Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold912
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: 117662
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:7342 original size:13 final size:13
Alignment explanation
Indices: 7324--7375 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
7314 AGCTTCGTAG
7324 CGATACATTGTAT
1 CGATACATTGTAT
7337 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
7356 CGATACATTGTAT
1 CGATACATTGTAT
7369 CGATACA
1 CGATACA
7376 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:10732 original size:19 final size:21
Alignment explanation
Indices: 10689--10740 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
10679 TTCAATAATT
10689 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
10710 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
10729 TGTATCGATACA
1 TGTATCGATACA
10741 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:10811 original size:13 final size:13
Alignment explanation
Indices: 10793--10852 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
10783 ATTTGTAGAA
10793 TGTATCGATACAT
1 TGTATCGATACAT
10806 TGTATCGATACATT
1 TGTATCGATACA-T
10820 TGTA--G--A-A-
1 TGTATCGATACAT
10827 TGTATCGATACAT
1 TGTATCGATACAT
10840 TGTATCGATACAT
1 TGTATCGATACAT
10853 CGATATTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
7 4 0.10
9 2 0.05
10 1 0.03
11 1 0.03
12 2 0.05
13 25 0.62
14 5 0.12
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10815 original size:34 final size:34
Alignment explanation
Indices: 10772--10852 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
10762 GCCAAGGAAA
10772 TGTATCGATACATTTGTAGAATGTATCGATACAT
1 TGTATCGATACATTTGTAGAATGTATCGATACAT
10806 TGTATCGATACATTTGTAGAATGTATCGATACAT
1 TGTATCGATACATTTGTAGAATGTATCGATACAT
10840 TGTATCGATACAT
1 TGTATCGATACAT
10853 CGATATTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (34 bp):
TGTATCGATACATTTGTAGAATGTATCGATACAT
Found at i:13385 original size:79 final size:75
Alignment explanation
Indices: 13302--13471 Score: 207
Period size: 75 Copynumber: 2.2 Consensus size: 75
13292 CTCCGCAATC
* * * * *
13302 GGGGATATTTCAACTCCGA-TTTTATTTCTAAAATACTGACTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAAC-CCGAGTTTTATTTCTAAAACA-TCAATTTT--TAATCGGGGATACTCCAA
13366 CCCCGTTATTTCCGA
62 -CCCGTTATTTCCGA
* * *
13381 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACTCG
1 GGGGATACTCCAACCCGAGTTTTATTTCTAAAACATCAATTTTTAATCGGGGATACTCCAACCCG
*
13446 TTATTTTCGA
66 TTATTTCCGA
13456 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
13472 CGTTATTTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
75 28 0.35
76 17 0.21
78 9 0.11
79 27 0.33
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (75 bp):
GGGGATACTCCAACCCGAGTTTTATTTCTAAAACATCAATTTTTAATCGGGGATACTCCAACCCG
TTATTTCCGA
Found at i:13472 original size:103 final size:106
Alignment explanation
Indices: 13353--13585 Score: 339
Period size: 103 Copynumber: 2.2 Consensus size: 106
13343 TTTCATAATC
* *
13353 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC-CTAGTTTTATTTCTAAAACAT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACCCCAACCTC-AGCTTTATTTCTAAAACAT
* * *
13417 CAATTTTT-C-ATCGGGGATACTCCAA-CTCGTTATTTTCGA
65 CAATTTTTACAACCGGGGATACTCCAACCCCGTTATTTTCAA
* * *
13456 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCTCGGCTTTATTTCTAAAATATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACCCCAACCTCAGCTTTATTTCTAAAACATC
*
13521 GATTTTTCACAACCGGGGATACTCCAACCCCGTTATTTTCAA
66 AATTTTT-ACAACCGGGGATACTCCAACCCCGTTATTTTCAA
13563 GGGGATACTCCAACCCCGTTATT
1 GGGGATACTCCAACCCCGTTATT
13586 ATCTCCAAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
103 64 0.55
104 1 0.01
105 1 0.01
106 15 0.13
107 35 0.30
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACCCCAACCTCAGCTTTATTTCTAAAACATC
AATTTTTACAACCGGGGATACTCCAACCCCGTTATTTTCAA
Found at i:13475 original size:28 final size:28
Alignment explanation
Indices: 13429--13498 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
13419 ATTTTTCATC
*
13429 GGGGATACTCCAA-CTCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
13456 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
13484 GGGGATACCCCAACC
1 GGGGATACTCCAACC
13499 TCGGCTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 13 0.32
28 27 0.68
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:18150 original size:14 final size:14
Alignment explanation
Indices: 18131--18160 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18121 AAATATTAAA
18131 ATTATTTTTATATT
1 ATTATTTTTATATT
18145 ATTATTTTTATATT
1 ATTATTTTTATATT
18159 AT
1 AT
18161 AATTAATTAA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:18243 original size:31 final size:31
Alignment explanation
Indices: 18208--18271 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
18198 TATAAATAAT
* *
18208 AATCAAATTAAACTTAACTCTAACT-ATTAAA
1 AATCAAATCAAACTTAACT-TAAATCATTAAA
18239 AATCAAATCAAACTTAACTTAAATCATTAAA
1 AATCAAATCAAACTTAACTTAAATCATTAAA
18270 AA
1 AA
18272 ATAAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (31 bp):
AATCAAATCAAACTTAACTTAAATCATTAAA
Found at i:19907 original size:17 final size:19
Alignment explanation
Indices: 19866--19907 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
19856 AAAAATATTT
19866 ATTTTAATAACATATTAATA
1 ATTTTAATAACATA-TAATA
*
19886 GTTTTAATAA-ATA-AATA
1 ATTTTAATAACATATAATA
19903 ATTTT
1 ATTTT
19908 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTTTAATAACATATAATA
Found at i:24184 original size:16 final size:16
Alignment explanation
Indices: 24165--24197 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24155 TAAATACCAT
24165 TCAAGATAAATTAATG
1 TCAAGATAAATTAATG
*
24181 TCAAGATAAATTGATG
1 TCAAGATAAATTAATG
24197 T
1 T
24198 AGTGAGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (16 bp):
TCAAGATAAATTAATG
Found at i:26134 original size:218 final size:219
Alignment explanation
Indices: 25721--26148 Score: 511
Period size: 218 Copynumber: 1.9 Consensus size: 219
25711 TCTCTATTTG
* * * * *
25721 AAAGATGATTGATTAAAAAAATGAGTTTTTAGAAATTAAACATTGTATATGGATATGGTTATAAA
1 AAAGATGAATGATAAAAAAAATGAATTTTTAGAAATTAAACATTGCATATGCATATGG-----AA
* * * * ** * *
25786 TATAGATCGATTTAATCTAAAAATTTAAACTTATTTAACAATTTTTAACGGTTAAGCCTACTAAG
61 TATAGACCGATTCAATCTAAAAATTTAAACCTATTTAACAATATGAAACCGTTAAGCCTAATAAG
* * * * * * *
25851 GATCCAATGTGTAATTTGAAGCCCAAAAATAATTTTAAAATCCCATAAATTTAAAGGCTAAAAAG
126 GATCCAATATGTAATTCGAAGCCAAAAAAAAATTTTAAAATCCAATAAATTTAAAGCCCAAAAAG
25916 ATGAACTTCAAATTGACTTGATAAAATTA
191 ATGAACTTCAAATTGACTTGATAAAATTA
25945 AAAGATGAATGATAAAAAAAATGAATTTTTAGTAAA-TAAACATTGCATATGCATATGG-ATATA
1 AAAGATGAATGATAAAAAAAATGAATTTTTAG-AAATTAAACATTGCATATGCATATGGAATATA
* * * *
26008 GGCCGGTTCAATCTAAAAATTTAAACCTATTTAACAATATGAAACCTTTAAGCCTAATAAGTATC
65 GACCGATTCAATCTAAAAATTTAAACCTATTTAACAATATGAAACCGTTAAGCCTAATAAGGATC
** * *
26073 TGATATGTAATTCGAAG-TAAAAAAAAATTTTAAGATCCAATAAATTTAAAGACCCAAAAAGATG
130 CAATATGTAATTCGAAGCCAAAAAAAAATTTTAAAATCCAATAAATTTAAAG-CCCAAAAAGATG
*
26137 AACTTTAAATTG
194 AACTTCAAATTG
26149 GCTTAATACA
Statistics
Matches: 173, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
217 29 0.17
218 92 0.53
224 49 0.28
225 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (219 bp):
AAAGATGAATGATAAAAAAAATGAATTTTTAGAAATTAAACATTGCATATGCATATGGAATATAG
ACCGATTCAATCTAAAAATTTAAACCTATTTAACAATATGAAACCGTTAAGCCTAATAAGGATCC
AATATGTAATTCGAAGCCAAAAAAAAATTTTAAAATCCAATAAATTTAAAGCCCAAAAAGATGAA
CTTCAAATTGACTTGATAAAATTA
Found at i:27576 original size:3 final size:3
Alignment explanation
Indices: 27568--27643 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
27558 TCTTAAAAGA
27568 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27616 AAT AAT AAT AAT AAT AAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT
27644 TTCAAAACAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29821 original size:414 final size:415
Alignment explanation
Indices: 29090--29878 Score: 1213
Period size: 414 Copynumber: 1.9 Consensus size: 415
29080 AGGGCAAATA
* *
29090 AGGCACGCCCGACTTAATATCTCTCGCGATTAGGGATTTCCATGGCATGATAAAAAATATGTTGA
1 AGGCACGCCCGACTTAATATCCCTCGCAATTAGGGATTTCCATGGCATGATAAAAAATATGTTGA
* * * * *
29155 TTAAAGGTGGAAGATTGGTAGATGAATCGCTCATCTAATCGATCTTTGACGGTCACCACGAAGTG
66 TTAAAGGTGGAAGATCGATAGATGAATCGCCCATCTAATCGATCTTTCACGATCACCACGAAGTG
* *
29220 ACCGAAATTTTGGAGTCGTCACTGATCATTTCGGGCTAAGCATGATCGGATGCCTATTGAAACCT
131 ACCAAAATTTTGGAGTCGTCACCGATCATTTCGGGCTAAGCATGATCGGATGCCTATTGAAACCT
* * * * *
29285 ATCTCTTGAGTTATGAAACTCGAGACATTGATCCCAAGGTCTACGTACTTTAAACATTCGTCGAT
196 ATCTCTTGAGTTACGAAACTCGAGACATCGATCCCAAGATCTACGTAATTCAAACATTCGTCGAT
* *
29350 TGGGTCCGAGAGTTGGTTACGCTCAAAAAGGTACGAACCTCCTCGCGACGCCCGAAATCGGTACC
261 TGGGTCCGAGAGTTGGTTACGCGCAAAAAGGTACGAACCTCCTCGCGACGCCCGAAATCAGTACC
29415 TTACTAGCTACATTTTGACTTGACATTGGTTTCATTGGTTTCAACTCGATGTCGCAATGTGCGCT
326 TTACTAGCTACATTTTGACTTGACATTGGTTTCATTGGTTTCAACTCGATGTCGCAATGTGCGCT
29480 TGGACCCCAGCGATAGGGACGGATG
391 TGGACCCCAGCGATAGGGACGGATG
* * * * * *
29505 AGGCATGCTCGACTTAATATCCCTCGCAATTGGGGATTTCTATGGCATGATGAGAAATATGTTGA
1 AGGCACGCCCGACTTAATATCCCTCGCAATTAGGGATTTCCATGGCATGATAAAAAATATGTTGA
* *
29570 TTAAAGG-GAGAAGATCGATAGATGAATCGCCCATCTAATCGATC-TTCATGATCACTACGAAGT
66 TTAAAGGTG-GAAGATCGATAGATGAATCGCCCATCTAATCGATCTTTCACGATCACCACGAAGT
* *
29633 GACCAAAATTTTGGAGTCGTCACCGATTATTTCGGGCTAGGCATGATCGGATGCCTATTGAAACC
130 GACCAAAATTTTGGAGTCGTCACCGATCATTTCGGGCTAAGCATGATCGGATGCCTATTGAAACC
* * ** *
29698 TATGTCTTGAGTTACGAAACTCGAGACATCGATCTCGTGATCTACGTAATTCAAAGATTCGTCGA
195 TATCTCTTGAGTTACGAAACTCGAGACATCGATCCCAAGATCTACGTAATTCAAACATTCGTCGA
* * *
29763 TTGGGTCCGGGAGTTGGTTACGCGCAAAGAGGTACGAACCTCCTCGCGACGTCCGAAATCAGTAC
260 TTGGGTCCGAGAGTTGGTTACGCGCAAAAAGGTACGAACCTCCTCGCGACGCCCGAAATCAGTAC
* * **
29828 CTTACTAGTTACATTTTGACTTGATATTGGTTTCATTGGTTTTGACTCGAT
325 CTTACTAGCTACATTTTGACTTGACATTGGTTTCATTGGTTTCAACTCGAT
29879 ATTATTTCAA
Statistics
Matches: 335, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
414 239 0.71
415 96 0.29
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (415 bp):
AGGCACGCCCGACTTAATATCCCTCGCAATTAGGGATTTCCATGGCATGATAAAAAATATGTTGA
TTAAAGGTGGAAGATCGATAGATGAATCGCCCATCTAATCGATCTTTCACGATCACCACGAAGTG
ACCAAAATTTTGGAGTCGTCACCGATCATTTCGGGCTAAGCATGATCGGATGCCTATTGAAACCT
ATCTCTTGAGTTACGAAACTCGAGACATCGATCCCAAGATCTACGTAATTCAAACATTCGTCGAT
TGGGTCCGAGAGTTGGTTACGCGCAAAAAGGTACGAACCTCCTCGCGACGCCCGAAATCAGTACC
TTACTAGCTACATTTTGACTTGACATTGGTTTCATTGGTTTCAACTCGATGTCGCAATGTGCGCT
TGGACCCCAGCGATAGGGACGGATG
Found at i:31785 original size:23 final size:24
Alignment explanation
Indices: 31759--31817 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 24
31749 TGGACATGTT
*
31759 AAAAATACATGAAACATAATAAGAA
1 AAAAATGCATGAAACATAATAA-AA
31784 AAAAATGCATGAAACATAAT-AAA
1 AAAAATGCATGAAACATAATAAAA
31807 AAAAATGCATG
1 AAAAATGCATG
31818 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 19 0.58
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAAATGCATGAAACATAATAAAA
Found at i:32699 original size:16 final size:16
Alignment explanation
Indices: 32678--32708 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32668 TTTTAACTAG
32678 ATGTATCGATACATCA
1 ATGTATCGATACATCA
32694 ATGTATCGATACATC
1 ATGTATCGATACATC
32709 TGGGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGTATCGATACATCA
Found at i:32781 original size:40 final size:39
Alignment explanation
Indices: 32721--32798 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
32711 GGTAAAAAGA
*
32721 CATAATGTATCGATACATTGAAGAATATATCAATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* * *
32760 CATATATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
32799 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:32788 original size:20 final size:20
Alignment explanation
Indices: 32724--32798 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
32714 AAAAAGACAT
*
32724 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * * *
32744 AATATATCAATACATTCATA
1 AATGTATCGATACATTGAAA
* *
32764 TATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
32784 AATGTATCGATACAT
1 AATGTATCGATACAT
32799 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:33415 original size:33 final size:33
Alignment explanation
Indices: 33351--33415 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
33341 GCTTCTTTTT
**
33351 AAAAAAAATGTGCCACTAACTTGTGTAGGCTTC
1 AAAAAAAATGTGCCACTAACACGTGTAGGCTTC
* *
33384 AAAAAAAA-GTTGCCACTGACACGTGTGGGCTT
1 AAAAAAAATG-TGCCACTAACACGTGTAGGCTT
33416 TGAAAAGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (33 bp):
AAAAAAAATGTGCCACTAACACGTGTAGGCTTC
Found at i:33507 original size:28 final size:28
Alignment explanation
Indices: 33407--34424 Score: 1081
Period size: 28 Copynumber: 35.5 Consensus size: 28
33397 CACTGACACG
***
33407 TGTGGGCTTTGAAAAGAGTATTACTGACT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
* *
33436 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGAGTGCCACTGACT
* *
33466 TGCGTGGGCTTTGAAAGAATGCCATTGACT
1 T--GTGGGCTTTGAAAGAGTGCCACTGACT
* * *
33496 CGTGAGCTTTGAAAG-GATGCCACTAACT
1 TGTGGGCTTTGAAAGAG-TGCCACTGACT
33524 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
33552 CGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
33581 CGTGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
* * *
33609 TGCGTGGGCTTTAAAAGGGTGCCACTCACT
1 T--GTGGGCTTTGAAAGAGTGCCACTGACT
* * *
33639 TGCGTGGGCTTTGAAA-AGATGCTACTTATT
1 T--GTGGGCTTTGAAAGAG-TGCCACTGACT
*
33669 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
**
33697 CATGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
* *
33725 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
33752 CGTGGGC-TTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
33779 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
33807 CGTGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
33835 CGTGGGCTTTGAAA-ATGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
** *
33863 TGCGTGCTCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAA-GAGTGCCACTGAC-T
33895 GTGTGGGCTTTGAAA-AGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGA-GTGCCACTGACT
* *
33924 TGTGGGCTTTAAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* * *
33952 TGTGGGCTTCGTAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
33980 CGTGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
34008 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAA-GAGTGCCACTGAC-T
*
34040 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGAGTGCCACTGACT
*
34069 TGTGGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * *
34097 TATGGGCTTCGCAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
34125 TGTGGGCTTCGAAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAG-TGCCACTGACT
* * *
34153 TGTGGGCTCTAAAAGGAGTGCCCCTGACT
1 TGTGGGCTTTGAAA-GAGTGCCACTGACT
34182 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
34210 TGTGGGCTTTGAAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAG-TGCCACTGACT
* *
34238 TGTGGGCTTTGAAAGAGTGTCATTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
34266 TGTGGGCTTTGAAAG-GATGCCACTAACT
1 TGTGGGCTTTGAAAGAG-TGCCACTGACT
34294 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
* * * *
34323 TGTGGGTTTTGAAAAGGGTGCCACTAACA
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
* *
34352 TGTGGGCTTTGAAAAGGGTGCCACTGACA
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
*
34381 TGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
34410 CGTGGGCTTTGAAAG
1 TGTGGGCTTTGAAAG
34425 GGATGAACAT
Statistics
Matches: 852, Mismatches: 99, Indels: 76
0.83 0.10 0.07
Matches are distributed among these distances:
27 54 0.06
28 446 0.52
29 160 0.19
30 133 0.16
31 53 0.06
32 4 0.00
33 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACT
Found at i:33672 original size:145 final size:143
Alignment explanation
Indices: 33394--34423 Score: 1216
Period size: 145 Copynumber: 7.2 Consensus size: 143
33384 AAAAAAAAGT
* ***
33394 TGCCACTGACACGTGTGGGCTTTGAAAAGAGTATTACTGACTTGCGTGGGCTTTAAAAGG-GTGC
1 TGCCACTGACTC--GTGGGCTTTGAAAAG-GTGCCACTGAC-T-CGTGGGCTTTAAAAGGAGTGC
** * * * * *
33458 CACTGACTTGCGTGGGCTTTGAAAGAATGCCATTGACTCGTGAGCTTTGAAAGGATGCCACTAAC
61 CACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAC
33523 TTGTGGGCTTTGAAAGAG
126 TTGTGGGCTTTGAAAGAG
33541 TGCCACTGACTCGTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAAA-G-GTGCCAC
1 TGCCACTGACTCGTGGGCTTTG-AAAAGGTGCCACTGACTCGTGGGCTTT-AAAAGGAGTGCCAC
* * * * *
33604 TGACTTGCGTGGGCTTTAAAAGGGTGCCACTCACTTGCGTGGGCTTTGAAAAGATGCTACTTATT
64 TGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGATGCCACTGACT
33669 TGTGGGCTTTGAAAGAG
127 TGTGGGCTTTGAAAGAG
* * *
33686 TGCCACTAACTCATGGGCTTTGAAAAGGTGCCACTGACTCGTGGGC-TTGAAAGG-GTGCCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTAAAAGGAGTGCCACTG
* * *
33749 AC-T-CGTGGGC-TTGAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGT
66 ACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGT
33810 GGGCTTTGAAA-AGG
130 GGGCTTTGAAAGA-G
* **
33824 TGCCACTGACTCGTGGGCTTTGAAAATGTGCCACTGACTTGCGTGCTCTTTAAAAGGAGTGCCAC
1 TGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGAC-T-CGTGGGCTTTAAAAGGAGTGCCAC
* * *
33889 TGACTTGTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTGAATT
64 TGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTT
* * *
33953 GTGGGCTTCGTAAGGG
128 GTGGGCTTTGAAAGAG
33969 TGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCAC
1 TGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGAC-T-CGTGGGCTTTAAAAGGAGTGCCAC
* *
34034 TGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGAATT
64 TGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTT
* * * *
34098 ATGGGCTTCGCAAGGG
128 GTGGGCTTTGAAAGAG
* * * * * *
34114 TGCCACCGACTTGTGGGCTTCG-AAAGGATGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCCCT
1 TGCCACTGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTCGTGGGCTTTAAAAGGAGTGCCACT
* *
34178 GACTT--GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGT
65 GACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGT
34241 GGGCTTTGAAAGAG
130 GGGCTTTGAAAGAG
* * * * *
34255 TGTCATTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GAGTGCCAC
1 TGCCACTGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTCGTGGGCTTT-AAAAGGAGTGCCAC
* * * * *
34318 TGACTT--GTGGGTTTTGAAAAGGGTGCCACTAACATGTGGGCTTTGAAAAGGGTGCCACTGACA
64 TGACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACT
*
34381 TGTGGGCTTTGAAAAAGG
127 TGTGGGCTTTGAAAGA-G
34399 TGCCACTGACTCGTGGGCTTTGAAA
1 TGCCACTGACTCGTGGGCTTTGAAA
34424 GGGATGAACA
Statistics
Matches: 782, Mismatches: 77, Indels: 50
0.86 0.08 0.06
Matches are distributed among these distances:
137 6 0.01
138 67 0.09
139 1 0.00
140 23 0.03
141 140 0.18
142 51 0.07
143 116 0.15
144 61 0.08
145 301 0.38
146 5 0.01
147 11 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (143 bp):
TGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTAAAAGGAGTGCCACTG
ACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTG
GGCTTTGAAAGAG
Found at i:35604 original size:20 final size:19
Alignment explanation
Indices: 35581--35634 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
35571 CATCTAGACC
*
35581 TTTTTATTTTTTGCTATTTT
1 TTTTTTTTTTTTG-TATTTT
*
35601 TTTTTGTTTTTTTGTGTTTT
1 TTTTT-TTTTTTTGTATTTT
35621 TTTTGTTTTTTTTG
1 TTTT-TTTTTTTTG
35635 GGTGTAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTTTTGTATTTT
Found at i:35610 original size:9 final size:9
Alignment explanation
Indices: 35598--35634 Score: 65
Period size: 9 Copynumber: 4.0 Consensus size: 9
35588 TTTTTGCTAT
35598 TTTTTTTTG
1 TTTTTTTTG
35607 TTTTTTTGTG
1 TTTTTTT-TG
35617 TTTTTTTTG
1 TTTTTTTTG
35626 TTTTTTTTG
1 TTTTTTTTG
35635 GGTGTAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:35610 original size:10 final size:10
Alignment explanation
Indices: 35597--35633 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
35587 TTTTTTGCTA
35597 TTTTTTTTTG
1 TTTTTTTTTG
*
35607 TTTTTTTGTG
1 TTTTTTTTTG
35617 -TTTTTTTTG
1 TTTTTTTTTG
35626 TTTTTTTT
1 TTTTTTTT
35634 GGGTGTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:35610 original size:19 final size:19
Alignment explanation
Indices: 35588--35630 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35578 ACCTTTTTAT
35588 TTTTTGCTAT-TTTTTTTTG
1 TTTTT-CTATGTTTTTTTTG
* *
35607 TTTTTTTGTGTTTTTTTTG
1 TTTTTCTATGTTTTTTTTG
35626 TTTTT
1 TTTTT
35631 TTTGGGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (19 bp):
TTTTTCTATGTTTTTTTTG
Found at i:48608 original size:25 final size:23
Alignment explanation
Indices: 48579--48637 Score: 100
Period size: 25 Copynumber: 2.5 Consensus size: 23
48569 TGGACATGTT
48579 AAAAATGCATGAAACATAATAAGAA
1 AAAAATGCATGAAACATAA-AA-AA
48604 AAAAATGCATGAAACATAAAAAA
1 AAAAATGCATGAAACATAAAAAA
48627 AAAAATGCATG
1 AAAAATGCATG
48638 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 13 0.38
24 2 0.06
25 19 0.56
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.15
Consensus pattern (23 bp):
AAAAATGCATGAAACATAAAAAA
Found at i:49577 original size:20 final size:19
Alignment explanation
Indices: 49548--49622 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
49538 AAAAAGACAT
49548 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
49567 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
49588 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
49608 AATGTATCGATACAT
1 AATGTATCGATACAT
49623 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:49605 original size:40 final size:39
Alignment explanation
Indices: 49545--49622 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
49535 GGTAAAAAGA
*
49545 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
49584 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
49623 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:52637 original size:31 final size:31
Alignment explanation
Indices: 52602--52718 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
52592 TACATTATTT
52602 AATGTATCGATACATCTAGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAAGACAG
* * *
52633 AATGTATCGATACATTCATACATGTATCGATACATTGA-AA
1 AATGTATCGATACA-TC-T--AGGTA---A-A-A-AGACAG
52673 AATGTATCGATACATCTAGGTAAAAAGACAG
1 AATGTATCGATACATCTAGGTAAAAAGACAG
*
52704 AATATATCGATACAT
1 AATGTATCGATACAT
52719 TGAAAAATGT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
30 2 0.03
31 30 0.44
32 3 0.04
33 2 0.03
35 4 0.06
36 4 0.06
38 2 0.03
39 3 0.04
40 16 0.24
41 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGTAAAAAGACAG
Found at i:52659 original size:20 final size:20
Alignment explanation
Indices: 52633--52687 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
52623 AAAAAGACAG
*
52633 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
52653 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
52673 AATGTATCGATACAT
1 AATGTATCGATACAT
52688 CTAGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:52703 original size:71 final size:71
Alignment explanation
Indices: 52602--52755 Score: 236
Period size: 71 Copynumber: 2.2 Consensus size: 71
52592 TACATTATTT
* * *
52602 AATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACA
1 AATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACATTCAAAAATGTATCGATACA
* *
52667 TTGAAA
66 ATCAAA
*
52673 AATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACATTGAAAAATGTATCGATACA
1 AATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACATTCAAAAATGTATCGATACA
*
52738 ATCATA
66 ATCAAA
*
52744 CATGTATCGATA
1 AATGTATCGATA
52756 TATTGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.28
Consensus pattern (71 bp):
AATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACATTCAAAAATGTATCGATACA
ATCAAA
Found at i:52733 original size:20 final size:20
Alignment explanation
Indices: 52708--52766 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
52698 AGACAGAATA
52708 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
* * * *
52728 TATCGATACAATCATACATG
1 TATCGATACATTGAAAAATG
*
52748 TATCGATATATTGAAAAAT
1 TATCGATACATTGAAAAAT
52767 ATTTCGATAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:53526 original size:32 final size:32
Alignment explanation
Indices: 53482--53890 Score: 155
Period size: 28 Copynumber: 14.1 Consensus size: 32
53472 TTTTTTTTAA
* * *
53482 AAAAAAGGTACCATTAACTTGTGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
53514 AAAAAAGTTACCACTGAC-T-TGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* *
53544 AAAAGAGTTACCACTGAC-T-TGTGGGCATTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * * *
53574 --AAAGGGTGCCACTGAC-T-TGTGGGCATTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * * *
53602 --AAAGGGTGCCACTAAC-T-TGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * *
53630 --AAAGGATGCCACTGACTTGT-T-GGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * * *
53658 --AAAGGGTGCCACTGAC-T-TGTGAGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* *
53686 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* *
53715 --AAAAGTTGCCACTGACTTGCGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * *
53745 -AAAGAG-TGCCACTGAC-T-TATGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* *
53773 --AAAAGGTGCCACTGAC-TG-GTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * * * *
53801 --AAAGGGTGCCACCGAC-T-CGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * * *
53829 -AAAGAGTTGCCACCGAC-T-TATGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
* * *
53858 AAAAAAGTTACGATTGAC-T-CGTGGGCTTTG
1 AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
53888 AAA
1 AAA
53891 GGATGCCACT
Statistics
Matches: 323, Mismatches: 39, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.00
27 10 0.03
28 156 0.48
29 48 0.15
30 88 0.27
31 5 0.02
32 15 0.05
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (32 bp):
AAAAAAGTTACCACTGACTTGTGTGGGCTTTG
Found at i:53594 original size:28 final size:28
Alignment explanation
Indices: 53524--54060 Score: 590
Period size: 28 Copynumber: 18.8 Consensus size: 28
53514 AAAAAAGTTA
* *
53524 CCACTGACTTGTGGGCTTTGAAAAGAGTTA
1 CCACTGACTTGTGGGCTTTG-AAAG-GGTG
*
53554 CCACTGACTTGTGGGCATTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
53582 CCACTGACTTGTGGGCATTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
53610 CCACTAACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
53638 CCACTGACTTGTTGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
53666 CCACTGACTTGTGAGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
* *
53695 CCACTGACTTGTGGGCTTTGAAAAGTTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
53723 CCACTGACTTGCGTGGGCTTTGAAAGAGTG
1 CCACTGACTT--GTGGGCTTTGAAAGGGTG
* *
53753 CCACTGACTTATGGGCTTTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
53781 CCACTGACTGGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
53809 CCACCGACTCGTGGGCTTTGAAAGAGTTG
1 CCACTGACTTGTGGGCTTTGAAAG-GGTG
* * * * *
53838 CCACCGACTTATGGGCTTTGAAAAAAGTTA
1 CCACTGACTTGTGGGCTTTG--AAAGGGTG
* * * *
53868 CGATTGACTCGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
53896 CCACTGACTTGCGGGCTTTGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GGTG
* * *
53926 CCA-TCGACTCGTAGGCTTTGAAAGGATG
1 CCACT-GACTTGTGGGCTTTGAAAGGGTG
* **
53954 CCACTAACTTGTGGGCTTTGAAAAGAATG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
* *
53983 CCATTGACTTGTGAGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* **
54011 CCACTGACTTATGGGCTTTGAAAACGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
54039 TCACTGACTTGTGGGCTTTGAA
1 CCACTGACTTGTGGGCTTTGAA
54061 GAGATGAACG
Statistics
Matches: 431, Mismatches: 65, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
28 263 0.61
29 85 0.20
30 80 0.19
31 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGGTG
Found at i:53781 original size:115 final size:115
Alignment explanation
Indices: 53503--54060 Score: 632
Period size: 115 Copynumber: 4.9 Consensus size: 115
53493 CATTAACTTG
* * *
53503 TGTGGGCTTTGAAAAAAGTTACCACTGACTTGTGGGCTTTGAAAAGAGTTACCACTGACTTGTGG
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTGACTTGTGG
* * * * *
53568 GCATTG-AAAGGGTGCCACTGACTTGTGGGCATTGAAAGGGTGCCACTAACT
64 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGTTGCCACTAACT
* * * *
53619 TGTGGGCTTTG-AAAG-GATGCCACTGACTTGTTGGCTTTGAAAGGGTGCCACTGACTTGTGAGC
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
*
53682 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGTTGCCACTGACT
66 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGTTGCCACTAACT
* *
53732 TGCGTGGGCTTTG-AAAGAG-TGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTGGTGG
1 T--GTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGG
* * * **
53795 GCTTTG-AAAGGGTGCCACCGACTCGTGGGCTTTGAAAGAGTTGCCACCGACT
64 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGTTGCCACTAACT
* * * * * * *
53847 TATGGGCTTTGAAAAAAGTTACGATTGACTCGTGGGCTTTG-AAAGGATGCCACTGACTTGCGGG
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGG
* * * *
53911 CTTTGAAAAGAGTTGCCA-TCGACTCGTAGGCTTTGAAAGGATGCCACTAACT
65 CTTTGAAAAGAG-TGCCACT-GACTTGTGGGCTTTGAAAAGTTGCCACTAACT
* * * * *
53963 TGTGGGCTTTGAAAAGA-ATGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTTATGGGC
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
* *
54027 TTTGAAAA-CGTGTCACTGACTTGTGGGCTTTGAA
66 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
54061 GAGATGAACG
Statistics
Matches: 377, Mismatches: 52, Indels: 29
0.82 0.11 0.06
Matches are distributed among these distances:
112 19 0.05
113 70 0.19
114 65 0.17
115 155 0.41
116 46 0.12
117 22 0.06
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (115 bp):
TGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGTTGCCACTAACT
Found at i:53783 original size:143 final size:143
Alignment explanation
Indices: 53524--54060 Score: 658
Period size: 143 Copynumber: 3.8 Consensus size: 143
53514 AAAAAAGTTA
* * *
53524 CCACTGACTTGTGGGCTTTGAAAAGAGTTACCACTGACTTGTGGGCATTGAAAGGGTGCCACTGA
1 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
* * * * *
53589 CTTGTGGGCATTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTTGG
66 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTAGG
53653 CTTTGAAAGGGTG
131 CTTTGAAAGGGTG
* *
53666 CCACTGACTTGTGAGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGTTGCCACTGA
1 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
* * *
53730 CTTGCGTGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGG-TGCCACTGACTGGTG
66 CTT--GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTA
53794 GGCTTTGAAAGGGTG
129 GGCTTTGAAAGGGTG
* * * * * * * *
53809 CCACCGACTCGTGGGCTTTG-AAAGAGTTGCCACCGACTTATGGGCTTTGAAAAAAGTTACGATT
1 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTG--AAAAGGTGCCACT
* * *
53873 GACTCGTGGGCTTTGAAAG-GATGCCACTGACTTGCGGGCTTTGAAAAGAGTTGCCA-TCGACTC
64 GACTTGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCACT-GACTC
*
53936 GTAGGCTTTGAAAGGATG
126 GTAGGCTTTGAAAGGGTG
* * * * *
53954 CCACTAACTTGTGGGCTTTGAAAAGA-ATGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTGA
1 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
* *
54018 CTTATGGGCTTTGAAA-ACGTGTCACTGACTTGTGGGCTTTGAA
66 CTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAA
54061 GAGATGAACG
Statistics
Matches: 340, Mismatches: 42, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
141 36 0.11
142 33 0.10
143 184 0.54
144 8 0.02
145 74 0.22
146 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (143 bp):
CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTAGG
CTTTGAAAGGGTG
Found at i:55308 original size:22 final size:22
Alignment explanation
Indices: 55280--55338 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
55270 CCCTTTTCTA
55280 TTTTTTGTTATTTTT-TTCTTGG
1 TTTTTTGTT-TTTTTGTTCTTGG
* *
55302 TTTTTTGTTTTTTTGTTTTTGTT
1 TTTTTTGTTTTTTTGTTCTTG-G
55325 TTTTTTCGTTTTTT
1 TTTTTT-GTTTTTT
55339 CTATTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 14 0.44
23 6 0.19
24 7 0.22
ACGTcount: A:0.02, C:0.03, G:0.12, T:0.83
Consensus pattern (22 bp):
TTTTTTGTTTTTTTGTTCTTGG
Found at i:55320 original size:14 final size:14
Alignment explanation
Indices: 55280--55329 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
55270 CCCTTTTCTA
55280 TTTTTTGTTATTT-T
1 TTTTTTGTT-TTTGT
*
55294 TTTCTTGGTTTTTTGT
1 TTT-TTTG-TTTTTGT
55310 TTTTTTGTTTTTGT
1 TTTTTTGTTTTTGT
55324 TTTTTT
1 TTTTTT
55330 TCGTTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 16 0.52
15 9 0.29
16 6 0.19
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (14 bp):
TTTTTTGTTTTTGT
Found at i:55329 original size:8 final size:8
Alignment explanation
Indices: 55280--55348 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
55270 CCCTTTTCTA
55280 TTTTTTG-
1 TTTTTTGT
*
55287 TTATTT-T
1 TTTTTTGT
* *
55294 TTTCTTGG
1 TTTTTTGT
55302 TTTTTTGT
1 TTTTTTGT
55310 TTTTTTGT
1 TTTTTTGT
55318 TTTTGTT-T
1 TTTT-TTGT
*
55326 TTTTTCGT
1 TTTTTTGT
*
55334 TTTTTCTAT
1 TTTTT-TGT
55343 TTTTTT
1 TTTTTT
55349 TGGGTATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
7 10 0.21
8 30 0.62
9 8 0.17
ACGTcount: A:0.03, C:0.04, G:0.10, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:59547 original size:79 final size:79
Alignment explanation
Indices: 59444--59978 Score: 570
Period size: 79 Copynumber: 6.8 Consensus size: 79
59434 TATTTGGGAG
* * *
59444 ATAATAAT-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTGAAAA
1 ATAA-AATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
** *
59508 ATCGATGATTTGGAA
65 ATTAATGATTTAGAA
* * * * * *
59523 ATAAAATCGGGATTGGAGTATCCCCTAGGAGATAACGGGGTTGGAGTATCCCCGACTATAAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
* *
59588 TTGATGTTTTAGAA
66 TTAATGATTTAGAA
* * * *
59602 ATAAAACCGGGGTTGGAGTAT-CCCTTCGAAAATAACGGGGTTAGAGTA-CTCCCGATTGTGAGA
1 ATAAAATCGGGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATC-CCCGATTATGAAA
59665 AATTAAT-ATTTTAGAA
64 AATTAATGA-TTTAGAA
** * * * * *
59681 ATAAAGCCGAGGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGATTATGAGAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
59746 TTAAT-ATTTTAGAA
66 TTAATGA-TTTAGAA
* * * ** * * *
59760 ATAAAGTCAGGGTTGGGGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATGAGAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
59825 TTAAT-ATTTTAGAA
66 TTAATGA-TTTAGAA
* *
59839 ATAAAGTCGGGGTTGGGGTAT-CCCTTCGAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
* *
59900 ATTGATGTTTTAGAA
65 ATTAATGATTTAGAA
* *
59915 ATAAAA-CAGGGGTTGGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAATC-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
59979 GTCAGTGTTT
Statistics
Matches: 393, Mismatches: 50, Indels: 26
0.84 0.11 0.06
Matches are distributed among these distances:
75 1 0.00
76 61 0.16
77 5 0.01
78 12 0.03
79 309 0.79
80 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
TTAATGATTTAGAA
Found at i:59747 original size:158 final size:156
Alignment explanation
Indices: 59452--59975 Score: 680
Period size: 158 Copynumber: 3.3 Consensus size: 156
59442 AGATAATAAT
* * * * **
59452 GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGA-
1 GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAAT-AT
* * * * *
59516 TTTGGAAATAAAATCGGGATTGGAGTATCCCCTAGGAGATAACGGGGTTGGAGTATCCCCGACTA
65 TTTAGAAATAAAGTCGGG-TTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGA-TA
*
59581 TAAAAAATTGATGTTTTAGAAATAAAACC
128 TGAAAAATTGATGTTTTAGAAATAAAACC
59610 GGGGTTGGAGTAT-CCCTTCGAAAATAACGGGGTTAGAGTA-CTCCCGATTGTGAGAAATTAATA
1 GGGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTAGAGTATC-CCCGATTGTGAGAAATTAATA
*
59673 TTTTAGAAATAAAGCCGAGGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGATT
64 TTTTAGAAATAAAGTCG-GGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGA-T
* * * **
59738 ATGAGAAATTAATATTTTAGAAATAAAGTC
127 ATGAAAAATTGATGTTTTAGAAATAAAACC
* * ** * *
59768 AGGGTTGGGGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAATATT
* *
59833 TTAGAAATAAAGTCGGGGTTGGGGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCG--ATG
66 TTAGAAATAAAGTC-GGGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGATATG
*
59896 AAAAATTGATGTTTTAGAAATAAAACA
130 AAAAATTGATGTTTTAGAAATAAAACC
* *
59923 GGGGTTGGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGA
1 GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTGTGA
59976 AAAGTCAGTG
Statistics
Matches: 317, Mismatches: 42, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
155 69 0.22
157 7 0.02
158 233 0.74
159 8 0.03
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (156 bp):
GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATTAATATT
TTAGAAATAAAGTCGGGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGATATGA
AAAATTGATGTTTTAGAAATAAAACC
Found at i:59783 original size:237 final size:234
Alignment explanation
Indices: 59454--60002 Score: 667
Period size: 237 Copynumber: 2.3 Consensus size: 234
59444 ATAATAATGG
* * * *
59454 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGATTT
1 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTT
* * * *
59519 GGAAATAAAATCGGGATTGGAGTATCCCCT-AGGAGATAACGGGGTTGGAGTATCCCCGACTATA
66 AGAAATAAAATCGGGATTGGAGTATCCCCTCA-AAAATAACGGGGTTAGAGTATCCCCGACTATA
* *
59583 AAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAGAG
130 AAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAGAG
* * *
59648 TA-CTCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGCCGA
195 TATC-CCCGA---TGAAAAATTAATATTTTAGAAATAAAACAGA
* * * * *
59691 GGTTGGGGTATCCCCTCGAAGATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-ATTT
1 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGA-TT
* * * *
59755 TAGAAATAAAGTCAGGG-TTGGGGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTAT
65 TAGAAATAAAATC-GGGATTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGACTAT
* * ** * *
59819 GAGAAATTAATATTTTAGAAATAAAGTCGGGGTTGGGGTATCCCTTCGAAAATAACGGGGTTGGA
129 AAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAGA
* * *
59884 GTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACAGG
194 GTATCCCCGATGAAAAATTAATATTTTAGAAATAAAACAGA
* * * *
59925 GGTTGGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTCAGTG-TTT
1 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTT
*
59989 TGAAAATAAAATCG
66 AG-AAATAAAATCG
60003 AAGTTAGAGT
Statistics
Matches: 264, Mismatches: 42, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
233 5 0.02
234 85 0.32
236 1 0.00
237 168 0.64
238 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (234 bp):
GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTT
AGAAATAAAATCGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGACTATAA
AAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTAGAGT
ATCCCCGATGAAAAATTAATATTTTAGAAATAAAACAGA
Found at i:60116 original size:51 final size:50
Alignment explanation
Indices: 59954--60130 Score: 178
Period size: 51 Copynumber: 3.5 Consensus size: 50
59944 AAATAACGGG
* * * * *
59954 GTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAAATTGA-TGTTTTGGAAATAAAATCGGA
* * * * *
60005 GTTAGAGTATCCTCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTGATGTTTTGGAAATAAAATCGGA
* * *
60056 GTTGAAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATTATG-AAAATTGATGTTTTGGAAATAAAATC-GGA
*
60108 -TTGGAGTATCCCCGA-GATGAAAA
1 GTTGGAGTATCCCCGATTATGAAAA
60131 ATCTAGCAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.04
50 3 0.03
51 87 0.85
52 8 0.08
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:62438 original size:20 final size:19
Alignment explanation
Indices: 62413--62486 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
62403 AAAATGCCTG
*
62413 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
62433 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
62453 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
62473 AATGTATCGATACA
1 AATGTATCGATACA
62487 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:63655 original size:20 final size:20
Alignment explanation
Indices: 63632--63669 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63622 CACACCCACA
*
63632 TGTATCGATACATTATATGT
1 TGTATCAATACATTATATGT
63652 TGTATCAATACATTATAT
1 TGTATCAATACATTATAT
63670 CGATACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
TGTATCAATACATTATATGT
Found at i:63707 original size:20 final size:19
Alignment explanation
Indices: 63661--63717 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
63651 TTGTATCAAT
* *
63661 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
63680 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
63699 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
63718 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:63783 original size:13 final size:13
Alignment explanation
Indices: 63762--63791 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
63752 CGATACGTGG
*
63762 TACATTGTATCGA
1 TACAATGTATCGA
63775 TACAATGTATCGA
1 TACAATGTATCGA
63788 TACA
1 TACA
63792 TGATAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:63789 original size:33 final size:33
Alignment explanation
Indices: 63747--63811 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
63737 TACGACTGTT
* * *
63747 TGTATCGATACGTGGTACATTGTATCGATACAA
1 TGTATCGATACATGATAAATTGTATCGATACAA
63780 TGTATCGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGATAAATTGTATCGATACA
63812 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATAAATTGTATCGATACAA
Found at i:65509 original size:2 final size:2
Alignment explanation
Indices: 65502--65553 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
65492 CATCTTGGTA
65502 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
65544 CT CT CT CT CT
1 CT CT CT CT CT
65554 TTGCCTTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:67593 original size:27 final size:27
Alignment explanation
Indices: 67555--67628 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
67545 AAACAACATG
*
67555 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* * *
67582 CCACCATTTTTGACAAACACAAAGTAG
1 CCACCATTTTTGACAAACAAAAAGAAA
*
67609 CCACAATTTTTGACAAACAA
1 CCACCATTTTTGACAAACAA
67629 TGGTGGTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGAAA
Found at i:69294 original size:185 final size:185
Alignment explanation
Indices: 68981--69349 Score: 677
Period size: 185 Copynumber: 2.0 Consensus size: 185
68971 AGCTATCTCC
*
68981 AAATTCAACTGTGCTACCACGGCCAACAATATTCTAATGGAGGAATGCTTTACAACCGAAGAAAA
1 AAATTCAACTGTGCTACCACGACCAACAATATTCTAATGGAGGAATGCTTTACAACCGAAGAAAA
*
69046 TACTTCATTGTAGTAGATTCCCTCCTTCTGAGCGTAGCCTTTAGCTACTAATCTTGCCTTGTAGT
66 TACTTCATTGTAGTAGATTCCCTCCTTCTGAGCGTAGCCTTTAGCTACTAATCTTGCCTTGTAGC
*
69111 GAGCATCTTTCTTGCTAGAAGATCCATCTTTCTTTGCAAATACCCACTTGCATCT
131 GAACATCTTTCTTGCTAGAAGATCCATCTTTCTTTGCAAATACCCACTTGCATCT
*
69166 AAATTCAACTGTGCTACCACGACCAACAATATTCTAATGGAGGAATGCTTTACAACCGGAGAAAA
1 AAATTCAACTGTGCTACCACGACCAACAATATTCTAATGGAGGAATGCTTTACAACCGAAGAAAA
*
69231 TACTTCATTGTAGTCA-ATTCCCTCCTTCTGAGCGTAGCCTTTAGCTACTAATCTTGGCTTGTAG
66 TACTTCATTGTAGT-AGATTCCCTCCTTCTGAGCGTAGCCTTTAGCTACTAATCTTGCCTTGTAG
69295 CGAACATCTTTCTTGCTAGAAGATCCATCTTTCTTTGCAAATACCCACTTGCATC
130 CGAACATCTTTCTTGCTAGAAGATCCATCTTTCTTTGCAAATACCCACTTGCATC
69350 CAATTGCTTT
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
185 177 0.99
186 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (185 bp):
AAATTCAACTGTGCTACCACGACCAACAATATTCTAATGGAGGAATGCTTTACAACCGAAGAAAA
TACTTCATTGTAGTAGATTCCCTCCTTCTGAGCGTAGCCTTTAGCTACTAATCTTGCCTTGTAGC
GAACATCTTTCTTGCTAGAAGATCCATCTTTCTTTGCAAATACCCACTTGCATCT
Found at i:72322 original size:27 final size:27
Alignment explanation
Indices: 72284--72357 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
72274 AAACAACATG
*
72284 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* *
72311 CCACCATTTTTGACAAACACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGAAA
*
72338 CCACAATTTTTGACAAACAA
1 CCACCATTTTTGACAAACAA
72358 TGGTGGTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGAAA
Found at i:74474 original size:19 final size:20
Alignment explanation
Indices: 74435--74475 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
74425 TATAATTAAA
*
74435 TTTAAATAAAAATATACTAT
1 TTTAAATAAAAATATAATAT
*
74455 TTTAATTAAAAAT-TAATAT
1 TTTAAATAAAAATATAATAT
74474 TT
1 TT
74476 CAAGCTGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAAATAAAAATATAATAT
Found at i:76495 original size:35 final size:34
Alignment explanation
Indices: 76456--76535 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 34
76446 CAATGCAAAT
*
76456 TTTTAAAAAAATAAT-TAAATAACACAAAATATATA
1 TTTTAAAAAAATAATCAAAAT-A-ACAAAATATATA
* * *
76491 TTTTACATAGAATCATCAAAATAACAAAATATATA
1 TTTTA-AAAAAATAATCAAAATAACAAAATATATA
*
76526 TTTTTAAAAA
1 TTTTAAAAAA
76536 TTTTATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
34 3 0.08
35 21 0.58
36 8 0.22
37 4 0.11
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (34 bp):
TTTTAAAAAAATAATCAAAATAACAAAATATATA
Found at i:77006 original size:4 final size:4
Alignment explanation
Indices: 76997--77024 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
76987 GGCAATTATC
76997 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
77025 TGACCCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:79855 original size:31 final size:31
Alignment explanation
Indices: 79820--79908 Score: 81
Period size: 38 Copynumber: 2.7 Consensus size: 31
79810 CGTCAGCTAC
79820 TAGCCAATTTCAAATTGAATTCTCTAACCAT
1 TAGCCAATTTCAAATTGAATTCTCTAACCAT
*
79851 TAGCCGCTAGTAAATTTCAAATTGAATTCTCTAACCGT
1 TAG-C-C-----AATTTCAAATTGAATTCTCTAACCAT
* *
79889 CAGCCAA-TTCAATTTGAATT
1 TAGCCAATTTCAAATTGAATT
79909 TGATTTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
30 12 0.25
31 5 0.10
32 1 0.02
33 1 0.02
36 1 0.02
37 1 0.02
38 27 0.56
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (31 bp):
TAGCCAATTTCAAATTGAATTCTCTAACCAT
Found at i:84352 original size:38 final size:38
Alignment explanation
Indices: 84299--84445 Score: 156
Period size: 38 Copynumber: 3.9 Consensus size: 38
84289 CACTAGCTGC
* *
84299 CAGCCACCAGCCAATTCCAAATTGAATTCTCTAGTTG-
1 CAGCCACGAGCCAATTCCAAATTGAATTCTCTAGTCGT
* * *
84336 CGAGCTACTG-GTCAATTCCAAATTAAATTCTCTAGTCGT
1 C-AGCCAC-GAGCCAATTCCAAATTGAATTCTCTAGTCGT
**
84375 CAGCCACGAGCCAATTCCAAATTGAATTCTCTAACCGT
1 CAGCCACGAGCCAATTCCAAATTGAATTCTCTAGTCGT
* * *
84413 CAGCCGTC-AGCAAATTTCAAATTGAATTCTCTA
1 CAGCC-ACGAGCCAATTCCAAATTGAATTCTCTA
84446 ACCCTTAGCC
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
37 2 0.02
38 88 0.96
39 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (38 bp):
CAGCCACGAGCCAATTCCAAATTGAATTCTCTAGTCGT
Found at i:86167 original size:27 final size:25
Alignment explanation
Indices: 86140--86236 Score: 88
Period size: 27 Copynumber: 3.8 Consensus size: 25
86130 TCACCCTTTG
86140 TATTTGTCAAAAATGGTGGTTATTTT
1 TATTTGTCAAAAATGGTGGTT-TTTT
* *
86166 GTATTTGTCAAAAATAGTGATTCCTTTT
1 -TATTTGTCAAAAATGGTGGTT--TTTT
* * * *
86194 TGTTTGTCAAAAATTGTGGCTTGTT
1 TATTTGTCAAAAATGGTGGTTTTTT
*
86219 T-TTTGTCAAAATTGGTGG
1 TATTTGTCAAAAATGGTGG
86237 CTAATTTTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
24 15 0.25
25 4 0.07
27 36 0.61
28 4 0.07
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (25 bp):
TATTTGTCAAAAATGGTGGTTTTTT
Found at i:86244 original size:23 final size:24
Alignment explanation
Indices: 86196--86245 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
86186 TTCCTTTTTG
**
86196 TTTGTCAAAAATTGTGGCTTGTTT
1 TTTGTCAAAAATTGTGGCTTAATT
86220 TTTGTC-AAAATTGGTGGC-TAATT
1 TTTGTCAAAAATT-GTGGCTTAATT
86243 TTT
1 TTT
86246 ATTACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (24 bp):
TTTGTCAAAAATTGTGGCTTAATT
Found at i:86244 original size:24 final size:24
Alignment explanation
Indices: 86196--86245 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
86186 TTCCTTTTTG
**
86196 TTTGTCAAAAATTGTGGCTTGTTT
1 TTTGTCAAAAATTGTGGCTAATTT
86220 TTTGTC-AAAATTGGTGGCTAATTT
1 TTTGTCAAAAATT-GTGGCTAATTT
86244 TT
1 TT
86246 ATTACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (24 bp):
TTTGTCAAAAATTGTGGCTAATTT
Found at i:86310 original size:13 final size:13
Alignment explanation
Indices: 86292--86324 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
86282 GGCTCCTTCC
86292 TCCCTCTCATGTA
1 TCCCTCTCATGTA
*
86305 TCCCTCTCTTGTA
1 TCCCTCTCATGTA
86318 TCCCTCT
1 TCCCTCT
86325 TTAATTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.42, G:0.06, T:0.42
Consensus pattern (13 bp):
TCCCTCTCATGTA
Found at i:87132 original size:13 final size:13
Alignment explanation
Indices: 87110--87140 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
87100 AAGGATACAA
*
87110 GAGAGTGATGCTT
1 GAGAGAGATGCTT
87123 GAGAGAGATGCTT
1 GAGAGAGATGCTT
87136 GAGAG
1 GAGAG
87141 GGAGGAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.42, T:0.23
Consensus pattern (13 bp):
GAGAGAGATGCTT
Found at i:87233 original size:24 final size:24
Alignment explanation
Indices: 87206--87298 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 24
87196 TAGCCACAAA
*
87206 TTTTGACAAACAACATGCCACCAT
1 TTTTGACAAACAAAATGCCACCAT
* * *
87230 TTTTGACAAATAAAAAGAAACCATCAT
1 TTTTGACAAACAAAATG---CCACCAT
*
87257 TTTTGACAAACACAAAGTAACCACCAT
1 TTTTGACAAACA-AAA-T-GCCACCAT
87284 TTTTGACAAACAAAA
1 TTTTGACAAACAAAA
87299 GGTGACTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
24 14 0.25
26 3 0.05
27 35 0.64
28 3 0.05
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (24 bp):
TTTTGACAAACAAAATGCCACCAT
Found at i:87263 original size:27 final size:27
Alignment explanation
Indices: 87223--87298 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
87213 AAACAACATG
*
87223 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* * *
87250 CCATCATTTTTGACAAACACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGAAA
87277 CCACCATTTTTGACAAACAAAA
1 CCACCATTTTTGACAAACAAAA
87299 GGTGACTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGAAA
Found at i:90201 original size:19 final size:18
Alignment explanation
Indices: 90177--90224 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
90167 AATCAATAAA
90177 TATTTATTAAAAATTATAT
1 TATTTATTAAAAA-TATAT
*
90196 TATTTAGTTAAATATATAT
1 TATTTA-TTAAAAATATAT
*
90215 TATTTTTTAA
1 TATTTATTAA
90225 GTATTTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTTATTAAAAATATAT
Found at i:90285 original size:19 final size:18
Alignment explanation
Indices: 90234--90294 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
90224 AGTATTTACT
*
90234 ATATTTAATATTT-TTTA
1 ATATTTAAAATTTATTTA
90251 ATA-TTAAAACTTTTATTTA
1 ATATTTAAAA--TTTATTTA
*
90270 ATATTTAAAATCTTA-TAA
1 ATATTTAAAAT-TTATTTA
90288 ATATTTA
1 ATATTTA
90295 CTATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 5 0.14
17 3 0.08
18 13 0.35
19 10 0.27
20 6 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTTAAAATTTATTTA
Found at i:90669 original size:14 final size:14
Alignment explanation
Indices: 90652--90698 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
90642 AGGATTTGAT
90652 ATATATTATTTTTA
1 ATATATTATTTTTA
*
90666 ATATA--AGTTTTGA
1 ATATATTA-TTTTTA
90679 TATATATTATTTTTA
1 -ATATATTATTTTTA
90694 ATATA
1 ATATA
90699 AATTGACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 1 0.04
13 5 0.19
14 15 0.56
15 5 0.19
16 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
ATATATTATTTTTA
Found at i:90678 original size:28 final size:28
Alignment explanation
Indices: 90646--90699 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
90636 TTGAACAGGA
90646 TTTGATATATATTATTTTTAATATAAGT
1 TTTGATATATATTATTTTTAATATAAGT
90674 TTTGATATATATTATTTTTAATATAA
1 TTTGATATATATTATTTTTAATATAA
90700 ATTGACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTGATATATATTATTTTTAATATAAGT
Found at i:90692 original size:16 final size:16
Alignment explanation
Indices: 90646--90698 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
90636 TTGAACAGGA
90646 TTTGATATATATTATT
1 TTTGATATATATTATT
*
90662 TTT-A-ATATA--AGT
1 TTTGATATATATTATT
90674 TTTGATATATATTATT
1 TTTGATATATATTATT
*
90690 TTTAATATA
1 TTTGATATA
90699 AATTGACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 10 0.33
15 1 0.03
16 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTGATATATATTATT
Found at i:91939 original size:42 final size:43
Alignment explanation
Indices: 91879--91980 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 43
91869 TTATTTTATT
* * *
91879 ATTTAAAATAATATTAAAAAAATATTTTTA-TATTAATAATTATA
1 ATTTAAATTAA-ACTAAAAAAATATTTTTATTATTAA-AATAATA
* *
91923 A-TTAAATTTAAA-T-AAAAATTATTTTTATTATTTAAATAATA
1 ATTTAAA-TTAAACTAAAAAAATATTTTTATTATTAAAATAATA
91964 ATTTAAATTAAACTAAA
1 ATTTAAATTAAACTAAA
91981 TTGATTCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
41 25 0.51
42 12 0.24
43 8 0.16
44 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (43 bp):
ATTTAAATTAAACTAAAAAAATATTTTTATTATTAAAATAATA
Found at i:91940 original size:41 final size:42
Alignment explanation
Indices: 91895--91980 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
91885 AATAATATTA
*
91895 AAAAAATATTTTTA-TATTAATAATTATAA-TTAAATTTAAA-T
1 AAAAAATATTTTTATTATTAA-AATAATAATTTAAA-TTAAACT
* *
91936 AAAAATTATTTTTATTATTTAAATAATAATTTAAATTAAACT
1 AAAAAATATTTTTATTATTAAAATAATAATTTAAATTAAACT
91978 AAA
1 AAA
91981 TTGATTCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 25 0.64
42 14 0.36
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (42 bp):
AAAAAATATTTTTATTATTAAAATAATAATTTAAATTAAACT
Found at i:92940 original size:11 final size:11
Alignment explanation
Indices: 92924--93092 Score: 80
Period size: 11 Copynumber: 16.3 Consensus size: 11
92914 AATTCATATG
92924 TTTATATTATA
1 TTTATATTATA
*
92935 TTTATA-TATT
1 TTTATATTATA
92945 TATTATATTATA
1 T-TTATATTATA
*
92957 ATTATATT-TAA
1 TTTATATTAT-A
** *
92968 AATATTTTATA
1 TTTATATTATA
* *
92979 TTTATATAAAA
1 TTTATATTATA
92990 TTTA-A--A-A
1 TTTATATTATA
*
92997 TTT-TAATA-A
1 TTTATATTATA
* *
93006 TTTTTATCATA
1 TTTATATTATA
*
93017 TTTATTTTAATA
1 TTTATATT-ATA
93029 TATT-TA-TATA
1 T-TTATATTATA
*
93039 TTTATATCATA
1 TTTATATTATA
93050 TTTATATTAT-
1 TTTATATTATA
93060 TTT-TA--ATA
1 TTTATATTATA
93068 -TTATATTATA
1 TTTATATTATA
93078 TTTTATATTATA
1 -TTTATATTATA
93090 TTT
1 TTT
93093 TAAAAATTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 38
0.68 0.10 0.21
Matches are distributed among these distances:
7 9 0.07
8 3 0.02
9 9 0.07
10 21 0.17
11 58 0.48
12 19 0.16
13 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATATTATA
Found at i:92950 original size:17 final size:17
Alignment explanation
Indices: 92928--93091 Score: 65
Period size: 20 Copynumber: 9.2 Consensus size: 17
92918 CATATGTTTA
92928 TATTATATTTATATATT
1 TATTATATTTATATATT
92945 TATTATATTATAATTATATT
1 TATTATATT-T-A-TATATT
**
92965 TAAAATATTT-TATATT
1 TATTATATTTATATATT
* *
92981 TATATAAAATTTA-AAATTT
1 TAT-T-ATATTTATATA-TT
* *
93000 TAATAATTTTTATCATATT
1 T-ATTATATTTAT-ATATT
*
93019 TA-T-T-TTAATATATT
1 TATTATATTTATATATT
93033 TA-TATATTTATATCATAT
1 TATTATATTTATAT-AT-T
*
93051 T-TATATTATTTTTAATATT
1 TAT-TA-TATTTAT-ATATT
93070 ATATTATATTT-TATATT
1 -TATTATATTTATATATT
93087 ATATT
1 -TATT
93092 TTAAAAATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 40
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.07
15 5 0.04
16 15 0.13
17 21 0.19
18 17 0.15
19 16 0.14
20 28 0.25
21 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATATTTATATATT
Found at i:93008 original size:27 final size:27
Alignment explanation
Indices: 92962--93038 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
92952 TTATAATTAT
*
92962 ATTTAAAATATTTTAT-ATTTATATAAA
1 ATTTAAAAT-TTTAATAATTTATATAAA
* * *
92989 ATTTAAAATTTTAATAATTTTTATCAT
1 ATTTAAAATTTTAATAATTTATATAAA
93016 ATTT---ATTTTAATATATTTATATA
1 ATTTAAAATTTTAATA-ATTTATATA
93039 TTTATATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
24 9 0.21
25 7 0.17
26 5 0.12
27 21 0.50
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTAAAATTTTAATAATTTATATAAA
Found at i:93052 original size:29 final size:27
Alignment explanation
Indices: 93019--93092 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
93009 TTATCATATT
93019 TATTTTAATATATTTATATATTTATATCA
1 TATTTTAATATATTTA-ATA-TTATATCA
* * *
93048 TATTTATATTATTTTTAATATTATATTA
1 TATTT-TAATATATTTAATATTATATCA
93076 TATTTTATATTATATTT
1 TATTTTA-A-TATATTT
93093 TAAAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 12 0.32
29 14 0.38
30 9 0.24
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTTTAATATATTTAATATTATATCA
Found at i:93077 original size:33 final size:33
Alignment explanation
Indices: 92931--93094 Score: 106
Period size: 33 Copynumber: 5.2 Consensus size: 33
92921 ATGTTTATAT
92931 TATATTTATATATTTATTAT-ATTATAATTATATTTAA
1 TATATTTATATATTTA-TATCA-TAT--TTATA-TTAA
* * *
92968 AATATTT-TATATTTATATAAAATTTA-A--AA
1 TATATTTATATATTTATATCATATTTATATTAA
* * *
92997 T-T-TTAATA-ATTTTTATCATATTTATTTTAA
1 TATATTTATATATTTATATCATATTTATATTAA
93027 TATATTTATATATTTATATCATATTTATATT-A
1 TATATTTATATATTTATATCATATTTATATTAA
*
93059 T-T-TTTA-ATA-TTATATTATATTTTATATT-A
1 TATATTTATATATTTATATCATA-TTTATATTAA
93088 TAT-TTTA
1 TATATTTA
93095 AAAATTTTAT
Statistics
Matches: 105, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
27 15 0.14
28 12 0.11
29 15 0.14
30 12 0.11
31 2 0.02
32 8 0.08
33 21 0.20
35 5 0.05
36 9 0.09
37 6 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
TATATTTATATATTTATATCATATTTATATTAA
Found at i:93083 original size:12 final size:12
Alignment explanation
Indices: 93015--93094 Score: 57
Period size: 12 Copynumber: 7.0 Consensus size: 12
93005 ATTTTTATCA
93015 TATT-TATTTTA
1 TATTATATTTTA
93026 -A-TATATTTATA
1 TATTATATTT-TA
* *
93037 TATT-TATATCA
1 TATTATATTTTA
93048 TATTTATATTATT-
1 TA-TTATATT-TTA
*
93061 T-TTA-ATATTA
1 TATTATATTTTA
93071 TATTATATTTTA
1 TATTATATTTTA
93083 TATTATATTTTA
1 TATTATATTTTA
93095 AAAATTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
9 3 0.06
10 9 0.17
11 11 0.21
12 24 0.45
13 5 0.09
14 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:93103 original size:39 final size:39
Alignment explanation
Indices: 93020--93103 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
93010 TATCATATTT
**
93020 ATTTTAATATATTTATATATTTATATCATATTTATATTA
1 ATTTTAATATATTTATATATTTATATCATATTTATAAAA
* *
93059 TTTTTAATATTATATTATAT-TTTATATTATATTT-TAAAA
1 ATTTTAATA-TAT-TTATATATTTATATCATATTTATAAAA
93098 ATTTTA
1 ATTTTA
93104 TTTTTTATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 16 0.42
40 16 0.42
41 6 0.16
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (39 bp):
ATTTTAATATATTTATATATTTATATCATATTTATAAAA
Found at i:93697 original size:27 final size:27
Alignment explanation
Indices: 93655--93725 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 27
93645 AAATAACATG
93655 CCACCATTTTTGACAAATAA-AAAGA-AA
1 CCACCATTTTTGACAAA-AACAAA-ATAA
*
93682 CCACCATTTTTTACAAAAACAAAATAA
1 CCACCATTTTTGACAAAAACAAAATAA
93709 CCACCATTTTTGACAAA
1 CCACCATTTTTGACAAA
93726 CAAATGGTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.08
27 37 0.93
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (27 bp):
CCACCATTTTTGACAAAAACAAAATAA
Found at i:98124 original size:13 final size:13
Alignment explanation
Indices: 98103--98132 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
98093 AAAGAATTGA
*
98103 AGAGGGATACAAG
1 AGAGAGATACAAG
98116 AGAGAGATACAAG
1 AGAGAGATACAAG
98129 AGAG
1 AGAG
98133 GGATGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (13 bp):
AGAGAGATACAAG
Found at i:98264 original size:27 final size:26
Alignment explanation
Indices: 98228--98302 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
98218 AAATAACATG
*
98228 CCACCTTTTTTGATAAATAAAAAGAAA
1 CCACCATTTTTGATAAATAAAAA-AAA
* * *
98255 CCACCATTTTTTACAAATACAAAATAA
1 CCACCATTTTTGATAAATA-AAAAAAA
* *
98282 CTACTATTTTTGATAAATAAA
1 CCACCATTTTTGATAAATAAA
98303 GGGTGACTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.05
27 33 0.85
28 4 0.10
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (26 bp):
CCACCATTTTTGATAAATAAAAAAAA
Found at i:100350 original size:19 final size:20
Alignment explanation
Indices: 100312--100350 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
100302 TAAAAAATTA
*
100312 TAAAATATCATAAATTATTTT
1 TAAAATAT-ATAAATAATTTT
100333 TAAAATAT-TAAATAATTT
1 TAAAATATATAAATAATTT
100351 ATGATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAATATATAAATAATTTT
Found at i:100956 original size:18 final size:18
Alignment explanation
Indices: 100930--100970 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
100920 ATTAACTGTT
* *
100930 TATAGATTTATTTATTAA
1 TATAAATTTATTAATTAA
100948 TATAAATTTATTAATTAA
1 TATAAATTTATTAATTAA
100966 T-TAAA
1 TATAAA
100971 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATAAATTTATTAATTAA
Found at i:103908 original size:31 final size:31
Alignment explanation
Indices: 103864--103929 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
103854 TGTATGCAAG
* * *
103864 GCAATATAGCATGCAATCATGGGAGACACAT
1 GCAATATAACATGCAATCATGGGAAACACAA
*
103895 GCAATGTAACATGCAATCATGGGAAACACAA
1 GCAATATAACATGCAATCATGGGAAACACAA
103926 GCAA
1 GCAA
103930 ATGGAACTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (31 bp):
GCAATATAACATGCAATCATGGGAAACACAA
Found at i:104450 original size:14 final size:14
Alignment explanation
Indices: 104431--104459 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
104421 CTAAGGGGGA
104431 ATCGAGCTGCAAGG
1 ATCGAGCTGCAAGG
104445 ATCGAGCTGCAAGG
1 ATCGAGCTGCAAGG
104459 A
1 A
104460 CGTACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.34, T:0.14
Consensus pattern (14 bp):
ATCGAGCTGCAAGG
Found at i:105420 original size:13 final size:13
Alignment explanation
Indices: 105403--105450 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
105393 GTAAAATTTT
*
105403 AAAAAAATATAAT
1 AAAAAAATATAAC
105416 AAAAAAATAATAAC
1 AAAAAAAT-ATAAC
105430 AAAATAAA-ATAAC
1 AAAA-AAATATAAC
105443 AAAAAAAT
1 AAAAAAAT
105451 CTTTTTCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 3 0.10
13 17 0.55
14 8 0.26
15 3 0.10
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAATATAAC
Found at i:107912 original size:31 final size:32
Alignment explanation
Indices: 107843--107914 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
107833 AAAATTGCCT
*
107843 GAATGTATCGATATATTTGGGTCAAAAATCTA
1 GAATGTATCGATAAATTTGGGTCAAAAATCTA
* *
107875 GAATGTATTGATAAATTTGGGTCAAAACTC-A
1 GAATGTATCGATAAATTTGGGTCAAAAATCTA
107906 GAATGTATC
1 GAATGTATC
107915 AATACAACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 9 0.25
32 27 0.75
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (32 bp):
GAATGTATCGATAAATTTGGGTCAAAAATCTA
Found at i:108999 original size:6 final size:6
Alignment explanation
Indices: 108988--109014 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
108978 TTGAATCAAA
108988 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
109015 TTGTTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:109791 original size:31 final size:32
Alignment explanation
Indices: 109732--109791 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
109722 TATTTGAAAT
* *
109732 ATTTCATATTCATAAAATTTTGATACATAATA
1 ATTTCATATTCATAAAATTTTAAAACATAATA
109764 ATTT-ATATT-ATATAAATTTTAAAACATA
1 ATTTCATATTCATA-AAATTTTAAAACATA
109792 TTTTATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.12
31 18 0.72
32 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (32 bp):
ATTTCATATTCATAAAATTTTAAAACATAATA
Found at i:109814 original size:19 final size:19
Alignment explanation
Indices: 109790--109843 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
109780 TTTTAAAACA
109790 TATTTTATCATATTTTAAT
1 TATTTTATCATATTTTAAT
* * *
109809 TATTTTATTTATATTATATT
1 TATTTTA-TCATATTTTAAT
*
109829 TATTTAATCATATTT
1 TATTTTATCATATTT
109844 AAAATTAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTATCATATTTTAAT
Found at i:109841 original size:14 final size:14
Alignment explanation
Indices: 109803--109844 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
109793 TTTATCATAT
109803 TTTAATTAT-TTTA
1 TTTAATTATATTTA
109816 TTTATATTATATTTA
1 TTTA-ATTATATTTA
*
109831 TTTAATCATATTTA
1 TTTAATTATATTTA
109845 AAATTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 14 0.54
15 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTATATTTA
Found at i:111609 original size:19 final size:20
Alignment explanation
Indices: 111581--111622 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
111571 AATTAAGATG
111581 TATTTAATTATTATAT-ATT
1 TATTTAATTATTATATAATT
* *
111600 TATTTTATTATTTTATAATT
1 TATTTAATTATTATATAATT
111620 TAT
1 TAT
111623 ATTTGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTAATTATTATATAATT
Found at i:111966 original size:3 final size:3
Alignment explanation
Indices: 111960--111986 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
111950 ATATTAGATT
111960 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
111987 CATAAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:113323 original size:16 final size:16
Alignment explanation
Indices: 113302--113334 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
113292 CAGTTTGAGT
113302 CAAATGTGTCAATTTC
1 CAAATGTGTCAATTTC
113318 CAAATGTGTCAATTTC
1 CAAATGTGTCAATTTC
113334 C
1 C
113335 TTGTTTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (16 bp):
CAAATGTGTCAATTTC
Found at i:116559 original size:31 final size:31
Alignment explanation
Indices: 116516--116671 Score: 86
Period size: 31 Copynumber: 5.2 Consensus size: 31
116506 TTTATATTCA
116516 TATATATT-AATATATTTTATTATATTATAAT
1 TATAT-TTAAATATATTTTATTATATTATAAT
*
116547 TATATTTAAATATTTTTTATT-T-TTATAA-
1 TATATTTAAATATATTTTATTATATTATAAT
*
116575 -A-ATTTAAA-ATATTAATAATTTATATTAT-AT
1 TATATTTAAATATATT--TTA-TTATATTATAAT
*
116605 TA-ATTTTAAA-ATATTTATATT-T-TTATATT
1 TATA-TTTAAATATATTT-TATTATATTATAAT
* ** *
116634 TTTATTATATTTATATTTATATTATATT-TTAT
1 TATATT-TAAATATATTT-TATTATATTATAAT
116666 TATATT
1 TATATT
116672 ATATTTCTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
25 4 0.04
26 7 0.07
27 3 0.03
28 6 0.06
29 13 0.13
30 13 0.13
31 31 0.32
32 19 0.19
33 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TATATTTAAATATATTTTATTATATTATAAT
Found at i:116624 original size:6 final size:6
Alignment explanation
Indices: 116615--116677 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
116605 TAATTTTAAA
*
116615 ATATTT ATATTTTT ATATTT TTA-TT ATATTT ATATTT ATA-TT ATATTT
1 ATATTT ATA--TTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
116663 -TA-TT ATA-TT ATATTT
1 ATATTT ATATTT ATATTT
116678 CTTTATATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 2 0.04
5 18 0.37
6 23 0.47
8 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATATTT
Found at i:116626 original size:16 final size:16
Alignment explanation
Indices: 116577--116627 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
116567 TTTTATAAAA
* *
116577 TTTAAAATATTAATAA
1 TTTAAAATATTTATAT
* *
116593 TTTATATTATATTA-AT
1 TTTAAAATAT-TTATAT
116609 TTTAAAATATTTATAT
1 TTTAAAATATTTATAT
116625 TTT
1 TTT
116628 TATATTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.11
16 22 0.81
17 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATATTTATAT
Found at i:116646 original size:17 final size:17
Alignment explanation
Indices: 116615--116677 Score: 82
Period size: 17 Copynumber: 4.0 Consensus size: 17
116605 TAATTTTAAA
116615 ATATTTATA-T-T-TTT
1 ATATTTATATTATATTT
*
116629 ATATTTTTATTATATTT
1 ATATTTATATTATATTT
116646 ATATTTATATTATATTT
1 ATATTTATATTATATTT
116663 -TA-TTATATTATATTT
1 ATATTTATATTATATTT
116678 CTTTATATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 8 0.18
15 14 0.32
16 3 0.07
17 19 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATTTATATTATATTT
Found at i:116683 original size:15 final size:14
Alignment explanation
Indices: 116627--116685 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
116617 ATTTATATTT
116627 TTATATTTTTATTATA
1 TTATA-TTTT-TTATA
*
116643 TT-TA-TATTTATA
1 TTATATTTTTTATA
116655 TTATATTTTATTATA
1 TTATATTTT-TTATA
116670 TTATATTTCTTTATA
1 TTATATTT-TTTATA
116685 T
1 T
116686 CACGCTCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
14 2 0.05
15 21 0.57
16 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTTTTTATA
Done.