Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 71 of 141
Found at i:23133327 original size:17 final size:17
Alignment explanation
Indices: 23133305--23133366 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
23133295 CAAAAACTAT
23133305 GAGCTCACCAAATGTGC
1 GAGCTCACCAAATGTGC
* *
23133322 GAGCTCGCCAAATGTGG
1 GAGCTCACCAAATGTGC
*
23133339 GAGCTCACCAAGAT-CGC
1 GAGCTCACCAA-ATGTGC
23133356 GAGCTCACCAA
1 GAGCTCACCAA
23133367 CATTGTGAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 37 0.95
18 2 0.05
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.15
Consensus pattern (17 bp):
GAGCTCACCAAATGTGC
Found at i:23133345 original size:34 final size:34
Alignment explanation
Indices: 23133305--23133398 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
23133295 CAAAAACTAT
* *
23133305 GAGCTCACCAA-ATGTGCGAGCTCGCCAA-ATGTGG
1 GAGCTCACCAAGAT-CGCGAGCTCACCAACAT-TGG
*
23133339 GAGCTCACCAAGATCGCGAGCTCACCAACATTGT
1 GAGCTCACCAAGATCGCGAGCTCACCAACATTGG
* *
23133373 GAGCTTACCAAGCAT-GAGAGCTCACC
1 GAGCTCACCAAG-ATCGCGAGCTCACC
23133399 TGCGAGCTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
34 46 0.88
35 6 0.12
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (34 bp):
GAGCTCACCAAGATCGCGAGCTCACCAACATTGG
Found at i:23133376 original size:17 final size:16
Alignment explanation
Indices: 23133305--23133383 Score: 77
Period size: 17 Copynumber: 4.7 Consensus size: 16
23133295 CAAAAACTAT
23133305 GAGCTCACCAAATGTGC
1 GAGCTCACCAAAT-TGC
* *
23133322 GAGCTCGCCAAATGTGG
1 GAGCTCACCAAAT-TGC
*
23133339 GAGCTCACCAAGATCGC
1 GAGCTCACCAA-ATTGC
*
23133356 GAGCTCACCAACATTGT
1 GAGCTCACCAA-ATTGC
*
23133373 GAGCTTACCAA
1 GAGCTCACCAA
23133384 GCATGAGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
17 50 0.96
18 2 0.04
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (16 bp):
GAGCTCACCAAATTGC
Found at i:23137621 original size:16 final size:17
Alignment explanation
Indices: 23137600--23137633 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23137590 AAGCATGTCC
23137600 ATAGCTAGCCATT-CCA
1 ATAGCTAGCCATTACCA
*
23137616 ATAGCTAGTCATTACCA
1 ATAGCTAGCCATTACCA
23137633 A
1 A
23137634 ATATTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (17 bp):
ATAGCTAGCCATTACCA
Found at i:23140453 original size:17 final size:18
Alignment explanation
Indices: 23140431--23140578 Score: 77
Period size: 17 Copynumber: 8.8 Consensus size: 18
23140421 AACTGCGAAT
* *
23140431 TGCGAGCTCCCCAAATG-
1 TGCGAGCTCACCAAAAGA
23140448 TGCGAGCTCACCAAAAGA
1 TGCGAGCTCACCAAAAGA
*
23140466 TGCGAGCTCACC--ATGA
1 TGCGAGCTCACCAAAAGA
* *
23140482 CTACGAGCTCACC-AGA-A
1 -TGCGAGCTCACCAAAAGA
* *
23140499 T---AACTCACCAAAAAA
1 TGCGAGCTCACCAAAAGA
** *
23140514 TATGAGCTCACCAAATG-
1 TGCGAGCTCACCAAAAGA
23140531 TGCGAGCTCACC--AAGA
1 TGCGAGCTCACCAAAAGA
* * *
23140547 TCGCGAGCTTACCAACA-C
1 T-GCGAGCTCACCAAAAGA
23140565 TGCGAGCTCACCAA
1 TGCGAGCTCACCAA
23140579 GCATGGGAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 4 0.04
16 5 0.05
17 59 0.58
18 23 0.23
19 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.16
Consensus pattern (18 bp):
TGCGAGCTCACCAAAAGA
Found at i:23143949 original size:34 final size:34
Alignment explanation
Indices: 23143911--23143978 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23143901 AAATGGTTGT
23143911 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
23143945 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
23143979 CAACGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (34 bp):
GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
Found at i:23148140 original size:54 final size:54
Alignment explanation
Indices: 23148081--23148196 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
23148071 TACTCAGTGA
* * * * *
23148081 GTTACACGGGC-AGAGACATGGGCTGGGACATGGCTGTGTGTCTCTAGTTCGAAT
1 GTTACACGGGCAAG-GACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
* * *
23148135 GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTATTTTGATT
1 GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
23148189 GTTACACG
1 GTTACACG
23148197 ACCTAATGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.26
Consensus pattern (54 bp):
GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
Found at i:23172159 original size:9 final size:10
Alignment explanation
Indices: 23172136--23172161 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23172126 TACTATTTAA
23172136 AAAAAATAAT
1 AAAAAATAAT
23172146 AAAAAATAAT
1 AAAAAATAAT
23172156 AAAAAA
1 AAAAAA
23172162 ATCCAAATTA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:23173186 original size:44 final size:44
Alignment explanation
Indices: 23173138--23173240 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
23173128 ACTCTACCGT
*
23173138 AACTTTAGGG-GATGAGGTTTGTGGTT-TTTAATCCGCTCCACTGC
1 AACTTTAGGGAGAT-AGGATTG-GGTTCTTTAATCCGCTCCACTGC
* ** *
23173182 AACTTTAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGC
1 AACTTTAGGGAGATAGGATTGGGTTCTTTAATCCGCTCCACTGC
* *
23173226 AACTTCAGAGAGATA
1 AACTTTAGGGAGATA
23173241 AGATCTGAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.06
44 44 0.88
45 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (44 bp):
AACTTTAGGGAGATAGGATTGGGTTCTTTAATCCGCTCCACTGC
Found at i:23173300 original size:44 final size:44
Alignment explanation
Indices: 23173252--23173802 Score: 249
Period size: 44 Copynumber: 12.8 Consensus size: 44
23173242 GATCTGAGCT
*
23173252 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * * * ** *
23173296 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAG-GGTGC--T-
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
23173336 TTCGATCTGCTCCACTACTG-TGTAGGGAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTACAATC
** * * * * * * **
23173380 TTTAACCTACTCCGCTGCTGCTCAGGGAGATAAGGT-T--GGTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C
23173422 TTTCGATCTGCTCCACTACTG-TGTAGGGAGATAAGATCTACAATC
1 -TTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTACAATC
** * * * * * * **
23173467 TTTAACCTACTCCGCTGCTGCTCAGGGAGATAAGGT-T--GGTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C
* * ***
23173509 TTTCGATCTGCTCCACTACTGTTTAGAGAGATAAGAT-TAGTTTC
1 -TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** **
23173553 TTCTTTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * *** **
23173593 TGCGATCTGCTCTACTGCAATTTAGACAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * * * *****
23173637 TTCAACCTACTCTACTACTGCTTAGGGAGATAAG-GCTGGTGGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** * * * * * **
23173680 TTAAATCTGTTTCACTACTACCTTAGGAAGATAAGAT-TCGCCGTC
1 TTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCT-ACAATC
* * *
23173725 TTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** * *
23173769 TTTAACCTACTCCACTACTGCTTAGGGAGATAAG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
23173803 NNNNNNNNNN
Statistics
Matches: 361, Mismatches: 120, Indels: 52
0.68 0.23 0.10
Matches are distributed among these distances:
39 1 0.00
40 52 0.14
41 7 0.02
42 4 0.01
43 106 0.29
44 167 0.46
45 23 0.06
46 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
Found at i:23173455 original size:87 final size:87
Alignment explanation
Indices: 23173249--23173545 Score: 512
Period size: 87 Copynumber: 3.4 Consensus size: 87
23173239 TAAGATCTGA
* **
23173249 GCTTTCGATCTACTCCACTACTGCT-TAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
1 GCTTTCGATCTGCTCCACTACTG-TGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTG
23173313 CTGCTCAGGGAGATAA-G--GGT
65 CTGCTCAGGGAGATAAGGTTGGT
23173333 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
1 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
23173398 TGCTCAGGGAGATAAGGTTGGT
66 TGCTCAGGGAGATAAGGTTGGT
23173420 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
1 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
23173485 TGCTCAGGGAGATAAGGTTGGT
66 TGCTCAGGGAGATAAGGTTGGT
* *
23173507 GCTTTCGATCTGCTCCACTACTGTTTAGAGAGATAAGAT
1 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGAT
23173546 TAGTTTCTTC
Statistics
Matches: 204, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
83 1 0.00
84 75 0.37
85 1 0.00
87 127 0.62
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (87 bp):
GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
TGCTCAGGGAGATAAGGTTGGT
Found at i:23173669 original size:84 final size:84
Alignment explanation
Indices: 23173253--23173677 Score: 451
Period size: 87 Copynumber: 5.0 Consensus size: 84
23173243 ATCTGAGCTT
* * *
23173253 TCGATCTACTCCACTACTGCT-TAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGC
1 TCGATCTGCTCCACTACTG-TGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
* * *
23173317 TCAGGGAGATAAGGGTGCTT
65 TCAGGGAGATAAGGTTGGTG
* *
23173337 TCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGCT
1 TCGATCTGCTCCACTACTGTGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
23173402 CAGGGAGATAAGGTTGGTG
66 CAGGGAGATAAGGTTGGTG
* *
23173421 CTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGCT
1 ---TCGATCTGCTCCACTACTGTGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
23173486 GCTCAGGGAGATAAGGTTGGTG
63 GCTCAGGGAGATAAGGTTGGTG
* *** *** * * *
23173508 CTTTCGATCTGCTCCACTACTGTTTAGAGAGATAAGAT-TAGTTTCTTCTTTCTGCTCCACTACT
1 ---TCGATCTGCTCCACTACTGTGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
* * *
23173572 GCTTAGGGAGATAAGACTTGATG
63 GCTCAGGGAGATAAG-GTTGGTG
* * ** * * ** *
23173595 -CGATCTGCTCTACTGCAATTTAGACAGATAAGATCTACAATCTTCAACCTACTCTACTACTGCT
1 TCGATCTGCTCCACTACTGTGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
* *
23173659 TAGGGAGATAAGGCTGGTG
66 CAGGGAGATAAGGTTGGTG
23173678 GCTTAAATCT
Statistics
Matches: 298, Mismatches: 37, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
83 34 0.11
84 109 0.37
86 30 0.10
87 125 0.42
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (84 bp):
TCGATCTGCTCCACTACTGTGTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
CAGGGAGATAAGGTTGGTG
Found at i:23184840 original size:13 final size:13
Alignment explanation
Indices: 23184809--23184834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23184799 TACAATTTAA
23184809 AAAAATAAAAAAT
1 AAAAATAAAAAAT
23184822 AAAAATAAAAAAT
1 AAAAATAAAAAAT
23184835 CCAAATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:23192913 original size:21 final size:21
Alignment explanation
Indices: 23192889--23192949 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
23192879 GCCTTATTAG
*
23192889 ATACCACAGAGGCTAACAAAA
1 ATACCACAAAGGCTAACAAAA
*
23192910 ATACCACAAAGGCCATATC-AAA
1 ATACCACAAAGG-C-TAACAAAA
*
23192932 ATACCACATAGGCTAACA
1 ATACCACAAAGGCTAACA
23192950 GAATGTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 15 0.45
23 3 0.09
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.13
Consensus pattern (21 bp):
ATACCACAAAGGCTAACAAAA
Found at i:23192948 original size:43 final size:42
Alignment explanation
Indices: 23192860--23192977 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
23192850 GCCATAAAAT
* * *
23192860 CTAACAAAATGCCACAAAGGCCTTAT-TAGATACCACAGAGG
1 CTAACAAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
* *
23192901 CTAACAAAAATACCACAAAGGCCATATCAAAATACCACATAGG
1 CTAAC-AAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
* *
23192944 CTAACAGAATGTCACAAAGGCCATATCAAAATAC
1 CTAACAAAATGCCACAAAGGCCATATCAAAATAC
23192978 TCTATAAAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 5 0.07
42 45 0.67
43 17 0.25
ACGTcount: A:0.47, C:0.25, G:0.13, T:0.16
Consensus pattern (42 bp):
CTAACAAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
Found at i:23199032 original size:13 final size:13
Alignment explanation
Indices: 23198994--23199037 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
23198984 TGATACTCTA
*
23198994 TTTTCAAGATATG
1 TTTTAAAGATATG
* * *
23199007 TTTTTAGGTTATG
1 TTTTAAAGATATG
23199020 TTTTAAAGATATG
1 TTTTAAAGATATG
23199033 TTTTA
1 TTTTA
23199038 CACGTGCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (13 bp):
TTTTAAAGATATG
Found at i:23207311 original size:20 final size:20
Alignment explanation
Indices: 23207286--23207325 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23207276 GCAATTATAC
23207286 CAAATCAATTCATATTTCAT
1 CAAATCAATTCATATTTCAT
23207306 CAAATCAATTCATATTTCAT
1 CAAATCAATTCATATTTCAT
23207326 TTCAATCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATCAATTCATATTTCAT
Found at i:23207646 original size:42 final size:42
Alignment explanation
Indices: 23207559--23207749 Score: 134
Period size: 42 Copynumber: 4.5 Consensus size: 42
23207549 AATTATGCCA
* ** * * *
23207559 GCACATAAGTGCATCATCGGACGTATCAAAAAAAATATA-TCG
1 GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACT-G
*
23207601 GCACATAAGTGCATCATTGGATATACCAAAGCAATTATACTG
1 GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
** * ** * **
23207643 GCACGCGAAGTGCATCATTGGATAAACTGAAGTAATTATGTTG
1 GCAC-ATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
* *** *
23207686 GCACGTAAGTGCATCATCAAATATACCGAAA-AAATTATACTA
1 GCACATAAGTGCATCATTGGATATACC-AAAGAAATTATACTG
* *
23207728 GCACACACAGTGCATCAATGGA
1 GCACATA-AGTGCATCATTGGA
23207750 CAAACTGAAG
Statistics
Matches: 112, Mismatches: 33, Indels: 7
0.74 0.22 0.05
Matches are distributed among these distances:
42 65 0.58
43 47 0.42
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
Found at i:23207660 original size:43 final size:42
Alignment explanation
Indices: 23207607--23207702 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 42
23207597 ATCGGCACAT
*
23207607 AAGTGCATCATTGGATATACCAAAGCAATTATACTGGCACGCG
1 AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACG-G
** * ** *
23207650 AAGTGCATCATTGGATAAACTGAAGTAATTATGTTGGCACGT
1 AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACGG
23207692 AAGTGCATCAT
1 AAGTGCATCAT
23207703 CAAATATACC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 11 0.24
43 35 0.76
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACGG
Found at i:23207695 original size:85 final size:85
Alignment explanation
Indices: 23207600--23207761 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
23207590 AAAATATATC
*** * * * *
23207600 GGCACATAAGTGCATCATTGGATATACC-AAAGCAATTATACTGGCACGCGA-AGTGCATCATTG
1 GGCACATAAGTGCATCATCAAATATACCGAAA-AAATTATACTAGCACAC-ACAGTGCATCAATG
*
23207663 GATAAACTGAAGTAATTATGTT
64 GACAAACTGAAGTAATTATGTT
*
23207685 GGCACGTAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
1 GGCACATAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
23207750 CAAACTGAAGTA
66 CAAACTGAAGTA
23207762 TAGCTTGTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.94
86 3 0.05
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (85 bp):
GGCACATAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
CAAACTGAAGTAATTATGTT
Found at i:23207732 original size:127 final size:128
Alignment explanation
Indices: 23207503--23207749 Score: 282
Period size: 127 Copynumber: 1.9 Consensus size: 128
23207493 GGCAAGCTGG
** *
23207503 AGCAATTACACTGGCACGCTTAGCACATCATTGGATAAATTGAAATAATTATGCCAGCACATAAG
1 AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
** * * * * *
23207568 TGCATCATCGGACGTATCAAAAAAAATATATCGGCACATA-AGTGCATCATTGGATATACCAA
66 TGCATCATCAAACATACCAAAAAAAATATATCAGCACACACAGTGCATCAATGGATATACCAA
* ** * *** *
23207630 AGCAATTATACTGGCACGCGAAGTGCATCATTGGATAAACTGAAGTAATTATGTTGGCACGTAAG
1 AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
* * *
23207695 TGCATCATCAAATATACCGAAAAAATTATA-CTAGCACACACAGTGCATCAATGGA
66 TGCATCATCAAACATACCAAAAAAAATATATC-AGCACACACAGTGCATCAATGGA
23207750 CAAACTGAAG
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
126 1 0.01
127 83 0.86
128 13 0.13
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (128 bp):
AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
TGCATCATCAAACATACCAAAAAAAATATATCAGCACACACAGTGCATCAATGGATATACCAA
Found at i:23209258 original size:43 final size:42
Alignment explanation
Indices: 23209201--23209440 Score: 241
Period size: 43 Copynumber: 5.6 Consensus size: 42
23209191 CTCTAAATAT
23209201 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGA-TTCACCGTATCTTTGATTGTGAAAGG
* * * ** * *
23209244 GGTTACTATGTGCTGATTCCCCGTATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
23209285 TGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGCTGATT-CACCGTATCTTTGATTGTGAAAGG
* * * * ** * *
23209329 GGATGCTATGTGCTGATTCCCCATATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
*
23209370 TGGTTGCTAAGTGCTGATTCCACTGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGCTGATT-CACCGTATCTTTGATTGTGAAAGG
* * * *
23209414 GTTTGCTATGTGTTGATTCCCCGTATC
1 GGTTGCTAAGTGCTGATTCACCGTATC
23209441 ACTGAATTTA
Statistics
Matches: 155, Mismatches: 36, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
41 10 0.06
42 66 0.43
43 69 0.45
44 10 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
Found at i:23209299 original size:42 final size:42
Alignment explanation
Indices: 23209159--23209466 Score: 273
Period size: 42 Copynumber: 7.3 Consensus size: 42
23209149 TTCCCCGAGG
* * * * * **
23209159 GGTTGCTAAGTGTTGATTCCCCGAATTATTGACTCTAAATAT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * *
23209201 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGA-TTCCCCGTATCATTGAATGT-AAAGGT
* * * *
23209244 GGTTACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* *
23209286 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * * * *
23209329 GGATGCTATGTGCTGATTCCCCATATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * *
23209371 GGTTGCTAAGTGCTGATTCCACTGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * * * *
23209414 GTTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
23209455 GGTTGCTAAGTG
1 GGTTGCTAAGTG
23209467 TTGAATCCAT
Statistics
Matches: 210, Mismatches: 47, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
40 4 0.02
41 21 0.10
42 87 0.41
43 85 0.40
44 13 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
Found at i:23209299 original size:85 final size:85
Alignment explanation
Indices: 23209156--23209475 Score: 462
Period size: 85 Copynumber: 3.8 Consensus size: 85
23209146 AGATTCCCCG
* * * * * * * ** *
23209156 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGACTCTAAATATGGTTGCTAAGTGCTGATTTC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
23209221 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
*
23209241 AGGGGTTACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
23209306 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
23209326 AGGGGATGCTATGTGCTGATTCCCCATATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
23209391 ACTGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * * * *
23209411 AGGGTTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TTAAGGTGGTTGCTAAGTGTTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
23209475 A
66 A
23209476 TCGAGTAACG
Statistics
Matches: 213, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
84 25 0.12
85 188 0.88
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:23220414 original size:214 final size:214
Alignment explanation
Indices: 23220019--23220444 Score: 504
Period size: 214 Copynumber: 2.0 Consensus size: 214
23220009 AATATGATGT
* * * * *
23220019 TAGGAACTGCTCCTATCTCAAGTGCCCCTTAAAGAGTAGCCCCTGTATAGTTGAAGTAGTTGAAA
1 TAGGAACTACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCTGTAGAGTTGAAGGAGTTAAAA
* * * * * * * *
23220084 ACTCAGCTGCAATAACTATTGGACAAGGGGTTCATCAGACCAAGTGTTTCACTTTGGGGTGCGCC
66 ACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
* * * * *
23220149 AATACTGTTCATTAAAAAGAATGATGGGACTCTTTGGTTATGTATTGATTACAAG-AAGCTAAA-
131 AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAA-ATAAAC
23220212 ATAGGTAACCATAAAGAACGC
195 A-AGGTAACCATAAAGAACGC
* * *
23220233 TAGGAACTACTCCTATCTCAAGTGCGCCTTATAA-AAT-GGCTCTAGTAGAGTTGAAGGAGTTAA
1 TAGGAACTACTCCTATCTCAAGTGCCCCTTA-AAGAATAGCCCCT-GTAGAGTTGAAGGAGTTAA
* * *
23220296 AAACTCAACTACAAGAACTGCTGGATAAGGGGTTCATTAGACCAAATGTTTCACCTTAGGGTGCA
64 AAACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCA
* * * *
23220361 CCAATGCTATTCGTTAAGAAGAAGGATAGGAC-CTTTCGG-TAGTGTACTGATTACAGGCAAATA
129 CCAATACTATTCATTAAAAAGAAGGATAGGACTCTTT-GGTTA-TGTACTGATTACAAGCAAATA
23220424 AACAAGGTAACCATAAAGAAC
192 AACAAGGTAACCATAAAGAAC
23220445 AAGTATCTGT
Statistics
Matches: 178, Mismatches: 28, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
213 10 0.06
214 163 0.92
215 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (214 bp):
TAGGAACTACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCTGTAGAGTTGAAGGAGTTAAAA
ACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAAATAAACA
AGGTAACCATAAAGAACGC
Found at i:23228154 original size:14 final size:14
Alignment explanation
Indices: 23228135--23228166 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23228125 TATACGTGCA
*
23228135 TGTGGCCTAGTAAT
1 TGTGGCCAAGTAAT
23228149 TGTGGCCAAGTAAT
1 TGTGGCCAAGTAAT
23228163 TGTG
1 TGTG
23228167 ACCCTTCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (14 bp):
TGTGGCCAAGTAAT
Found at i:23232062 original size:83 final size:84
Alignment explanation
Indices: 23231955--23232121 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 84
23231945 ATTAAGTCAA
23231955 ATTTTTATCATTTTCAGGGGCAAATGTAATTTCACATTTACTAATTTAAAATTTTAAAAAAATTA
1 ATTTTTATCATTTTCAGGGGCAAATGTAATTTCACATTTACTAATTTAAAATTTTAAAAAAATTA
23232020 AAAGACCTAAATGAATTTT
66 AAAGACCTAAATGAATTTT
23232039 ATTTTTATCA-TTTCAGGGGCAAATGTAATTTCACATTTACTAATTTAAAATTTTAAAAAAATTA
1 ATTTTTATCATTTTCAGGGGCAAATGTAATTTCACATTTACTAATTTAAAATTTTAAAAAAATTA
23232103 AAAGACCTAAATGAATTTT
66 AAAGACCTAAATGAATTTT
23232122 TTTCCATTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 73 0.88
84 10 0.12
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (84 bp):
ATTTTTATCATTTTCAGGGGCAAATGTAATTTCACATTTACTAATTTAAAATTTTAAAAAAATTA
AAAGACCTAAATGAATTTT
Found at i:23245755 original size:4 final size:4
Alignment explanation
Indices: 23245746--23245771 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23245736 AAAGAAGAAG
23245746 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
23245772 TGTTATGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:23247840 original size:20 final size:20
Alignment explanation
Indices: 23247815--23247854 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23247805 TTAATATGAA
* *
23247815 ATTCTTTTATTTAGTATTTT
1 ATTCTTCTATTTAATATTTT
23247835 ATTCTTCTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
23247855 TTTTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:23248359 original size:35 final size:36
Alignment explanation
Indices: 23248305--23248373 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 36
23248295 CCATGTATAC
*
23248305 TTCATGTTATTTTTCTTTTGAA-ATTTTATAATTTT
1 TTCAAGTTATTTTTCTTTTGAATATTTTATAATTTT
23248340 TTCAAGTTATTTTAT-TTTTGAATATTTTATAATT
1 TTCAAGTTATTTT-TCTTTTGAATATTTTATAATT
23248374 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (36 bp):
TTCAAGTTATTTTTCTTTTGAATATTTTATAATTTT
Found at i:23253825 original size:5 final size:5
Alignment explanation
Indices: 23253815--23253839 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23253805 GCATTGAAAC
23253815 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
23253840 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:23258827 original size:519 final size:519
Alignment explanation
Indices: 23257848--23258888 Score: 2082
Period size: 519 Copynumber: 2.0 Consensus size: 519
23257838 GTATCATCAA
23257848 AAGAAAAAGTTTCTTCACGATTTGAAGTACTATTTCTGGGAAAAGCCATACTTGTTTAAAAAGTG
1 AAGAAAAAGTTTCTTCACGATTTGAAGTACTATTTCTGGGAAAAGCCATACTTGTTTAAAAAGTG
23257913 TGCAGATCAAATGATCAGGAGATGCATGGTAGAAGATGAAGTATATAAGATTCTATATCATTGCC
66 TGCAGATCAAATGATCAGGAGATGCATGGTAGAAGATGAAGTATATAAGATTCTATATCATTGCC
23257978 ACTCAGCTCTGAGTGGGGGAAACTTTGAAGGTGCACGTACTGCGGCCAAAGTATTGTAAGCCGGA
131 ACTCAGCTCTGAGTGGGGGAAACTTTGAAGGTGCACGTACTGCGGCCAAAGTATTGTAAGCCGGA
23258043 TTCTTTTGGTCAACACTATTAAAGATGCATATGCTTACGTAAGGAGCTGTGATCGATGTCAAAGG
196 TTCTTTTGGTCAACACTATTAAAGATGCATATGCTTACGTAAGGAGCTGTGATCGATGTCAAAGG
23258108 GTTGGAAACGTCACCAACAGAAATGAGATACCTCGAACAAACATCATTAAGGTGGAATTATTTGA
261 GTTGGAAACGTCACCAACAGAAATGAGATACCTCGAACAAACATCATTAAGGTGGAATTATTTGA
23258173 TGTTTAGAGTATTGACTTTCTCGGTCCTTTCCCTCTGTCTTTTGGTCACAAGTACATATTGGTAG
326 TGTTTAGAGTATTGACTTTCTCGGTCCTTTCCCTCTGTCTTTTGGTCACAAGTACATATTGGTAG
23258238 CAGTAGACTATGTGTCTAAGTGGGTTGAGACTGAGGCATATCCGACGAATGATGCTAAGGTTGTG
391 CAGTAGACTATGTGTCTAAGTGGGTTGAGACTGAGGCATATCCGACGAATGATGCTAAGGTTGTG
23258303 ATGAAGTTTTTGCAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGATCCATCATTAGTGATG
456 ATGAAGTTTTTGCAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGATCCATCATTAGTGATG
23258367 AAGAAAAAGTTTCTTCACGATTTGAAGTACTATTTCTGGGAAAAGCCATACTTGTTTAAAAAGTG
1 AAGAAAAAGTTTCTTCACGATTTGAAGTACTATTTCTGGGAAAAGCCATACTTGTTTAAAAAGTG
23258432 TGCAGATCAAATGATCAGGAGATGCATGGTAGAAGATGAAGTATATAAGATTCTATATCATTGCC
66 TGCAGATCAAATGATCAGGAGATGCATGGTAGAAGATGAAGTATATAAGATTCTATATCATTGCC
23258497 ACTCAGCTCTGAGTGGGGGAAACTTTGAAGGTGCACGTACTGCGGCCAAAGTATTGTAAGCCGGA
131 ACTCAGCTCTGAGTGGGGGAAACTTTGAAGGTGCACGTACTGCGGCCAAAGTATTGTAAGCCGGA
23258562 TTCTTTTGGTCAACACTATTAAAGATGCATATGCTTACGTAAGGAGCTGTGATCGATGTCAAAGG
196 TTCTTTTGGTCAACACTATTAAAGATGCATATGCTTACGTAAGGAGCTGTGATCGATGTCAAAGG
23258627 GTTGGAAACGTCACCAACAGAAATGAGATACCTCGAACAAACATCATTAAGGTGGAATTATTTGA
261 GTTGGAAACGTCACCAACAGAAATGAGATACCTCGAACAAACATCATTAAGGTGGAATTATTTGA
23258692 TGTTTAGAGTATTGACTTTCTCGGTCCTTTCCCTCTGTCTTTTGGTCACAAGTACATATTGGTAG
326 TGTTTAGAGTATTGACTTTCTCGGTCCTTTCCCTCTGTCTTTTGGTCACAAGTACATATTGGTAG
23258757 CAGTAGACTATGTGTCTAAGTGGGTTGAGACTGAGGCATATCCGACGAATGATGCTAAGGTTGTG
391 CAGTAGACTATGTGTCTAAGTGGGTTGAGACTGAGGCATATCCGACGAATGATGCTAAGGTTGTG
23258822 ATGAAGTTTTTGCAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGATCCATCATTAGTGATG
456 ATGAAGTTTTTGCAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGATCCATCATTAGTGATG
23258886 AAG
1 AAG
23258889 GGTCCCATTT
Statistics
Matches: 522, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
519 522 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (519 bp):
AAGAAAAAGTTTCTTCACGATTTGAAGTACTATTTCTGGGAAAAGCCATACTTGTTTAAAAAGTG
TGCAGATCAAATGATCAGGAGATGCATGGTAGAAGATGAAGTATATAAGATTCTATATCATTGCC
ACTCAGCTCTGAGTGGGGGAAACTTTGAAGGTGCACGTACTGCGGCCAAAGTATTGTAAGCCGGA
TTCTTTTGGTCAACACTATTAAAGATGCATATGCTTACGTAAGGAGCTGTGATCGATGTCAAAGG
GTTGGAAACGTCACCAACAGAAATGAGATACCTCGAACAAACATCATTAAGGTGGAATTATTTGA
TGTTTAGAGTATTGACTTTCTCGGTCCTTTCCCTCTGTCTTTTGGTCACAAGTACATATTGGTAG
CAGTAGACTATGTGTCTAAGTGGGTTGAGACTGAGGCATATCCGACGAATGATGCTAAGGTTGTG
ATGAAGTTTTTGCAGAAGCATGTGTTCACAAGGTTTGGAACCCCAAGATCCATCATTAGTGATG
Found at i:23260501 original size:25 final size:24
Alignment explanation
Indices: 23260472--23260527 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
23260462 TTTCTCCTAA
*
23260472 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTGAATTA-TTAAT
23260498 -TTTTCAATTTATTGAATTATTAAT
1 ATTTT-AATTTATTGAATTATTAAT
23260522 ATTTTA
1 ATTTTA
23260528 TACTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTGAATTATTAAT
Found at i:23286048 original size:5 final size:5
Alignment explanation
Indices: 23286040--23286100 Score: 122
Period size: 5 Copynumber: 12.2 Consensus size: 5
23286030 GGGTTTAGTT
23286040 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
23286090 TTCTC TTCTC T
1 TTCTC TTCTC T
23286101 ATAGATTAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCTC
Found at i:23295633 original size:13 final size:13
Alignment explanation
Indices: 23295615--23295639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23295605 AGAAAGGTGA
23295615 TTAGGTTTCAATC
1 TTAGGTTTCAATC
23295628 TTAGGTTTCAAT
1 TTAGGTTTCAAT
23295640 TTAAAAATTT
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:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTAGGTTTCAATC
Found at i:23297003 original size:23 final size:23
Alignment explanation
Indices: 23296977--23297092 Score: 151
Period size: 23 Copynumber: 5.0 Consensus size: 23
23296967 ATTCTCTGTC
23296977 AAGCCTATGTGGCGTATTTTGTA
1 AAGCCTATGTGGCGTATTTTGTA
23297000 AAGCCTATGTGGCGTATTTTGTA
1 AAGCCTATGTGGCGTATTTTGTA
** * **
23297023 AAGCCTATGTGGCACATTCTGCC
1 AAGCCTATGTGGCGTATTTTGTA
* * *
23297046 AAGCCTGTGTGGCGTATTCTATA
1 AAGCCTATGTGGCGTATTTTGTA
*
23297069 AAGCCTATGTGGCGTATTTCGTA
1 AAGCCTATGTGGCGTATTTTGTA
23297092 A
1 A
23297093 GGTTGTACGT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
AAGCCTATGTGGCGTATTTTGTA
Found at i:23300789 original size:27 final size:27
Alignment explanation
Indices: 23300733--23300794 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
23300723 CTCCAAAATA
* *
23300733 GGTAAAATGATCGAAATAACCCTATAG
1 GGTAAAATGATCAAAATAACCCGATAG
* *
23300760 GGTAGAATGATCAAAATACACTCGAT-G
1 GGTAAAATGATCAAAATA-ACCCGATAG
23300787 GGTAAAAT
1 GGTAAAAT
23300795 TACTGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (27 bp):
GGTAAAATGATCAAAATAACCCGATAG
Found at i:23300803 original size:27 final size:27
Alignment explanation
Indices: 23300773--23300968 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
23300763 AGAATGATCA
* *
23300773 AAATACACTCGATGGGTAAAATTACTG
1 AAATACCCTCAATGGGTAAAATTACTG
* * *
23300800 AAATACCCCCAATAGGTAAAATTACCG
1 AAATACCCTCAATGGGTAAAATTACTG
*
23300827 AAATACCCCCAATGGGTAAAATTA-TCG
1 AAATACCCTCAATGGGTAAAATTACT-G
* *
23300854 AAATACCCTCAATGGATAAAATTACTA
1 AAATACCCTCAATGGGTAAAATTACTG
**
23300881 AAATACCCTTGATGGGTAAAATTA-TCG
1 AAATACCCTCAATGGGTAAAATTACT-G
* * **
23300908 AAATACCC-CTAAAGGGTAAAATAACCA
1 AAATACCCTC-AATGGGTAAAATTACTG
* * *
23300935 AAATACCCTTAATAGGT-AAATTACCG
1 AAATACCCTCAATGGGTAAAATTACTG
23300961 AAATACCC
1 AAATACCC
23300969 CTATAAGGCA
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
26 16 0.12
27 121 0.88
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (27 bp):
AAATACCCTCAATGGGTAAAATTACTG
Found at i:23300831 original size:54 final size:54
Alignment explanation
Indices: 23300733--23300969 Score: 232
Period size: 54 Copynumber: 4.4 Consensus size: 54
23300723 CTCCAAAATA
* * * * * * * *
23300733 GGTAAAATGATCGAAATA-ACCCTATAGGGTAGAATGATCAAAATACACTCGATG
1 GGTAAAATTATCGAAATACCCCCAATA-GGTAAAATTACCAAAATACCCTCAATG
* *
23300787 GGTAAAATTA-CTGAAATACCCCCAATAGGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATC-GAAATACCCCCAATAGGTAAAATTACCAAAATACCCTCAATG
* * **
23300841 GGTAAAATTATCGAAATACCCTCAAT-GGATAAAATTACTAAAATACCCTTGATG
1 GGTAAAATTATCGAAATACCCCCAATAGG-TAAAATTACCAAAATACCCTCAATG
* * * *
23300895 GGTAAAATTATCGAAATACCCCTAA-AGGGTAAAATAACCAAAATACCCTTAATA
1 GGTAAAATTATCGAAATACCCCCAATA-GGTAAAATTACCAAAATACCCTCAATG
*
23300949 GGT-AAATTACCGAAATACCCC
1 GGTAAAATTATCGAAATACCCC
23300970 TATAAGGCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
53 20 0.13
54 125 0.81
55 9 0.06
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.23
Consensus pattern (54 bp):
GGTAAAATTATCGAAATACCCCCAATAGGTAAAATTACCAAAATACCCTCAATG
Found at i:23300874 original size:81 final size:80
Alignment explanation
Indices: 23300729--23300969 Score: 252
Period size: 81 Copynumber: 3.0 Consensus size: 80
23300719 GAGACTCCAA
* * * * * * *
23300729 AATAGGTAAAATGATCGAAATA-ACCCTATAGGGTAGAATGATCAAAATACACTCGATGGGTAAA
1 AATAGGTAAAATTATCGAAATACCCCCAAT-GGGTAAAATAATCAAAATACCCTCAAT-GGTAAA
23300793 ATTACTGAAATACCCCC
64 ATTACTGAAATACCCCC
* * *
23300810 AATAGGTAAAATTACCGAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATGGATAAAA
1 AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAATGG-TAAAA
* **
23300875 TTACTAAAATACCCTT
65 TTACTGAAATACCCCC
* * * * * *
23300891 GATGGGTAAAATTATCGAAATACCCCTAAAGGGTAAAATAACCAAAATACCCTTAATAGGT-AAA
1 AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAAT-GGTAAAA
*
23300955 TTACCGAAATACCCC
65 TTACTGAAATACCCC
23300970 TATAAGGCAA
Statistics
Matches: 133, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
80 17 0.13
81 109 0.82
82 7 0.05
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (80 bp):
AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAATGGTAAAAT
TACTGAAATACCCCC
Found at i:23302083 original size:9 final size:9
Alignment explanation
Indices: 23302069--23302105 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23302059 TATAGTTTGA
23302069 TATTCGAAT
1 TATTCGAAT
23302078 TATTCGAAT
1 TATTCGAAT
*
23302087 TATTCGAGT
1 TATTCGAAT
23302096 TATTCGAAT
1 TATTCGAAT
23302105 T
1 T
23302106 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23302784 original size:50 final size:50
Alignment explanation
Indices: 23302724--23302827 Score: 190
Period size: 50 Copynumber: 2.1 Consensus size: 50
23302714 TAATTAAAAA
*
23302724 TAAAAAAATATTTTTTAAAATATTAATTACAAAAATTTAATGGTTATATT
1 TAAAAAAATATTTTTTAAAATACTAATTACAAAAATTTAATGGTTATATT
*
23302774 TAAAAAAATATTTTTTAAAATACTAATTACAAATATTTAATGGTTATATT
1 TAAAAAAATATTTTTTAAAATACTAATTACAAAAATTTAATGGTTATATT
23302824 TAAA
1 TAAA
23302828 TATTTAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (50 bp):
TAAAAAAATATTTTTTAAAATACTAATTACAAAAATTTAATGGTTATATT
Found at i:23303117 original size:13 final size:13
Alignment explanation
Indices: 23303101--23303153 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
23303091 TTTAAACCAA
23303101 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
23303114 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
23303127 GCTTTTCCACAGC
1 ACTTTTCAAAAGC
23303140 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
23303153 A
1 A
23303154 ATGACGAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:23305394 original size:18 final size:18
Alignment explanation
Indices: 23305373--23305408 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23305363 TATAATTTTA
23305373 ATGAAATCAAAACAAAAT
1 ATGAAATCAAAACAAAAT
23305391 ATGAAATCAAAACAAAAT
1 ATGAAATCAAAACAAAAT
23305409 TAAGTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (18 bp):
ATGAAATCAAAACAAAAT
Found at i:23316838 original size:15 final size:15
Alignment explanation
Indices: 23316800--23316839 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
23316790 AGAAGAAAAT
*
23316800 GAAAGAAAACAGAGA
1 GAAAGAAAGCAGAGA
*
23316815 CAAAGGAAAGCAGAGA
1 GAAA-GAAAGCAGAGA
23316831 GAAAGAAAG
1 GAAAGAAAG
23316840 TGGAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGCAGAGA
Found at i:23317798 original size:14 final size:14
Alignment explanation
Indices: 23317779--23317811 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
23317769 CAATCGAAAG
23317779 CTCTTATTCTCATT
1 CTCTTATTCTCATT
23317793 CTCTTATTCTCATT
1 CTCTTATTCTCATT
23317807 CTCTT
1 CTCTT
23317812 CTACAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (14 bp):
CTCTTATTCTCATT
Found at i:23325266 original size:16 final size:16
Alignment explanation
Indices: 23325245--23325275 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23325235 GCTCGTGTGA
23325245 GCAGCATTGTGTATCT
1 GCAGCATTGTGTATCT
23325261 GCAGCATTGTGTATC
1 GCAGCATTGTGTATC
23325276 CTAACATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (16 bp):
GCAGCATTGTGTATCT
Found at i:23325409 original size:13 final size:13
Alignment explanation
Indices: 23325391--23325421 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23325381 TGTGTAAATG
23325391 GAAATGGATATAT
1 GAAATGGATATAT
*
23325404 GAAATGGCTATAT
1 GAAATGGATATAT
23325417 GAAAT
1 GAAAT
23325422 TAGTCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:23331412 original size:27 final size:27
Alignment explanation
Indices: 23331382--23331458 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
23331372 ACAACTCCCG
*
23331382 TGTTTATTGTCTCGAT-GAACTATCTCA
1 TGTTTAATGTCTCG-TCGAACTATCTCA
* * *
23331409 TGTTTAATGTCCCGTCAAACTATCTCG
1 TGTTTAATGTCTCGTCGAACTATCTCA
23331436 TGTTTAATGTCTCGTCGAACTAT
1 TGTTTAATGTCTCGTCGAACTAT
23331459 GAAAGGATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (27 bp):
TGTTTAATGTCTCGTCGAACTATCTCA
Found at i:23331557 original size:45 final size:45
Alignment explanation
Indices: 23331508--23331633 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 45
23331498 TCTTGTTTAC
*
23331508 CATGATGCCATAGCATCCTTCAG-TCATGGTCTTACTAAT-TTATAT
1 CATGATGCCATAGCATCCTTCAGCT-ATGGTCTTACTAATCCT-TAT
* * *
23331553 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTTATCCTTAT
1 CATGATGCCATAGCATCCTTCAGCTATGGTCTTACTAATCCTTAT
* * ** *
23331598 CATGATGCCATAACGTTTTTCAGCTATGATCTTACT
1 CATGATGCCATAGCATCCTTCAGCTATGGTCTTACT
23331634 CATTTTTAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 68 0.97
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAGCATCCTTCAGCTATGGTCTTACTAATCCTTAT
Found at i:23333111 original size:30 final size:30
Alignment explanation
Indices: 23333077--23333134 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
23333067 TTTTGAGATG
*
23333077 TAGTTTCTCTACCT-TTTAATTTTAAAAATT
1 TAGTTTCTCAACCTATTTAA-TTTAAAAATT
* *
23333107 TAGTTTTTCAACTTATTTAATTTAAAAA
1 TAGTTTCTCAACCTATTTAATTTAAAAA
23333135 CTAAAATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (30 bp):
TAGTTTCTCAACCTATTTAATTTAAAAATT
Found at i:23333446 original size:21 final size:20
Alignment explanation
Indices: 23333413--23333451 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23333403 GCCAGGTCGC
* *
23333413 ATAATTATTATCTTTAATCT
1 ATAATTATAATCTATAATCT
23333433 ATAATTTATAATCTATAAT
1 ATAA-TTATAATCTATAAT
23333452 ATAATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTATAATCTATAATCT
Found at i:23334582 original size:12 final size:12
Alignment explanation
Indices: 23334565--23334589 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23334555 CTATATTAAA
23334565 TTTTTATATTAT
1 TTTTTATATTAT
23334577 TTTTTATATTAT
1 TTTTTATATTAT
23334589 T
1 T
23334590 AAAAAAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:23334836 original size:22 final size:22
Alignment explanation
Indices: 23334811--23334857 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
23334801 AAATGGTAGC
* *
23334811 AAAATAGTGAAAAAA-TAACAAG
1 AAAATAAT-AAAAAAGTAAAAAG
23334833 AAAATAATAAAAAAGTAAAAAG
1 AAAATAATAAAAAAGTAAAAAG
23334855 AAA
1 AAA
23334858 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAATAATAAAAAAGTAAAAAG
Found at i:23336246 original size:5 final size:5
Alignment explanation
Indices: 23336236--23336312 Score: 100
Period size: 5 Copynumber: 15.4 Consensus size: 5
23336226 ACACATATAC
* * * * *
23336236 CATAT CATAT CATAT CATAT CATAG CATAG CATAG CATAG CATAT CATGT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
23336286 CATAT CATAT CATAT CTTAT CATAT CA
1 CATAT CATAT CATAT CATAT CATAT CA
23336313 AAAATTTTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 66 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:23341994 original size:24 final size:23
Alignment explanation
Indices: 23341950--23342002 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
23341940 ATTTAAATGT
*
23341950 TAAAT-TT-TTTTAATATTTTAA
1 TAAATATTGTTTTAATATCTTAA
23341971 -AGAATATTGTTTTAATATACTTAA
1 TA-AATATTGTTTTAATAT-CTTAA
23341995 TAAATATT
1 TAAATATT
23342003 TTAAGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 2 0.08
23 9 0.35
24 10 0.38
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
TAAATATTGTTTTAATATCTTAA
Found at i:23351795 original size:1 final size:1
Alignment explanation
Indices: 23351789--23351818 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
23351779 TCTGTGTTTG
23351789 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23351819 CATTAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23355573 original size:23 final size:25
Alignment explanation
Indices: 23355530--23355575 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
23355520 AACACAAATT
*
23355530 TTAATTTGTTTATTTTTAAATAATA
1 TTAATTTGTTTATGTTTAAATAATA
23355555 TTAATTT-TTTA-GTTTAAATAA
1 TTAATTTGTTTATGTTTAAATAA
23355576 AAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAATTTGTTTATGTTTAAATAATA
Found at i:23356543 original size:35 final size:35
Alignment explanation
Indices: 23356493--23356582 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
23356483 AATCGACTCA
* * *
23356493 AAAAAGGTTGAGATAGGCCAT-TTTATGCCAACCTT
1 AAAAAGGTTGGGATAGACC-TGTTTAAGCCAACCTT
* *
23356528 AAAAATGTTGGGATAGACCTGTTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
*
23356563 AAAAAGGTTGGGATAAACCT
1 AAAAAGGTTGGGATAGACCT
23356583 TGTCTGAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
Found at i:23364321 original size:19 final size:19
Alignment explanation
Indices: 23364297--23364339 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
23364287 TTTTTTAAAC
23364297 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
23364316 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
23364335 ATTTT
1 ATTTT
23364340 TAAACAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTATTACATAAAATAA
Found at i:23365915 original size:98 final size:98
Alignment explanation
Indices: 23365741--23365937 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
23365731 ATGTAAGGCA
*
23365741 AATGGCCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
*
23365806 TACATGACAAGAAAAAGAATTCACACATTCCAC
66 TACATGACAAGAAAAAGAATGCACACATTCCAC
23365839 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
*
23365904 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACACATTCCAC
23365937 A
1 A
23365938 TTTGACGAGT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (98 bp):
AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
TACATGACAAGAAAAAGAATGCACACATTCCAC
Found at i:23367760 original size:20 final size:19
Alignment explanation
Indices: 23367714--23367763 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
23367704 TAATAAAATT
* *
23367714 TTTTTTTATATATTTTTTA
1 TTTTTTTAAAAATTTTTTA
*
23367733 -TATTTTAAAAATATTTTTA
1 TTTTTTTAAAAAT-TTTTTA
23367752 TTTTTTTAAAAA
1 TTTTTTTAAAAA
23367764 AAATTGGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 9 0.36
19 6 0.24
20 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTTAAAAATTTTTTA
Found at i:23367784 original size:21 final size:21
Alignment explanation
Indices: 23367733--23367786 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
23367723 ATATTTTTTA
* **
23367733 TATTTTAAAAATATTTTTATT
1 TATTTTAAAAAAATTGGTATT
*
23367754 T-TTTTAAAAAAAATTGGTGTT
1 TATTTT-AAAAAAATTGGTATT
23367775 TATTTTAAAAAA
1 TATTTTAAAAAA
23367787 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TATTTTAAAAAAATTGGTATT
Found at i:23372413 original size:16 final size:17
Alignment explanation
Indices: 23372384--23372416 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23372374 ATTTAATGAT
*
23372384 AAAATTGAGATTTTAAA
1 AAAATTAAGATTTTAAA
23372401 AAAATTAAG-TTTTAAA
1 AAAATTAAGATTTTAAA
23372417 TGAGTCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAATTAAGATTTTAAA
Found at i:23376176 original size:22 final size:22
Alignment explanation
Indices: 23376120--23376177 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
23376110 ATTCGGTTAA
*
23376120 TCAGTCGGTGG-CTGAATTTAGT
1 TCAGTCGGAGGTC-GAATTTAGT
* * *
23376142 TTAGTTGGTGGTCGAATTTAGT
1 TCAGTCGGAGGTCGAATTTAGT
*
23376164 TCGGTCGGAGGTCG
1 TCAGTCGGAGGTCG
23376178 GTTAATGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (22 bp):
TCAGTCGGAGGTCGAATTTAGT
Found at i:23384280 original size:15 final size:15
Alignment explanation
Indices: 23384238--23384270 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23384228 CATAAATTAT
23384238 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
23384253 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
23384268 ATT
1 ATT
23384271 TTTATTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTATTTTCATGTTA
Found at i:23394359 original size:3 final size:3
Alignment explanation
Indices: 23394306--23394343 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
23394296 TTTATAATAC
* *
23394306 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23394344 ATATAGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:23394421 original size:20 final size:20
Alignment explanation
Indices: 23394398--23394468 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 20
23394388 TTTATTTTAC
23394398 ATTATTTTATTTTATTATGT
1 ATTATTTTATTTTATTATGT
*
23394418 ATTATTTTGTAATGCTTTTATCATGT
1 ATTA-TTT-T-A---TTTTATTATGT
*
23394444 ATTATTTTATTTTATTATGC
1 ATTATTTTATTTTATTATGT
23394464 ATTAT
1 ATTAT
23394469 CTTAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 18 0.43
21 3 0.07
22 1 0.02
23 2 0.05
24 1 0.02
25 3 0.07
26 14 0.33
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTATTTTATTTTATTATGT
Found at i:23398804 original size:40 final size:39
Alignment explanation
Indices: 23398760--23399053 Score: 210
Period size: 40 Copynumber: 7.7 Consensus size: 39
23398750 TTTGGTGGCC
* *
23398760 TTAGCGACGCTTTAATAAAAACGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTT-TTAAAAACGCCGCTATAGATCAAGCA
23398800 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTTTT-AAAAACGCCGCTATAGATCAAGCA
23398840 TTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGA-CAGAGCA
1 TTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGATCA-AGCA
* * *
23398880 TTAGCGGCGGTTTTTCAAAAAACGCCGCGA-A-A--AA-AA
1 TTAGCGGCGCTTTTT--AAAAACGCCGCTATAGATCAAGCA
** ** * * * *
23398916 TTTAGCACAACGC-CATT------G-AGCT-TTGGT--GGCA
1 -TTAG--CGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
* *
23398947 TTAGCGGCGCTTTTGAAAATCGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
23398986 TTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGA-CAGAGCA
1 TTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGATCA-AGCA
23399026 TTAGCGGCGCTTTTTTAAAAAACGCCGC
1 TTAGCGGCGC-TTTTT-AAAAACGCCGC
23399054 AAAAATTATT
Statistics
Matches: 200, Mismatches: 27, Indels: 53
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.02
29 3 0.01
30 5 0.03
31 1 0.00
35 1 0.00
36 4 0.02
37 8 0.04
38 3 0.01
39 35 0.17
40 108 0.54
41 18 0.09
42 10 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
Found at i:23399127 original size:23 final size:21
Alignment explanation
Indices: 23399091--23399134 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
23399081 GCGGTTTTAT
23399091 CCCCTATCTTTCCCCCCTAAAA
1 CCCCTATCTTT-CCCCCTAAAA
*
23399113 CCCCTAATTTTTCCCCCTAAAA
1 CCCCT-ATCTTTCCCCCTAAAA
23399135 TCGGGATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (21 bp):
CCCCTATCTTTCCCCCTAAAA
Found at i:23403023 original size:37 final size:37
Alignment explanation
Indices: 23402980--23403059 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
23402970 ATCTAAATCC
*
23402980 AAATTCTCAAATTCATATTTCCAAACATAGCATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
*
23403017 AAATTCTCAAATTTATATTTCCAAACATAACATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
23403054 AAATTC
1 AAATTC
23403060 ATATTTCTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.34
Consensus pattern (37 bp):
AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
Found at i:23403593 original size:18 final size:18
Alignment explanation
Indices: 23403570--23403629 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
23403560 TATGTATTCT
23403570 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
23403588 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
23403605 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
23403623 AATGTAA
1 AATGTAA
23403630 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:23404002 original size:177 final size:178
Alignment explanation
Indices: 23403689--23404015 Score: 629
Period size: 177 Copynumber: 1.8 Consensus size: 178
23403679 TAGAAATTTT
23403689 AATTTAATATTTTTTATCCTTAAAGTTTAAAGTTTAAATTTTAAAAATAAAACATAATATAATAA
1 AATTTAATATTTTTTATCCTTAAAGTTTAAAGTTTAAATTTTAAAAATAAAACATAATATAATAA
* *
23403754 TTTATGATAGAAATAAATATTATTTAATTAAAATATTTTTTAAGTCATGTTTTTAGTGGCGTTTG
66 TTTATGATAGAAATAAATATTATTTAATTAAAATATTTTTTAAGTCATGTTTTTAGTGGCATTTA
23403819 TGGGAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGTCGTTTTTTGGA
131 TGGGAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGTCGTTTTTTGGA
23403867 AATTTAATATTTTTTATCCTTAAAGTTTAAAGTTTAAATTTTAAAAATAAAACATAATATAAT-A
1 AATTTAATATTTTTTATCCTTAAAGTTTAAAGTTTAAATTTTAAAAATAAAACATAATATAATAA
23403931 TTTATGATAGAAATAAATATTATTTAATTAAAATATTTTTTAAGTCATGTTTTTAGTGGCATTTA
66 TTTATGATAGAAATAAATATTATTTAATTAAAATATTTTTTAAGTCATGTTTTTAGTGGCATTTA
23403996 TGGGAAAAGCGCCGCTAAAG
131 TGGGAAAAGCGCCGCTAAAG
23404016 ATTTGGTCTT
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
177 84 0.57
178 63 0.43
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.42
Consensus pattern (178 bp):
AATTTAATATTTTTTATCCTTAAAGTTTAAAGTTTAAATTTTAAAAATAAAACATAATATAATAA
TTTATGATAGAAATAAATATTATTTAATTAAAATATTTTTTAAGTCATGTTTTTAGTGGCATTTA
TGGGAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGTCGTTTTTTGGA
Found at i:23404083 original size:43 final size:43
Alignment explanation
Indices: 23403982--23404229 Score: 365
Period size: 43 Copynumber: 5.8 Consensus size: 43
23403972 AAGTCATGTT
* * * *
23403982 TTTAGTGGCATTTATGGGAAAAGCGCCGCTAAAGAT-TTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
23404024 TTTAGCGGCGTCTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
23404067 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
23404110 TTTAGCGGCGATTGCGGGAAAAGCACCGCTAAAGGT-TGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
* * *
23404153 TTTAGTGGCGTTTGCGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
23404196 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
23404230 TTAGCGACGC
Statistics
Matches: 185, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 31 0.17
43 153 0.83
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:23406153 original size:9 final size:9
Alignment explanation
Indices: 23406142--23406199 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
23406132 TTTGGTTAAA
*
23406142 AATTAACCA
1 AATTAACCG
*
23406151 AATTAACCT
1 AATTAACCG
*
23406160 AATTACCCG
1 AATTAACCG
*
23406169 AATTAACTG
1 AATTAACCG
*
23406178 AATTACCCG
1 AATTAACCG
23406187 AATTAACCG
1 AATTAACCG
23406196 AATT
1 AATT
23406200 GAATCACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:23406464 original size:18 final size:18
Alignment explanation
Indices: 23406441--23406494 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
23406431 AATTTTTATT
23406441 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
23406459 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
23406477 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
23406495 TTAGGTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.11, C:0.02, G:0.46, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:23413877 original size:24 final size:24
Alignment explanation
Indices: 23413829--23413882 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
23413819 TGTATAACAA
*
23413829 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCAATAATCGG
*
23413853 GAAGCTCATACGAGTCAATAA-CGG
1 GAAGCTCATAAGAG-CAATAATCGG
*
23413877 GTAGCT
1 GAAGCT
23413883 TCGAAGAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
GAAGCTCATAAGAGCAATAATCGG
Found at i:23417254 original size:23 final size:23
Alignment explanation
Indices: 23417207--23417256 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23417197 CCAATGTCAT
*
23417207 TTTTATTTTTATTTTGTTATATA
1 TTTTATTTTTATTTTATTATATA
23417230 TTTTATTTTTACTTTCTATT-T-TA
1 TTTTATTTTTA-TTT-TATTATATA
23417253 TTTT
1 TTTT
23417257 CTTACATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 17 0.71
24 4 0.17
25 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTATTTTATTATATA
Found at i:23419619 original size:18 final size:19
Alignment explanation
Indices: 23419596--23419633 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23419586 TTGAAAACTA
*
23419596 CTTTTCTCAACT-CTATTT
1 CTTTTCACAACTGCTATTT
*
23419614 CTTTTCACAATTGCTATTT
1 CTTTTCACAACTGCTATTT
23419633 C
1 C
23419634 AATTTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (19 bp):
CTTTTCACAACTGCTATTT
Found at i:23423664 original size:87 final size:87
Alignment explanation
Indices: 23423567--23423800 Score: 405
Period size: 87 Copynumber: 2.7 Consensus size: 87
23423557 GGTTGAGTTC
* * * * *
23423567 TTACTATTAATGAATTCATAGCCAAGAGTTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
23423632 CCGACTTGAGAGGTTGATTTTA
66 CCGACTTGAGAGGTTGATTTTA
23423654 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
23423719 CCGACTTGAGAGGTTGATTTTA
66 CCGACTTGAGAGGTTGATTTTA
* *
23423741 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAAGCTTGATGA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGA
23423801 ATCACTGAAT
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 140 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (87 bp):
TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
CCGACTTGAGAGGTTGATTTTA
Found at i:23426572 original size:28 final size:28
Alignment explanation
Indices: 23426540--23426595 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23426530 AAAATGTTCG
23426540 GACTTGTAGATCGGTAACCATGGTTTCT
1 GACTTGTAGATCGGTAACCATGGTTTCT
23426568 GACTTGTAGATCGGTAACCATGGTTTCT
1 GACTTGTAGATCGGTAACCATGGTTTCT
23426596 CCCTACCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
GACTTGTAGATCGGTAACCATGGTTTCT
Found at i:23429660 original size:22 final size:22
Alignment explanation
Indices: 23429625--23429677 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
23429615 CAGGGGCTAC
* * *
23429625 ATGTCTTGAGACAAAATCCTAT
1 ATGTCTCGAAACAAAAGCCTAT
*
23429647 TTGTCTCGAAACAAAAGCCTAT
1 ATGTCTCGAAACAAAAGCCTAT
*
23429669 ATGCCTCGA
1 ATGTCTCGA
23429678 GACATGGCCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (22 bp):
ATGTCTCGAAACAAAAGCCTAT
Found at i:23432247 original size:18 final size:16
Alignment explanation
Indices: 23432224--23432259 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
23432214 ATAGGGTTTT
23432224 TAAAAGTATATTACAAAA
1 TAAAAGT-TATTA-AAAA
23432242 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
23432258 TA
1 TA
23432260 TATTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:23435377 original size:24 final size:24
Alignment explanation
Indices: 23435336--23435394 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
23435326 TTTTGCATGT
* * *
23435336 TATTGTCACATAGGGTTCGCATAC
1 TATTGACACATAAGGTTCACATAC
* *
23435360 TATTGACACATAATGTTCACATAG
1 TATTGACACATAAGGTTCACATAC
*
23435384 TATTAACACAT
1 TATTGACACAT
23435395 GGGTTTGCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (24 bp):
TATTGACACATAAGGTTCACATAC
Found at i:23435504 original size:34 final size:34
Alignment explanation
Indices: 23435443--23435575 Score: 149
Period size: 34 Copynumber: 3.9 Consensus size: 34
23435433 CTTGCATACT
* * * * * *
23435443 ACCTAGGATCCGCATGACATATTGGCTCGCATAA
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
* *
23435477 ACCTAGGGTTTGCATAATATGTAGGCTCGCATAG
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
* * *
23435511 ACTTAGGGTTCGCATAACATATAGGCTCACATAG
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
**
23435545 ACCTAGGGTTCGCATGGTATATAGGCTCGCA
1 ACCTAGGGTTCGCATAATATATAGGCTCGCA
23435576 CAGGTAGGGC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
Found at i:23435523 original size:17 final size:17
Alignment explanation
Indices: 23435503--23435559 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
23435493 ATATGTAGGC
23435503 TCGCATAGACTTAGGGT
1 TCGCATAGACTTAGGGT
*
23435520 TCGCATA-ACATATA-GGC
1 TCGCATAGAC-T-TAGGGT
* *
23435537 TCACATAGACCTAGGGT
1 TCGCATAGACTTAGGGT
23435554 TCGCAT
1 TCGCAT
23435560 GGTATATAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 4 0.13
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (17 bp):
TCGCATAGACTTAGGGT
Found at i:23435836 original size:14 final size:14
Alignment explanation
Indices: 23435745--23435839 Score: 91
Period size: 14 Copynumber: 6.8 Consensus size: 14
23435735 GTGATTTTTA
*
23435745 ACTCGCATGTATTG
1 ACTCGCATATATTG
* *
23435759 ATTCGCTTATATTG
1 ACTCGCATATATTG
*
23435773 ACTCACATATATTG
1 ACTCGCATATATTG
* ** *
23435787 ACTCGTAGGTGTTG
1 ACTCGCATATATTG
*
23435801 ACTCGGATATATTG
1 ACTCGCATATATTG
*
23435815 ATTCGCATATATTG
1 ACTCGCATATATTG
*
23435829 ACTTGCATATA
1 ACTCGCATATA
23435840 CAATAGTTTA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 62 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (14 bp):
ACTCGCATATATTG
Found at i:23437377 original size:18 final size:19
Alignment explanation
Indices: 23437354--23437430 Score: 75
Period size: 19 Copynumber: 4.0 Consensus size: 19
23437344 TCTATTCTAG
23437354 AATTATAAAAAT-ATAAAA
1 AATTATAAAAATAATAAAA
*
23437372 AATTATAAAAATAATTAAA
1 AATTATAAAAATAATAAAA
* * * *
23437391 CATTATAAAAATTATTAGA
1 AATTATAAAAATAATAAAA
*
23437410 AATTAATTAAAAACAATAAAA
1 AATT-A-TAAAAATAATAAAA
23437431 TATATTAATG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 12 0.26
19 24 0.51
20 1 0.02
21 10 0.21
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (19 bp):
AATTATAAAAATAATAAAA
Found at i:23437395 original size:19 final size:18
Alignment explanation
Indices: 23437354--23437414 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
23437344 TCTATTCTAG
*
23437354 AATTATAAAAATATAAAA
1 AATTATAAAAATATTAAA
23437372 AATTATAAAAATAATTAAA
1 AATTATAAAAAT-ATTAAA
* *
23437391 CATTATAAAAATTATTAGA
1 AATTATAAAAA-TATTAAA
23437410 AATTA
1 AATTA
23437415 ATTAAAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 12 0.32
19 24 0.65
20 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAAAAATATTAAA
Found at i:23437558 original size:16 final size:18
Alignment explanation
Indices: 23437525--23437565 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
23437515 TTCATTGTAT
23437525 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAAT-ATTTTA
23437544 ATTTTTTT-AAT-TTTTA
1 ATTTTTTTAAATATTTTA
23437560 ATTTTT
1 ATTTTT
23437566 GTTGATGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAAATATTTTA
Found at i:23439434 original size:10 final size:10
Alignment explanation
Indices: 23439419--23439443 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23439409 TGCAGGTTGA
23439419 TTTTTTTATT
1 TTTTTTTATT
23439429 TTTTTTTATT
1 TTTTTTTATT
23439439 TTTTT
1 TTTTT
23439444 GTAACAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:23444315 original size:16 final size:19
Alignment explanation
Indices: 23444295--23444337 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
23444285 ATTTAATATT
23444295 GAAAAAATG-AAAA-AGAA
1 GAAAAAATGTAAAAGAGAA
*
23444312 -AAAAAACGTAAAAGAGAA
1 GAAAAAATGTAAAAGAGAA
23444330 GAAAAAAT
1 GAAAAAAT
23444338 AAATAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.33
17 4 0.19
18 4 0.19
19 6 0.29
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (19 bp):
GAAAAAATGTAAAAGAGAA
Found at i:23444462 original size:18 final size:20
Alignment explanation
Indices: 23444439--23444484 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23444429 TATCTTAAAC
23444439 TATATTTATT-AAAA-AATA
1 TATATTTATTGAAAATAATA
* *
23444457 TATATTAATTGAAAATGATA
1 TATATTTATTGAAAATAATA
23444477 TATATTTA
1 TATATTTA
23444485 GCATAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATTTATTGAAAATAATA
Found at i:23445290 original size:25 final size:24
Alignment explanation
Indices: 23445243--23445290 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23445233 ACGTGTTTAT
*
23445243 TTTTAAAATTTATTAATTAATATC
1 TTTTAAAATTTATTAAATAATATC
23445267 TTTTATAAATTT-TTAAATATATAT
1 TTTTA-AAATTTATTAAATA-ATAT
23445291 ATTTGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAAAATTTATTAAATAATATC
Found at i:23447292 original size:988 final size:988
Alignment explanation
Indices: 23445376--23447351 Score: 3952
Period size: 988 Copynumber: 2.0 Consensus size: 988
23445366 ATAACATTTT
23445376 TTAAAAGTAATGAAAATAAAAGAGTAGGAAATAATTGATAGTAAAATATTAAGTAATTAGATAAA
1 TTAAAAGTAATGAAAATAAAAGAGTAGGAAATAATTGATAGTAAAATATTAAGTAATTAGATAAA
23445441 ATAACTTATAATTTGAATATAAATCAAAATTTCACCTATAAAGAACCAGTACTTTAATATTTCAT
66 ATAACTTATAATTTGAATATAAATCAAAATTTCACCTATAAAGAACCAGTACTTTAATATTTCAT
23445506 TTTTTTTTGACATAATATTTCATAACACAATAGTAAACAACATTCACAATTATGTAAATATTATT
131 TTTTTTTTGACATAATATTTCATAACACAATAGTAAACAACATTCACAATTATGTAAATATTATT
23445571 AAAATTAAATAATAGTAAAACTATCGAGTATTAAATAATAATAATAATAATTAAGCATCTCAAAC
196 AAAATTAAATAATAGTAAAACTATCGAGTATTAAATAATAATAATAATAATTAAGCATCTCAAAC
23445636 AATAACGACAATCTTTTTCTTTTTTTTTTGTGATGGAAACAAAACCTATTAAATAATACTAAAAT
261 AATAACGACAATCTTTTTCTTTTTTTTTTGTGATGGAAACAAAACCTATTAAATAATACTAAAAT
23445701 ATGAATTTTCCTATAATTCTTTAGATGTTATTTTAAATGAAAATGCATATATTTATAGTACTAAA
326 ATGAATTTTCCTATAATTCTTTAGATGTTATTTTAAATGAAAATGCATATATTTATAGTACTAAA
23445766 TATTATTTTTAATTGATATGTAACTGTAACACTAATTAAGTGATAATTAATCTTAAATAGTAAGT
391 TATTATTTTTAATTGATATGTAACTGTAACACTAATTAAGTGATAATTAATCTTAAATAGTAAGT
23445831 GTAATTTGATATGAGTCCAAAATATAATTAATTGAGGAAAGCAATAGTAATAAAATAATTATACG
456 GTAATTTGATATGAGTCCAAAATATAATTAATTGAGGAAAGCAATAGTAATAAAATAATTATACG
23445896 TAAATTTTATATTCAAGTTTTAATAAAAATATTATTAATAAAATATATAGTTATTTTGATATTAT
521 TAAATTTTATATTCAAGTTTTAATAAAAATATTATTAATAAAATATATAGTTATTTTGATATTAT
23445961 ATTATAGATTTTAAAAAATATGAGAAAAATAGATAATACAAAATATTAATTCTTAATTTATTGAT
586 ATTATAGATTTTAAAAAATATGAGAAAAATAGATAATACAAAATATTAATTCTTAATTTATTGAT
23446026 TTTCTTTACCTCTTACTTTCTCAGATAGATATGAGGCACACTATTTGTCGAATTGGGATTTGTAT
651 TTTCTTTACCTCTTACTTTCTCAGATAGATATGAGGCACACTATTTGTCGAATTGGGATTTGTAT
23446091 TGAATTAATCCATTTGATTATATGCAATTAGTATTTATAAAAGATTTAATATTTAATTTAATTAT
716 TGAATTAATCCATTTGATTATATGCAATTAGTATTTATAAAAGATTTAATATTTAATTTAATTAT
23446156 AAAATATATTTATTTTCTTTTGAGCTTTTGACATGTAAATTAGACCATTTTTCTAAAAAAGGCCT
781 AAAATATATTTATTTTCTTTTGAGCTTTTGACATGTAAATTAGACCATTTTTCTAAAAAAGGCCT
23446221 ATTTCCTACTTTATTGACAGAAATGGCCACTTAAAACTTTATTTACCGAAATGGGCCAAAAAACT
846 ATTTCCTACTTTATTGACAGAAATGGCCACTTAAAACTTTATTTACCGAAATGGGCCAAAAAACT
23446286 TAAAATATGCTTATGTGGAAGCGTTTTAAGAGAAAATTTCAAGAAAACGTGCTGGGGACGCGCTT
911 TAAAATATGCTTATGTGGAAGCGTTTTAAGAGAAAATTTCAAGAAAACGTGCTGGGGACGCGCTT
23446351 TTCTCCGTGTTAG
976 TTCTCCGTGTTAG
23446364 TTAAAAGTAATGAAAATAAAAGAGTAGGAAATAATTGATAGTAAAATATTAAGTAATTAGATAAA
1 TTAAAAGTAATGAAAATAAAAGAGTAGGAAATAATTGATAGTAAAATATTAAGTAATTAGATAAA
23446429 ATAACTTATAATTTGAATATAAATCAAAATTTCACCTATAAAGAACCAGTACTTTAATATTTCAT
66 ATAACTTATAATTTGAATATAAATCAAAATTTCACCTATAAAGAACCAGTACTTTAATATTTCAT
23446494 TTTTTTTTGACATAATATTTCATAACACAATAGTAAACAACATTCACAATTATGTAAATATTATT
131 TTTTTTTTGACATAATATTTCATAACACAATAGTAAACAACATTCACAATTATGTAAATATTATT
23446559 AAAATTAAATAATAGTAAAACTATCGAGTATTAAATAATAATAATAATAATTAAGCATCTCAAAC
196 AAAATTAAATAATAGTAAAACTATCGAGTATTAAATAATAATAATAATAATTAAGCATCTCAAAC
23446624 AATAACGACAATCTTTTTCTTTTTTTTTTGTGATGGAAACAAAACCTATTAAATAATACTAAAAT
261 AATAACGACAATCTTTTTCTTTTTTTTTTGTGATGGAAACAAAACCTATTAAATAATACTAAAAT
23446689 ATGAATTTTCCTATAATTCTTTAGATGTTATTTTAAATGAAAATGCATATATTTATAGTACTAAA
326 ATGAATTTTCCTATAATTCTTTAGATGTTATTTTAAATGAAAATGCATATATTTATAGTACTAAA
23446754 TATTATTTTTAATTGATATGTAACTGTAACACTAATTAAGTGATAATTAATCTTAAATAGTAAGT
391 TATTATTTTTAATTGATATGTAACTGTAACACTAATTAAGTGATAATTAATCTTAAATAGTAAGT
23446819 GTAATTTGATATGAGTCCAAAATATAATTAATTGAGGAAAGCAATAGTAATAAAATAATTATACG
456 GTAATTTGATATGAGTCCAAAATATAATTAATTGAGGAAAGCAATAGTAATAAAATAATTATACG
23446884 TAAATTTTATATTCAAGTTTTAATAAAAATATTATTAATAAAATATATAGTTATTTTGATATTAT
521 TAAATTTTATATTCAAGTTTTAATAAAAATATTATTAATAAAATATATAGTTATTTTGATATTAT
23446949 ATTATAGATTTTAAAAAATATGAGAAAAATAGATAATACAAAATATTAATTCTTAATTTATTGAT
586 ATTATAGATTTTAAAAAATATGAGAAAAATAGATAATACAAAATATTAATTCTTAATTTATTGAT
23447014 TTTCTTTACCTCTTACTTTCTCAGATAGATATGAGGCACACTATTTGTCGAATTGGGATTTGTAT
651 TTTCTTTACCTCTTACTTTCTCAGATAGATATGAGGCACACTATTTGTCGAATTGGGATTTGTAT
23447079 TGAATTAATCCATTTGATTATATGCAATTAGTATTTATAAAAGATTTAATATTTAATTTAATTAT
716 TGAATTAATCCATTTGATTATATGCAATTAGTATTTATAAAAGATTTAATATTTAATTTAATTAT
23447144 AAAATATATTTATTTTCTTTTGAGCTTTTGACATGTAAATTAGACCATTTTTCTAAAAAAGGCCT
781 AAAATATATTTATTTTCTTTTGAGCTTTTGACATGTAAATTAGACCATTTTTCTAAAAAAGGCCT
23447209 ATTTCCTACTTTATTGACAGAAATGGCCACTTAAAACTTTATTTACCGAAATGGGCCAAAAAACT
846 ATTTCCTACTTTATTGACAGAAATGGCCACTTAAAACTTTATTTACCGAAATGGGCCAAAAAACT
23447274 TAAAATATGCTTATGTGGAAGCGTTTTAAGAGAAAATTTCAAGAAAACGTGCTGGGGACGCGCTT
911 TAAAATATGCTTATGTGGAAGCGTTTTAAGAGAAAATTTCAAGAAAACGTGCTGGGGACGCGCTT
23447339 TTCTCCGTGTTAG
976 TTCTCCGTGTTAG
23447352 CAAAAACGCG
Statistics
Matches: 988, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
988 988 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (988 bp):
TTAAAAGTAATGAAAATAAAAGAGTAGGAAATAATTGATAGTAAAATATTAAGTAATTAGATAAA
ATAACTTATAATTTGAATATAAATCAAAATTTCACCTATAAAGAACCAGTACTTTAATATTTCAT
TTTTTTTTGACATAATATTTCATAACACAATAGTAAACAACATTCACAATTATGTAAATATTATT
AAAATTAAATAATAGTAAAACTATCGAGTATTAAATAATAATAATAATAATTAAGCATCTCAAAC
AATAACGACAATCTTTTTCTTTTTTTTTTGTGATGGAAACAAAACCTATTAAATAATACTAAAAT
ATGAATTTTCCTATAATTCTTTAGATGTTATTTTAAATGAAAATGCATATATTTATAGTACTAAA
TATTATTTTTAATTGATATGTAACTGTAACACTAATTAAGTGATAATTAATCTTAAATAGTAAGT
GTAATTTGATATGAGTCCAAAATATAATTAATTGAGGAAAGCAATAGTAATAAAATAATTATACG
TAAATTTTATATTCAAGTTTTAATAAAAATATTATTAATAAAATATATAGTTATTTTGATATTAT
ATTATAGATTTTAAAAAATATGAGAAAAATAGATAATACAAAATATTAATTCTTAATTTATTGAT
TTTCTTTACCTCTTACTTTCTCAGATAGATATGAGGCACACTATTTGTCGAATTGGGATTTGTAT
TGAATTAATCCATTTGATTATATGCAATTAGTATTTATAAAAGATTTAATATTTAATTTAATTAT
AAAATATATTTATTTTCTTTTGAGCTTTTGACATGTAAATTAGACCATTTTTCTAAAAAAGGCCT
ATTTCCTACTTTATTGACAGAAATGGCCACTTAAAACTTTATTTACCGAAATGGGCCAAAAAACT
TAAAATATGCTTATGTGGAAGCGTTTTAAGAGAAAATTTCAAGAAAACGTGCTGGGGACGCGCTT
TTCTCCGTGTTAG
Found at i:23450431 original size:28 final size:28
Alignment explanation
Indices: 23450364--23450437 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
23450354 TAGGTTTTGT
* * * *
23450364 GTTTCAAGTTTCGATTTTTGAATTTTGG
1 GTTTCAAATTTTGAGTTTTGAATTATGG
* *
23450392 ATTTCAAATTTTGAGTTTTGAGTTATGG
1 GTTTCAAATTTTGAGTTTTGAATTATGG
*
23450420 GTTTCAAATTTTGGGTTT
1 GTTTCAAATTTTGAGTTT
23450438 GATATTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.53
Consensus pattern (28 bp):
GTTTCAAATTTTGAGTTTTGAATTATGG
Found at i:23450445 original size:14 final size:14
Alignment explanation
Indices: 23450384--23450437 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
23450374 TCGATTTTTG
*
23450384 AATTTTGGATTTCA
1 AATTTTGGGTTTCA
* **
23450398 AATTTTGAGTTTTG
1 AATTTTGGGTTTCA
* *
23450412 AGTTATGGGTTTCA
1 AATTTTGGGTTTCA
23450426 AATTTTGGGTTT
1 AATTTTGGGTTT
23450438 GATATTTTTG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.52
Consensus pattern (14 bp):
AATTTTGGGTTTCA
Found at i:23454420 original size:75 final size:75
Alignment explanation
Indices: 23454329--23454982 Score: 1206
Period size: 75 Copynumber: 8.9 Consensus size: 75
23454319 GACATTCTTA
23454329 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454394 TACGTGTATG
66 TACGTGTATG
23454404 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454469 TACGTGTATG
66 TACGTGTATG
23454479 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454544 TACGTGTATG
66 TACGTGTATG
23454554 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454619 TACGTGTATG
66 TACGTGTATG
23454629 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454694 TACGTGTATG
66 TACGTGTATG
23454704 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454769 TACGTGTATG
66 TACGTGTATG
23454779 -TT-TATATATATA--TATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454840 TACGTGTATG
66 TACGTGTATG
23454850 -TT-TATATATATA--TATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454911 TACGTGTATG
66 TACGTGTATG
* *
23454921 -TT-TATATATATA--TATGTATAAATATATTTGTAAGAAAACATGAAGAAAAATATAAAATATG
1 TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
23454982 T
66 T
23454983 GGAAACATAC
Statistics
Matches: 577, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
71 190 0.33
73 10 0.02
74 2 0.00
75 375 0.65
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (75 bp):
TTTATATATATATATGTATGTATAAATATATTTGTAAGAAAACATGAAGAATAATGTAAAATATG
TACGTGTATG
Found at i:23458202 original size:22 final size:23
Alignment explanation
Indices: 23458161--23458205 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23458151 AAATTAAATC
*
23458161 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAACCATATCT
*
23458184 TCTAAGATTAC-ATACCATATCT
1 TCTAAGATTACAAAACCATATCT
23458206 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (23 bp):
TCTAAGATTACAAAACCATATCT
Found at i:23458208 original size:19 final size:19
Alignment explanation
Indices: 23458184--23458237 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
23458174 AATCATATCT
23458184 TCTAAGATTACATACCATA
1 TCTAAGATTACATACCATA
* *
23458203 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATACCATA
*
23458224 TCTAAGATTGCATA
1 TCTAAGATTACATA
23458238 TTCTCGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATACCATA
Found at i:23458225 original size:21 final size:21
Alignment explanation
Indices: 23458199--23458238 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
23458189 GATTACATAC
23458199 CATATCTAAGATTGCATATAT
1 CATATCTAAGATTGCATATAT
23458220 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
23458239 TCTCGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
CATATCTAAGATTGCATATAT
Found at i:23458966 original size:237 final size:237
Alignment explanation
Indices: 23458551--23459025 Score: 941
Period size: 237 Copynumber: 2.0 Consensus size: 237
23458541 GTACCAAGTA
23458551 TAATAGAATTTCTACTATCTATAACAACATTTAATATTTAAATAATATTTGACTTTTATTTTTAT
1 TAATAGAATTTCTACTATCTATAACAACATTTAATATTTAAATAATATTTGACTTTTATTTTTAT
23458616 TTTAAATGATATATAAAGTTGACTAATATACTTTCATTTATTAAATATTATTTTATCGATAAATA
66 TTTAAATGATATATAAAGTTGACTAATATACTTTCATTTATTAAATATTATTTTATCGATAAATA
23458681 TAATTAATATATTTTTATGTAAAATTTAAATATTTTATTAAAAAATATCTTAATTAAAATTTATT
131 TAATTAATATATTTTTATGTAAAATTTAAATATTTTATTAAAAAATATCTTAATTAAAATTTATT
*
23458746 ATTTTTAACTCACTCAATAATAAAACTAAATTTATTCAAATG
196 ATTTTTAACTCACTCAATAATAAAACTAAATTTATTAAAATG
23458788 TAATAGAATTTCTACTATCTATAACAACATTTAATATTTAAATAATATTTGACTTTTATTTTTAT
1 TAATAGAATTTCTACTATCTATAACAACATTTAATATTTAAATAATATTTGACTTTTATTTTTAT
23458853 TTTAAATGATATATAAAGTTGACTAATATACTTTCATTTATTAAATATTATTTTATCGATAAATA
66 TTTAAATGATATATAAAGTTGACTAATATACTTTCATTTATTAAATATTATTTTATCGATAAATA
23458918 TAATTAATATATTTTTATGTAAAATTTAAATATTTTATTAAAAAATATCTTAATTAAAATTTATT
131 TAATTAATATATTTTTATGTAAAATTTAAATATTTTATTAAAAAATATCTTAATTAAAATTTATT
23458983 ATTTTTAACTCACTCAATAATAAAACTAAATTTATTAAAATG
196 ATTTTTAACTCACTCAATAATAAAACTAAATTTATTAAAATG
23459025 T
1 T
23459026 GAGAGAAATG
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 237 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (237 bp):
TAATAGAATTTCTACTATCTATAACAACATTTAATATTTAAATAATATTTGACTTTTATTTTTAT
TTTAAATGATATATAAAGTTGACTAATATACTTTCATTTATTAAATATTATTTTATCGATAAATA
TAATTAATATATTTTTATGTAAAATTTAAATATTTTATTAAAAAATATCTTAATTAAAATTTATT
ATTTTTAACTCACTCAATAATAAAACTAAATTTATTAAAATG
Found at i:23459658 original size:16 final size:16
Alignment explanation
Indices: 23459639--23459679 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
23459629 AATCTTGTAA
*
23459639 AAAATTCGAGTCCAAT
1 AAAATTCGAGTCCAAC
* *
23459655 AAAATTTGAGTCCGAC
1 AAAATTCGAGTCCAAC
23459671 AAAATTCGA
1 AAAATTCGA
23459680 ACCCATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (16 bp):
AAAATTCGAGTCCAAC
Found at i:23460233 original size:234 final size:232
Alignment explanation
Indices: 23459850--23460415 Score: 676
Period size: 234 Copynumber: 2.4 Consensus size: 232
23459840 TATTAATACA
* * * *
23459850 ATATAACTATTATTATAATA-TTGATTATAAT-AAAGATATAGTATTACATGATA-T-TAATGTT
1 ATATAATTATTATTATATTACAT-ATTATAATAAAAGATATAATATTACATGATATTATAATGTT
23459911 TAATCATTGATGCATATATATAAACTATTAATA--TATTACATGATATGATATAACATTATATAA
65 TAATCATTGATGCATATATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAA
* * *
23459974 TAATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGACTTAGAGCATATTTCAACTAG
130 TAATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTCAACCAG
23460039 TATAATA-ATAAACAACAATATATAATAAT-ATT-TAT
195 TATAATATATAAACAACAATATATAATAATAATTATAT
*
23460074 GTATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
1 ATATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
* * * *
23460139 AATCATTGATGCACAAATATAAACTATTAATATTTTATAAACTATATGATATGATATATCATTAT
66 AATCATTGATGCATATATATAAACTATTAATA-TTTAT----TACATGATATGATATAACATTAT
*
23460204 ATAAT-ATAGTAGGATAG-CTAACTTTCAAATGTACGAAAAATATAGGGAATTAAAGCATATTTC
126 ATAATAAT-GTAGGA-AGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTC
* *
23460267 AACCAGTATAATATATAAACAATAATATATGATAATAATTAATAT
189 AACCAGTATAATATATAAACAACAATATATAATAATAATT-ATAT
* * **
23460312 ATATAATGTGTTACTAT-TATATCATAGAATAACATAAAA-AT-T-ATATTACATGATATTATAA
1 ATATAAT-TATTATTATAT-TA-CATATTAT-A-ATAAAAGATATAATATTACATGATATTATAA
* * * **
23460373 CGTTTAATTATTAATGTGTATATATAAACTATTAATATATTAT
61 TGTTTAATCATTGATGCATATATATAAACTATTAATAT-TTAT
23460416 GTACTACTCT
Statistics
Matches: 292, Mismatches: 27, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
224 25 0.09
225 22 0.08
226 1 0.00
227 38 0.13
230 3 0.01
233 2 0.01
234 87 0.30
235 22 0.08
236 3 0.01
238 11 0.04
239 62 0.21
240 7 0.02
241 3 0.01
242 6 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (232 bp):
ATATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
AATCATTGATGCATATATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAAT
AATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTCAACCAGT
ATAATATATAAACAACAATATATAATAATAATTATAT
Found at i:23460631 original size:16 final size:14
Alignment explanation
Indices: 23460594--23460636 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 14
23460584 CTCGTAATAT
23460594 ATAAAATATTATTA
1 ATAAAATATTATTA
*
23460608 AAAAAATATTATCTCA
1 ATAAAATATTAT-T-A
23460624 ATAAAATATTATT
1 ATAAAATATTATT
23460637 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAATATTATTA
Found at i:23469354 original size:24 final size:24
Alignment explanation
Indices: 23469321--23469374 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
23469311 GTATCTTTAA
*
23469321 CTTTGCAATCAAAAGACTTCTAGT
1 CTTTGAAATCAAAAGACTTCTAGT
*
23469345 CTTTGAAATCGAAAGACTTCTAGT
1 CTTTGAAATCAAAAGACTTCTAGT
23469369 CTTTGA
1 CTTTGA
23469375 CTTGTGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (24 bp):
CTTTGAAATCAAAAGACTTCTAGT
Found at i:23471904 original size:25 final size:25
Alignment explanation
Indices: 23471872--23471921 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23471862 TTGAAAGTTG
23471872 ATATGAATATGTGCTGGAAGTATAT
1 ATATGAATATGTGCTGGAAGTATAT
*
23471897 ATATGAATATGTGCTGGAGGTATAT
1 ATATGAATATGTGCTGGAAGTATAT
23471922 GATGATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (25 bp):
ATATGAATATGTGCTGGAAGTATAT
Found at i:23473136 original size:7 final size:7
Alignment explanation
Indices: 23473124--23473155 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
23473114 ACTTCTGATC
23473124 AGTGACA
1 AGTGACA
23473131 AGTGACA
1 AGTGACA
23473138 AGTGACA
1 AGTGACA
23473145 AGTGACA
1 AGTGACA
23473152 AGTG
1 AGTG
23473156 GTAGGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.31, T:0.16
Consensus pattern (7 bp):
AGTGACA
Found at i:23473207 original size:51 final size:51
Alignment explanation
Indices: 23473131--23473244 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
23473121 ATCAGTGACA
* *
23473131 AGTGACAAGTGACAAGTGACAAGTGGTAGGTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
23473182 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
23473233 AGTGACAAGTGA
1 AGTGACAAGTGA
23473245 TAAATGTGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:23483414 original size:23 final size:23
Alignment explanation
Indices: 23483383--23483527 Score: 191
Period size: 23 Copynumber: 6.2 Consensus size: 23
23483373 TGGGTATATA
* *
23483383 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
23483406 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
23483429 TATAAATGCTGCCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
23483452 TATATATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
*
23483475 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
23483500 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
23483523 TATAA
1 TATAA
23483528 GAGATATCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 86 0.81
24 1 0.01
25 19 0.18
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:23483538 original size:71 final size:69
Alignment explanation
Indices: 23483383--23483538 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 69
23483373 TGGGTATATA
* * * * *
23483383 TATATATGCTATCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGCCCAATTT
1 TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
*
23483448 GGTG
66 GATG
* * * * *
23483452 TATATATGCTGTCCAATTTGATATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGAT
1 TATATAAGATATCCAATTTGATATATA-A-ATGCTGTCCAATTGGGTGTATAAATGCTGCCCAAT
23483517 TTGATG
64 TTGATG
23483523 TATA-AGAGATATCCAA
1 TATATA-AGATATCCAA
23483539 ATAGGGTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 24 0.32
70 2 0.03
71 48 0.65
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (69 bp):
TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
GATG
Found at i:23484201 original size:35 final size:35
Alignment explanation
Indices: 23484162--23484231 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
23484152 TGAACGGGTG
23484162 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
1 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
23484197 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
1 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
23484232 ATCTCCTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (35 bp):
GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
Found at i:23489975 original size:50 final size:50
Alignment explanation
Indices: 23489788--23490026 Score: 165
Period size: 50 Copynumber: 4.7 Consensus size: 50
23489778 GATAATAACA
* * * ** ** * * *
23489788 TGCCAAAGCCATGTCCTAGCCATGGTCTTACATGGGATGTTTCTTAT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATCTCAG
* * ** * * *
23489837 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATCTCAG
* * * * ***
23489887 TGCCCATGCTATGTTCGAGACATGGTCTTATGGGGGACCTCCCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATCTCAG
* * *
23489937 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATGATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC-C--CATCTC-A-G
*
23489992 ATGCCAATGCCATGTCCCAGACATCGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
23490027 AGATCTCTTT
Statistics
Matches: 146, Mismatches: 37, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
49 39 0.27
50 68 0.47
51 1 0.01
53 5 0.03
54 1 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATCTCAG
Found at i:23491540 original size:13 final size:13
Alignment explanation
Indices: 23491522--23491546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23491512 GAATTAATAT
23491522 GTGTGAAAATTTC
1 GTGTGAAAATTTC
23491535 GTGTGAAAATTT
1 GTGTGAAAATTT
23491547 TATTTTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:23492718 original size:43 final size:42
Alignment explanation
Indices: 23492655--23492779 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 42
23492645 AAGATTCCGT
*
23492655 TATGTGTTATCGTGTAAGACCAGGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATC-AC
**
23492699 T-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAC
**
23492741 TATGTGATTACACGTAAGACCACGTCTGGGACGTTGGCA
1 TATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
23492780 CTGTACGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 61 0.88
44 6 0.09
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAC
Found at i:23496398 original size:15 final size:15
Alignment explanation
Indices: 23496378--23496408 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23496368 TTAATGATAA
23496378 ATTATGAATTGGTTT
1 ATTATGAATTGGTTT
23496393 ATTATGAATTGGTTT
1 ATTATGAATTGGTTT
23496408 A
1 A
23496409 AAAGTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (15 bp):
ATTATGAATTGGTTT
Found at i:23496596 original size:47 final size:46
Alignment explanation
Indices: 23496537--23496674 Score: 161
Period size: 47 Copynumber: 2.9 Consensus size: 46
23496527 TATATATATA
23496537 CTGTCCAATTTGGTGTATCAATACTGTCCAATTTGGTGTATAAAATG
1 CTGTCCAATTTGGTGTAT-AATACTGTCCAATTTGGTGTATAAAATG
* *
23496584 CTGTCCAATTTGGTGTATATATGA-TGTCCAATTTGGTATATATATATG
1 CTGTCCAATTTGGTGTATA-AT-ACTGTCCAATTTGGTGTATA-AAATG
* * * * *
23496632 CTGTCCGATTTGATGTATAAGAGCTGTCCGATTTGATGTATAA
1 CTGTCCAATTTGGTGTATAATA-CTGTCCAATTTGGTGTATAA
23496675 GAGTTGTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
46 2 0.03
47 39 0.50
48 37 0.47
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (46 bp):
CTGTCCAATTTGGTGTATAATACTGTCCAATTTGGTGTATAAAATG
Found at i:23496675 original size:23 final size:23
Alignment explanation
Indices: 23496537--23496685 Score: 142
Period size: 23 Copynumber: 6.3 Consensus size: 23
23496527 TATATATATA
*
23496537 CTGTCCAATTTGGTGTATCAATA-
1 CTGTCCAATTTGGTGTAT-AAGAG
*
23496560 CTGTCCAATTTGGTGTATAAAATG
1 CTGTCCAATTTGGTGTATAAGA-G
23496584 CTGTCCAATTTGGTGTATATATGA-
1 CTGTCCAATTTGGTGTATA-A-GAG
* *
23496608 -TGTCCAATTTGGTATATATATATG
1 CTGTCCAATTTGGTGTATA-AGA-G
* *
23496632 CTGTCCGATTTGATGTATAAGAG
1 CTGTCCAATTTGGTGTATAAGAG
* *
23496655 CTGTCCGATTTGATGTATAAGAG
1 CTGTCCAATTTGGTGTATAAGAG
*
23496678 TTGTCCAA
1 CTGTCCAA
23496686 ACAGGGTAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
22 4 0.04
23 67 0.61
24 21 0.19
25 16 0.15
26 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (23 bp):
CTGTCCAATTTGGTGTATAAGAG
Found at i:23505177 original size:11 final size:11
Alignment explanation
Indices: 23505163--23505219 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
23505153 ATTGAATTAA
*
23505163 TAAAATACTAT
1 TAAAATAATAT
23505174 TAAAATAAGTAT
1 TAAAATAA-TAT
*
23505186 TAAATTTAATAT
1 TAAA-ATAATAT
*
23505198 T-AAAT-TTAT
1 TAAAATAATAT
23505207 TAAAATAATAT
1 TAAAATAATAT
23505218 TA
1 TA
23505220 TTTTTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 14 0.38
12 11 0.30
13 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:23508047 original size:90 final size:90
Alignment explanation
Indices: 23507940--23508119 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
23507930 AGTAAACTTG
23507940 TTAATGAGTTGCTTGTCTTTGTGATAAATGATTTAATCACTATTTGATAGTAATTGACTTTTCAT
1 TTAATGAGTTGCTTGTCTTTGTGATAAATGATTTAATCACTATTTGATAGTAATTGACTTTTCAT
23508005 AAAAGAAGATGTAATAGTTACCATA
66 AAAAGAAGATGTAATAGTTACCATA
23508030 TTAATGAGTTGCTTGTCTTTGTGATAAATGATTTAATCACTATTTGATAGTAATTGACTTTTCAT
1 TTAATGAGTTGCTTGTCTTTGTGATAAATGATTTAATCACTATTTGATAGTAATTGACTTTTCAT
*
23508095 AAAAGAAGATGTAATGGTTACCATA
66 AAAAGAAGATGTAATAGTTACCATA
23508120 CGATAAAATA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (90 bp):
TTAATGAGTTGCTTGTCTTTGTGATAAATGATTTAATCACTATTTGATAGTAATTGACTTTTCAT
AAAAGAAGATGTAATAGTTACCATA
Done.