Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 139 of 222
Found at i:45123162 original size:19 final size:19
Alignment explanation
Indices: 45123138--45123176 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45123128 AACTCATGAA
45123138 GTATGTATTTTAATCTAAG
1 GTATGTATTTTAATCTAAG
45123157 GTATGTATTTTAATCTAAG
1 GTATGTATTTTAATCTAAG
45123176 G
1 G
45123177 AATTGTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (19 bp):
GTATGTATTTTAATCTAAG
Found at i:45130144 original size:79 final size:82
Alignment explanation
Indices: 45130033--45130217 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
45130023 GCTACTCGTT
* * *
45130033 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45130096 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
45130113 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
45130176 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
45130193 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45130218 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:45130217 original size:40 final size:40
Alignment explanation
Indices: 45130014--45130217 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
45130004 CGGAATTTAA
** *
45130014 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
45130054 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45130094 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45130133 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
45130173 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45130213 CCGGA
1 CCGGA
45130218 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45137931 original size:40 final size:40
Alignment explanation
Indices: 45137773--45137937 Score: 174
Period size: 40 Copynumber: 4.1 Consensus size: 40
45137763 CGGAATTTAA
** *
45137773 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
45137813 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
45137853 CCGGTTATAGTAACTCGCACAAATGCATTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
45137893 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45137933 CCGGA
1 CCGGA
45137938 CATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 90 0.86
41 11 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45144596 original size:12 final size:13
Alignment explanation
Indices: 45144576--45144602 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45144566 ATGTCATACC
45144576 AAAATTTTTAATA
1 AAAATTTTTAATA
45144589 AAAATTTTTAATA
1 AAAATTTTTAATA
45144602 A
1 A
45144603 TGTTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTTTAATA
Found at i:45146167 original size:7 final size:7
Alignment explanation
Indices: 45146155--45146180 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45146145 TAGTCGATTG
45146155 GTATTTA
1 GTATTTA
45146162 GTATTTA
1 GTATTTA
45146169 GTATTTA
1 GTATTTA
45146176 GTATT
1 GTATT
45146181 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:45146836 original size:18 final size:18
Alignment explanation
Indices: 45146809--45146848 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45146799 CAGGTGCGTT
* *
45146809 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
45146827 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
45146845 TCCT
1 TCCT
45146849 TTTTCCGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45147441 original size:27 final size:27
Alignment explanation
Indices: 45147400--45147451 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
45147390 ACAAAACTTA
45147400 AACCCTTAACCTAAAAACCCTAACCGT
1 AACCCTTAACCTAAAAACCCTAACCGT
*
45147427 AACCCTTAACTTAAAAACCCTAACC
1 AACCCTTAACCTAAAAACCCTAACC
45147452 CTTAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCGT
Found at i:45147473 original size:22 final size:22
Alignment explanation
Indices: 45147398--45148088 Score: 805
Period size: 22 Copynumber: 31.8 Consensus size: 22
45147388 TGACAAAACT
*
45147398 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
45147420 TAACCGTAACCCTTAACTTAAAAACCC
1 T-A----AACCCTTAACTTAAAAACCC
*
45147447 T-AACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
45147468 TAAACCCTTAACTTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
45147490 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
45147512 T-AACTCTTAACTTAAAAATCT
1 TAAACCCTTAACTTAAAAACCC
* * *
45147533 TAAATCTTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
45147555 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
45147577 TAAA-CCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
45147598 T-AACCCTTAACTT-AAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
45147618 TAACCCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147640 TAAACCCTTAAATTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
45147662 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
45147684 T-AACACTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
45147705 TAAATCATTAACTTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147727 T-AACCATTAACTTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147748 TAACCCCTTAACTTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
* *
45147770 TAAACCCTTAAATTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
45147792 TAAACCCTTAACTTAAAAAGCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147814 TAAACTCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
**
45147836 TAAACAATTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
45147858 TAACCCCTTAACTTTAAAACCT
1 TAAACCCTTAACTTAAAAACCC
*
45147880 TAAACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147902 TAAACCCTTAAATTAAAAATCC
1 TAAACCCTTAACTTAAAAACCC
45147924 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
45147946 T-AACTCTTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* ****
45147967 TAAACGCTTAACTTAAAATTTG
1 TAAACCCTTAACTTAAAAACCC
*
45147989 T-AACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * * *
45148010 TAAACTCTTAACTT-TAAATCG
1 TAAACCCTTAACTTAAAAACCC
* *
45148031 T-AACCCTTAAATAAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
*
45148052 T-AACACTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
45148073 T-AACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
45148089 TATAATTTGA
Statistics
Matches: 568, Mismatches: 86, Indels: 31
0.83 0.13 0.05
Matches are distributed among these distances:
20 19 0.03
21 191 0.34
22 337 0.59
23 1 0.00
27 20 0.04
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAACCCTTAACTTAAAAACCC
Found at i:45147477 original size:43 final size:43
Alignment explanation
Indices: 45147421--45148088 Score: 806
Period size: 43 Copynumber: 15.5 Consensus size: 43
45147411 TAAAAACCCT
* *
45147421 AACCGTAACCCTTAACTTAAAAACCCT-AACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
45147463 AACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
45147507 AACCCTAACTCTTAACTTAAAAATCTTAAATCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
45147550 AACCTTAAACCCTTAACTTAAAAACCCTAAA-CCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
45147593 AACCCTAACCCTTAACTT-AAAACCCTAACCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
45147635 AACCCTAAACCCTTAAATTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
45147679 AACCCTAACACTTAACTTAAAAACCCTAAATCATTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
45147722 AATCCTAACCATTAACTTAAAAATCCTAACCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
45147765 AACCTTAAACCCTTAAATTAAAAACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * **
45147809 AAGCCTAAACTCTTAACTTTAAAACCCTAAACAATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
45147853 AACCCTAACCCCTTAACTTTAAAACCTTAAACCCTTAAATTAAA
1 AACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
45147897 AACCCTAAACCCTTAAATTAAAAATCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
45147941 AACCCTAACTCTTAACTTTAAAACCCTAAACGCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
**** * * *
45147984 ATTTGTAACCCTTAAATTAAAAACCCTAAACTCTTAACTT-TA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * *
45148026 AATCGTAACCCTTAAATAAAAAACCCT-AACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
45148068 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
45148089 TATAATTTGA
Statistics
Matches: 535, Mismatches: 81, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
41 21 0.04
42 78 0.15
43 221 0.41
44 213 0.40
45 2 0.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (43 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:45151696 original size:127 final size:125
Alignment explanation
Indices: 45151285--45151826 Score: 689
Period size: 126 Copynumber: 4.3 Consensus size: 125
45151275 TGTCCATGTG
* * *
45151285 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCG--ATTTTATACTATTTGCT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
* * * *
45151348 CAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCTTCCACGA
66 CAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
*
45151408 GGACGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT-ACAGCGTTTTTTTATACTATTT
1 GG-CGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGA-AGCGTTTTTTTAAACTATTT
* * * * * * *
45151471 GCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAAGCACGTCCACGTG
63 GCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACG-A
* *
45151535 GGCACGATTTTACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
*
45151600 CAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCATCCACGA
66 CAGAAACGTCAACTCAAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
* * * *
45151661 CGGCGCTATTTCACAAATTATTCTCATAAAGCATCCTGCTTGAAGC-ATTTTTTAAACTATTTAC
1 -GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGC
* * * * *
45151725 TCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCGTACACGTG
65 TCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACG-A
* * * * * *
45151787 GGCGTGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
45151827 TGATTTTATC
Statistics
Matches: 365, Mismatches: 43, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
123 5 0.01
124 38 0.10
125 62 0.17
126 185 0.51
127 75 0.21
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (125 bp):
GGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCT
CAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCATCCACGA
Found at i:45151733 original size:252 final size:250
Alignment explanation
Indices: 45151276--45151826 Score: 768
Period size: 252 Copynumber: 2.2 Consensus size: 250
45151266 GCAAAAACGT
* * *
45151276 GTCCATGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTTATACT
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGATTTTAAACT
* * * *
45151341 ATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCTTCCAC
66 ATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCATCCAC
* * *
45151406 GAGGACGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTACAGCGTTTTTTTATACTATTT
131 GAGGACGCGATTTCACAAATTATTCTCAAATAGCATCCTGCTTACAGCGATTTTTTAAACTATTT
* * *
45151471 GCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTATAGCAAAAGCAC
196 ACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
* * *
45151526 GTCCACGTGGGCACGATTTTACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAA
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCG--ATTTTAAA
*
45151591 CTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCATC
64 CTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACCAACTGTAGCAAAAGCGCATC
*
45151656 CACGACGG-CGCTATTTCACAAATTATTCTCATAA-AGCATCCTGCTTGA-AGC-ATTTTTTAAA
128 CACGA-GGACGCGATTTCACAAATTATTCTCA-AATAGCATCCTGCTT-ACAGCGATTTTTTAAA
* **
45151717 CTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGC
190 CTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
* * * * * * *
45151778 GTACACGTGGGCGTGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
45151827 TGATTTTATC
Statistics
Matches: 265, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
250 51 0.19
252 141 0.53
253 68 0.26
254 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (250 bp):
GTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGATTTTAAACT
ATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCATCCAC
GAGGACGCGATTTCACAAATTATTCTCAAATAGCATCCTGCTTACAGCGATTTTTTAAACTATTT
ACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCAC
Found at i:45151957 original size:9 final size:9
Alignment explanation
Indices: 45151943--45151980 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
45151933 TTTTTTCTCC
45151943 AAAAATCCT
1 AAAAATCCT
45151952 AAAAATCCT
1 AAAAATCCT
45151961 AAAAA-CTCT
1 AAAAATC-CT
45151970 AAAAATCCT
1 AAAAATCCT
45151979 AA
1 AA
45151981 CCTGGGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATCCT
Found at i:45153376 original size:15 final size:15
Alignment explanation
Indices: 45153356--45153386 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45153346 CAAGATTGTA
45153356 GCTTTAAATTGAATC
1 GCTTTAAATTGAATC
45153371 GCTTTAAATTGAATC
1 GCTTTAAATTGAATC
45153386 G
1 G
45153387 AGTTGTCTTT
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:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (15 bp):
GCTTTAAATTGAATC
Found at i:45157943 original size:19 final size:19
Alignment explanation
Indices: 45157919--45157958 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45157909 TGAGATTCAG
* *
45157919 ATATATTTTTTTTGATGGA
1 ATATATATTTTTTAATGGA
45157938 ATATATATTTTTTAATGGA
1 ATATATATTTTTTAATGGA
45157957 AT
1 AT
45157959 TTTATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
ATATATATTTTTTAATGGA
Found at i:45193300 original size:24 final size:24
Alignment explanation
Indices: 45193268--45193318 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
45193258 CTGGTTAAGG
*
45193268 TTCATTGTCCGCTTTTAGGGATCT
1 TTCATTGTCCGCTTCTAGGGATCT
45193292 TTCATTGTCCGCTTCTAGGGATCT
1 TTCATTGTCCGCTTCTAGGGATCT
45193316 TTC
1 TTC
45193319 TTGAATACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (24 bp):
TTCATTGTCCGCTTCTAGGGATCT
Found at i:45195898 original size:12 final size:12
Alignment explanation
Indices: 45195873--45195913 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
45195863 AGAAAAAGGA
*
45195873 AAAACAAAAGACT
1 AAAACTAAA-ACT
45195886 AAAACTAAAACT
1 AAAACTAAAACT
45195898 AAAACTAAAACT
1 AAAACTAAAACT
45195910 AAAA
1 AAAA
45195914 AGAAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAACTAAAACT
Found at i:45195906 original size:18 final size:19
Alignment explanation
Indices: 45195873--45195913 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
45195863 AGAAAAAGGA
45195873 AAAACAAAAGACTAAAACT
1 AAAACAAAAGACTAAAACT
*
45195892 AAAACTAAA-ACTAAAACT
1 AAAACAAAAGACTAAAACT
45195910 AAAA
1 AAAA
45195914 AGAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.71, C:0.15, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAACAAAAGACTAAAACT
Found at i:45195919 original size:18 final size:18
Alignment explanation
Indices: 45195883--45195919 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45195873 AAAACAAAAG
**
45195883 ACTAAAACTAAAACTAAA
1 ACTAAAACTAAAAAGAAA
45195901 ACTAAAACTAAAAAGAAA
1 ACTAAAACTAAAAAGAAA
45195919 A
1 A
45195920 TTATACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.14, G:0.03, T:0.14
Consensus pattern (18 bp):
ACTAAAACTAAAAAGAAA
Found at i:45200543 original size:53 final size:52
Alignment explanation
Indices: 45200485--45200635 Score: 116
Period size: 53 Copynumber: 3.1 Consensus size: 52
45200475 TTACATAAGC
*
45200485 AATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
* * *
45200538 AATGAA--CTTTA-TAAG---G--TAAA-TATAA-GT-A-ATTACA--TAAGA-
1 AATGAATGC-TTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTA-AT
*
45200577 AATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
45200630 AATGAA
1 AATGAA
45200636 CTTTATAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 36
0.62 0.07 0.31
Matches are distributed among these distances:
39 8 0.11
40 4 0.06
41 10 0.14
42 1 0.01
43 1 0.01
44 5 0.07
46 8 0.11
48 5 0.07
49 1 0.01
50 1 0.01
51 10 0.14
52 4 0.06
53 14 0.19
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (52 bp):
AATGAATGCTTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTAAT
Found at i:45200612 original size:92 final size:92
Alignment explanation
Indices: 45200469--45200654 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
45200459 AAGTAAAGGA
* *
45200469 AAGTAATTACATAAGCAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
45200534 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
*
45200561 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
45200626 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
45200653 AA
1 AA
45200655 ACCTATACCA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (92 bp):
AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
TAATAATGAACTTTATAAGGTAAATAT
Found at i:45201390 original size:6 final size:6
Alignment explanation
Indices: 45201381--45201418 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
45201371 AACCATAACC
45201381 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
45201419 ACATCGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:45222032 original size:21 final size:20
Alignment explanation
Indices: 45221987--45222033 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
45221977 ATTAAAATAT
* *
45221987 AAAA-ATCAAAAAATTTTAT
1 AAAATATCAAAAAATTATAA
*
45222006 AGAATATCATAAAAATTATAA
1 AAAATATCA-AAAAATTATAA
45222027 AAAATAT
1 AAAATAT
45222034 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 4 0.18
21 15 0.68
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATATCAAAAAATTATAA
Found at i:45222337 original size:40 final size:38
Alignment explanation
Indices: 45222256--45222346 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
45222246 GAAAAGTGCA
**
45222256 AAAAATATAAAAAAATAGAAAATTACAGTAATATTATT
1 AAAAATATAAAAAAATAGAAAATTACAAAAATATTATT
*
45222294 AAAAATATTCAAAAAAATA-TAAATTACAAAAAGTA-TA-T
1 AAAAATA-T-AAAAAAATAGAAAATTACAAAAA-TATTATT
45222332 ATAAAATATAAAAAA
1 A-AAAATATAAAAAA
45222347 TGTCTATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 6 0.13
38 10 0.22
39 19 0.41
40 11 0.24
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (38 bp):
AAAAATATAAAAAAATAGAAAATTACAAAAATATTATT
Found at i:45222605 original size:10 final size:10
Alignment explanation
Indices: 45222592--45222620 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
45222582 AAATTTTTCC
45222592 AAATATTTTT
1 AAATATTTTT
45222602 AAATATTTTT
1 AAATATTTTT
45222612 AAATATTTT
1 AAATATTTT
45222621 ATGCTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AAATATTTTT
Found at i:45222710 original size:47 final size:47
Alignment explanation
Indices: 45222634--45222763 Score: 131
Period size: 47 Copynumber: 2.7 Consensus size: 47
45222624 CTTTTTATGC
*
45222634 TTTTTATGTTTTTATAATATTTTGT-TAATTTTATTAAAACTTTTAATA-A
1 TTTTTAT-ATTTTAT-ATATTTT-TATAATTTTATTAAAA-TTTTAATATA
* **
45222683 TTTTTATATTTTATATATTTTTATAATTTT-TTACAATTTTTTTATA
1 TTTTTATATTTTATATATTTTTATAATTTTATTAAAATTTTAATATA
* *
45222729 TTTTCATAATTTATATATTTTTTATAATTTATATT
1 TTTTTATATTTTATATA-TTTTTATAATTT-TATT
45222764 TATTTATAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 6 0.09
46 22 0.31
47 26 0.37
48 7 0.10
49 9 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (47 bp):
TTTTTATATTTTATATATTTTTATAATTTTATTAAAATTTTAATATA
Found at i:45222760 original size:64 final size:65
Alignment explanation
Indices: 45222675--45222818 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 65
45222665 TATTAAAACT
* * *
45222675 TTTA-ATAATTTTTATATTTTATATATT-TTTATAAT-TTTTTACAATTTTTT-TATATTTTCAT
1 TTTATATAATTTTTATAATTTATAT-TTATTTATAATATTTTTACAATTTTTTATAAAATTT-AT
45222736 AA
64 AA
* **
45222738 TTTATATATTTTTTATAATTTATATTTATTTATAATATTTTTGTAATTTTTTAATAAAATTTATA
1 TTTATATAATTTTTATAATTTATATTTATTTATAATATTTTTACAATTTTTT-ATAAAATTTATA
45222803 A
65 A
45222804 TTTATATAAATTTTT
1 TTTATAT-AATTTTT
45222819 TCAATTATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
63 6 0.09
64 26 0.38
65 13 0.19
66 11 0.16
67 12 0.18
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (65 bp):
TTTATATAATTTTTATAATTTATATTTATTTATAATATTTTTACAATTTTTTATAAAATTTATAA
Found at i:45222880 original size:9 final size:9
Alignment explanation
Indices: 45222596--45222862 Score: 102
Period size: 9 Copynumber: 28.7 Consensus size: 9
45222586 TTTTCCAAAT
*
45222596 ATTTTTAAA
1 ATTTTTATA
45222605 TATTTTTA-A
1 -ATTTTTATA
*
45222614 ATATTTTATG
1 AT-TTTTATA
* *
45222624 CTTTTTATG
1 ATTTTTATA
*
45222633 CTTTTTAT-
1 ATTTTTATA
*
45222641 GTTTTTATA
1 ATTTTTATA
*
45222650 ATATTTTGTTA
1 AT-TTTT-ATA
*
45222661 ATTTTATTAAA
1 A-TTT-TTATA
*
45222672 ACTTTTAATA
1 A-TTTTTATA
45222682 ATTTTTAT-
1 ATTTTTATA
45222690 A-TTTTATA
1 ATTTTTATA
45222698 TATTTTTATA
1 -ATTTTTATA
*
45222708 ATTTTTTACA
1 A-TTTTTATA
*
45222718 ATTTTTTTA
1 ATTTTTATA
*
45222727 TATTTTCATA
1 -ATTTTTATA
*
45222737 ATTTATATA
1 ATTTTTATA
*
45222746 TTTTTTATA
1 ATTTTTATA
45222755 A--TTTATA
1 ATTTTTATA
*
45222762 TTTATTTATAA
1 ATT-TTTAT-A
*
45222773 TATTTTTGTA
1 -ATTTTTATA
45222783 ATTTTTTAATA
1 A-TTTTT-ATA
**
45222794 AAATTTATA
1 ATTTTTATA
*
45222803 ATTTATATAA
1 ATTTTTAT-A
45222813 ATTTTT-TCA
1 ATTTTTAT-A
* *
45222822 ATTATAATA
1 ATTTTTATA
* *
45222831 AATTTTACA
1 ATTTTTATA
45222840 ATTTTCTAT-
1 ATTTT-TATA
45222849 A-TTTTATA
1 ATTTTTATA
45222857 ATTTTT
1 ATTTTT
45222863 GCGCTTTATA
Statistics
Matches: 193, Mismatches: 40, Indels: 49
0.68 0.14 0.17
Matches are distributed among these distances:
7 15 0.08
8 14 0.07
9 80 0.41
10 61 0.32
11 18 0.09
12 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:45223051 original size:38 final size:38
Alignment explanation
Indices: 45223000--45223074 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
45222990 TGACTATTAG
45223000 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
1 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
45223038 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTA
1 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTA
45223075 TCATTCGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.37
Consensus pattern (38 bp):
CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
Found at i:45233157 original size:23 final size:24
Alignment explanation
Indices: 45233099--45233158 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
45233089 AAGAAGTCAC
45233099 TACAATATACTTTTTTAAACATTG
1 TACAATATACTTTTTTAAACATTG
* *
45233123 TATAAATATACTTTTTCT-AATATTG
1 TA-CAATATACTTTTT-TAAACATTG
45233148 TACAAT-TACTT
1 TACAATATACTT
45233159 GATTATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.16
24 5 0.16
25 20 0.65
26 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (24 bp):
TACAATATACTTTTTTAAACATTG
Found at i:45238371 original size:29 final size:29
Alignment explanation
Indices: 45238316--45238372 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
45238306 TGGGCATTTC
* *
45238316 CACACGGGCCGGCCACACGCCCGTGTGCG
1 CACACAGGCCGGCCACACGCCCATGTGCG
* * *
45238345 CACACAGGCTGGCCACATGCCTATGTGC
1 CACACAGGCCGGCCACACGCCCATGTGC
45238373 CAGCCCGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.40, G:0.30, T:0.12
Consensus pattern (29 bp):
CACACAGGCCGGCCACACGCCCATGTGCG
Found at i:45240581 original size:47 final size:47
Alignment explanation
Indices: 45240435--45240610 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 47
45240425 GCAGATTATC
* * ** *
45240435 TGCTCGACCAGTGGTTTATCCACAATGTATTTTAGGCGGCAGTCACC
1 TGCTCGACCAATGGTTTATCCACAATGTATTTTAGTCAACAGTCACT
** * * * * *
45240482 TGCTTAACCAGTAGTTTATCCACAATGTATCTTAGTTAACAGTTA-T
1 TGCTCGACCAATGGTTTATCCACAATGTATTTTAGTCAACAGTCACT
*
45240528 CTGCTCGACCAATGGTTTATCCATAATGTATTTTAGTCAACAGTCACT
1 -TGCTCGACCAATGGTTTATCCACAATGTATTTTAGTCAACAGTCACT
* **
45240576 TGCTCGACTAAT-GTTATATCCACAACATATTTTAG
1 TGCTCGACCAATGGTT-TATCCACAATGTATTTTAG
45240611 CAGCTTTTAT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 3 0.03
47 100 0.96
48 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (47 bp):
TGCTCGACCAATGGTTTATCCACAATGTATTTTAGTCAACAGTCACT
Found at i:45240596 original size:94 final size:94
Alignment explanation
Indices: 45240430--45240600 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 94
45240420 ATTTGGCAGA
* ** * *
45240430 TTATCTGCTCGACCAGTGGTTTATCCACAATGTATTTTAGGCGGCAGTCACCTGCTTAACCAGTA
1 TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
45240495 GTTTATCCACAATGTATCTTAGTTAACAG
66 GTTTATCCACAATGTATCTTAGTTAACAG
* * * * *
45240524 TTATCTGCTCGACCAATGGTTTATCCATAATGTATTTTAGTCAACAGTCACTTGCTCGACTAAT-
1 TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
45240588 GTTATATCCACAA
66 GTT-TATCCACAA
45240601 CATATTTTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
93 3 0.05
94 63 0.95
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (94 bp):
TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
GTTTATCCACAATGTATCTTAGTTAACAG
Found at i:45241966 original size:21 final size:21
Alignment explanation
Indices: 45241929--45241971 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
45241919 CGTCTATCTT
45241929 TTTTATTTTCTTCTTTA-TTA
1 TTTTATTTTCTTCTTTACTTA
45241949 TTTTATTGTTCTAT-TTTACTTA
1 TTTTATT-TTCT-TCTTTACTTA
45241971 T
1 T
45241972 CTTAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTTCTTCTTTACTTA
Found at i:45244547 original size:28 final size:25
Alignment explanation
Indices: 45244501--45244554 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
45244491 TTGATTATTA
45244501 TTCAACTTTTTTTTAAGTTTTCCTTT
1 TTCAACTTTTTTTTAAGTTTT-CTTT
*
45244527 TTCAACTATTTTTCTTGAGTTTTCTTT
1 TTCAACT-TTTTT-TTAAGTTTTCTTT
45244554 T
1 T
45244555 AGAATAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
27 10 0.40
28 8 0.32
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (25 bp):
TTCAACTTTTTTTTAAGTTTTCTTT
Found at i:45245103 original size:16 final size:18
Alignment explanation
Indices: 45245077--45245113 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
45245067 TGTTTTCTAT
45245077 ATATATTTTTAATTTT-A
1 ATATATTTTTAATTTTGA
45245094 ATAT-TTTTTAATTTTGA
1 ATATATTTTTAATTTTGA
45245111 ATA
1 ATA
45245114 AACATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATATTTTTAATTTTGA
Found at i:45245423 original size:21 final size:21
Alignment explanation
Indices: 45245397--45245440 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45245387 TATCAATTAT
45245397 TTTTTTAAAT-CTATAAAAATA
1 TTTTTTAAATCCTA-AAAAATA
*
45245418 TTTTTTAATTCCTAAAAAATA
1 TTTTTTAAATCCTAAAAAATA
45245439 TT
1 TT
45245441 AAAGGTACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTTTAAATCCTAAAAAATA
Found at i:45256027 original size:6 final size:6
Alignment explanation
Indices: 45256009--45256048 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
45255999 AAGAAAAGGA
45256009 AAAAC- AAAGACT AAAACT AAAACT AAAACT AAAACT AAAA
1 AAAACT AAA-ACT AAAACT AAAACT AAAACT AAAACT AAAA
45256049 AAAAATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 3 0.09
6 27 0.82
7 3 0.09
ACGTcount: A:0.70, C:0.15, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAACT
Found at i:45260574 original size:53 final size:52
Alignment explanation
Indices: 45260516--45260666 Score: 116
Period size: 53 Copynumber: 3.1 Consensus size: 52
45260506 TTACATAAGC
*
45260516 AATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
* * *
45260569 AATGAA--CTTTA-TAAG---G--TAAA-TATAA-GT-A-ATTACA--TAAGA-
1 AATGAATGC-TTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTA-AT
*
45260608 AATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTTTAAT
1 AATGAATGCTTAGTAAGCTCGTATAAAC-TAAAACATAATATTACATTTTAAT
45260661 AATGAA
1 AATGAA
45260667 CTTTATAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 36
0.62 0.07 0.31
Matches are distributed among these distances:
39 8 0.11
40 4 0.06
41 10 0.14
42 1 0.01
43 1 0.01
44 5 0.07
46 8 0.11
48 5 0.07
49 1 0.01
50 1 0.01
51 10 0.14
52 4 0.06
53 14 0.19
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (52 bp):
AATGAATGCTTAGTAAGCTCGTATAAACTAAAACATAATATTACATTTTAAT
Found at i:45260643 original size:92 final size:92
Alignment explanation
Indices: 45260500--45260685 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
45260490 AAGTAAAGGA
* *
45260500 AAGTAATTACATAAGCAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTTCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
45260565 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
*
45260592 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACTTAAAACATAATATTCCATTT
1 AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
45260657 TAATAATGAACTTTATAAGGTAAATAT
66 TAATAATGAACTTTATAAGGTAAATAT
45260684 AA
1 AA
45260686 ACCTATACCA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (92 bp):
AAGTAATTACATAAGAAATGAATGCTTAGTAAGCTCGTATAAACGTAAAACATAATATTCCATTT
TAATAATGAACTTTATAAGGTAAATAT
Found at i:45261421 original size:6 final size:6
Alignment explanation
Indices: 45261412--45261449 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
45261402 AACCATAACC
45261412 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
45261450 ACATCGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:45270194 original size:22 final size:22
Alignment explanation
Indices: 45270169--45270222 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
45270159 ACATTTAGGG
45270169 CTTAATGTCGTGACACAAGACA
1 CTTAATGTCGTGACACAAGACA
45270191 CTTAATGTCGTGACACAAGACA
1 CTTAATGTCGTGACACAAGACA
*
45270213 CTTAGTGTCG
1 CTTAATGTCG
45270223 CGACTTCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (22 bp):
CTTAATGTCGTGACACAAGACA
Found at i:45270604 original size:13 final size:13
Alignment explanation
Indices: 45270586--45270611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45270576 GGGGTCACAC
45270586 GGCCGTGTGGTCA
1 GGCCGTGTGGTCA
45270599 GGCCGTGTGGTCA
1 GGCCGTGTGGTCA
45270612 AGCCATGTGA
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:0.08, C:0.23, G:0.46, T:0.23
Consensus pattern (13 bp):
GGCCGTGTGGTCA
Found at i:45271165 original size:18 final size:18
Alignment explanation
Indices: 45271144--45271181 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45271134 CCAAATATAC
45271144 ATTCTAAATCAATCATCA
1 ATTCTAAATCAATCATCA
45271162 ATTCTAAATCAATCATCA
1 ATTCTAAATCAATCATCA
45271180 AT
1 AT
45271182 ATACCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTCTAAATCAATCATCA
Found at i:45274947 original size:19 final size:19
Alignment explanation
Indices: 45274923--45274978 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
45274913 GTAGTAGAAA
45274923 TTTATTTTCTAGAATAAAT
1 TTTATTTTCTAGAATAAAT
*
45274942 TTTATTTTCTGGAATAAAT
1 TTTATTTTCTAGAATAAAT
*
45274961 TCTATTTTCTATGAATAA
1 TTTATTTTCTA-GAATAA
45274979 CAATTTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 27 0.82
20 6 0.18
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTATTTTCTAGAATAAAT
Found at i:45277163 original size:13 final size:13
Alignment explanation
Indices: 45277145--45277170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45277135 TCCAAAAAAA
45277145 TAATTAATTTAAC
1 TAATTAATTTAAC
45277158 TAATTAATTTAAC
1 TAATTAATTTAAC
45277171 CTAAACTAGA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATTTAAC
Found at i:45279168 original size:15 final size:15
Alignment explanation
Indices: 45279145--45279174 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45279135 ACGATAACAT
*
45279145 AGGTTAAGACCCATG
1 AGGTAAAGACCCATG
45279160 AGGTAAAGACCCATG
1 AGGTAAAGACCCATG
45279175 GTAGCTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (15 bp):
AGGTAAAGACCCATG
Found at i:45279324 original size:56 final size:56
Alignment explanation
Indices: 45279250--45279566 Score: 366
Period size: 56 Copynumber: 5.7 Consensus size: 56
45279240 ATCACAATAC
* * *
45279250 ATGAATGTATGTATGACCATGAGGTTAAAACCAATGGCAAGATCTAATATGAATAA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * * ** *
45279306 ATGAATATATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCCGATATGACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * *
45279362 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGAAAGATCTGATATGACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * * ** * ** *
45279418 ATGAATGTATGTAAAACCATGTGGTTAAGACCCATGGCATTATATGAA-ATGTTTAT
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCT-AATATGACTAA
* * * *
45279474 ATGAATGTATGTAAGACCCTGAGGTTAAAACCCATGGCAAGATCTTATATGTCTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
* * *
45279530 ATGAATATATGTAAGACCATGTGGTTAAGACCCATGG
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGG
45279567 AATTATATGA
Statistics
Matches: 219, Mismatches: 40, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
55 1 0.00
56 217 0.99
57 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (56 bp):
ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
Found at i:45279572 original size:112 final size:112
Alignment explanation
Indices: 45279250--45279593 Score: 467
Period size: 112 Copynumber: 3.1 Consensus size: 112
45279240 ATCACAATAC
* * * *
45279250 ATGAATGTATGTATGACCATGAGGTTAAAACCAATGGCAAGATCTAATATGAATAAATGAATATA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
* * * ** * * *
45279315 TGTAAGACCATGAGGTTAAGACCTATGGCAA-GATCCGATATGACTGA-
66 TGTAAGACCATGTGGTTAAGACCCATGG-AATTATATGAAATG-TTTAT
* * *
45279362 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGAAAGATCTGATATGACTGAATGAATGTA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
* *
45279427 TGTAAAACCATGTGGTTAAGACCCATGGCATTATATGAAATGTTTAT
66 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
* * *
45279474 ATGAATGTATGTAAGACCCTGAGGTTAAAACCCATGGCAAGATCTTATATGTCTGAATGAATATA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
*
45279539 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTGT
66 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
45279586 ATGAATGT
1 ATGAATGT
45279594 TCATGGCGTA
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
111 3 0.01
112 202 0.99
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (112 bp):
ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
Found at i:45281959 original size:22 final size:22
Alignment explanation
Indices: 45281916--45281960 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45281906 ATATTTTTGC
* ***
45281916 ATACTAATAAATTTTGTTATAT
1 ATACTAATAAAATTTAAAATAT
45281938 ATACTAATAAAATTTAAAATAT
1 ATACTAATAAAATTTAAAATAT
45281960 A
1 A
45281961 AAGGACCACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATACTAATAAAATTTAAAATAT
Found at i:45288789 original size:20 final size:20
Alignment explanation
Indices: 45288766--45288818 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
45288756 AAGGTAATAC
45288766 AAAAAAAATGAGGAAGTACA
1 AAAAAAAATGAGGAAGTACA
* * *
45288786 AAAAAAAATTAGAAAGTACC
1 AAAAAAAATGAGGAAGTACA
*
45288806 AAAAAATATGAGG
1 AAAAAAAATGAGG
45288819 GAATATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.64, C:0.06, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAAAAATGAGGAAGTACA
Found at i:45289286 original size:20 final size:20
Alignment explanation
Indices: 45289068--45289287 Score: 61
Period size: 20 Copynumber: 10.8 Consensus size: 20
45289058 AAAAATAGGT
* * *
45289068 ATACTAAAAAATATCAGGAA
1 ATACCAAAAATTATGAGGAA
* * * *
45289088 GTAACAAAAATTGTGAGGGA
1 ATACCAAAAATTATGAGGAA
** *
45289108 ATATAAAAAATTATGAGAAA
1 ATACCAAAAATTATGAGGAA
* ** **
45289128 ATACAAAAAAATATAAAAAAAA
1 ATAC-CAAAAAT-TATGAGGAA
* *
45289150 AGTGCCAAAAA-AATGAGGAA
1 A-TACCAAAAATTATGAGGAA
** *
45289170 CCACCAAAAATTTTGAGGAA
1 ATACCAAAAATTATGAGGAA
* * *
45289190 ATATCAAAAA-AAT-A-TAA
1 ATACCAAAAATTATGAGGAA
* *
45289207 GTACCAAAAAATTTTGAGGAA
1 ATACC-AAAAATTATGAGGAA
* * * *
45289228 GTATCAAAAATTATAAGGGA
1 ATACCAAAAATTATGAGGAA
* **
45289248 ATACAAAAAAAAACCATGAGGAA
1 ATAC---CAAAAATTATGAGGAA
45289271 ATACCAAAAATTATGAG
1 ATACCAAAAATTATGAG
45289288 ATAATACTAA
Statistics
Matches: 135, Mismatches: 54, Indels: 22
0.64 0.26 0.10
Matches are distributed among these distances:
17 5 0.04
18 6 0.04
19 9 0.07
20 73 0.54
21 13 0.10
22 12 0.09
23 17 0.13
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (20 bp):
ATACCAAAAATTATGAGGAA
Found at i:45289625 original size:20 final size:20
Alignment explanation
Indices: 45289593--45289707 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
45289583 AAGAAAGCAT
*
45289593 CAAAAACTATGAGGAAGTAC
1 CAAAAATTATGAGGAAGTAC
* *
45289613 CAAGATTTATGAGGAAGTAC
1 CAAAAATTATGAGGAAGTAC
* * * *
45289633 CAAAACTTACGAGGATGTAT
1 CAAAAATTATGAGGAAGTAC
*
45289653 CAAAAATTATGAGGAAATAC
1 CAAAAATTATGAGGAAGTAC
* * * **
45289673 CAAAAAATACGAAGAAAAAC
1 CAAAAATTATGAGGAAGTAC
45289693 C-AAAATTATGAGGAA
1 CAAAAATTATGAGGAA
45289708 TTTCCAAAAC
Statistics
Matches: 75, Mismatches: 20, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
19 11 0.15
20 64 0.85
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (20 bp):
CAAAAATTATGAGGAAGTAC
Found at i:45289637 original size:40 final size:41
Alignment explanation
Indices: 45289593--45289720 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 41
45289583 AAGAAAGCAT
* * * *
45289593 CAAAAAC-TATGAGGAAGTACCAAGATTTATGAGGAAGTAC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
* *
45289633 C-AAAACTTACGAGGATGTATCAAAAATTATGAGGAAATAC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
* * ** * *
45289673 CAAAAA-ATACGAAGAAAAACC-AAAATTATGAGGAATTTC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
45289712 C-AAAACTTA
1 CAAAAACTTA
45289721 GATGTATAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
38 4 0.06
39 24 0.34
40 38 0.54
41 4 0.06
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (41 bp):
CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
Found at i:45290013 original size:20 final size:21
Alignment explanation
Indices: 45289946--45290014 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
45289936 AATAAGGATT
*
45289946 TACCAAAAATTA-TA-AGAATG
1 TACCAAAAATTATTAGAGAA-C
* *
45289966 TACCAAAATTTATGAG-GAAC
1 TACCAAAAATTATTAGAGAAC
*
45289986 TACAAAAAATTATTAGAGAA-
1 TACCAAAAATTATTAGAGAAC
45290006 TACCAAAAA
1 TACCAAAAA
45290015 ATAGGAAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 32 0.82
21 7 0.18
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
TACCAAAAATTATTAGAGAAC
Found at i:45290356 original size:9 final size:9
Alignment explanation
Indices: 45290334--45290381 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
45290324 TGGTTAAAAA
45290334 TTAACCGA-
1 TTAACCGAT
45290342 TTAACCGAT
1 TTAACCGAT
45290351 TTAACCGAT
1 TTAACCGAT
45290360 TTAACCGAT
1 TTAACCGAT
45290369 TTAACCGAT
1 TTAACCGAT
45290378 TTAA
1 TTAA
45290382 ATCACTACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
8 8 0.21
9 31 0.79
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (9 bp):
TTAACCGAT
Found at i:45290466 original size:20 final size:20
Alignment explanation
Indices: 45290404--45290467 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
45290394 TTAAAAAAAT
45290404 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
* ** * *
45290424 TATATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
45290441 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
45290461 TACATAA
1 TACATAA
45290468 TTAAAAACAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 12 0.39
20 19 0.61
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:45290483 original size:17 final size:17
Alignment explanation
Indices: 45290427--45290521 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 17
45290417 GAATCACTAT
45290427 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
** * *
45290444 ATAAGTCTTTGAATCACTAC
1 ATAA---TTAAAAACATTAC
45290464 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
* * * *
45290481 ATAAGCCTTTAAATCACTAT
1 ATAA---TTAAAAACATTAC
45290501 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
45290518 ATAA
1 ATAA
45290522 GTCTTAAAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 30 0.54
20 26 0.46
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAATTAAAAACATTAC
Found at i:45290530 original size:20 final size:19
Alignment explanation
Indices: 45290431--45290530 Score: 73
Period size: 20 Copynumber: 5.3 Consensus size: 19
45290421 CACTATATAA
45290431 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAG-C
** * *
45290451 TTTGAATCACTACATAA--
1 TTAAAAACATTACATAAGC
45290468 TTAAAAACATTACATAAGCC
1 TTAAAAACATTACATAAG-C
* * * *
45290488 TTTAAATCACTATATAA--
1 TTAAAAACATTACATAAGC
45290505 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAG-C
45290525 TTAAAA
1 TTAAAA
45290531 TTAACACATA
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 26 0.45
20 32 0.55
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (19 bp):
TTAAAAACATTACATAAGC
Found at i:45290542 original size:37 final size:37
Alignment explanation
Indices: 45290377--45290548 Score: 247
Period size: 37 Copynumber: 4.6 Consensus size: 37
45290367 ATTTAACCGA
*
45290377 TTTAAATCACTACATAATTAAAAAAATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* *
45290414 TTTGAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* *
45290451 TTTGAATCACTACATAATTAAAAACATTACATAAGCC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
*
45290488 TTTAAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* * *
45290525 TTAAAATTAAC-ACATAATTGAAAA
1 TTTAAA-TCACTACATAATTAAAAA
45290549 GTAAGTCTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 119 0.98
38 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (37 bp):
TTTAAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:45293783 original size:21 final size:21
Alignment explanation
Indices: 45293759--45293802 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45293749 AATGTCCAAG
45293759 TTGAAAAG-TAAAATAAAAAGT
1 TTGAAAAGCT-AAATAAAAAGT
*
45293780 TTGAACAGCTAAATAAAAAGT
1 TTGAAAAGCTAAATAAAAAGT
45293801 TT
1 TT
45293803 CAATCTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (21 bp):
TTGAAAAGCTAAATAAAAAGT
Found at i:45294172 original size:13 final size:13
Alignment explanation
Indices: 45294154--45294178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45294144 GTTGGTAAAT
45294154 GGTAATTGGGTTG
1 GGTAATTGGGTTG
45294167 GGTAATTGGGTT
1 GGTAATTGGGTT
45294179 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:45300702 original size:60 final size:60
Alignment explanation
Indices: 45300624--45300736 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
45300614 ATTTTTGGTC
* * **
45300624 CAATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGGTATTTAATCTTTTTGGGAGTT
1 CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTTGGGAGTT
* * * *
45300684 CAATTTGGTACTTGAACTTAACTCTTTTTCCTAATTTGGTACCTAATCTTTTT
1 CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTT
45300737 TTTGTTCGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (60 bp):
CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTTGGGAGTT
Found at i:45301240 original size:61 final size:62
Alignment explanation
Indices: 45301116--45301290 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 62
45301106 TTGAACCTAA
* * * ** *
45301116 AAAAAAAGCTTAGGTGCC-AAGTA-GAAAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
*
45301176 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAATTTCAAGTACCAAATTGAG-CC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
* * ** *
45301237 AAAAAAAGGTTTAGGTACTAATTTAGG--AAAAAGTGTCAAGTTCAAGTATCAAAT
1 AAAAAAA-GTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAAT
45301291 GTTATATTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
60 39 0.39
61 13 0.13
62 47 0.47
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (62 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
Found at i:45301241 original size:33 final size:33
Alignment explanation
Indices: 45301141--45301244 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
45301131 GCCAAGTAGA
* * *
45301141 AAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAA-GTCAATTTCAAGTACCAAATTGAG-CC
* **
45301176 AAAAAAAG----TTT-AGGTACCAAATT-AGGAA
1 AAAAAAAGTCAATTTCAAGTACCAAATTGA-GCC
45301204 AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
1 AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
45301237 AAAAAAAG
1 AAAAAAAG
45301245 GTTTAGGTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
28 8 0.15
29 12 0.23
30 2 0.04
32 3 0.06
33 20 0.38
34 1 0.02
35 7 0.13
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.20
Consensus pattern (33 bp):
AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
Found at i:45301281 original size:60 final size:61
Alignment explanation
Indices: 45301116--45301290 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 61
45301106 TTGAACCTAA
* * * * *
45301116 AAAAAAAGCTTAGGTGCC-AAGTA-GAAAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAA-GTCAAGTTCAAGTACCAAATTGAGCCC
*
45301176 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAATTTCAAGTACCAAATTGAG-CC
1 AAAAAAAGTTTAGGTACCAAATTAGG-AAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
* * ** *
45301237 AAAAAAAGGTTTAGGTACTAATTTAGG-AAAAAGTGTCAAGTTCAAGTATCAAAT
1 AAAAAAA-GTTTAGGTACCAAATTAGGAAAAAAAAGTCAAGTTCAAGTACCAAAT
45301291 GTTATATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
60 39 0.39
61 13 0.13
62 39 0.39
63 8 0.08
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
Found at i:45302017 original size:12 final size:13
Alignment explanation
Indices: 45301985--45302009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45301975 TAAAAGAGAT
45301985 ATTAATTAAAAAG
1 ATTAATTAAAAAG
45301998 ATTAATTAAAAA
1 ATTAATTAAAAA
45302010 ATATATTATT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:45311299 original size:20 final size:20
Alignment explanation
Indices: 45311256--45311302 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45311246 ATCTCTCTCA
45311256 CAAAAAAATTTTAAAAAAAT
1 CAAAAAAATTTTAAAAAAAT
* * *
45311276 -AAAATAATTTTTAAAAATT
1 CAAAAAAATTTTAAAAAAAT
45311295 CAAAAAAA
1 CAAAAAAA
45311303 AATTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
CAAAAAAATTTTAAAAAAAT
Found at i:45313360 original size:29 final size:29
Alignment explanation
Indices: 45313327--45313386 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
45313317 GTTTATCTAC
45313327 AAGATAA-TCATTAAATTAAATTTAATATT
1 AAGATAAGT-ATTAAATTAAATTTAATATT
45313356 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAGTATTAAATTAAATTTAATATT
45313385 AA
1 AA
45313387 AATATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
AAGATAAGTATTAAATTAAATTTAATATT
Found at i:45315796 original size:20 final size:20
Alignment explanation
Indices: 45315771--45315810 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45315761 CGTAAAATGA
*
45315771 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45315791 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45315811 AGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45315800 original size:34 final size:35
Alignment explanation
Indices: 45315756--45315822 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45315746 TAGTAAAATA
* *
45315756 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
45315790 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
45315823 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:45315924 original size:20 final size:20
Alignment explanation
Indices: 45315899--45315951 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
45315889 CGAAAAAGTT
45315899 ATTTTTACATATATT-AATGA
1 ATTTTTACATATATTAAAT-A
* *
45315919 ATTTTT--ATATTTTAAATT
1 ATTTTTACATATATTAAATA
45315937 ATTTTTACATATATT
1 ATTTTTACATATATT
45315952 GCAATGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTACATATATTAAATA
Found at i:45317750 original size:9 final size:9
Alignment explanation
Indices: 45317716--45317765 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
45317706 TTTGTTTAAG
45317716 TTATATATAA
1 TTAT-TATAA
*
45317726 ATATTAT-A
1 TTATTATAA
45317734 TGTA-TATAA
1 T-TATTATAA
45317743 TTATTATAA
1 TTATTATAA
45317752 TTATTATAA
1 TTATTATAA
45317761 TTATT
1 TTATT
45317766 TATTCAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 6 0.17
9 26 0.74
10 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATTATAA
Found at i:45318122 original size:19 final size:19
Alignment explanation
Indices: 45318080--45318122 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
45318070 TAAATAAAAT
*
45318080 AAAATGAAATAAAAGAAGG
1 AAAATGAAATAAAAGAAAG
*
45318099 CAAATGAAATAAAAGAAAG
1 AAAATGAAATAAAAGAAAG
45318118 AAAAT
1 AAAAT
45318123 AGGCAAGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATGAAATAAAAGAAAG
Found at i:45318859 original size:3 final size:3
Alignment explanation
Indices: 45318839--45318888 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
45318829 GTGAGGTAAG
* *
45318839 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45318887 TA
1 TA
45318889 GTGGGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45319288 original size:37 final size:38
Alignment explanation
Indices: 45319188--45319297 Score: 87
Period size: 37 Copynumber: 2.8 Consensus size: 38
45319178 GACCTCGAGT
* **
45319188 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGAGC
** ** * *
45319229 CGATGAGGTACTGGGTACCAACTTTCTTCGGCTTG-GC
1 CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGAGC
45319266 CGATGAGACACTGGGTGTCAACTATTGCTTCG
1 CGATGAGACACTGGGTGTCAACT-TT-CTTCG
45319298 AACTATCCGA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 13 0.24
39 6 0.11
41 16 0.30
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGAGC
Found at i:45321721 original size:44 final size:44
Alignment explanation
Indices: 45321658--45321748 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
45321648 GTAGGTCAAA
* *
45321658 TAATATTAAAATAACCTACACTAATTAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
* *
45321702 TAATATTAAAATAACCTACAATAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
45321746 TAA
1 TAA
45321749 AAATAAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
Found at i:45324017 original size:19 final size:20
Alignment explanation
Indices: 45323976--45324019 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
45323966 CCTTTCTTTA
*
45323976 TTTCTTTGTATTTTTTCTTC
1 TTTCTTTGTATTTTTTCTCC
45323996 TTTCTTTG-ATTTTGTT-TCC
1 TTTCTTTGTATTTT-TTCTCC
45324015 TTTCT
1 TTTCT
45324020 CTCTGTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTCTTTGTATTTTTTCTCC
Found at i:45324511 original size:52 final size:51
Alignment explanation
Indices: 45324431--45324540 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 51
45324421 AATAGTATGT
* *
45324431 TTTTTTTAATCGCTTCTATCTGATAGGCGCAAATTAATTTTTTATATTAAAA
1 TTTTTTTAATCGCTTCTATCTGACAGGCGCAAATCAATTTTTTATATT-AAA
* * *
45324483 TTTTTTTAATTGCGTT-TATTTGACAGGCGCGAATCAATTTTTTATATTAAA
1 TTTTTTTAATCGC-TTCTATCTGACAGGCGCAAATCAATTTTTTATATTAAA
45324534 TTTTTTT
1 TTTTTTT
45324541 CGTTTAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 10 0.19
52 40 0.77
53 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (51 bp):
TTTTTTTAATCGCTTCTATCTGACAGGCGCAAATCAATTTTTTATATTAAA
Found at i:45324699 original size:15 final size:15
Alignment explanation
Indices: 45324679--45324718 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
45324669 AAAAAATCAA
*
45324679 ATAAAATTACATTTT
1 ATAAAATTACATTAT
45324694 ATAAAAATTACATTAT
1 AT-AAAATTACATTAT
45324710 ATAAAATTA
1 ATAAAATTA
45324719 TCAATATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:45325061 original size:39 final size:39
Alignment explanation
Indices: 45324997--45325162 Score: 241
Period size: 39 Copynumber: 4.3 Consensus size: 39
45324987 GATATCCAAG
*
45324997 TTGATAT-AAAAAAATTAAATAAGTTAACAGCAACTATA
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
* *
45325035 TTGATATAAAAAAAATTAAATGAGTTAACAACAACTATG
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
*
45325074 TTGATATAAAAATAAA-TAAATGAGTTAACAGCAACTATG
1 TTGATATAAAAA-AAATTAAATGAGTTAACAGCAACTATA
* *
45325113 TTGATATAAAAAAAATTAAATGAGTTAATAGCAATTATA
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
45325152 -TGAT-TAAAAAA
1 TTGATATAAAAAA
45325163 GCTAGTTATG
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
37 7 0.06
38 14 0.12
39 94 0.80
40 3 0.03
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (39 bp):
TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
Found at i:45325307 original size:60 final size:60
Alignment explanation
Indices: 45325243--45325361 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
45325233 ATACTAAATT
* * *
45325243 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
45325303 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
45325362 TAAAAAACAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:45325398 original size:60 final size:60
Alignment explanation
Indices: 45325257--45325399 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 60
45325247 ACAATAATTT
* * * * * * ***
45325257 ATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACACAAAAATTT
1 ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTAAAAAAACAAAAAAAA
* *
45325317 ATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAA
1 ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTA-AAAAAACAAAAAAAA
*
45325378 AT-ACATGCATAC-AAAATACTAA
1 ATAACAT-AATACTAAAATACTAA
45325400 TCCAAAATGA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
60 56 0.79
61 15 0.21
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (60 bp):
ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTAAAAAAACAAAAAAAA
Found at i:45325527 original size:50 final size:51
Alignment explanation
Indices: 45325452--45325562 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 51
45325442 TATTAAACAA
* **
45325452 AAAAAAAATTTAATATAAAAAATTGATT-CGCCTGTGAGATAGGCGGGATT
1 AAAAAAAATTTAATATAAAAAATTGATTCCGCCTGTCAGATAGGCGCAATT
* *
45325502 AAAAAAATTTTAATATAAAAAATTGATTCGCGCCTGTCAGATATGCGCAATT
1 AAAAAAAATTTAATATAAAAAATTGATTC-CGCCTGTCAGATAGGCGCAATT
45325554 AAAAAAAAT
1 AAAAAAAAT
45325563 ACCATTTCGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 27 0.51
52 26 0.49
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (51 bp):
AAAAAAAATTTAATATAAAAAATTGATTCCGCCTGTCAGATAGGCGCAATT
Found at i:45328156 original size:112 final size:113
Alignment explanation
Indices: 45328028--45328240 Score: 367
Period size: 113 Copynumber: 1.9 Consensus size: 113
45328018 GAAAAAAAAA
45328028 TTTTGGGTGCTGGCCTGTCAATGGCCGGCA-CCCAGTACACAGTACAAAAATT-TTTTTATTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCA-TACACAGTACAAAAATTATTTTTATTTTT
45328091 TTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
65 TTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
* **
45328140 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACAGAGTACAAATTTTATTTTTATTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACACAGTACAAAAATTATTTTTATTTTTT
*
45328205 TCGTGTCAGAATCAGATTTAAAAATACGAAAAAAAT
66 TCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT
45328241 GTAATGTGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 44 0.46
113 51 0.54
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (113 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACACAGTACAAAAATTATTTTTATTTTTT
TCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
Found at i:45328380 original size:111 final size:108
Alignment explanation
Indices: 45328240--45328525 Score: 421
Period size: 111 Copynumber: 2.6 Consensus size: 108
45328230 ACGAAAAAAA
*
45328240 TGTAATGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAAATTTTTTTC
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT-AAATTTTTTTC
*
45328305 GTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAATTTTTT
65 ATATTTTTATATCTGATTCTGACACG-AAAAAAAT-AAAATTTTTT
*
45328351 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTTAAATTTTTT
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA---TTTTTTTTAAATTTTTT
*
45328416 TCATATTTTTATATCTGATTCTGACATGAAAAAAATAAAATTTTTT
63 TCATATTTTTATATCTGATTCTGACACGAAAAAAATAAAATTTTTT
* * * * *
45328462 TGTACTGTATATTGGGTGTCGGCCATTGATAGGCCATCACCCAAAATTTTTTTT-AATTTTTTTC
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTAAATTTTTTTC
45328526 TTTTTCGTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
108 10 0.06
109 8 0.05
111 89 0.55
112 11 0.07
113 35 0.22
114 8 0.05
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (108 bp):
TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAATTTTTTTCA
TATTTTTATATCTGATTCTGACACGAAAAAAATAAAATTTTTT
Found at i:45328999 original size:17 final size:17
Alignment explanation
Indices: 45328974--45329016 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
45328964 GCCACGCGGC
45328974 ATATATAAAATTTAAAA
1 ATATATAAAATTTAAAA
* *
45328991 ATTTATAAAATTTTAAA
1 ATATATAAAATTTAAAA
45329008 ATATATAAA
1 ATATATAAA
45329017 TTAATTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATAAAATTTAAAA
Found at i:45329002 original size:9 final size:9
Alignment explanation
Indices: 45328977--45329016 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
45328967 ACGCGGCATA
45328977 TATAAAATT
1 TATAAAATT
45328986 TA-AAAATT
1 TATAAAATT
45328994 TATAAAATT
1 TATAAAATT
*
45329003 T-TAAAATA
1 TATAAAATT
45329011 TATAAA
1 TATAAA
45329017 TTAATTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TATAAAATT
Found at i:45342235 original size:20 final size:20
Alignment explanation
Indices: 45342210--45342249 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45342200 GACCTATCTT
45342210 TTGCTTCA-TCATTCTTGTTC
1 TTGCTTCAGTCA-TCTTGTTC
*
45342230 TTGCTTGAGTCATCTTGTTC
1 TTGCTTCAGTCATCTTGTTC
45342250 CTTCCTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.53
Consensus pattern (20 bp):
TTGCTTCAGTCATCTTGTTC
Found at i:45346110 original size:23 final size:22
Alignment explanation
Indices: 45346067--45346110 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
45346057 TTTCAAGTCA
45346067 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
45346090 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
45346111 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:45346342 original size:51 final size:52
Alignment explanation
Indices: 45346274--45346470 Score: 206
Period size: 51 Copynumber: 3.9 Consensus size: 52
45346264 ATTAATTATA
* * * * *
45346274 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
45346325 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCAGCTAT
* * * * * * *
45346376 CCGGTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-T-ATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
45346426 CTGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
45346471 AACTTTCAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
50 42 0.35
51 75 0.63
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (52 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
Found at i:45346461 original size:101 final size:101
Alignment explanation
Indices: 45346282--45346466 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
45346272 TACCGGTTCA
* *
45346282 CATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTGCA
*
45346347 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGCACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
45346384 CATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTGCA
45346448 CATAGCACTACACACGTGA
65 CATAGCACTACACACGTGA
45346467 CCATAACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 42 0.57
102 31 0.42
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:45346489 original size:101 final size:101
Alignment explanation
Indices: 45346277--45346504 Score: 262
Period size: 101 Copynumber: 2.2 Consensus size: 101
45346267 AATTATACCG
* *
45346277 GTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
* * * **
45346342 CTGCACATAGTACTACACACGTGATCGAAGCTATCCG
65 CTGCACATAGCACTACACACGTGATCCAAACTATCAA
* * * * * * *
45346379 GTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGC
*
45346443 CTGCACATAGCACTACACACGTGA-CCATAACTTTCAA
65 CTGCACATAGCACTACACACGTGATCCA-AACTATCAA
* *
45346480 TTTCACATAGTGGCCTACACATAGT
1 GTTCACATAGTAGCCTACACATAGT
45346505 TCATGCCACA
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
100 3 0.03
101 66 0.64
102 34 0.33
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGCACTACACACGTGATCCAAACTATCAA
Found at i:45350554 original size:39 final size:39
Alignment explanation
Indices: 45350500--45350582 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
45350490 AGGCATATAC
45350500 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
45350539 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
45350578 TAAAA
1 TAAAA
45350583 ATAGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.20
Consensus pattern (39 bp):
TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
Found at i:45359617 original size:28 final size:28
Alignment explanation
Indices: 45359586--45359639 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
45359576 CCTTTGTTAT
45359586 ATGTAAAGGACACAAATTCCTTAGCTAC
1 ATGTAAAGGACACAAATTCCTTAGCTAC
45359614 ATGTAAAGGACACAAATTCCTTAGCT
1 ATGTAAAGGACACAAATTCCTTAGCT
45359640 TAGATTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (28 bp):
ATGTAAAGGACACAAATTCCTTAGCTAC
Found at i:45366350 original size:29 final size:29
Alignment explanation
Indices: 45366308--45366367 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
45366298 AAACCCGATT
45366308 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
45366337 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
45366366 TA
1 TA
45366368 CACTTTCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (29 bp):
TAGCTACAATTAAATATCATACATATTCA
Found at i:45368395 original size:13 final size:14
Alignment explanation
Indices: 45368377--45368408 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
45368367 TCTAAATCCT
45368377 TTGATTGAA-AATC
1 TTGATTGAAGAATC
45368390 TTGATTGAAGAATC
1 TTGATTGAAGAATC
45368404 TTGAT
1 TTGAT
45368409 AAATTTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (14 bp):
TTGATTGAAGAATC
Found at i:45377378 original size:104 final size:105
Alignment explanation
Indices: 45377194--45377400 Score: 335
Period size: 104 Copynumber: 2.0 Consensus size: 105
45377184 TCACTCATCT
* * *
45377194 CCATAAACAATCTGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTATTGAATTGGCCCATTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
* * *
45377259 TGAAGCATCAGGAACATGACTGGGTTTAGCTTGAATTGGC
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
* *
45377299 CCATAAACAATCGGAGGTGAAGGTGA-GATCCTTAGTTGGTATTCTACTGAATTGGCCCACTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
45377363 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
45377401 TTGTGCCTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 69 0.73
105 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (105 bp):
CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
Found at i:45380836 original size:31 final size:32
Alignment explanation
Indices: 45380798--45380859 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
45380788 TTTTAAAGTA
45380798 TATTGG-AAAAAATATCAAGACTATTAGGGCC
1 TATTGGAAAAAAATATCAAGACTATTAGGGCC
*
45380829 TATTGGAAAAAAAATATGAAGACTATTAGGG
1 TATTGG-AAAAAAATATCAAGACTATTAGGG
45380860 ACTACTGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 6 0.21
33 22 0.79
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (32 bp):
TATTGGAAAAAAATATCAAGACTATTAGGGCC
Found at i:45390871 original size:21 final size:19
Alignment explanation
Indices: 45390847--45390894 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
45390837 TAAATCTCTC
45390847 ACATAATCAAGTATATATAGA
1 ACATAATCAAGTA-ATATA-A
*
45390868 ACATTATATCAAGTAGTATAA
1 ACA-TA-ATCAAGTAATATAA
45390889 ACATAA
1 ACATAA
45390895 GTCATTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 7 0.29
22 6 0.25
23 8 0.33
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.29
Consensus pattern (19 bp):
ACATAATCAAGTAATATAA
Found at i:45391118 original size:22 final size:22
Alignment explanation
Indices: 45391078--45391359 Score: 171
Period size: 22 Copynumber: 12.8 Consensus size: 22
45391068 ACACCACACT
* *
45391078 AGTAGGCGCTGAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
45391100 AGTGGGCACCGTAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* **
45391122 AATAGGCACCGAAAAGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * **
45391144 GGTAGGCACCAAAGTTTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
* **
45391166 AGTAGGCACTGTAA-TGCAAAAA
1 AGTAGGCACCG-AAGTGCAAATC
*
45391188 AGTAGGCACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
45391210 AGTAGGCACTGTAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* * *
45391232 AATAGGCACCAAAGTGTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
*
45391254 AGTAGGC-CCCATAGTGCAAAGT-
1 AGTAGGCACCGA-AGTGCAAA-TC
* * * *
45391276 ACTAGGCATCGATGTGCAAATT
1 AGTAGGCACCGAAGTGCAAATC
* *
45391298 AGTAGGCACCGAAATGTAAAGT-
1 AGTAGGCACCGAAGTGCAAA-TC
* *
45391320 AGTATGCACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* *
45391342 AGTAGGCACTGAATTGCA
1 AGTAGGCACCGAAGTGCA
45391360 GAACAATATA
Statistics
Matches: 191, Mismatches: 58, Indels: 22
0.70 0.21 0.08
Matches are distributed among these distances:
21 11 0.06
22 170 0.89
23 10 0.05
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCAAATC
Found at i:45391272 original size:88 final size:88
Alignment explanation
Indices: 45391146--45391350 Score: 214
Period size: 88 Copynumber: 2.3 Consensus size: 88
45391136 AGCAAATCGG
* ** *
45391146 TAGGCACCAAAGTTTAGAATAGTAGGCACTGTAATGCAAAAAAGTAGGCACCAAAGTGCAAATCA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
45391211 GTAGGCACTGTAGTGCAAAGCAA
66 GTAGGCACTGTAGTGCAAAGCAA
* * ** * * * *
45391234 TAGGCACCAAAGTGTAGAATAGTAGGCCCCATAGTGCAAAGTACTAGGCATCGATGTGCAAATTA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
* * * * * *
45391299 GTAGGCACCGAAATGTAAAGTAG
66 GTAGGCACTGTAGTGCAAAGCAA
* *
45391322 TATGCACCAAAGTGCA-AATCAGTAGGCAC
1 TAGGCACCAAAGTGTAGAAT-AGTAGGCAC
45391351 TGAATTGCAG
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
87 3 0.03
88 92 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (88 bp):
TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
GTAGGCACTGTAGTGCAAAGCAA
Found at i:45392716 original size:30 final size:30
Alignment explanation
Indices: 45392682--45392844 Score: 120
Period size: 30 Copynumber: 5.3 Consensus size: 30
45392672 TAAAGTTAAT
45392682 TACATAATATAAATAGTAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
*
45392712 TACATGATATAAACT-GTAATATACATAACA
1 TACATAATATAAA-TAGTAATATACATAACA
* * * *
45392742 TACATGATATAAACAATAAAATACAT-ACA
1 TACATAATATAAATAGTAATATACATAACA
* * *
45392771 TGACATCCATACATAATA-TAA-AGAACAATATACA
1 T-ACAT-AATATA-AATAGTAATA-TAC-ATA-ACA
* * *
45392805 TAACAT-ATATAAACAGTAATGTACCTAACA
1 T-ACATAATATAAATAGTAATATACATAACA
45392835 TACATAATAT
1 TACATAATAT
45392845 CCATACTATT
Statistics
Matches: 107, Mismatches: 14, Indels: 24
0.74 0.10 0.17
Matches are distributed among these distances:
29 8 0.07
30 62 0.58
31 15 0.14
32 14 0.13
34 8 0.07
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (30 bp):
TACATAATATAAATAGTAATATACATAACA
Found at i:45392862 original size:25 final size:25
Alignment explanation
Indices: 45392834--45392882 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45392824 TGTACCTAAC
** *
45392834 ATACATAATATCCATACTATTATAA
1 ATACATAATAGACATACTAATATAA
45392859 ATACATAATAGACATACTAATATA
1 ATACATAATAGACATACTAATATA
45392883 TCAATTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (25 bp):
ATACATAATAGACATACTAATATAA
Found at i:45399887 original size:18 final size:18
Alignment explanation
Indices: 45399864--45399901 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45399854 TAATCGATTG
45399864 AACCAAACAACTTCAGTT
1 AACCAAACAACTTCAGTT
*
45399882 AACCAAACAACTTTAGTT
1 AACCAAACAACTTCAGTT
45399900 AA
1 AA
45399902 TCGGTCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (18 bp):
AACCAAACAACTTCAGTT
Found at i:45400149 original size:14 final size:14
Alignment explanation
Indices: 45400130--45400164 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45400120 AAAAATCTGC
*
45400130 AACCCATTAACCCT
1 AACCCAATAACCCT
*
45400144 AACCCAATAACCTT
1 AACCCAATAACCCT
45400158 AACCCAA
1 AACCCAA
45400165 CTCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCAATAACCCT
Found at i:45401543 original size:13 final size:13
Alignment explanation
Indices: 45401525--45401549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45401515 TAAGATAAAT
45401525 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
45401538 TTGCTTGTGTTT
1 TTGCTTGTGTTT
45401550 TAGATCCTAT
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:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:45402303 original size:19 final size:20
Alignment explanation
Indices: 45402270--45402312 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
45402260 AAAGACTTAA
45402270 AATTTCAGTTAATTTTGGAT
1 AATTTCAGTTAATTTTGGAT
* *
45402290 AATTT-AGTTGATTTTGGTT
1 AATTTCAGTTAATTTTGGAT
45402309 AATT
1 AATT
45402313 CGGTTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (20 bp):
AATTTCAGTTAATTTTGGAT
Found at i:45402718 original size:4 final size:4
Alignment explanation
Indices: 45402709--45402738 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
45402699 TAAAAATTGC
45402709 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
45402739 AACAGCGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:45409239 original size:40 final size:40
Alignment explanation
Indices: 45409202--45409387 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
45409192 GCTACTCGTT
* *
45409202 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45409242 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
45409282 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
45409322 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
45409363 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
45409388 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45415788 original size:22 final size:22
Alignment explanation
Indices: 45415760--45415817 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
45415750 GAGAGACAGC
45415760 TTCAGTGTTGCGACACCATGGG
1 TTCAGTGTTGCGACACCATGGG
*
45415782 TTCAGTGTTGCGACACCATTGG
1 TTCAGTGTTGCGACACCATGGG
*
45415804 TTTAGTGTTGCGAC
1 TTCAGTGTTGCGAC
45415818 CTGGAGGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (22 bp):
TTCAGTGTTGCGACACCATGGG
Found at i:45416926 original size:12 final size:13
Alignment explanation
Indices: 45416901--45416934 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
45416891 AAATCTAACT
45416901 TTTTTAAAATATA
1 TTTTTAAAATATA
45416914 TTTTTCAAAATAT-
1 TTTTT-AAAATATA
45416927 TTTTTAAA
1 TTTTTAAA
45416935 GGAAACGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 10 0.50
14 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:45419609 original size:41 final size:40
Alignment explanation
Indices: 45419517--45419652 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 40
45419507 AAGCTAAATT
* *
45419517 CATTAGCGGCGCTTAGACAAAAGCGCCAC-TAAAGCCCGAG
1 CATTAGCGGCGCATAGACAAAA-CGCCACTTAAGGCCCGAG
* *
45419557 CAATAGTGGCGCATAGACATAAACGCCACTTAAGGCCCGAG
1 CATTAGCGGCGCATAGACA-AAACGCCACTTAAGGCCCGAG
* * * * *
45419598 CATTAGCGGCGCTTA-ACTAAAAACGCCGCTAAAGGTCCGAC
1 CATTAGCGGCGCATAGAC--AAAACGCCACTTAAGGCCCGAG
*
45419639 CATTAGCGTCGCAT
1 CATTAGCGGCGCAT
45419653 CCGTAAAAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 24 0.30
41 54 0.68
42 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.16
Consensus pattern (40 bp):
CATTAGCGGCGCATAGACAAAACGCCACTTAAGGCCCGAG
Found at i:45419764 original size:40 final size:40
Alignment explanation
Indices: 45419717--45419812 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
45419707 GATTCCTATT
* * * * *
45419717 TTTAGCGGCGGTTTTGGAAATACGCCGCTGATGTTCGATC
1 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
*
45419757 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATT
1 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
*
45419797 TTTAGTGGCGCTTTTG
1 TTTAGCGGCGCTTTTG
45419813 TTCCAAACGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
Found at i:45421896 original size:24 final size:24
Alignment explanation
Indices: 45421868--45421919 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45421858 TTAGTAAGTC
* *
45421868 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
45421892 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
45421916 AAAT
1 AAAT
45421920 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:45427050 original size:18 final size:18
Alignment explanation
Indices: 45427004--45427050 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
45426994 TACATTTCTC
45427004 TATATATCTTTTTAATTTT
1 TATATA-CTTTTTAATTTT
45427023 TCATA-A-TTTTTAATTTT
1 T-ATATACTTTTTAATTTT
45427040 TATATACTTTT
1 TATATACTTTT
45427051 GACTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 4 0.16
19 2 0.08
20 3 0.12
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATACTTTTTAATTTT
Found at i:45429770 original size:45 final size:45
Alignment explanation
Indices: 45429683--45429783 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
45429673 ATCTGTATTA
* * * * * * *
45429683 TTTTGTTGTGTACCCACAGCCCTAGGTAGATTCTATCTGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
*
45429728 TTTTGTTGTGTACTCACAACCATAAGCAAATTCCATCCGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
*
45429773 TTTTGCTGTGT
1 TTTTGTTGTGT
45429784 GTCCACAGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (45 bp):
TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
Found at i:45431342 original size:28 final size:28
Alignment explanation
Indices: 45431279--45431486 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
45431269 ATATTAAGTC
* * *
45431279 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
45431306 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
45431334 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
45431361 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
45431389 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
45431417 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
45431445 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
45431472 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45431487 GCACAATTTA
Statistics
Matches: 175, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 66 0.38
28 109 0.62
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:45431363 original size:55 final size:55
Alignment explanation
Indices: 45431279--45431486 Score: 362
Period size: 55 Copynumber: 3.8 Consensus size: 55
45431269 ATATTAAGTC
* * * *
45431279 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
45431334 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
45431389 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
*
45431445 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
45431487 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
55 92 0.63
56 55 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:45431475 original size:111 final size:110
Alignment explanation
Indices: 45431279--45431486 Score: 362
Period size: 111 Copynumber: 1.9 Consensus size: 110
45431269 ATATTAAGTC
*
45431279 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
45431344 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* * *
45431389 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
45431454 AGTGCTACATAGTCAATTCGCACACTTAGTGCT
65 AGTGCTACATAGTCAACTCGCACACTTAGTGCT
45431487 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 20 0.22
111 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Done.