 TTTTTTGCACTCAATT-GATCACTTAAACTTTCAAAATCCATCAAAAAAACCCT-AAAAATTCTT
70499504 CAAAAAAGCAATTAA
64 CAAAAAAGCAATTAA
70499519 ATTCCTACTC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
86 14 0.21
88 39 0.58
89 14 0.21
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (87 bp):
TTTTTTGCACTCAATTGATCACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAATTCTTCA
AAAAAGCAATTAAGCCCCTATA
Found at i:70499595 original size:29 final size:28
Alignment explanation
Indices: 70499563--70499652 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 28
70499553 TAAAAAACAA
70499563 AAAAATTAAAATTTATTA-AAAAATTATTT
1 AAAAATTAAAATTTATTATAAAAA-T-TTT
*
70499592 AAAAATTAGAAATTTTTTATAAAAATTTT
1 AAAAATTA-AAATTTATTATAAAAATTTT
*
70499621 AAAAA-TAAAA-TT-TTATAAAATTTTAT
1 AAAAATTAAAATTTATTATAAAAATTT-T
70499647 AAAAAT
1 AAAAAT
70499653 CATAAAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.20
26 8 0.15
27 3 0.05
28 2 0.04
29 16 0.29
30 10 0.18
31 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAAATTAAAATTTATTATAAAAATTTT
Found at i:70499632 original size:14 final size:15
Alignment explanation
Indices: 70499613--70499641 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70499603 ATTTTTTATA
70499613 AAAATTTTA-AAAAT
1 AAAATTTTATAAAAT
70499627 AAAATTTTATAAAAT
1 AAAATTTTATAAAAT
70499642 TTTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTTTATAAAAT
Found at i:70499638 original size:10 final size:10
Alignment explanation
Indices: 70499625--70499650 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
70499615 AATTTTAAAA
70499625 ATAAAATTTT
1 ATAAAATTTT
70499635 ATAAAATTTT
1 ATAAAATTTT
70499645 ATAAAA
1 ATAAAA
70499651 ATCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:70508450 original size:25 final size:23
Alignment explanation
Indices: 70508417--70508467 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
70508407 AATTAATAGA
* *
70508417 TAAATTAATATAATAAAGTTTTAAT
1 TAAACTAAT-TAATAAAG-CTTAAT
*
70508442 TAAACTAATTAATTAAGCTTAAT
1 TAAACTAATTAATAAAGCTTAAT
70508465 TAA
1 TAA
70508468 GGTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
25 8 0.35
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
TAAACTAATTAATAAAGCTTAAT
Found at i:70516284 original size:13 final size:13
Alignment explanation
Indices: 70516268--70516307 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
70516258 TAAACCAAAT
*
70516268 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
* *
70516281 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
70516294 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
70516307 T
1 T
70516308 GCCAAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:70519492 original size:26 final size:26
Alignment explanation
Indices: 70519420--70519478 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
70519410 TATTTTCTCG
* * * *
70519420 AAATCTTACTAAAGGCAAAATTGTTA
1 AAATTTTACTAAGGGTAAAATTGTCA
70519446 AAATTTTACTAAGGGTAAAATTGTCA
1 AAATTTTACTAAGGGTAAAATTGTCA
70519472 AAATTTT
1 AAATTTT
70519479 GTCAGGGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATTGTCA
Found at i:70521364 original size:63 final size:63
Alignment explanation
Indices: 70521183--70521368 Score: 191
Period size: 62 Copynumber: 3.0 Consensus size: 63
70521173 TGGCAAGTTG
* * * * * * * *
70521183 TGTAACCCACTATTTTGGAATTAGAGG-CACACGGGCTAGGGATACAGGTATGTGTCCACGCCG
1 TGTAACTCACTGTTTTGGATTTAG-GGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGCCA
* * *
70521246 TGTAACTCACTG-TTTGTATTTTA-GGTCACACAGGCTAGGGACACG-GGTGTGTGTCTAGGCCA
1 TGTAACTCACTGTTTTGGA-TTTAGGGTCACACGGGCTAGGGACA-GAGGTATGTGTCTAGGCCA
* * *
70521308 TGTAACTCGCTGTTTTGGATTTAGGGTCACACGGGCCAAGGACAGAGGTATGTGTCTAGGC
1 TGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGC
70521369 TGTGTAAGAG
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
61 2 0.02
62 49 0.49
63 49 0.49
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (63 bp):
TGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGCCA
Found at i:70521375 original size:63 final size:63
Alignment explanation
Indices: 70521182--70521375 Score: 198
Period size: 63 Copynumber: 3.1 Consensus size: 63
70521172 GTGGCAAGTT
* * * * * * *
70521182 GTGTAACCCACTATTTTGGAATTAGAGG-CACACGGGCTAGGGATACAGGTATGTGTCCACGCC
1 GTGTAACTCACTGTTTTGGATTTAG-GGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGCC
* * *
70521245 GTGTAACTCACTG-TTTGTATTTTA-GGTCACACAGGCTAGGGACACG-GGTGTGTGTCTAGGCC
1 GTGTAACTCACTGTTTTGGA-TTTAGGGTCACACGGGCTAGGGACA-GAGGTATGTGTCTAGGCC
* * * * *
70521307 ATGTAACTCGCTGTTTTGGATTTAGGGTCACACGGGCCAAGGACAGAGGTATGTGTCTAGGCT
1 GTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGCC
70521370 GTGTAA
1 GTGTAA
70521376 GAGGTTGTGA
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
61 2 0.02
62 49 0.46
63 55 0.52
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (63 bp):
GTGTAACTCACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAGAGGTATGTGTCTAGGCC
Found at i:70522442 original size:11 final size:11
Alignment explanation
Indices: 70522414--70522443 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
70522404 TGACTACTAA
*
70522414 TTTTTTCTTTT
1 TTTTTTGTTTT
70522425 TTTTTTGTTTT
1 TTTTTTGTTTT
70522436 TTTTTTGT
1 TTTTTTGT
70522444 CATCTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:70527094 original size:23 final size:23
Alignment explanation
Indices: 70527051--70527094 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
70527041 AATATATTAC
*
70527051 AATTATTTTATAATTTTATATAA
1 AATTATTTTATAATTTAATATAA
70527074 AATTAATTTTATAA-TTAATAT
1 AATT-ATTTTATAATTTAATAT
70527095 TATAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTATTTTATAATTTAATATAA
Found at i:70530790 original size:45 final size:46
Alignment explanation
Indices: 70530740--70530831 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 46
70530730 CCTATTCAAA
70530740 CAGTTTAAGGCCAA-ATTTTTAATTTTTTTCCCTTTCACGTCAGAT
1 CAGTTTAAGGCCAATATTTTTAATTTTTTTCCCTTTCACGTCAGAT
* *
70530785 CAGTTTAAGGCCAATTTTTTTTATTTTTTTTCCCTTTCACGTCAGAT
1 CAGTTTAAGGCCAA-TATTTTTAATTTTTTTCCCTTTCACGTCAGAT
70530832 TCTTTGAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 14 0.33
47 29 0.67
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (46 bp):
CAGTTTAAGGCCAATATTTTTAATTTTTTTCCCTTTCACGTCAGAT
Found at i:70530927 original size:23 final size:24
Alignment explanation
Indices: 70530899--70530945 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
70530889 TTTAAAGTTT
*
70530899 TTTATTTG-TCATTATTTATTTTA
1 TTTATTTGTTCATTATTGATTTTA
*
70530922 TTTATTTGTTTATTATTGATTTTA
1 TTTATTTGTTCATTATTGATTTTA
70530946 AAAAACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTATTTGTTCATTATTGATTTTA
Found at i:70531035 original size:19 final size:20
Alignment explanation
Indices: 70531008--70531046 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
70530998 AAATATATAT
70531008 ATTTGAAAT-TATTTTTTAA
1 ATTTGAAATATATTTTTTAA
*
70531027 ATTTTAAATATATTTTTTAA
1 ATTTGAAATATATTTTTTAA
70531047 TAATATAAAA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTGAAATATATTTTTTAA
Found at i:70531059 original size:20 final size:20
Alignment explanation
Indices: 70531013--70531061 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
70531003 TATATATTTG
* *
70531013 AAAT-TATTTTTTAAATTTT
1 AAATATATTTTTTAAAATAT
70531032 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
70531053 AAA-ATATTT
1 AAATATATTT
70531062 AAATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATATTTTTTAAAATAT
Found at i:70531170 original size:13 final size:12
Alignment explanation
Indices: 70531152--70531182 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
70531142 TTTACATATA
70531152 ATTTTTTAAATT
1 ATTTTTTAAATT
70531164 ATATTTTTAAATT
1 AT-TTTTTAAATT
70531177 ATTTTT
1 ATTTTT
70531183 AAAAATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTTAAATT
Found at i:70531292 original size:20 final size:20
Alignment explanation
Indices: 70531267--70531312 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
70531257 AATTAATTAG
70531267 AAAAATAAAAAAATTTGTTA
1 AAAAATAAAAAAATTTGTTA
***
70531287 AAAAAT-AATTTATTTGTTA
1 AAAAATAAAAAAATTTGTTA
70531306 AAAAATA
1 AAAAATA
70531313 TGACTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATAAAAAAATTTGTTA
Found at i:70531349 original size:21 final size:21
Alignment explanation
Indices: 70531323--70531363 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70531313 TGACTTTATT
*
70531323 TAAAAATATATATTAAAAAAG
1 TAAAAATATAAATTAAAAAAG
*
70531344 TAAAAATTTAAATTAAAAAA
1 TAAAAATATAAATTAAAAAA
70531364 TTTTAAAAAT
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:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATATAAATTAAAAAAG
Found at i:70533758 original size:34 final size:34
Alignment explanation
Indices: 70533702--70533787 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
70533692 CTATCTCAAT
*
70533702 ACAGTATCAAATATGCAGTAGGGACTTAGCCCATC
1 ACAGTATC-AGTATGCAGTAGGGACTTAGCCCATC
* * *
70533737 ACAGTATCAGTATGCATTAGGGCCTTAGCCTATC
1 ACAGTATCAGTATGCAGTAGGGACTTAGCCCATC
*
70533771 ACAGTATTAGTA-GCAGT
1 ACAGTATCAGTATGCAGT
70533788 CATGCAGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 4 0.09
34 33 0.73
35 8 0.18
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGACTTAGCCCATC
Found at i:70536763 original size:20 final size:20
Alignment explanation
Indices: 70536738--70536775 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70536728 CTTGCATCTC
70536738 ACCATAATCTTTCACAACAT
1 ACCATAATCTTTCACAACAT
* *
70536758 ACCATAGTCTTTCCCAAC
1 ACCATAATCTTTCACAAC
70536776 TTTAACATTG
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:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (20 bp):
ACCATAATCTTTCACAACAT
Found at i:70536968 original size:42 final size:42
Alignment explanation
Indices: 70536861--70536974 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
70536851 TACCATACCA
* * **
70536861 ATGTCATATCCCGGATATGGTCTTACATGGGATATCATATCG
1 ATGTCATATCCCAGATATGGTCTTACACGAAATATCATATCG
* * *
70536903 ATGCCAATATCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGTC-ATATCCCAGATATGGTCTTACACGAAATATCATATCG
* *
70536946 ATTTCATATCCCAAATATGGTCTTACACG
1 ATGTCATATCCCAGATATGGTCTTACACG
70536975 TAACTTCAGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACACGAAATATCATATCG
Found at i:70538911 original size:30 final size:30
Alignment explanation
Indices: 70538877--70538976 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
70538867 CGCAGAGCAT
* * *
70538877 TTCATATCACTCGGACATTGGCAGTTCAAG
1 TTCATATCACTCGGACATAGGCGGTTCGAG
*
70538907 TTCATATCACTTGGACATAGGCGGTTCGAG
1 TTCATATCACTCGGACATAGGCGGTTCGAG
* *
70538937 TTCATATCACCCGAACATAGGCGGTTCGAG
1 TTCATATCACTCGGACATAGGCGGTTCGAG
*
70538967 TTCATTTCAC
1 TTCATATCAC
70538977 CCAGAGCAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (30 bp):
TTCATATCACTCGGACATAGGCGGTTCGAG
Found at i:70542466 original size:15 final size:16
Alignment explanation
Indices: 70542446--70542476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70542436 TTGAAAGGTC
70542446 ATATA-TTTAAAAATA
1 ATATATTTTAAAAATA
70542461 ATATATTTTAAAAATA
1 ATATATTTTAAAAATA
70542477 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATTTTAAAAATA
Found at i:70542482 original size:9 final size:9
Alignment explanation
Indices: 70542468--70542543 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 9
70542458 ATAATATATT
70542468 TTAAAAATA
1 TTAAAAATA
70542477 TTAAAAATA
1 TTAAAAATA
70542486 TTATAAAATAAA
1 TTA-AAAAT--A
70542498 TTAAAAATA
1 TTAAAAATA
* *
70542507 TTTAAAATT
1 TTAAAAATA
*
70542516 TTAAATATACA
1 TTAAA-A-ATA
*
70542527 TTTAAAATA
1 TTAAAAATA
70542536 TTATAAAA
1 TTA-AAAA
70542544 CTAATAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
9 28 0.53
10 11 0.21
11 10 0.19
12 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:70542502 original size:30 final size:29
Alignment explanation
Indices: 70542468--70542543 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
70542458 ATAATATATT
70542468 TTAAAAATATTAAAAATATTATAAA-ATAAA
1 TTAAAAATATTAAAAAT-TT-TAAATATAAA
* *
70542498 TTAAAAATATTTAAAATTTTAAATATACA
1 TTAAAAATATTAAAAATTTTAAATATAAA
*
70542527 TTTAAAATATTATAAAA
1 TTAAAAATATTA-AAAA
70542544 CTAATAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.10
29 16 0.40
30 20 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
TTAAAAATATTAAAAATTTTAAATATAAA
Found at i:70542541 original size:119 final size:123
Alignment explanation
Indices: 70542354--70542577 Score: 334
Period size: 120 Copynumber: 1.9 Consensus size: 123
70542344 TTAATTAATA
* * *
70542354 ATTAATAATTTATAAAAATTATATTTAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
1 ATTAAAAATTTATAAAAATTAAATTAAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
*
70542419 AT-AAACAAATAATAAATTTGAAAGGTCATATATTTAAAAATAATATATTTTAAAAAT
66 ATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAAATAATATATTTTAAAAAT
70542476 ATTAAAAATATTAT-AAAA-TAAATTAAAAATATTT-AAAAT-TTT-AAATATACATTTAAAATA
1 ATTAAAAAT-TTATAAAAATTAAATTAAAAAT-TTTAAAAATATTTAAAATATACATTTAAAATA
* *
70542536 TTATAAAACTAATAATAAATTTGAAAGGTCACATCTTTAAAA
64 TTATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAA
70542578 TATTTAAATG
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
119 22 0.24
120 37 0.40
121 15 0.16
122 15 0.16
123 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (123 bp):
ATTAAAAATTTATAAAAATTAAATTAAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
ATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAAATAATATATTTTAAAAAT
Found at i:70542613 original size:21 final size:20
Alignment explanation
Indices: 70542598--70542637 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
70542588 TTTTATATTA
70542598 TTAAAAAATATATTTAAAATT
1 TTAAAAAATA-ATTTAAAATT
70542619 TTAAAAAATAATTTCAAAA
1 TTAAAAAATAATTT-AAAA
70542638 ATATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAAATAATTTAAAATT
Found at i:70542653 original size:22 final size:22
Alignment explanation
Indices: 70542628--70542680 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
70542618 TTTAAAAAAT
70542628 AATTTCAAAAATATATATT-T-AA
1 AATTTCAAAAA-A-ATATTATAAA
70542650 AATTT-AAAAAAATATTATAAA
1 AATTTCAAAAAAATATTATAAA
70542671 ACATTTCAAA
1 A-ATTTCAAA
70542681 TATACATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 8 0.30
22 9 0.33
23 3 0.11
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTCAAAAAAATATTATAAA
Found at i:70542687 original size:13 final size:13
Alignment explanation
Indices: 70542671--70542705 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
70542661 ATATTATAAA
70542671 ACATTTCAAATAT
1 ACATTTCAAATAT
70542684 ACATTTCAAATAT
1 ACATTTCAAATAT
70542697 ACATTTCAA
1 ACATTTCAA
70542706 GTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (13 bp):
ACATTTCAAATAT
Found at i:70542729 original size:12 final size:12
Alignment explanation
Indices: 70542712--70542787 Score: 59
Period size: 12 Copynumber: 6.0 Consensus size: 12
70542702 TCAAGTTTTT
*
70542712 TAAAATTAATAA
1 TAAAATAAATAA
70542724 TAAAATAAATAA
1 TAAAATAAATAA
70542736 TTAAAATAAATAA
1 -TAAAATAAATAA
70542749 -ATAAATAAGGATAAA
1 TA-AAATAA--AT-AA
70542764 TAAAA-AAATTAA
1 TAAAATAAA-TAA
70542776 -AAAAGTAAATAA
1 TAAAA-TAAATAA
70542788 ATATAAACTT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
11 5 0.09
12 23 0.43
13 16 0.30
14 4 0.07
15 5 0.09
16 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:70542735 original size:4 final size:4
Alignment explanation
Indices: 70542726--70542790 Score: 60
Period size: 4 Copynumber: 15.2 Consensus size: 4
70542716 ATTAATAATA
* *
70542726 AAAT AAAT AATT AAAAT AAAT AAAT AAAT AAGGAT AAAT AAAA AAATT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AA--AT AAAT AAAT AAA-T
70542774 AAA- AAAGT AAAT AAAT A
1 AAAT AAA-T AAAT AAAT A
70542791 TAAACTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 35 0.69
5 9 0.18
6 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:70542742 original size:13 final size:13
Alignment explanation
Indices: 70542711--70542753 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
70542701 TTCAAGTTTT
*
70542711 TTAAAATTAATAA
1 TTAAAATAAATAA
70542724 -TAAAATAAATAA
1 TTAAAATAAATAA
70542736 TTAAAATAAATAA
1 TTAAAATAAATAA
*
70542749 ATAAA
1 TTAAA
70542754 TAAGGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAAAATAAATAA
Done.