Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 101 of 190
Found at i:30641457 original size:9 final size:9
Alignment explanation
Indices: 30641438--30641474 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30641428 TGAGTTTTCG
*
30641438 AATTTGAAT
1 AATTCGAAT
*
30641447 AACTCGAAT
1 AATTCGAAT
30641456 AATTCGAAT
1 AATTCGAAT
30641465 AATTCGAAT
1 AATTCGAAT
30641474 A
1 A
30641475 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30642455 original size:5 final size:5
Alignment explanation
Indices: 30642445--30642470 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30642435 CTCGAAAATT
30642445 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30642471 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30643674 original size:16 final size:16
Alignment explanation
Indices: 30643649--30643686 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
30643639 AATCGAATGC
30643649 AAAAATT-AAATTAAA
1 AAAAATTAAAATTAAA
30643664 AAAATATTAAAATTAAA
1 AAAA-ATTAAAATTAAA
30643681 ATAAAA
1 A-AAAA
30643687 AATTGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 3 0.15
17 10 0.50
18 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATTAAAATTAAA
Found at i:30645433 original size:18 final size:19
Alignment explanation
Indices: 30645410--30645450 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
30645400 TTTTATGTGT
*
30645410 TATAAATTATATAATAT-A
1 TATAAATAATATAATATAA
30645428 TATAAATAATATAATATAA
1 TATAAATAATATAATATAA
30645447 TATA
1 TATA
30645451 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAAATAATATAATATAA
Found at i:30645441 original size:5 final size:5
Alignment explanation
Indices: 30645418--30645450 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
30645408 GTTATAAATT
30645418 ATATA ATAT- ATATA A-ATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
30645451 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:30645455 original size:8 final size:10
Alignment explanation
Indices: 30645418--30645450 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
30645408 GTTATAAATT
30645418 ATATAATAT-
1 ATATAATATA
30645427 ATATAA-ATA
1 ATATAATATA
30645436 ATATAATATA
1 ATATAATATA
30645446 ATATA
1 ATATA
30645451 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 12 0.55
10 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAATATA
Found at i:30646196 original size:15 final size:16
Alignment explanation
Indices: 30646166--30646198 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30646156 ATAAATCTTA
30646166 TAAAATATGGAATAAAT
1 TAAAATAT-GAATAAAT
30646183 TAAAATAT-AATAAAT
1 TAAAATATGAATAAAT
30646198 T
1 T
30646199 GAGAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAATATGAATAAAT
Found at i:30646515 original size:25 final size:24
Alignment explanation
Indices: 30646453--30646520 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
30646443 TAAGTATATA
** *
30646453 ATAATTTAAAAATAATTAAA-ATT
1 ATAATTTTTAAATAATTAAATACT
*
30646476 A-AATTTTTTAA-AATTAAATTACT
1 ATAATTTTTAAATAATTAAA-TACT
30646499 ATAATTTTTAAATAATTTAAAT
1 ATAATTTTTAAATAA-TTAAAT
30646521 CAAATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 4 0.11
24 9 0.26
25 3 0.09
26 5 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATTTTTAAATAATTAAATACT
Found at i:30647359 original size:32 final size:35
Alignment explanation
Indices: 30647318--30647385 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
30647308 GAAGGAGAAG
* *
30647318 TAGGTTATG-AT-TT-TTTTTTTGTTTTTTATTTA
1 TAGGTTATGAATGTTATTTTTTTATTTTTGATTTA
30647350 TAGGTTATGAATGTTATTTTTTTATTTTTGATTTA
1 TAGGTTATGAATGTTATTTTTTTATTTTTGATTTA
30647385 T
1 T
30647386 TGAACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 9 0.29
33 2 0.06
34 2 0.06
35 18 0.58
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (35 bp):
TAGGTTATGAATGTTATTTTTTTATTTTTGATTTA
Found at i:30647498 original size:26 final size:26
Alignment explanation
Indices: 30647462--30647538 Score: 154
Period size: 26 Copynumber: 3.0 Consensus size: 26
30647452 TAGAGAAGAA
30647462 AGAAAAAAAGGATGTTTGAAAGAAAT
1 AGAAAAAAAGGATGTTTGAAAGAAAT
30647488 AGAAAAAAAGGATGTTTGAAAGAAAT
1 AGAAAAAAAGGATGTTTGAAAGAAAT
30647514 AGAAAAAAAGGATGTTTGAAAGAAA
1 AGAAAAAAAGGATGTTTGAAAGAAA
30647539 CTCAGTAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.18
Consensus pattern (26 bp):
AGAAAAAAAGGATGTTTGAAAGAAAT
Found at i:30647690 original size:82 final size:82
Alignment explanation
Indices: 30647559--30647731 Score: 233
Period size: 82 Copynumber: 2.1 Consensus size: 82
30647549 ATGTTTCTGT
* * **
30647559 TTTTTTTTTTTTAATATTTATTTTTTAGTAGATGCAAGTAAGGTATGATCCCATTGAGTTTAT-T
1 TTTTTTTTTTTTAACATTTATTTTTTAGTAGATGCAAATAACATATGATCCCATTGAGTTTATCT
*
30647623 -TATTTTTTGATAGTTTC
66 GT-TTTTTTGATAGTTTA
* **
30647640 TTTTTTTTTTTTAACATTTGTTTTTTTAGTAGATGCAAATAACATATGATCTTATTGAGTTTATC
1 TTTTTTTTTTTTAACATTT-ATTTTTTAGTAGATGCAAATAACATATGATCCCATTGAGTTTATC
30647705 TGTTTTTTTGATAGTTTA
65 TGTTTTTTTGATAGTTTA
*
30647723 TGTTTTTTT
1 TTTTTTTTT
30647732 AACATTATTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.22
82 38 0.47
83 23 0.29
84 1 0.01
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.59
Consensus pattern (82 bp):
TTTTTTTTTTTTAACATTTATTTTTTAGTAGATGCAAATAACATATGATCCCATTGAGTTTATCT
GTTTTTTTGATAGTTTA
Found at i:30658512 original size:46 final size:46
Alignment explanation
Indices: 30658444--30658680 Score: 334
Period size: 46 Copynumber: 5.1 Consensus size: 46
30658434 TACTCTATTT
* *
30658444 TGGACAGCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
30658491 TGGACAACATTATACATCAAATTGGATAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * *
30658537 TGGACAGA-ATTATACATCAAATTGGACAGCTTTAATATGCTCAAAT
1 TGGACA-ACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
30658583 TGGA-AATCATTATACATCAAATTGGACAGCATCAATATGCTTAAAA
1 TGGACAA-CATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * *
30658629 TGGACAACATTATCCATCAAATTGGACAACATCAATATACTCAAAT
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
30658675 TGGACA
1 TGGACA
30658681 GCATCAATAT
Statistics
Matches: 170, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 157 0.92
47 11 0.06
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:30658572 original size:92 final size:93
Alignment explanation
Indices: 30658444--30658708 Score: 358
Period size: 92 Copynumber: 2.8 Consensus size: 93
30658434 TACTCTATTT
* *
30658444 TGGACAGCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAA-CATTATACAT
1 TGGACAG-AATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAATCATTATACAT
*
30658508 CAAATTGGATAGCATCAATATGCTCAAAA
65 CAAATTGGACAGCATCAATATGCTCAAAA
*
30658537 TGGACAGAATTATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGA-AATCATTATACATC
1 TGGACAGAATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAATCATTATACATC
*
30658601 AAATTGGACAGCATCAATATGCTTAAAA
66 AAATTGGACAGCATCAATATGCTCAAAA
* * * * * *
30658629 TGGACA-ACATTATCCATCAAATTGGACAACATCAATATACTCAAATTGGACAGCATCAATATGC
1 TGGACAGA-ATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACA--ATCATTATAC
*
30658693 -TCAAAATGGACAGCAT
63 ATCAAATTGGACAGCAT
30658709 TATAACATAT
Statistics
Matches: 154, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
91 3 0.02
92 120 0.78
93 8 0.05
94 15 0.10
95 8 0.05
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.27
Consensus pattern (93 bp):
TGGACAGAATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAATCATTATACATC
AAATTGGACAGCATCAATATGCTCAAAA
Found at i:30659516 original size:40 final size:40
Alignment explanation
Indices: 30659398--30659534 Score: 175
Period size: 41 Copynumber: 3.4 Consensus size: 40
30659388 TTTTCCATCG
* * * *
30659398 TATAGCCGAAGCTATTATAATCTCGTACACTAAGTGCCTTA
1 TATAGCCGAAGCTATT-TCAGCTCGCACACTAAGTGCCATA
* *
30659439 CATAGCCGAAGCTATCTCAGTCTCGCACACTAAGTGCCATA
1 TATAGCCGAAGCTATTTCAG-CTCGCACACTAAGTGCCATA
*
30659480 TATAGCCGAAGCTATTTCAGATCGCACACTAAGTGCCATA
1 TATAGCCGAAGCTATTTCAGCTCGCACACTAAGTGCCATA
* *
30659520 AATAGCCGACGCTAT
1 TATAGCCGAAGCTAT
30659535 CTCAAATTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 34 0.40
41 50 0.60
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
TATAGCCGAAGCTATTTCAGCTCGCACACTAAGTGCCATA
Found at i:30659551 original size:40 final size:40
Alignment explanation
Indices: 30659399--30659555 Score: 149
Period size: 41 Copynumber: 3.9 Consensus size: 40
30659389 TTTCCATCGT
* * *
30659399 ATAGCCGAAGCTAT-T-ATAATCTCGTACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATCTCA-AAT-T-GCACACTAAGTGCCATAA
* *
30659440 ATAGCCGAAGCTATCTC-AGTCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAAAT-T-GCACACTAAGTGCCATAA
* * *
30659481 ATAGCCGAAGCTATTTCAGATCGCACACTAAGTGCCATAA
1 ATAGCCGAAGCTATCTCAAATTGCACACTAAGTGCCATAA
* * *
30659521 ATAGCCGACGCTATCTCAAATTTCATACTAAGTGC
1 ATAGCCGAAGCTATCTCAAATTGCACACTAAGTGC
30659556 TAAACATAGC
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 46 0.47
41 50 0.51
42 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATTGCACACTAAGTGCCATAA
Found at i:30665949 original size:46 final size:46
Alignment explanation
Indices: 30665881--30666161 Score: 429
Period size: 46 Copynumber: 6.1 Consensus size: 46
30665871 TACCTTGTTT
* *
30665881 TGGACATCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
30665928 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * * *
30665974 TGGAGAGCATTATACATCAAATTGGATAGCTTTAATATGCTCAAAT
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
30666020 TGGACAGA-ATTATACATCAAATTGGACAACATCAATATGCTCAAAA
1 TGGACA-ACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
** *
30666066 TGGACAGTATTATACATCGAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
30666112 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
30666158 TGGA
1 TGGA
30666162 GAATTATAAC
Statistics
Matches: 211, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
46 203 0.96
47 8 0.04
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:30666869 original size:41 final size:40
Alignment explanation
Indices: 30666840--30666963 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 40
30666830 AAGTTATTAT
* *
30666840 AATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCATAAATAGCCGAAGCTAT-TC
* * *
30666881 AGTCTCTCACACTAAGTGCCATATATAGCCGAAGCTATTCC
1 AATCTCGCACACTAAGTGCCATAAATAGCCGAAGCTATT-C
* *
30666922 AA-ATCGCACAGTAAGTGCCATAAATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAGTGCCATAAATAGCCGAAGCTAT-TC
30666962 AA
1 AA
30666964 ATTTCATACT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 35 0.49
41 37 0.51
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
AATCTCGCACACTAAGTGCCATAAATAGCCGAAGCTATTC
Found at i:30666949 original size:40 final size:42
Alignment explanation
Indices: 30666844--30666979 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 42
30666834 TATTATAATC
* * **
30666844 TCGCACACTAAGTGCCTTACATAGCCGAAGCTA-TCTCAGTC
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
* *
30666885 TCTCACACTAAGTGCCATATATAGCCGAAGCTATTC-CA-AA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
*
30666925 TCGCACAGTAAGTGCCATAAATAGCCGAAGCTA-TCTCA-AA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
** *
30666965 TTTCATACTAAGTGC
1 TCGCACACTAAGTGC
30666980 TAAACATAGC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 45 0.56
41 32 0.40
42 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
Found at i:30671511 original size:9 final size:9
Alignment explanation
Indices: 30671497--30671528 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
30671487 AAATTTTTAG
30671497 TATATAATA
1 TATATAATA
30671506 TATATAATA
1 TATATAATA
*
30671515 TATATGATA
1 TATATAATA
30671524 TATAT
1 TATAT
30671529 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (9 bp):
TATATAATA
Found at i:30672254 original size:44 final size:44
Alignment explanation
Indices: 30672182--30672266 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
30672172 TTCTAACTAA
* *
30672182 AAATTATAATTATTTTAAATGTGTAATTATCAAAA-TTTTTATT
1 AAATTATAATTATTTTAAATGTATAATTATAAAAACTTTTTATT
30672225 AAATTATAATTATTTTTAAATGTATAATTATAAAAACTTTTT
1 AAATTATAATTA-TTTTAAATGTATAATTATAAAAACTTTTT
30672267 TATATCAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 12 0.32
44 21 0.55
45 5 0.13
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (44 bp):
AAATTATAATTATTTTAAATGTATAATTATAAAAACTTTTTATT
Found at i:30672265 original size:24 final size:23
Alignment explanation
Indices: 30672183--30672265 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
30672173 TCTAACTAAA
** *
30672183 AATTATAATTATTTTAAATGTGT
1 AATTATAAAAATTTTAAATGTAT
* *
30672206 AATTATCAAAATTTT-TAT-TA-
1 AATTATAAAAATTTTAAATGTAT
* *
30672226 AATTATAATTATTTTTAAATGTAT
1 AATTATAA-AAATTTTAAATGTAT
30672250 AATTATAAAAACTTTT
1 AATTATAAAAA-TTTT
30672266 TTATATCAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
20 7 0.16
21 6 0.14
22 4 0.09
23 15 0.34
24 12 0.27
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTATAAAAATTTTAAATGTAT
Found at i:30677172 original size:16 final size:16
Alignment explanation
Indices: 30677151--30677182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30677141 TAATTGATTG
*
30677151 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
30677167 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
30677183 GATTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:30680892 original size:23 final size:23
Alignment explanation
Indices: 30680845--30680895 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
30680835 ACCTACTTTC
* * * *
30680845 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
30680868 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
30680891 TTACA
1 TTACA
30680896 CATCATACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:30686307 original size:27 final size:27
Alignment explanation
Indices: 30686253--30686307 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
30686243 ACACAATTTG
* *
30686253 TTTTATTTAATTTAACATATAATGCCT
1 TTTTACTTAATTTAACATATAATACCT
*
30686280 TTTTACTT-ATTTAACATTTAATAACCT
1 TTTTACTTAATTTAACATATAAT-ACCT
30686307 T
1 T
30686308 AATAACTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTTACTTAATTTAACATATAATACCT
Found at i:30693838 original size:18 final size:20
Alignment explanation
Indices: 30693815--30693855 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
30693805 AAGGTGGCAA
30693815 TTTTTC-TAT-CACTTCAAT
1 TTTTTCTTATCCACTTCAAT
30693833 TTTTTCTTTATCCACTTCAAT
1 TTTTTC-TTATCCACTTCAAT
30693854 TT
1 TT
30693856 CTCTCTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTCTTATCCACTTCAAT
Found at i:30709986 original size:14 final size:14
Alignment explanation
Indices: 30709967--30709994 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30709957 CTTGCTCCAT
30709967 CAAATTATCTTCAC
1 CAAATTATCTTCAC
30709981 CAAATTATCTTCAC
1 CAAATTATCTTCAC
30709995 TGTCAGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
CAAATTATCTTCAC
Found at i:30711833 original size:32 final size:32
Alignment explanation
Indices: 30711797--30711861 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
30711787 CTGAAAAGGC
**
30711797 ATAATATTGTTTCTCAACTTGGCATTCATAGT
1 ATAATATCATTTCTCAACTTGGCATTCATAGT
30711829 ATAATATCATTTCTCAACTTGGCATTCATAGT
1 ATAATATCATTTCTCAACTTGGCATTCATAGT
30711861 A
1 A
30711862 GGTGGGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (32 bp):
ATAATATCATTTCTCAACTTGGCATTCATAGT
Found at i:30721118 original size:27 final size:27
Alignment explanation
Indices: 30721053--30721121 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
30721043 GGAATCTATT
* *
30721053 AGAATATGTCACAAAGGCTTTCCATTC
1 AGAATATGCCATAAAGGCTTTCCATTC
*
30721080 AGAATATGCCATAAAGGTTTTCCATTC
1 AGAATATGCCATAAAGGCTTTCCATTC
30721107 AGAATACT-CCATAAA
1 AGAATA-TGCCATAAA
30721122 AGGCAGTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (27 bp):
AGAATATGCCATAAAGGCTTTCCATTC
Found at i:30732218 original size:9 final size:9
Alignment explanation
Indices: 30732201--30732236 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
30732191 TGAATTTTCG
30732201 AATTCGAAT
1 AATTCGAAT
*
30732210 AACTCGAAT
1 AATTCGAAT
*
30732219 AATTCAAAT
1 AATTCGAAT
30732228 AATTCGAAT
1 AATTCGAAT
30732237 GTAAACTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30732284 original size:29 final size:29
Alignment explanation
Indices: 30732243--30732301 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
30732233 GAATGTAAAC
*
30732243 TATATTTTTTATTTTTAAAATACACCACA
1 TATATTTTTTATTTTTAAAAAACACCACA
*
30732272 TATATTTTTTATTTTTAAAAAACACTACA
1 TATATTTTTTATTTTTAAAAAACACCACA
30732301 T
1 T
30732302 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAAAACACCACA
Found at i:30737431 original size:19 final size:20
Alignment explanation
Indices: 30737392--30737447 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
30737382 TATTTAATTA
* *
30737392 ATTTTTTA-AAATTTTAAAA
1 ATTTTTTATAATTTTTAAAT
*
30737411 ATATTTTTATACTTTTTAAAT
1 AT-TTTTTATAATTTTTAAAT
30737432 ATTTTTTATAATTTTT
1 ATTTTTTATAATTTTT
30737448 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 10 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTATAATTTTTAAAT
Found at i:30737466 original size:29 final size:29
Alignment explanation
Indices: 30737394--30737477 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
30737384 TTTAATTAAT
**
30737394 TTTTTAAA-ATTTTAAAAATATTTTTATAC
1 TTTTTAAATATTTTTTAAA-ATTTTTATAC
*
30737423 TTTTTAAATATTTTTTATAATTTTT-TA-
1 TTTTTAAATATTTTTTAAAATTTTTATAC
*
30737450 TTTTTAAAATTTATTTTTAAAATTTTTA
1 TTTTT-AAATAT-TTTTTAAAATTTTTA
30737478 AAATTAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 5 0.11
28 7 0.15
29 27 0.59
30 7 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTAAATATTTTTTAAAATTTTTATAC
Found at i:30737475 original size:27 final size:27
Alignment explanation
Indices: 30737423--30737475 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30737413 ATTTTTATAC
**
30737423 TTTTTAAATATTTTTTATAATTTTTTA
1 TTTTTAAATATTTTTTATAAAATTTTA
*
30737450 TTTTTAAA-ATTTATTTTTAAAATTTT
1 TTTTTAAATATTT-TTTATAAAATTTT
30737476 TAAAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTAAATATTTTTTATAAAATTTTA
Found at i:30737486 original size:13 final size:13
Alignment explanation
Indices: 30737446--30737474 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30737436 TTTATAATTT
30737446 TTTATTTTTAAAA
1 TTTATTTTTAAAA
30737459 TTTATTTTTAAAA
1 TTTATTTTTAAAA
30737472 TTT
1 TTT
30737475 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATTTTTAAAA
Found at i:30737611 original size:23 final size:21
Alignment explanation
Indices: 30737571--30737620 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
30737561 TGATTTGACA
*
30737571 AAAAAAATATAAATTTAAGAATT
1 AAAAAAATATAAAATT-A-AATT
30737594 AAAAAAATGA-AAAATTAAATT
1 AAAAAAAT-ATAAAATTAAATT
30737615 AAAAAA
1 AAAAAA
30737621 CTAAAATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 13 0.52
24 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAAATATAAAATTAAATT
Found at i:30737625 original size:29 final size:30
Alignment explanation
Indices: 30737573--30737636 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
30737563 ATTTGACAAA
* * *
30737573 AAAAATATAAATTTAAGAATTAAAAAAATG
1 AAAAATATAAATTAAAAAACTAAAAAAATG
**
30737603 AAAAAT-TAAATTAAAAAACTAAAATGATG
1 AAAAATATAAATTAAAAAACTAAAAAAATG
30737632 AAAAA
1 AAAAA
30737637 AGTTGGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAATATAAATTAAAAAACTAAAAAAATG
Found at i:30738628 original size:21 final size:20
Alignment explanation
Indices: 30738583--30738628 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
30738573 ATTGTTTTCT
30738583 ATTTTTAATAATTTTTGGAA
1 ATTTTTAATAATTTTTGGAA
* * *
30738603 TTTTTTAAATACTTTTTGTAA
1 ATTTTT-AATAATTTTTGGAA
30738624 ATTTT
1 ATTTT
30738629 CTTTATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (20 bp):
ATTTTTAATAATTTTTGGAA
Found at i:30738946 original size:10 final size:9
Alignment explanation
Indices: 30738923--30738949 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30738913 TAATTTTATT
30738923 ATTTTTAAA
1 ATTTTTAAA
30738932 ATTTTTAAA
1 ATTTTTAAA
30738941 ATTTTTAAA
1 ATTTTTAAA
30738950 TTTCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:30739797 original size:2 final size:2
Alignment explanation
Indices: 30739785--30739820 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
30739775 GTTGGTAAGA
*
30739785 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30739821 GAATATGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:30740660 original size:30 final size:30
Alignment explanation
Indices: 30740619--30740683 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
30740609 TGGCAAAAAA
30740619 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
* *
30740649 CTCTTAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
30740679 CTCTC
1 CTCTC
30740684 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.03, T:0.40
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:30742905 original size:24 final size:23
Alignment explanation
Indices: 30742878--30742934 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
30742868 CATTTAATAA
30742878 AATAAAAGTTATTTTTA-ATGTTTT
1 AATAAAA-TTATTTTTATAT-TTTT
30742902 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
30742927 AATAAAAT
1 AATAAAAT
30742935 AGAATATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 17 0.57
26 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
AATAAAATTATTTTTATATTTTT
Found at i:30746123 original size:126 final size:126
Alignment explanation
Indices: 30745847--30746989 Score: 1597
Period size: 126 Copynumber: 9.1 Consensus size: 126
30745837 GCCAAACATA
* * *
30745847 AACTACTATAGAAAAATAGCGTCGACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATC
* * * **
30745911 CTGCTTGAAG-TTTTTTTACACTATTTGTTTAGAATTGTCTTCTCAAAATTA-TTTTTCAGG
65 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * *
30745971 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTCTCAGTAATTTTGCTGATAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
30746036 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGTACCGTCTTCTCAAAATTATTTTTTCAGG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * *
30746097 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATGATTTTGCTGACAGTGTATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
30746162 TGCTTGAGGCATTTTTGACAATATTTATTCA-AAACCGTCTTCTCAAAATTACTTTTTCATG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAA-CGTCTTCTCAAAATTATTTTTTCAGG
** * *
30746223 AACTACTGTAGAAAAA-AATGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
30746287 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCTGG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * * *
30746347 AACTACTGTAGAAAAAAAGCATCCAGGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
** * *
30746412 TGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTTAGG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
*
30746473 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* *
30746538 TGCTTGAAGCATTTTTGACACTATTTGATT-AGAATCGTCTTCTCAAAATTATTTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTG-TTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * *
30746599 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTCATTTTGCTAACA-TGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
30746663 TGTTTTAAGCGTTTTTGACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTT-AGG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * *
30746723 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTTTTTTAGTAATGTTGCTGACAGTGCATTC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
** * *
30746787 TAATTGAAGCATTTTTTACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGG
66 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
* * *
30746848 AACTACTGTAGAAAATA-AGCATCCACGTGAGAGCTTTTTTCAGTCATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAA-AGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
** * * * * * *
30746912 CTGCTTGAAGTGTTTTTTACACTAATTGTTTAGAACCGTATTCTCAAAATTAGTTTTTCAGG
65 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
30746974 AACTACTGTAGAAAAA
1 AACTACTGTAGAAAAA
30746990 AACAAAACCC
Statistics
Matches: 907, Mismatches: 99, Indels: 25
0.88 0.10 0.02
Matches are distributed among these distances:
123 19 0.02
124 181 0.20
125 299 0.33
126 406 0.45
127 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
Found at i:30746540 original size:376 final size:375
Alignment explanation
Indices: 30745847--30746989 Score: 1636
Period size: 376 Copynumber: 3.0 Consensus size: 375
30745837 GCCAAACATA
* * * * *
30745847 AACTACTATAGAAAAATAGCGTCGACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAGAACGTCCACGT-GGAGCTTTTTTCAGT-AATTTTGCTAACAGTGCATC
* * * ** *
30745911 CTGCTTGAAG-TTTTTTTACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTTCAGGAACT
64 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCTGGAACT
* * *
30745975 ACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTCTCAGTAATTTTGCTGATAGTGCATCCTGCT
129 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * *
30746040 TGAAGCGTTTTTGACACTATTTGTTCAGTACCGTCTTCTCAAAATTATTTTTTCAGGAACTACTG
194 TGAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTG
* * * * *
30746105 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATGATTTTGCTGACAGTGTATCCTGCTTGAG
259 TAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
* * *
30746170 GCATTTTTGACAATATTTATTCAAAACCGTCTTCTCAAAATTACTTTTTCATG
324 GCATTTTTGACACTATTTATT-AGAACCGTCTTCTCAAAATTACTTTTTCAAG
*
30746223 AACTACTGTAGAAAAA-AATGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAGAACGTCCACGTGG-AGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
30746287 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCTGGAACTA
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCTGGAACTA
* * * *
30746352 CTGTAGAAAAAAAGCATCCAGGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTT
130 CTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
* *
30746417 GAAGTGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTTAGGAACTACTGT
195 GAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGT
30746482 AGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAG
260 AGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAG
* *
30746547 CATTTTTGACACTATTTGATTAGAATCGTCTTCTCAAAATTATTTTTTCAAG
325 CATTTTTGACACTATTT-ATTAGAACCGTCTTCTCAAAATTACTTTTTCAAG
* *
30746599 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTCATTTTGCTAACA-TGCATCC
1 AACTACTGTAGAAAAAGAACGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
* * * * *
30746663 TGTTTTAAGCGTTTTTGACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTT-TAGGAACT
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCT-GGAACT
* * * **
30746727 ACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTTTTTTAGTAATGTTGCTGACAGTGCATTCTAAT
129 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* *
30746791 TGAAGCATTTTTTACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTG
194 TGAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTG
* *
30746856 TAGAAAATA-AGCATCCACGTGAGAGCTTTTTTCAGTCATTTTGCTGACAGTGCATCCTGCTTGA
259 TAGAAAA-AGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGA
** * * * *
30746920 AGTGTTTTTTACACTAATTGT-TTAGAACCGTATTCTCAAAATTAGTTTTTCAGG
323 AGCATTTTTGACACT-ATT-TATTAGAACCGTCTTCTCAAAATTACTTTTTCAAG
30746974 AACTACTGTAGAAAAA
1 AACTACTGTAGAAAAA
30746990 AACAAAACCC
Statistics
Matches: 694, Mismatches: 63, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
374 2 0.00
375 256 0.37
376 396 0.57
377 38 0.05
378 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (375 bp):
AACTACTGTAGAAAAAGAACGTCCACGTGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCCT
GCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTCTGGAACTAC
TGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTG
AAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGTA
GAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGC
ATTTTTGACACTATTTATTAGAACCGTCTTCTCAAAATTACTTTTTCAAG
Found at i:30747100 original size:34 final size:32
Alignment explanation
Indices: 30747051--30747160 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 32
30747041 GAATAATATT
30747051 TTTTTTAAAAA-CTAAACCCTAATTTAATTAA
1 TTTTTTAAAAACCTAAACCCTAATTTAATTAA
* *
30747082 TTTTCTTAAAAACTCTAAACTCTAATTTAATTTA
1 TTTT-TTAAAAAC-CTAAACCCTAATTTAATTAA
* *
30747116 TTTATTTAAAACCCCTAAACCTTAATTTAATTAA
1 TTT-TTTAAAA-ACCTAAACCCTAATTTAATTAA
*
30747150 TTTTTAAAAAA
1 TTTTTTAAAAA
30747161 GAACACTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
31 4 0.06
32 7 0.11
33 6 0.09
34 47 0.71
35 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.44
Consensus pattern (32 bp):
TTTTTTAAAAACCTAAACCCTAATTTAATTAA
Found at i:30747407 original size:37 final size:37
Alignment explanation
Indices: 30747357--30747459 Score: 145
Period size: 36 Copynumber: 2.8 Consensus size: 37
30747347 AAAAACACGG
* *
30747357 AGCAAAACGCGTCCACGTCAGCGCGTTTTGCCACGTC
1 AGCAAAGCGCGTCCACGTCAGCGTGTTTTGCCACGTC
** * *
30747394 AGCAAAGCGCGTCCATATCAGTGTG-TTTGCCACGTT
1 AGCAAAGCGCGTCCACGTCAGCGTGTTTTGCCACGTC
30747430 AGCAAAGCGCGTCCACGTCAGCGTGTTTTG
1 AGCAAAGCGCGTCCACGTCAGCGTGTTTTG
30747460 TGTTGACATG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 32 0.57
37 24 0.43
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.23
Consensus pattern (37 bp):
AGCAAAGCGCGTCCACGTCAGCGTGTTTTGCCACGTC
Found at i:30748732 original size:29 final size:29
Alignment explanation
Indices: 30748699--30748827 Score: 99
Period size: 29 Copynumber: 4.5 Consensus size: 29
30748689 GTAAATGATT
30748699 CCTTTGTGGCAAAACTCTAGACAAGAAA-G
1 CCTTTGTGGCAAAACTCT-GACAAGAAATG
** * * *
30748728 CCTTTGTGGTGAAACTTTGGA-ATGGTAA-G
1 CCTTTGTGGCAAAACTCT-GACA-AGAAATG
*
30748757 CCTTTGTGGCAAATCTCT-ACAAGGAAATG
1 CCTTTGTGGCAAAACTCTGACAA-GAAATG
* *
30748786 CCTTCGTGGCAAATCTCTG-CAAGAAAATG
1 CCTTTGTGGCAAAACTCTGACAAG-AAATG
30748815 CCTTTGTGG-AAAA
1 CCTTTGTGGCAAAA
30748828 TCTTTATAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
27 1 0.01
28 9 0.11
29 69 0.87
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (29 bp):
CCTTTGTGGCAAAACTCTGACAAGAAATG
Found at i:30748828 original size:29 final size:29
Alignment explanation
Indices: 30748756--30748860 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
30748746 GGAATGGTAA
*
30748756 GCCTTTGTGGCAAATCTCTACAAGGAAAT
1 GCCTTTGTGGCAAATCTCTACAAGAAAAT
* *
30748785 GCCTTCGTGGCAAATCTCTGCAAGAAAAT
1 GCCTTTGTGGCAAATCTCTACAAGAAAAT
* * * *
30748814 GCCTTTGTGGAAAATCTTTATAAG-GAAT
1 GCCTTTGTGGCAAATCTCTACAAGAAAAT
* *
30748842 GACTTTATGGC-AATCTCTA
1 GCCTTTGTGGCAAATCTCTA
30748861 TCAAAGGAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
27 7 0.11
28 11 0.17
29 45 0.71
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (29 bp):
GCCTTTGTGGCAAATCTCTACAAGAAAAT
Found at i:30748879 original size:29 final size:27
Alignment explanation
Indices: 30748847--30748901 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
30748837 GGAATGACTT
30748847 TATGGCAATCTCTATCAAAGGAAAGCCTC
1 TATGGCAATCTCTAT-AAAGG-AAGCCTC
* * *
30748876 TATGGTAGTCTCTGTAAAGGAAGCCT
1 TATGGCAATCTCTATAAAGGAAGCCT
30748902 TTGTGGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 5 0.22
29 12 0.52
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (27 bp):
TATGGCAATCTCTATAAAGGAAGCCTC
Found at i:30754514 original size:20 final size:20
Alignment explanation
Indices: 30754489--30754547 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
30754479 CTTGTACGGG
30754489 TTTGCACTTCGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTA
* *
30754509 TTTGCAATTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTA
* *
30754529 CTTCCAC-TCTGGTGCCTCT
1 TTTGCACTTC-GGTGCCTCT
30754548 GATTGCACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.10, C:0.31, G:0.19, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTA
Found at i:30756456 original size:18 final size:18
Alignment explanation
Indices: 30756433--30756468 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30756423 GCTTGCTTAG
* *
30756433 AAAACTTGCCATTTTTAA
1 AAAACTTACCATGTTTAA
30756451 AAAACTTACCATGTTTAA
1 AAAACTTACCATGTTTAA
30756469 GTTAGCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (18 bp):
AAAACTTACCATGTTTAA
Found at i:30757104 original size:14 final size:14
Alignment explanation
Indices: 30757068--30757097 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30757058 ATATTGTATA
30757068 TTCATTATTATTTT
1 TTCATTATTATTTT
30757082 TTCATTATTATTTT
1 TTCATTATTATTTT
30757096 TT
1 TT
30757098 TCTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCATTATTATTTT
Found at i:30761934 original size:22 final size:22
Alignment explanation
Indices: 30761892--30761933 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30761882 TATATATATA
*
30761892 TATAATTTCTTAATTATTTTTG
1 TATAATTTCTTAATGATTTTTG
30761914 TATAATTT-TTAATGATTTTT
1 TATAATTTCTTAATGATTTTT
30761934 TCAAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TATAATTTCTTAATGATTTTTG
Found at i:30778282 original size:16 final size:17
Alignment explanation
Indices: 30778260--30778302 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
30778250 AAATTATGTG
30778260 TATTAATTTATAATATA
1 TATTAATTTATAATATA
*
30778277 -ATTAATTT-TAATTTA
1 TATTAATTTATAATATA
30778292 TATCTAATTTA
1 TAT-TAATTTA
30778303 ATTTAGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATTTATAATATA
Found at i:30778288 original size:22 final size:22
Alignment explanation
Indices: 30778262--30778306 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
30778252 ATTATGTGTA
30778262 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
*
30778284 TTAATTTATATCTAATTTAATT
1 TTAATTTATATATAATTTAATT
30778306 T
1 T
30778307 AGGTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Found at i:30786867 original size:12 final size:12
Alignment explanation
Indices: 30786848--30786880 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30786838 AATTACACAG
30786848 CCTAGCACACGA
1 CCTAGCACACGA
*
30786860 CCTGGCACACGA
1 CCTAGCACACGA
30786872 CCTAGCACA
1 CCTAGCACA
30786881 TGGGCGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.42, G:0.18, T:0.09
Consensus pattern (12 bp):
CCTAGCACACGA
Found at i:30795249 original size:21 final size:21
Alignment explanation
Indices: 30795223--30795262 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30795213 TTTTGATGGA
* *
30795223 TCAGCTCTTACGAGCTTCTCT
1 TCAGCTCTGACGAACTTCTCT
30795244 TCAGCTCTGACGAACTTCT
1 TCAGCTCTGACGAACTTCT
30795263 ATTGGCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (21 bp):
TCAGCTCTGACGAACTTCTCT
Found at i:30800725 original size:55 final size:54
Alignment explanation
Indices: 30800642--30800745 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 54
30800632 GTGTGAAGCA
* * * *
30800642 ACTCAAAGAGTTACACGGCCTTGCACACGGGCGTGTGACATGGCTGTGTGACCTT
1 ACTCAAAGAGTTACACGGCCTAGCACACGGGC-TGGGACACGACTGTGTGACCTT
* *
30800697 ACTCAAAGAGTTACACGG-GTGAGGACACGGGCTGGGACACGACTGTGTG
1 ACTCAAAGAGTTACACGGCCT-AGCACACGGGCTGGGACACGACTGTGTG
30800746 TGCCTTGTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
54 15 0.36
55 27 0.64
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (54 bp):
ACTCAAAGAGTTACACGGCCTAGCACACGGGCTGGGACACGACTGTGTGACCTT
Found at i:30803986 original size:52 final size:52
Alignment explanation
Indices: 30803903--30804007 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
30803893 CCTATGATGA
* *
30803903 TTCCAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATTGAGATTACC
1 TTCCAGAATGGAAATGGGAAAAAGTTACGAAGGATTTTGTATCGAGATTACC
*
30803955 TTCCTGAATGGAAATGGGAAAAAGTTACGAAGGATTTTGTATCGAGATTACC
1 TTCCAGAATGGAAATGGGAAAAAGTTACGAAGGATTTTGTATCGAGATTACC
30804007 T
1 T
30804008 CTATCTCCGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (52 bp):
TTCCAGAATGGAAATGGGAAAAAGTTACGAAGGATTTTGTATCGAGATTACC
Found at i:30816795 original size:50 final size:50
Alignment explanation
Indices: 30816697--30816927 Score: 300
Period size: 50 Copynumber: 4.5 Consensus size: 50
30816687 TCATGACATT
*
30816697 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCC
30816753 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
* *
30816803 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
** * * * **
30816853 CCGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
* *
30816903 ATGTAAGACCATATCTGGGATATGG
1 ATGTAAGACCATGTCTGGGACATGG
30816928 AACTGGTAGT
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
50 122 0.77
53 3 0.02
55 1 0.01
56 33 0.21
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:30822159 original size:50 final size:50
Alignment explanation
Indices: 30822051--30822220 Score: 153
Period size: 50 Copynumber: 3.3 Consensus size: 50
30822041 ATTTGGGTAA
*
30822051 AGAGATCCCATGTAAGACCATGTCT-AGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGA-GACATGGCATTGGCA-C--TGAG---ATG
* *
30822107 AGAGGTCCCATGTAAGACCATGTTTGAGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACTGAGATG
*** * * * * *
30822157 AGAGGTCCCCCATAAGACCATGTCTGGGATATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACTGAGATG
**
30822207 AGAACTCCCATGTA
1 AGAGGTCCCATGTA
30822221 TTGGCAGTAC
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
50 52 0.55
53 4 0.04
55 1 0.01
56 37 0.39
57 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACTGAGATG
Found at i:30828816 original size:21 final size:22
Alignment explanation
Indices: 30828790--30828831 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30828780 GATCATTACA
30828790 TCTCACCT-CCTTATTTCTCCT
1 TCTCACCTCCCTTATTTCTCCT
30828811 TCTCACCTCCCTTATTTCTCC
1 TCTCACCTCCCTTATTTCTCC
30828832 AACAATGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.10, C:0.45, G:0.00, T:0.45
Consensus pattern (22 bp):
TCTCACCTCCCTTATTTCTCCT
Found at i:30840981 original size:45 final size:45
Alignment explanation
Indices: 30840916--30841223 Score: 300
Period size: 45 Copynumber: 6.8 Consensus size: 45
30840906 TATACACCTA
* * * *
30840916 AAATGTGTAAGACTAGAGTTGAAAGATGTTATGACATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * **
30840961 AAATGAGTAAGACCATAGTTGAAAGATACTATGGCATCACCATA-
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * * *
30841005 AAGATTAGTAAGACCATA-TATTAAAGATGCTATGGCATCATGCTAT
1 AA-ATGAGTAAGACCATAGT-TGAAAGATGCTATGACATCATGATAT
*
30841051 AAATGAGTAAAACCATAGTTGAAAGATGCTAT-AGCATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGA-CATCATGATAT
* * **
30841096 AAATGAGTAAGCCCATAGCTGAAAGATGCTATCCCATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * * * * *
30841141 AAATGTGTAAGACCTTGGCTGAAAGATGCTATAACATCATGGTA-
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * * * *
30841185 ACCATTACTAAGACCATAGTTGAAAGACGCTATGGCATC
1 A-AATGAGTAAGACCATAGTTGAAAGATGCTATGACATC
30841224 CTAGTAGTCT
Statistics
Matches: 216, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.02
45 209 0.97
46 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
Found at i:30878029 original size:38 final size:38
Alignment explanation
Indices: 30877971--30878048 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
30877961 CACTATGAAC
* *
30877971 CTAATTTCAAAATCCGAATCAAACTCTCGATTTACTAA
1 CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
* *
30878009 CTAATTTCAGAGTCCAAATCAAACTCTCGATTCACTAA
1 CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
30878047 CT
1 CT
30878049 CGATTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (38 bp):
CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
Found at i:30879586 original size:69 final size:69
Alignment explanation
Indices: 30879494--30879721 Score: 327
Period size: 69 Copynumber: 3.3 Consensus size: 69
30879484 ATAAATTATT
* * * *
30879494 TTATCGTGTTTTAGTTTATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTTGGAC
1 TTATAGTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGAC
30879559 ATAA
66 ATAA
* *
30879563 TTATAGTGTTTAAGTTGATTTAATGTGCTGTTATGATATGG---ATTGGCCGTCCGAATTAGGGC
1 TTATAGTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGAC
30879625 ATAA
66 ATAA
* * * *
30879629 TCATAGTGTTTAAGTTGATTTAATGCGCTGCTATGATATGGATTATTGGCTGTCCGAAGTAGGAC
1 TTATAGTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGAC
*
30879694 ATAT
66 ATAA
30879698 TTATAGTGTTTAAGTTGAATTTAA
1 TTATAGTGTTTAAGTTG-ATTTAA
30879722 ATGCTGTAAT
Statistics
Matches: 141, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
66 60 0.43
69 75 0.53
70 6 0.04
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (69 bp):
TTATAGTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGAC
ATAA
Found at i:30879742 original size:69 final size:66
Alignment explanation
Indices: 30879534--30879751 Score: 203
Period size: 69 Copynumber: 3.2 Consensus size: 66
30879524 TTATGATATG
* * *
30879534 GATTATTGGCTGTCCGAATTTGGACATAATTATAGTGTTTAAGTTGATTTAATGTGCTGT-TATG
1 GATTATTGGCTGTCCGAATTAGGACATAATTATAGTGTTTAAGTTGATTTAA-ATGCTGTATGTG
30879598 -A
65 AA
* * * * *
30879599 TATGGATTGGCCGTCCGAATTAGGGCATAATCATAGTGTTTAAGTTGATTT-AATGCGCTGCTAT
1 GAT-TATTGGCTGTCCGAATTAGGACATAATTATAGTGTTTAAGTTGATTTAAAT--GCTG-TAT
*
30879663 GAT-ATG
62 G-TGA-A
* *
30879669 GATTATTGGCTGTCCGAAGTAGGACATATTTATAGTGTTTAAGTTGAATTTAAATGCTGTAATGT
1 GATTATTGGCTGTCCGAATTAGGACATAATTATAGTGTTTAAGTTG-ATTTAAATGCTGT-ATGT
30879734 GGAA
64 -GAA
*
30879738 GATTAAT-GCTGTCC
1 GATTATTGGCTGTCC
30879752 AAAGCATGCA
Statistics
Matches: 122, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
64 1 0.01
65 3 0.02
66 46 0.38
67 1 0.01
68 10 0.08
69 51 0.42
70 7 0.06
71 3 0.02
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (66 bp):
GATTATTGGCTGTCCGAATTAGGACATAATTATAGTGTTTAAGTTGATTTAAATGCTGTATGTGA
A
Found at i:30883032 original size:101 final size:102
Alignment explanation
Indices: 30882912--30883098 Score: 306
Period size: 101 Copynumber: 1.8 Consensus size: 102
30882902 AAAGTAATGG
* *
30882912 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTATAGT
30882975 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
65 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
* * *
30883013 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTATAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTATAGTA
30883078 CTATGTGCAGGCTACTATGTG
66 CTATGTGCAGGCTACTATGTG
30883099 AACCTAACAT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 35 0.44
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTATAGTA
CTATGTGCAGGCTACTATGTGTACCGGATAGTTTTGA
Found at i:30883042 original size:51 final size:51
Alignment explanation
Indices: 30882904--30883094 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 51
30882894 TAAAAGTGAA
* * *
30882904 AGTAATGGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-
1 AGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * *
30882954 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
1 AGT-ATTGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
30883005 AGTTTTGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * *
30883056 GGTAATGGTCACATGTATAGTACTATGTGCAGGCTACTA
1 AGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTA
30883095 TGTGAACCTA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 42 0.35
51 75 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
AGTATTGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:30883156 original size:45 final size:45
Alignment explanation
Indices: 30883105--30883192 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
30883095 TGTGAACCTA
* * *
30883105 ACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTAATTACTAAGGTGGTTGCTATGTGCTAAATCCACCGG
30883150 ACATCATTAATTACTAAGGTGGTTGCTATGTGCTAAATCCACC
1 ACATCATTAATTACTAAGGTGGTTGCTATGTGCTAAATCCACC
30883193 AAGTATCTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (45 bp):
ACATCATTAATTACTAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:30886436 original size:25 final size:25
Alignment explanation
Indices: 30886328--30886438 Score: 104
Period size: 25 Copynumber: 4.5 Consensus size: 25
30886318 TGGCTCTCAC
*
30886328 GAGCTTCCCG-TTATATAGTTCTT-G
1 GAGCTTCCCGATTA-ATAGCTCTTCG
*
30886352 CTAGCTTCCCG-TTAATAGCTCTTCG
1 -GAGCTTCCCGATTAATAGCTCTTCG
* **
30886377 GAGCTTCCCTA-TAACTAGCTCTTAT
1 GAGCTTCCCGATTAA-TAGCTCTTCG
* *
30886402 GAGCTTCCCGATTAATGGCTCTCCG
1 GAGCTTCCCGATTAATAGCTCTTCG
30886427 GAGCTTCCCGAT
1 GAGCTTCCCGAT
30886439 ATTGGCTTGC
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
24 19 0.27
25 49 0.69
26 3 0.04
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATTAATAGCTCTTCG
Found at i:30886484 original size:24 final size:24
Alignment explanation
Indices: 30886354--30886488 Score: 82
Period size: 25 Copynumber: 5.6 Consensus size: 24
30886344 AGTTCTTGCT
* **
30886354 AGCTTCCCG-TTAATAGCTCTTCGG
1 AGCTTCCCGATT-ATGGCTCTTATG
* * *
30886378 AGCTTCCCTATAACTAGCTCTTATG
1 AGCTTCCCGATTA-TGGCTCTTATG
***
30886403 AGCTTCCCGATTAATGGCTCTCCGG
1 AGCTTCCCGATT-ATGGCTCTTATG
30886428 AGCTTCCCGA-TATTGGCT-TGCT-TG
1 AGCTTCCCGATTA-TGGCTCT--TATG
* *
30886452 AACTACCCGATTATGGCTCTTATG
1 AGCTTCCCGATTATGGCTCTTATG
30886476 AGCTTCCCG-TTAT
1 AGCTTCCCGATTAT
30886489 ACAGCTCGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
23 7 0.08
24 38 0.44
25 40 0.47
26 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCTTCCCGATTATGGCTCTTATG
Found at i:30886495 original size:25 final size:25
Alignment explanation
Indices: 30886473--30886539 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
30886463 TATGGCTCTT
*
30886473 ATGAGCTTCCCGTTATACAGCTCGA
1 ATGAGCTTCCCGTTATACAGCTCAA
** * * *
30886498 ATGAGCTTCCTATTACATAGCTCAC
1 ATGAGCTTCCCGTTATACAGCTCAA
*
30886523 ATGAACTTCCCGTTATA
1 ATGAGCTTCCCGTTATA
30886540 AGGCTTGATA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCAA
Found at i:30889597 original size:24 final size:23
Alignment explanation
Indices: 30889548--30889606 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
30889538 TAAAATTTTT
* *
30889548 AAATACTTTTTAATTTCTACAAAA
1 AAATAATTTTTAATTACTAC-AAA
*
30889572 AAATAATTTTTAATTAACTA-ATA
1 AAATAATTTTTAATT-ACTACAAA
30889595 AAAT-ATTTTTAA
1 AAATAATTTTTAA
30889607 AATTAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 8 0.26
23 6 0.19
24 14 0.45
25 3 0.10
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATTTTTAATTACTACAAA
Found at i:30898943 original size:134 final size:134
Alignment explanation
Indices: 30898696--30898947 Score: 294
Period size: 134 Copynumber: 1.9 Consensus size: 134
30898686 AGATTTTATT
* ** * *
30898696 GATACATTTTTCAGTATCGATAGCAAAATGACATTTTGTTTTCAAAAGTATTTACCAAGTATCGA
1 GATACATTTTTCAATATCGATAGCAAAATGACATTTTGACTTCAAAAGGATTTACCAAGTATCAA
* * *
30898761 TACGGTATCAATACCTATTGCTAGGTATCGATAAATTTCTTCAAGTATCGATAGTGGTATACTTT
66 TACAGTATCAATACCTATTACTAGGTATCGATAAATTTCTCCAAGTATCGATAGTGGTATACTTT
30898826 TACC
131 TACC
* * * * *
30898830 GATACATTTTTCAATATCGATA-CGGAATTGGCATTTTGACTTCCAAAGGATTTATCAAGTATCA
1 GATACATTTTTCAATATCGATAGC-AAAATGACATTTTGACTTCAAAAGGATTTACCAAGTATCA
* * * **
30898894 ATACAGTATCGATACCT-TCTATTTGGTATCGATAGAATTTC-CCTGGTATCGATA
65 ATACAGTATCAATACCTAT-TACTAGGTATCGATA-AATTTCTCCAAGTATCGATA
30898948 TTGATGCCCC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
133 2 0.02
134 89 0.92
135 6 0.06
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (134 bp):
GATACATTTTTCAATATCGATAGCAAAATGACATTTTGACTTCAAAAGGATTTACCAAGTATCAA
TACAGTATCAATACCTATTACTAGGTATCGATAAATTTCTCCAAGTATCGATAGTGGTATACTTT
TACC
Found at i:30901734 original size:39 final size:39
Alignment explanation
Indices: 30901680--30901759 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
30901670 AAGATAAAAG
30901680 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
30901719 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
30901758 TT
1 TT
30901760 AATCGTCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (39 bp):
TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
Found at i:30905361 original size:20 final size:20
Alignment explanation
Indices: 30905336--30905375 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30905326 TGAACATTAC
30905336 TCATTTTATCCTAAATCCAT
1 TCATTTTATCCTAAATCCAT
30905356 TCATTTTATCCTAAATCCAT
1 TCATTTTATCCTAAATCCAT
30905376 ATTAACCAAA
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:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (20 bp):
TCATTTTATCCTAAATCCAT
Found at i:30908300 original size:16 final size:16
Alignment explanation
Indices: 30908279--30908314 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
30908269 TAAAACATCC
30908279 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
30908295 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
30908311 TTAT
1 TTAT
30908315 TAACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (16 bp):
TTATGTTCCACAATAA
Found at i:30912727 original size:50 final size:50
Alignment explanation
Indices: 30912672--30912774 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
30912662 ATTTAAATTC
* *
30912672 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACAGCGGGAA
1 TAATTTGGAAACAAAAAAAAATCGAATAAAATCTTATTAAACAGCGGGAA
*
30912722 TAATTTGGAAACAAAAAAAAATTGAATAAAATCTTATTAAACAGCGGGAA
1 TAATTTGGAAACAAAAAAAAATCGAATAAAATCTTATTAAACAGCGGGAA
30912772 TAA
1 TAA
30912775 ATCCCAAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (50 bp):
TAATTTGGAAACAAAAAAAAATCGAATAAAATCTTATTAAACAGCGGGAA
Found at i:30912810 original size:84 final size:84
Alignment explanation
Indices: 30912722--30913716 Score: 832
Period size: 84 Copynumber: 12.0 Consensus size: 84
30912712 ACAGCGGGAA
* * *
30912722 TAATTTGGAAACAAAAAAAAATTGAATAAAATCTTATTAAACAGCGGGAATAAATCCCAAAACAA
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
30912787 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
** * * * **
30912806 TAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACAA
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
30912871 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * ** * *
30912890 TAATTTGGAAACAAAATAAAATAGAATAAAATCTTGTTAATCGGTAGGAATAAATCCTAAAACAG
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
30912955 A-TTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * * *
30912973 TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACGGCGGGAATAAAT-CCAGGAATA
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCA-AAACA
30913037 AATTTTATTTAATTTAATTC
65 AATTTTATTTAATTTAATTC
* * * *
30913057 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACTGCGAGAATAAATACCGAAACAA
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
30913122 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * *
30913141 TAAATTT-GAAATAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGAAATAAATCCCGAAAA-
1 T-AATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCC-AAAAC
*
30913204 AAAATTTATTTAATTTAATTC
64 AAATTTTATTTAATTTAATTC
* * *
30913225 TAATTT----A-GAAAT--AA---AATAAAATCTTGTTAAACCGCGGGAATAAATCTCAAAACAA
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
30913280 ATTTTATTTAATTTTAATTTC
66 ATTTTATTTAA-TTTAA-TTC
* * ** * * * *
30913301 TCATTTTGGCAACAAAATTAAAATGTG-ATAAAATC-CATTGAACGGCGGGATTAAATCTCGAAA
1 T-AATTTGGAAACAAAA-TAAAAT-TGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAA
* *
30913364 TAGATTTTATTTAACTTTAATTTC
63 CAAATTTTATTTAA-TTTAA-TTC
** * * * ** * *
30913388 TTGTTTGAAAATAAAATAAAA-TAAAGGAAA-CTTCCATTGAACGGCGGGAATAAATCCCAAAAC
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTT--GTTAAACGGCGGGAATAAATCCCAAAAC
*
30913451 AAATTTTATTTTAATTTTAATAC
64 AAATTTTA-TTTAA-TTTAATTC
** * * * ** * *
30913474 TCGTTTTGGAAATAAAATCAAAATTGGAATAAAATC-CGTTGAACGGCAAGAATAAATCTCGAAA
1 T-AATTTGGAAACAAAAT-AAAATT-GAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAA
* **
30913538 CAGATTTTATTCGA--T--TT-
63 CAAATTTTATTTAATTTAATTC
* * * ** *
30913555 TAATTTGGAAAC-----AAAATCGAATAAAAT-ATGTTAAACGACGGGAATAAATCCTGAAACAG
1 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
*
30913614 ATTTTATTTGATTTTAATAT-
66 ATTTTATTT-AATTTAAT-TC
** * * * * * * *
30913634 TCGTTTGGAAATAAAAATAAAATAAAGAATAAAATC-TATTGAACAGCGGGGATTAATCCCGAAA
1 TAATTTGGAAA-CAAAATAAAAT--TGAATAAAATCTTGTTAAACGGCGGGAATAAATCCC-AAA
*
30913698 A-ATATTTTATTTAATTTAA
62 ACAAATTTTATTTAATTTAA
30913717 AATTTTATTT
Statistics
Matches: 744, Mismatches: 119, Indels: 94
0.78 0.12 0.10
Matches are distributed among these distances:
73 45 0.06
74 48 0.06
75 5 0.01
76 5 0.01
77 6 0.01
78 1 0.00
79 14 0.02
80 9 0.01
81 2 0.00
82 6 0.01
83 78 0.10
84 295 0.40
85 22 0.03
86 50 0.07
87 106 0.14
88 45 0.06
89 1 0.00
90 5 0.01
91 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (84 bp):
TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAA
ATTTTATTTAATTTAATTC
Found at i:30912857 original size:134 final size:135
Alignment explanation
Indices: 30912611--30912858 Score: 376
Period size: 134 Copynumber: 1.8 Consensus size: 135
30912601 ATTAATATCA
* * ** *
30912611 AATAAAATCTTCTTAAATGACGGGAATAAATCATGAAACAGATTTTATTTAATTTAAATTCTAAT
1 AATAAAATCTTATTAAAAGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAAT
* * *
30912676 TTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACAGCGGGAATAATTTGGAAACAAAAAAA
66 TTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAGCGAGAATAATTTGGAAACAAAAAAA
30912741 AATTG
131 AATTG
*
30912746 AATAAAATCTTATTAAACAG-CGGGAATAAATCCCAAAACAAATTTTATTTAATTT-AATTCTAA
1 AATAAAATCTTATTAAA-AGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAA
30912809 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAAC-GACGAGAATAA
65 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAG-CGAGAATAA
30912859 ATCCTGAAAC
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
133 1 0.01
134 53 0.52
135 47 0.46
136 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (135 bp):
AATAAAATCTTATTAAAAGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAAT
TTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAGCGAGAATAATTTGGAAACAAAAAAA
AATTG
Found at i:30912868 original size:135 final size:135
Alignment explanation
Indices: 30912611--30912871 Score: 368
Period size: 135 Copynumber: 1.9 Consensus size: 135
30912601 ATTAATATCA
* * ** *
30912611 AATAAAATCTTCTTAAATGACGGGAATAAATCATGAAACAGATTTTATTTAATTTAAATTCTAAT
1 AATAAAATCTTATTAAAAGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAAT
* * * *
30912676 TTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACAGCGGGAATAATTTGGAAACAAAAAAA
66 TTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAGCGAGAATAATCTGGAAACAAAAAAA
30912741 AATTG
131 AATTG
*
30912746 AATAAAATCTTATTAAACAG-CGGGAATAAATCCCAAAACAAATTTTATTTAATTT-AATTCTAA
1 AATAAAATCTTATTAAA-AGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAA
30912809 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAAC-GACGAGAATAAATCCT-GAAACAAA
65 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAG-CGAGAAT-AAT-CTGGAAACAAA
30912872 TTTTATTTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
133 1 0.01
134 51 0.46
135 58 0.52
136 2 0.02
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (135 bp):
AATAAAATCTTATTAAAAGACGGGAATAAATCACAAAACAAATTTTATTTAATTTAAATTCTAAT
TTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACAGCGAGAATAATCTGGAAACAAAAAAA
AATTG
Found at i:30913172 original size:251 final size:248
Alignment explanation
Indices: 30912722--30913410 Score: 839
Period size: 251 Copynumber: 2.8 Consensus size: 248
30912712 ACAGCGGGAA
* * * *
30912722 TAATTTGGAAACAAAAAAAAATTGAATAAAATCTTATTAAACAGCGGGAATAAATCCCAAAACAA
1 TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACAGCGGGAATAAAT-CCAAAACAA
**
30912787 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGACG
65 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATCTTATTAAACG-CG
*
30912852 AGAATAAATCCTGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATAGAAT
129 AGAATAAATCC-GAAACAAATTTTATTTAATTTAATTCTAATTT-GAAATAAAATAAAATAGAAT
* * * *
30912917 AAAATCTTGTTAATCGGTAGG-AATAAAT-CCTAAAACAGATTTATTTAATTTAATTC
192 AAAATCTTGTTAAACGG-AGGAAATAAATCCCGAAAAAAAATTTATTTAATTTAATTC
* * *
30912973 TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACGGCGGGAATAAATCCAGGAATAA
1 TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACAGCGGGAATAAATCCA-AAACAA
*
30913038 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAACTGCG
65 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATCTTATTAAAC-GCG
*
30913103 AGAATAAATACCGAAACAAATTTTATTTAATTTAATTCTAAATTTGAAATAAAATAAAATCGAAT
129 AGAATAAAT-CCGAAACAAATTTTATTTAATTTAATTCT-AATTTGAAATAAAATAAAATAGAAT
*
30913168 AAAATCTTGTTAAACGGCGGAAATAAATCCCGAAAAAAAATTTATTTAATTTAATTC
192 AAAATCTTGTTAAACGGAGGAAATAAATCCCGAAAAAAAATTTATTTAATTTAATTC
* *
30913225 TAA-TTT---A-GAAAT---A--AAATAAAATCTTGTTAAACCGCGGGAATAAATCTCAAAACAA
1 TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACAGCGGGAATAAATC-CAAAACAA
* * * *
30913280 ATTTTATTTAATTTTAATTTCTCATTTTGGCAACAAAATTAAAATGTG-ATAAAATC-CATTGAA
65 ATTTTATTTAA-TTTAA-TTCT-AATTTGGAAACAAAA-TAAAAT-TGAATAAAATCTTATTAAA
* * * * **
30913343 CGGCGGGATTAAATCTCGAAATAGATTTTATTTAACTTTAATTTCTTGTTTGAAAATAAAATAAA
125 C-GCGAGAATAAATC-CGAAACAAATTTTATTTAA-TTTAA-TTCTAATTTG-AAATAAAATAAA
30913408 ATA
185 ATA
30913411 AAGGAAACTT
Statistics
Matches: 388, Mismatches: 34, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
242 47 0.12
243 7 0.02
244 6 0.02
245 45 0.12
246 23 0.06
247 24 0.06
248 1 0.00
250 5 0.01
251 194 0.50
252 36 0.09
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (248 bp):
TAATTTTGAAACAAAATAAAATTAAATAAAATCTTGTTAAACAGCGGGAATAAATCCAAAACAAA
TTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATCTTATTAAACGCGAG
AATAAATCCGAAACAAATTTTATTTAATTTAATTCTAATTTGAAATAAAATAAAATAGAATAAAA
TCTTGTTAAACGGAGGAAATAAATCCCGAAAAAAAATTTATTTAATTTAATTC
Found at i:30913356 original size:87 final size:86
Alignment explanation
Indices: 30913258--30913560 Score: 303
Period size: 87 Copynumber: 3.5 Consensus size: 86
30913248 TTGTTAAACC
* *
30913258 GCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTCATTTTGGCAACAAAATTAAA
1 GCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTC-TTTTGGAAATAAAATTAAA
30913323 ATGTGATAAAATCCATTGAACG
65 ATGTGATAAAATCCATTGAACG
* * * * * *
30913345 GCGGGATTAAATCTCGAAATAGATTTTATTTAACTTTAATTTCT-TGTTTGAAAATAAAA-TAAA
1 GCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTCT-TTTGGAAATAAAATTAAA
**
30913408 ATAAAG-GA-AACTTCCATTGAACG
65 AT---GTGATAAAATCCATTGAACG
* * *
30913431 GCGGGAATAAATCCCAAAACAAATTTTATTTTAATTTTAA-TACTCGTTTTGGAAATAAAATCAA
1 GCGGGAATAAATCTCAAAACAAATTTTA-TTTAATTTTAATTTCTC-TTTTGGAAATAAAATTAA
*
30913495 AAT-TGGAATAAAATCCGTTGAACG
64 AATGT-G-ATAAAATCCATTGAACG
** * * **
30913519 GCAAGAATAAATCTCGAAACAGATTTTATTCGATTTTAATTT
1 GCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTT
30913561 GGAAACAAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
85 7 0.04
86 50 0.29
87 73 0.42
88 43 0.25
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (86 bp):
GCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTCTTTTGGAAATAAAATTAAAA
TGTGATAAAATCCATTGAACG
Found at i:30923473 original size:30 final size:30
Alignment explanation
Indices: 30923428--30923492 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
30923418 ACTGCAGGGG
*
30923428 TCACACGGCCGTATGACCAGGCCATGTGGC
1 TCACACGGCCGTATGAACAGGCCATGTGGC
* * *
30923458 TCACTCGGTCGTATGAACAGGCCGTGTGGC
1 TCACACGGCCGTATGAACAGGCCATGTGGC
30923488 TCACA
1 TCACA
30923493 TGGCTGAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.31, G:0.29, T:0.20
Consensus pattern (30 bp):
TCACACGGCCGTATGAACAGGCCATGTGGC
Found at i:30930781 original size:26 final size:26
Alignment explanation
Indices: 30930733--30930794 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
30930723 CCTGTAATTG
*
30930733 TTCTAAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* * *
30930759 TTCTGAAACTTATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
30930785 TTCTGAAACT
1 TTCTGAAACT
30930795 ACTGTAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:30934958 original size:576 final size:576
Alignment explanation
Indices: 30933863--30935018 Score: 2177
Period size: 576 Copynumber: 2.0 Consensus size: 576
30933853 TTGAAAGCAG
* *
30933863 CTTCTGACAGGCAGAAATCTTATGCGGCTTTGAAGAGGCGTGAGATCGAGTATTCTGTGAGGGAC
1 CTTCTGACAGGCAGAAATCTTATACGGCTTTGAAGAGGCGTGAGATCGAGTATTCTGTAAGGGAC
*
30933928 TTCATTTTTCTCAAGGTCTCACCACGGAAGAAGGTACTGAGGTTTAGTCGTAAAGGCAAGTTGAG
66 TTCATTTTTCTCAAGGTCTCACCACGGAAGAAGATACTGAGGTTTAGTCGTAAAGGCAAGTTGAG
30933993 CCCTAGGTTTATTGTACCTTACCGTATTCTGAAGTGAGTGAGACCAGTTGCTTATCAGTTGGAGC
131 CCCTAGGTTTATTGTACCTTACCGTATTCTGAAGTGAGTGAGACCAGTTGCTTATCAGTTGGAGC
30934058 TACCTCCGGCGTTGGATCGTATCCATGATGTGTTCCATGTCTCTATGTTGAGGCGTTACCGCTCT
196 TACCTCCGGCGTTGGATCGTATCCATGATGTGTTCCATGTCTCTATGTTGAGGCGTTACCGCTCT
* *
30934123 GATCCTACTCATATTGTCTCTGTTGAGGAGATTGAGGTTAGGCCAGACTTAAGCTTTGGGGAGGA
261 GATCCTACTCATATTGTCCCTGTTGAGGAGATTGAGGTTAGGCCAGACTTAAGCTTTGGGGAAGA
*
30934188 GTCTGTCCAGAATCTGGATCGTGACAAAGGTTCTGAGGAGGAAGTCTATTCCTTTAGTGGATGTT
326 GTCTGTCCAGAATCTGGATCGTGACAAAGGTTCTGAGGAGGAAGTCTATTCCTTTAGTGGAGGTT
* *
30934253 CTATGGTGTAATCATAGCACTGAGGAGGCCACGTGGGAGCCTGAGGATGCGATGCGTCAACAGTA
391 CTATGGCGTAACCATAGCACTGAGGAGGCCACGTGGGAGCCTGAGGATGCGATGCGTCAACAGTA
*
30934318 TCCTTATTTGTTCTAATCAGGTAAATTTCGAGGTCAAAATTTTCTTTTAAGGGGGTATAGTTGTA
456 TCCTTATTTGTTCTAATCAGGTAAATTTCGAGGTCAAAATTTTCTTTTAAGGGGGTAGAGTTGTA
* *
30934383 ACGCCCTAGAATTTTTACTTTTGTTCTTGCGAAAGTGTGACACAACTGTGTATCTA
521 ACACCCCAGAATTTTTACTTTTGTTCTTGCGAAAGTGTGACACAACTGTGTATCTA
*
30934439 CTTCTGACAGGCAGAAATCTTATACGGCTTTGAAGAGGCGTGAGATCGAGTATTTTGTAAGGGAC
1 CTTCTGACAGGCAGAAATCTTATACGGCTTTGAAGAGGCGTGAGATCGAGTATTCTGTAAGGGAC
*
30934504 TTCATTTTTCTCAAGGTCTCACCACGGAAGAAGATACTGAGGTTTAGTCGTAAGGGCAAGTTGAG
66 TTCATTTTTCTCAAGGTCTCACCACGGAAGAAGATACTGAGGTTTAGTCGTAAAGGCAAGTTGAG
30934569 CCCTAGGTTTATTGTACCTTACCGTATTCTGAAGTGAGTGAGACCAGTTGCTTATCAGTTGGAGC
131 CCCTAGGTTTATTGTACCTTACCGTATTCTGAAGTGAGTGAGACCAGTTGCTTATCAGTTGGAGC
*
30934634 TACCTCCGGCGTTGGATCGTATCTATGATGTGTTCCATGTCTCTATGTTGAGGCGTTACCGCTCT
196 TACCTCCGGCGTTGGATCGTATCCATGATGTGTTCCATGTCTCTATGTTGAGGCGTTACCGCTCT
30934699 GATCCTACTCATATTGTCCCTGTTGAGGAGATTGAGGTTAGGCCAGACTTAAGCTTTGGGGAAGA
261 GATCCTACTCATATTGTCCCTGTTGAGGAGATTGAGGTTAGGCCAGACTTAAGCTTTGGGGAAGA
30934764 GTCTGTCCAGAATCTGGATCGTGACAAAGGTTCTGAGGAGGAAGTCTATTCCTTTAGTGGAGGTT
326 GTCTGTCCAGAATCTGGATCGTGACAAAGGTTCTGAGGAGGAAGTCTATTCCTTTAGTGGAGGTT
*
30934829 CTATGGCGTAACCATAGCACTGAGGAGGCCACGTGGGAGCCTGAGGATGCGATGCGTCAATAGTA
391 CTATGGCGTAACCATAGCACTGAGGAGGCCACGTGGGAGCCTGAGGATGCGATGCGTCAACAGTA
30934894 TCCTTATTTGTTCTAATCAGGTAAATTTCGAGGTCAAAATTTTCTTTTAAGGGGGTAGAGTTGTA
456 TCCTTATTTGTTCTAATCAGGTAAATTTCGAGGTCAAAATTTTCTTTTAAGGGGGTAGAGTTGTA
30934959 ACACCCCAGAATTTTTACTTTTGTTCTTGCGAAAGTGTGACACAACTGTGTATCTA
521 ACACCCCAGAATTTTTACTTTTGTTCTTGCGAAAGTGTGACACAACTGTGTATCTA
30935015 CTTC
1 CTTC
30935019 AGTAGTTAAG
Statistics
Matches: 565, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
576 565 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (576 bp):
CTTCTGACAGGCAGAAATCTTATACGGCTTTGAAGAGGCGTGAGATCGAGTATTCTGTAAGGGAC
TTCATTTTTCTCAAGGTCTCACCACGGAAGAAGATACTGAGGTTTAGTCGTAAAGGCAAGTTGAG
CCCTAGGTTTATTGTACCTTACCGTATTCTGAAGTGAGTGAGACCAGTTGCTTATCAGTTGGAGC
TACCTCCGGCGTTGGATCGTATCCATGATGTGTTCCATGTCTCTATGTTGAGGCGTTACCGCTCT
GATCCTACTCATATTGTCCCTGTTGAGGAGATTGAGGTTAGGCCAGACTTAAGCTTTGGGGAAGA
GTCTGTCCAGAATCTGGATCGTGACAAAGGTTCTGAGGAGGAAGTCTATTCCTTTAGTGGAGGTT
CTATGGCGTAACCATAGCACTGAGGAGGCCACGTGGGAGCCTGAGGATGCGATGCGTCAACAGTA
TCCTTATTTGTTCTAATCAGGTAAATTTCGAGGTCAAAATTTTCTTTTAAGGGGGTAGAGTTGTA
ACACCCCAGAATTTTTACTTTTGTTCTTGCGAAAGTGTGACACAACTGTGTATCTA
Found at i:30940923 original size:21 final size:21
Alignment explanation
Indices: 30940899--30940941 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30940889 TAATAGCAAA
* *
30940899 ATTTTACCATTAAATAAAATT
1 ATTTTAACAATAAATAAAATT
30940920 ATTTTAACAATAAATAAAATT
1 ATTTTAACAATAAATAAAATT
30940941 A
1 A
30940942 AATCGATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAACAATAAATAAAATT
Found at i:30943351 original size:22 final size:22
Alignment explanation
Indices: 30943321--30943363 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30943311 ACACTAAAAC
* *
30943321 AGGCTTTTAGTGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
30943343 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
30943364 AGCGAGCGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:30943454 original size:43 final size:43
Alignment explanation
Indices: 30943406--30943607 Score: 293
Period size: 43 Copynumber: 4.7 Consensus size: 43
30943396 GCGTCGCTAA
* *
30943406 CTTTAGCAGTGCTTTTCCCA-AGAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACA-AACGCCGCTAAAGACCAAGAC
** * *
30943449 CTTTAGCGGATCTTTTCTCACAAACGCCGCTAAAGGCCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
30943492 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
30943535 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA--ATAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-AGAC
*
30943577 CTTTAGCGGCGCTTTTCACACAAACGCCGCT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCT
30943608 TATAAAATAT
Statistics
Matches: 146, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 34 0.23
43 110 0.75
44 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:30943645 original size:15 final size:16
Alignment explanation
Indices: 30943627--30943659 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30943617 TCTTTTAAAA
*
30943627 AAATAAT-TTTTTTTC
1 AAATAATATTTATTTC
30943642 AAATAATATTTATTTC
1 AAATAATATTTATTTC
30943658 AA
1 AA
30943660 TGAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATATTTATTTC
Found at i:30943931 original size:43 final size:43
Alignment explanation
Indices: 30943883--30943973 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
30943873 ACATATGCAA
* * * *
30943883 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
30943926 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
30943969 -GTAAT
1 GGTAAT
30943974 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:30944497 original size:24 final size:24
Alignment explanation
Indices: 30944470--30944517 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30944460 AGAACATATC
30944470 ATGCTTAAAGATAATAATTAGATT
1 ATGCTTAAAGATAATAATTAGATT
30944494 ATGCTTAAAGATAATAATTAGATT
1 ATGCTTAAAGATAATAATTAGATT
30944518 TATCTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (24 bp):
ATGCTTAAAGATAATAATTAGATT
Found at i:30947404 original size:13 final size:13
Alignment explanation
Indices: 30947386--30947412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30947376 ATTGTCAATC
30947386 TGTTACATTAATT
1 TGTTACATTAATT
30947399 TGTTACATTAATT
1 TGTTACATTAATT
30947412 T
1 T
30947413 ATTTATTTAT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:30947460 original size:36 final size:38
Alignment explanation
Indices: 30947395--30947473 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
30947385 CTGTTACATT
30947395 AATTTGTTACATTAATTTATTTATTTATCAATTTTTTTAA
1 AATTTGTTACATTAA--TATTTATTTATCAATTTTTTTAA
30947435 AATTTGTTACATT-A-ATTTATTTATCAATTTTTTTAA
1 AATTTGTTACATTAATATTTATTTATCAATTTTTTTAA
30947471 AAT
1 AAT
30947474 ATAATATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 25 0.64
39 1 0.03
40 13 0.33
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (38 bp):
AATTTGTTACATTAATATTTATTTATCAATTTTTTTAA
Found at i:30947936 original size:21 final size:20
Alignment explanation
Indices: 30947912--30947972 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
30947902 CAAATCTTTA
* *
30947912 AACCCTAAATCACTAACTCTT
1 AACCCT-AACCACTAACCCTT
*
30947933 AACCTCTAACCCCTAACCCTT
1 AACC-CTAACCACTAACCCTT
*
30947954 AACCCCTAACTACTAACCC
1 AA-CCCTAACCACTAACCC
30947973 CTAAATCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (20 bp):
AACCCTAACCACTAACCCTT
Found at i:30947942 original size:7 final size:7
Alignment explanation
Indices: 30947932--30947976 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
30947922 CACTAACTCT
*
30947932 TAACCTC
1 TAACCCC
30947939 TAACCCC
1 TAACCCC
*
30947946 TAACCCT
1 TAACCCC
30947953 TAACCCC
1 TAACCCC
**
30947960 TAACTAC
1 TAACCCC
30947967 TAACCCC
1 TAACCCC
30947974 TAA
1 TAA
30947977 ATCTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:30948188 original size:15 final size:14
Alignment explanation
Indices: 30948162--30948191 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30948152 AATCTCTAAC
30948162 CCCTAATCCATAAT
1 CCCTAATCCATAAT
30948176 CCCTAATTCCATAAT
1 CCCTAA-TCCATAAT
30948191 C
1 C
30948192 TATAAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:30948262 original size:14 final size:14
Alignment explanation
Indices: 30948240--30948276 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30948230 ATCTTAAATT
30948240 AACCATATACCCTA
1 AACCATATACCCTA
*
30948254 AATCATATACCCTA
1 AACCATATACCCTA
30948268 AACCATATA
1 AACCATATA
30948277 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:30948656 original size:41 final size:40
Alignment explanation
Indices: 30948613--30948876 Score: 287
Period size: 41 Copynumber: 6.4 Consensus size: 40
30948603 CGCTTCCTGG
* **
30948613 AAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCTTGG
1 AAAACGCCGCTAAAGCCA-GAGCATTAGCGGCGCTTTTTCA
* * *
30948654 AAAACTCCGCTAAAGCCCAGAGCATTAGTGGCGCTCCTTT-A
1 AAAACGCCGCTAAAG-CCAGAGCATTAGCGGCGCT-TTTTCA
* * * *
30948695 AAAACACTGTTAAAAGCCTGAGCATTAGCGGCGCTTTTTCA
1 AAAACGCCGCT-AAAGCCAGAGCATTAGCGGCGCTTTTTCA
* *** * *
30948736 AAAACGCTGCTAAAGTTGTGAGCAGTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAG-CCAGAGCATTAGCGGCGCTTTTTCA
*
30948777 AAAACGCCGCTAAAAGCTAGAGCATTAGCGGCGCTTTTTCA
1 AAAACGCCGCT-AAAGCCAGAGCATTAGCGGCGCTTTTTCA
*
30948818 AAAACGCCGCTAAAAGCTAGAGCATTAGCGGCGCTTTTTCA
1 AAAACGCCGCT-AAAGCCAGAGCATTAGCGGCGCTTTTTCA
30948859 GAAAACGCCGCTAAAGCC
1 -AAAACGCCGCTAAAGCC
30948877 CCGAAAGGTC
Statistics
Matches: 192, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
40 7 0.04
41 161 0.84
42 24 0.12
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAGCCAGAGCATTAGCGGCGCTTTTTCA
Found at i:30948821 original size:123 final size:124
Alignment explanation
Indices: 30948612--30948874 Score: 327
Period size: 123 Copynumber: 2.1 Consensus size: 124
30948602 GCGCTTCCTG
**** * * *
30948612 GAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCTTGGAAAACTCCGCTAAAGCCCAGAGC
1 GAAAACGCCGCTAAAGTTGTGAGCAGTAGCGGCGCTTCTTGAAAAACGCCGCTAAAGCCCAGAGC
* * *
30948677 ATTAGTGGCGCTCCTTTAAAAACACTGTTAAAAGCCT-GAGCATTAGCGGCGCTTTTTCA
66 ATTAGCGGCGCTCCTTTAAAAACACCGCTAAAAG-CTAGAGCATTAGCGGCGCTTTTTCA
* * * *
30948736 -AAAACGCTGCTAAAGTTGTGAGCAGTAGCGGCGCTTTTTTAAAAACGCCGCTAAAAG-CTAGAG
1 GAAAACGCCGCTAAAGTTGTGAGCAGTAGCGGCGCTTCTTGAAAAACGCCGCT-AAAGCCCAGAG
* *
30948799 CATTAGCGGCGCT-TTTTCAAAAACGCCGCTAAAAGCTAGAGCATTAGCGGCGCTTTTTCA
65 CATTAGCGGCGCTCCTTT-AAAAACACCGCTAAAAGCTAGAGCATTAGCGGCGCTTTTTCA
30948859 GAAAACGCCGCTAAAG
1 GAAAACGCCGCTAAAG
30948875 CCCCGAAAGG
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
122 5 0.04
123 95 0.81
124 18 0.15
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (124 bp):
GAAAACGCCGCTAAAGTTGTGAGCAGTAGCGGCGCTTCTTGAAAAACGCCGCTAAAGCCCAGAGC
ATTAGCGGCGCTCCTTTAAAAACACCGCTAAAAGCTAGAGCATTAGCGGCGCTTTTTCA
Found at i:30949024 original size:40 final size:39
Alignment explanation
Indices: 30948937--30949047 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
30948927 TTCCAGAAAA
**
30948937 CGCCGCTAATGCTC-ATTTTTAGCGGCGCTTTCCTTAAAG
1 CGCCGCTAATGCTCGATTTTTAGCGGCG-TTTTATTAAAG
* * *
30948976 TGCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGTTAAG
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTAT-TAAAG
*
30949016 CGCTGCTAATGCTCGATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
30949048 TTTGTCCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 17 0.27
40 45 0.73
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (39 bp):
CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTATTAAAG
Found at i:30955323 original size:50 final size:50
Alignment explanation
Indices: 30955237--30955422 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
30955227 CATTGAGGTT
* *
30955237 ATGAGAGGTCCCATGTAAG-CCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * *
30955286 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * * *
30955336 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGTCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AG
* * **
30955385 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
30955423 TTTGGCATGT
Statistics
Matches: 112, Mismatches: 23, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
48 1 0.01
49 49 0.44
50 62 0.55
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:30959117 original size:16 final size:17
Alignment explanation
Indices: 30959093--30959125 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
30959083 AAATAACTAG
30959093 ATGCAAAATTAACCTAA
1 ATGCAAAATTAACCTAA
30959110 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
30959126 GTGTATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:30960016 original size:18 final size:18
Alignment explanation
Indices: 30959984--30960018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30959974 AGATGTGAAG
*
30959984 TGAGGGATCATTGAATGA
1 TGAGGGATCAATGAATGA
*
30960002 TGAGGGATGAATGAATG
1 TGAGGGATCAATGAATG
30960019 GGAAGTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.37, T:0.26
Consensus pattern (18 bp):
TGAGGGATCAATGAATGA
Found at i:30967488 original size:34 final size:34
Alignment explanation
Indices: 30967450--30967521 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
30967440 ATACAAATGT
* *
30967450 CATGACATTAGGGCGATGAGATCCTATGTAAGAG
1 CATGACATTAGGGCGATGAGATCCCATGTAAGAC
*
30967484 CATGACATTAGGGGGATGAGATCCCATGTAAGAC
1 CATGACATTAGGGCGATGAGATCCCATGTAAGAC
30967518 CATG
1 CATG
30967522 TCTGGAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (34 bp):
CATGACATTAGGGCGATGAGATCCCATGTAAGAC
Found at i:30980734 original size:49 final size:50
Alignment explanation
Indices: 30980619--30980808 Score: 143
Period size: 49 Copynumber: 3.8 Consensus size: 50
30980609 GAATATAACA
* * * * ** * ** *
30980619 TGCCAAAGCTATGTCCTAGACATAGTCTTACATGGGATGTTTC-TTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATAG
* * * * **
30980668 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-ATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATA-G
* * * * * *
30980718 TTCCCATGCCAT-TCCCAAACATGGTCTTACAGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATAG
*
30980767 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30980809 TTACCTAAAT
Statistics
Matches: 110, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 72 0.65
50 38 0.35
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATAG
Found at i:30985007 original size:7 final size:7
Alignment explanation
Indices: 30984995--30985021 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30984985 TAGTAAACAA
30984995 TAATATT
1 TAATATT
30985002 TAATATT
1 TAATATT
30985009 TAATATT
1 TAATATT
30985016 TAATAT
1 TAATAT
30985022 AGTATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:30985632 original size:17 final size:17
Alignment explanation
Indices: 30985596--30985632 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30985586 CTTCAGGGGT
**
30985596 GTGTTCACACTTAAGGA
1 GTGTTCACACTTAAAAA
30985613 GTGTTCACACTTAAAAA
1 GTGTTCACACTTAAAAA
30985630 GTG
1 GTG
30985633 GTAAGGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (17 bp):
GTGTTCACACTTAAAAA
Found at i:30997364 original size:6 final size:6
Alignment explanation
Indices: 30997353--30997380 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30997343 GAACATGTCC
30997353 TAATTT TAATTT TAATTT TAATTT TAAT
1 TAATTT TAATTT TAATTT TAATTT TAAT
30997381 AACTACAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TAATTT
Found at i:30997904 original size:19 final size:18
Alignment explanation
Indices: 30997880--30997919 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
30997870 ATAGAACTTC
*
30997880 TAGAAAATCATATAAAATA
1 TAGAAAATCAT-TAAAAAA
*
30997899 TAGAAAATTATTAAAAAA
1 TAGAAAATCATTAAAAAA
30997917 TAG
1 TAG
30997920 TTATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (18 bp):
TAGAAAATCATTAAAAAA
Found at i:30997929 original size:22 final size:19
Alignment explanation
Indices: 30997902--30997946 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
30997892 TAAAATATAG
30997902 AAAATTATTAAAAAATAGTTAT
1 AAAATTA-TAAAAAA-A-TTAT
*
30997924 AAAATTATAGAAAAATTAT
1 AAAATTATAAAAAAATTAT
30997943 AAAA
1 AAAA
30997947 ATGAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 6 0.27
22 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAAATTAT
Found at i:30997942 original size:19 final size:18
Alignment explanation
Indices: 30997920--30997972 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
30997910 TAAAAAATAG
30997920 TTATAAAATTATAGAAAAA
1 TTATAAAATTAT-GAAAAA
*
30997939 TTATAAAA--ATGAGAAA
1 TTATAAAATTATGAAAAA
30997955 TTATAGAAATTATGAAAA
1 TTATA-AAATTATGAAAA
30997973 TTCTACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
19 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (18 bp):
TTATAAAATTATGAAAAA
Found at i:31001169 original size:13 final size:14
Alignment explanation
Indices: 31001151--31001179 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31001141 TTTTAGAATT
31001151 ATAATATAT-AATA
1 ATAATATATAAATA
31001164 ATAATATATAAATA
1 ATAATATATAAATA
31001178 AT
1 AT
31001180 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATATAAATA
Found at i:31002460 original size:12 final size:12
Alignment explanation
Indices: 31002445--31002470 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31002435 CGAGTTTTGA
31002445 TTCTTTAATTCT
1 TTCTTTAATTCT
31002457 TTCTTTAATTCT
1 TTCTTTAATTCT
31002469 TT
1 TT
31002471 AATTTAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTTTAATTCT
Found at i:31014446 original size:17 final size:18
Alignment explanation
Indices: 31014418--31014452 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31014408 ATATATAAAA
31014418 TAAAAAATATATATTTAT
1 TAAAAAATATATATTTAT
*
31014436 TAAAAAA-ATATTTTTAT
1 TAAAAAATATATATTTAT
31014453 AATATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATATATATTTAT
Found at i:31014558 original size:23 final size:23
Alignment explanation
Indices: 31014505--31014570 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
31014495 TAAAAGATAT
*
31014505 ATTTAAAAATTTTAAAAAATAAA
1 ATTTAAAAATATTAAAAAATAAA
** *
31014528 ATAAAAAAATATT-GAAAATAAA
1 ATTTAAAAATATTAAAAAATAAA
31014550 AGTTTAAAAATTATATAAAAA
1 A-TTTAAAAA-TAT-TAAAAA
31014571 TTCATTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 9 0.28
23 16 0.50
24 3 0.09
25 1 0.03
26 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (23 bp):
ATTTAAAAATATTAAAAAATAAA
Found at i:31015196 original size:21 final size:21
Alignment explanation
Indices: 31015172--31015228 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
31015162 CTTGAATGTC
31015172 AAGTCTTGAAACTTGACCTAT
1 AAGTCTTGAAACTTGACCTAT
* *
31015193 AAGT-TTTAATACTTAACCTAT
1 AAGTCTTGAA-ACTTGACCTAT
*
31015214 AAGTCTTGAGACTTG
1 AAGTCTTGAAACTTG
31015229 GCTTGTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
AAGTCTTGAAACTTGACCTAT
Found at i:31017782 original size:44 final size:44
Alignment explanation
Indices: 31017732--31017890 Score: 160
Period size: 44 Copynumber: 3.5 Consensus size: 44
31017722 AAATACAATG
* *
31017732 GTTGAAAGATA-TCATGGCATTATACTGAAATGAGAAAGACCATA
1 GTTGAAAGATACT-ATGGCATTAAACCGAAATGAGAAAGACCATA
* * *
31017776 GTTGAAAGATACTATGGCATTAAACCGAAATGGGTAAGACCTTA
1 GTTGAAAGATACTATGGCATTAAACCGAAATGAGAAAGACCATA
* * * * *
31017820 GTTAAAAGATACTACGACACTATACCGAAAAATGA-ACAAGACCATA
1 GTTGAAAGATACTATGGCATTAAACCG--AAATGAGA-AAGACCATA
*
31017866 GTTGAAAAGATACTATGACATTAAA
1 GTTG-AAAGATACTATGGCATTAAA
31017891 TATGATTGAA
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 59 0.63
45 1 0.01
46 16 0.17
47 17 0.18
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (44 bp):
GTTGAAAGATACTATGGCATTAAACCGAAATGAGAAAGACCATA
Found at i:31021790 original size:37 final size:37
Alignment explanation
Indices: 31021702--31021776 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
31021692 ATTACCCGAA
* * *
31021702 TTGAATCACTACATATTTAAAAATATTACATAAGTCT
1 TTGAATTACTACATAATTAAAAACATTACATAAGTCT
*
31021739 TTGAATTACTACATAATTAAAAACATTACATAATTCT
1 TTGAATTACTACATAATTAAAAACATTACATAAGTCT
31021776 T
1 T
31021777 GAAATTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (37 bp):
TTGAATTACTACATAATTAAAAACATTACATAAGTCT
Found at i:31021959 original size:38 final size:39
Alignment explanation
Indices: 31021908--31021981 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 39
31021898 ACTTAAGAGT
*
31021908 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
31021946 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATT
31021982 AGGTTAGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 27 0.79
39 7 0.21
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.53
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:31021997 original size:17 final size:18
Alignment explanation
Indices: 31021970--31022003 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31021960 AGTTTTATTG
31021970 GGTTGGGTAATTAGGTTA
1 GGTTGGGTAATTAGGTTA
*
31021988 GGTT-GGTAATTGGGTT
1 GGTTGGGTAATTAGGTT
31022004 GGGTCATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (18 bp):
GGTTGGGTAATTAGGTTA
Done.