Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 199 of 218
Found at i:58899238 original size:38 final size:38
Alignment explanation
Indices: 58899187--58899262 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
58899177 TCTGAAGTAA
58899187 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
1 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
*
58899225 TCATGTATGACACCCAAATTTGAGAATTATATGGAAAC
1 TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
58899263 GAGCATAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (38 bp):
TCATGTATGACACCCAAATTCGAGAATTATATGGAAAC
Found at i:58899788 original size:17 final size:17
Alignment explanation
Indices: 58899766--58899818 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
58899756 AAAGAATTGA
58899766 ACATATCCATGTAGGAC
1 ACATATCCATGTAGGAC
* *
58899783 ACATAT--A-GAATTGA-
1 ACATATCCATGTA-GGAC
58899797 ACATATCCATGTAGGAC
1 ACATATCCATGTAGGAC
58899814 ACATA
1 ACATA
58899819 CATGTATCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 3 0.11
17 13 0.48
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (17 bp):
ACATATCCATGTAGGAC
Found at i:58899796 original size:31 final size:31
Alignment explanation
Indices: 58899758--58899818 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
58899748 AAAACTTTAA
58899758 AGAATTGAACATATCCATGTAGGACACATAT
1 AGAATTGAACATATCCATGTAGGACACATAT
58899789 AGAATTGAACATATCCATGTAGGACACATA
1 AGAATTGAACATATCCATGTAGGACACATA
58899819 CATGTATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (31 bp):
AGAATTGAACATATCCATGTAGGACACATAT
Found at i:58903799 original size:24 final size:24
Alignment explanation
Indices: 58903748--58903799 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
58903738 ATCGGTTTTT
* *
58903748 TTTTTTACTTTGATATTTAAATAT
1 TTTTTTACTTTGATACTTAAATAA
*
58903772 TTTTTTA-TTGTGATACTTATATAA
1 TTTTTTACTT-TGATACTTAAATAA
58903796 TTTT
1 TTTT
58903800 ATCAGTGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTTTTACTTTGATACTTAAATAA
Found at i:58903897 original size:11 final size:11
Alignment explanation
Indices: 58903881--58903906 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58903871 AAAAAAGTAT
58903881 AATTAATTTAA
1 AATTAATTTAA
58903892 AATTAATTTAA
1 AATTAATTTAA
58903903 AATT
1 AATT
58903907 TTCTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTAATTTAA
Found at i:58907050 original size:24 final size:24
Alignment explanation
Indices: 58907023--58907071 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
58907013 CCATTTTAAT
58907023 TTATATAATATACATAAAT-CATAC
1 TTATATAATATACAT-AATCCATAC
58907047 TTATATAATATACATAATCCATAC
1 TTATATAATATACATAATCCATAC
58907071 T
1 T
58907072 AACAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATATAATATACATAATCCATAC
Found at i:58908376 original size:22 final size:21
Alignment explanation
Indices: 58908351--58908394 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
58908341 ATGCATATGA
* *
58908351 AAATGATTTGGTTATATTCAAT
1 AAATAATTTGGTTA-ATACAAT
58908373 AAATAATTTGGTTAATACAAT
1 AAATAATTTGGTTAATACAAT
58908394 A
1 A
58908395 CTTATATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (21 bp):
AAATAATTTGGTTAATACAAT
Found at i:58908403 original size:22 final size:22
Alignment explanation
Indices: 58908356--58908448 Score: 59
Period size: 22 Copynumber: 4.2 Consensus size: 22
58908346 TATGAAAATG
* *
58908356 ATTTGGTTATATTCAATAAATA-
1 ATTTGGTTA-ATACAATACATAT
*
58908378 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACATAT
* * *
58908400 ATTT-GATAAGTA-TATGA-AAAT
1 ATTTGGTTAA-TACAAT-ACATAT
*
58908421 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACATAT
58908444 ATTTG
1 ATTTG
58908449 ATAAGCATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
21 17 0.32
22 28 0.53
23 8 0.15
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ATTTGGTTAATACAATACATAT
Found at i:58908426 original size:44 final size:44
Alignment explanation
Indices: 58908373--58908466 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
58908363 TATATTCAAT
*
58908373 AAATAATTTGGTTAATACAATACTTATATTTGATAAGTATATGA
1 AAATAATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
*
58908417 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATAATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
58908461 AAATAA
1 AAATAA
58908467 AAGTCGAGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (44 bp):
AAATAATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:58921231 original size:73 final size:74
Alignment explanation
Indices: 58921141--58921292 Score: 297
Period size: 73 Copynumber: 2.1 Consensus size: 74
58921131 TTAATCTTTT
58921141 AATAGCCCCCAATGTTTTCTTGTAACACTTTCATAGCAATTCGTTTTTAGAAGATACTCATAAAT
1 AATAGCCCCCAATGTTTTCTTGTAACACTTTCATAGCAATTCGTTTTTAGAAGATACTCATAAAT
58921206 TTTCAAA-C
66 TTTCAAACC
58921214 AATAGCCCCCAATGTTTTCTTGTAACACTTTCATAGCAATTCGTTTTTAGAAGATACTCATAAAT
1 AATAGCCCCCAATGTTTTCTTGTAACACTTTCATAGCAATTCGTTTTTAGAAGATACTCATAAAT
58921279 TTTCAAACC
66 TTTCAAACC
58921288 AATAG
1 AATAG
58921293 GATCGTTCCT
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 72 0.92
74 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (74 bp):
AATAGCCCCCAATGTTTTCTTGTAACACTTTCATAGCAATTCGTTTTTAGAAGATACTCATAAAT
TTTCAAACC
Found at i:58921778 original size:31 final size:29
Alignment explanation
Indices: 58921729--58921840 Score: 124
Period size: 31 Copynumber: 3.8 Consensus size: 29
58921719 ACCAAAAGTT
58921729 TATTTTAAAATTTAAAAAAATTATTTTAAAAA
1 TATTTTAAAA-TTAAAAAAATTA--TTAAAAA
*
58921761 TATTTTAAAATTAAAAAAATTA--AAAATG
1 TATTTTAAAATTAAAAAAATTATTAAAA-A
58921789 TATTTT-AAATTAAAAAAATT-TTAAAAAAA
1 TATTTTAAAATTAAAAAAATTATT--AAAAA
58921818 GTATTTTAAAATTAAAAAAATTA
1 -TATTTTAAAATTAAAAAAATTA
58921841 AAAAATTAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
27 18 0.26
28 6 0.09
30 10 0.14
31 26 0.37
32 10 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAAATTATTAAAAA
Found at i:58921824 original size:58 final size:60
Alignment explanation
Indices: 58921729--58921844 Score: 184
Period size: 58 Copynumber: 2.0 Consensus size: 60
58921719 ACCAAAAGTT
**
58921729 TATTTTAAAATTTAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAATG
1 TATTTTAAAATTTAAAAAAATTATTAAAAAAATATTTTAAAATTAAAAAAATTAAAAATG
58921789 TATTTT-AAA-TTAAAAAAATT-TTAAAAAAAGTATTTTAAAATTAAAAAAATTAAAAA
1 TATTTTAAAATTTAAAAAAATTATTAAAAAAA-TATTTTAAAATTAAAAAAATTAAAAA
58921845 ATTAAAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
57 7 0.13
58 37 0.70
59 3 0.06
60 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (60 bp):
TATTTTAAAATTTAAAAAAATTATTAAAAAAATATTTTAAAATTAAAAAAATTAAAAATG
Found at i:58921845 original size:30 final size:28
Alignment explanation
Indices: 58921771--58921845 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 28
58921761 TATTTTAAAA
*
58921771 TTAAAAAAATT-AAAAATGTATTTTAAA
1 TTAAAAAAATTAAAAAAAGTATTTTAAA
58921798 TTAAAAAAATTTTAAAAAAAGTATTTTAAAA
1 TTAAAAAAA--TTAAAAAAAGTATTTT-AAA
58921829 TTAAAAAAATTAAAAAA
1 TTAAAAAAATTAAAAAA
58921846 TTAAAAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 9 0.21
29 10 0.23
30 12 0.28
31 12 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (28 bp):
TTAAAAAAATTAAAAAAAGTATTTTAAA
Found at i:58938018 original size:60 final size:58
Alignment explanation
Indices: 58937897--58938023 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 58
58937887 TGAATTTAGT
* * * ** **
58937897 TTCAATTTTCAATTTGGTACTTGAGTTATTTTATTTCAATTTGGTACTTAAGTTTGGC
1 TTCAATGTTCAATTTGATACTTGAGTTATTTTATCTCAATTAAGTACTTAAGTTTAAC
*
58937955 TTCAATGTTCAATTTGATACTTGAGTTCTTTTTTATCTCAATTAAGTATCTT-AGTTTAAC
1 TTCAATGTTCAATTTGATACTTGAG-T-TATTTTATCTCAATTAAGTA-CTTAAGTTTAAC
58938015 TTCAATGTT
1 TTCAATGTT
58938024 TGGTACCTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 23 0.40
59 1 0.02
60 31 0.53
61 3 0.05
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.51
Consensus pattern (58 bp):
TTCAATGTTCAATTTGATACTTGAGTTATTTTATCTCAATTAAGTACTTAAGTTTAAC
Found at i:58944347 original size:21 final size:21
Alignment explanation
Indices: 58944314--58944369 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
58944304 CACGGTCTAC
*
58944314 CCACACGGCCGTGT-CCTTCAG
1 CCACACGGTCGTGTCCCTT-AG
*
58944335 CCACATGGTCGTGTCCCTTAG
1 CCACACGGTCGTGTCCCTTAG
*
58944356 CCACACGGTTGTGT
1 CCACACGGTCGTGT
58944370 ATTCCTGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.14, C:0.36, G:0.25, T:0.25
Consensus pattern (21 bp):
CCACACGGTCGTGTCCCTTAG
Found at i:58944404 original size:23 final size:21
Alignment explanation
Indices: 58944355--58944406 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
58944345 GTGTCCCTTA
*
58944355 GCCACACGGTTGTGTATTCCT
1 GCCACACAGTTGTGTATTCCT
*
58944376 GCCACACAGTTGTGTATTCTT
1 GCCACACAGTTGTGTATTCCT
*
58944397 GTCACACAGT
1 GCCACACAGT
58944407 CTAAATCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (21 bp):
GCCACACAGTTGTGTATTCCT
Found at i:58944466 original size:21 final size:21
Alignment explanation
Indices: 58944430--58944485 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
58944420 CACGATCTGC
* *
58944430 CCACACGGTCGTGTCCCTCAG
1 CCACATGGTTGTGTCCCTCAG
* *
58944451 CTACATGGTTGTGTCCCTTAG
1 CCACATGGTTGTGTCCCTCAG
58944472 CCACATGGTTGTGT
1 CCACATGGTTGTGT
58944486 ATTCCTGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.30, G:0.25, T:0.30
Consensus pattern (21 bp):
CCACATGGTTGTGTCCCTCAG
Found at i:58944498 original size:95 final size:95
Alignment explanation
Indices: 58944335--58944613 Score: 292
Period size: 95 Copynumber: 2.9 Consensus size: 95
58944325 TGTCCTTCAG
* * * * * ** *
58944335 CCACATGGTCGTGTCCCTTAGCCACACGGTTGTGTATTCC-T-GCCACACAGTTGTGTATTCTTG
1 CCACACGGTCGTGTCCCTCAGCTACATGGTTGTG--TCCCTTAGCCACATGGTTGTGTATTCCTG
*
58944398 TCACACAGTCTAAATCCTCCCACACGATCTGC
64 TCACACAGTCTAAACCCTCCCACACGATCTGC
58944430 CCACACGGTCGTGTCCCTCAGCTACATGGTTGTGTCCCTTAGCCACATGGTTGTGTATTCCTGTC
1 CCACACGGTCGTGTCCCTCAGCTACATGGTTGTGTCCCTTAGCCACATGGTTGTGTATTCCTGTC
* * * * *
58944495 ACACGGTCTGAACCCTCCTATACGGTCTGC
66 ACACAGTCTAAACCCTCCCACACGATCTGC
** * * * * * * *
58944525 CCACACGACCATATCCCTCAGCTACATAGTCGTGTCTCTCAGCCACATGGTTGTGTATTCCTATC
1 CCACACGGTCGTGTCCCTCAGCTACATGGTTGTGTCCCTTAGCCACATGGTTGTGTATTCCTGTC
* * *
58944590 ACACAGTTTGAACCCTCTCACACG
66 ACACAGTCTAAACCCTCCCACACG
58944614 GCCGTGTGGT
Statistics
Matches: 154, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
93 3 0.02
94 1 0.01
95 150 0.97
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (95 bp):
CCACACGGTCGTGTCCCTCAGCTACATGGTTGTGTCCCTTAGCCACATGGTTGTGTATTCCTGTC
ACACAGTCTAAACCCTCCCACACGATCTGC
Found at i:58954589 original size:20 final size:20
Alignment explanation
Indices: 58954564--58954608 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
58954554 GATATTCTTA
*
58954564 TCTCTTTGGGATAAATTTGC
1 TCTCTTTGGGATAAATCTGC
58954584 TCTCTTTGGGATAAATCTGC
1 TCTCTTTGGGATAAATCTGC
58954604 TCTCT
1 TCTCT
58954609 CAATATGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (20 bp):
TCTCTTTGGGATAAATCTGC
Found at i:58959547 original size:12 final size:12
Alignment explanation
Indices: 58959519--58959551 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58959509 TTCTATTTTC
58959519 TTGTCATTTA-A
1 TTGTCATTTATA
58959530 -TGTCATTTATA
1 TTGTCATTTATA
58959541 TTGTCATTTAT
1 TTGTCATTTAT
58959552 TGATATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (12 bp):
TTGTCATTTATA
Found at i:58964759 original size:29 final size:32
Alignment explanation
Indices: 58964726--58964785 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
58964716 TTTTTAATAC
58964726 TTTTATA-ATTTCTAGAA-ATG-TAATAATTA
1 TTTTATATATTTCTAGAATATGTTAATAATTA
* *
58964755 TTTTATATATTTTTATAATATGTTAATAATT
1 TTTTATATATTTCTAGAATATGTTAATAATT
58964786 TATATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 8 0.31
31 3 0.12
32 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (32 bp):
TTTTATATATTTCTAGAATATGTTAATAATTA
Found at i:58964786 original size:29 final size:28
Alignment explanation
Indices: 58964719--58964791 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
58964709 ATAAATCTTT
*
58964719 TTAATACTTTTATA-ATTTCTAGAAATG
1 TTAATAATTTTATATATTTCTAGAAATG
* * *
58964746 TAATAATTATTTTATATATTTTTATAATATG
1 T--TAATAATTTTATATATTTCTAGAA-ATG
58964777 TTAATAA-TTTATATA
1 TTAATAATTTTATATA
58964792 ATAGTTTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.03
28 8 0.22
29 16 0.43
30 8 0.22
31 4 0.11
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAATAATTTTATATATTTCTAGAAATG
Found at i:58966233 original size:7 final size:7
Alignment explanation
Indices: 58966223--58966282 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
58966213 TTAGGGTCAT
*
58966223 AGGTCTA
1 AGGTTTA
*
58966230 AGGTCTA
1 AGGTTTA
58966237 AGGTTTA
1 AGGTTTA
* *
58966244 GGGTCTA
1 AGGTTTA
*
58966251 AAGTTTA
1 AGGTTTA
58966258 AGGTTTA
1 AGGTTTA
58966265 AGGTTTA
1 AGGTTTA
58966272 AGGTTTA
1 AGGTTTA
58966279 AGGT
1 AGGT
58966283 CCAGGGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.28, C:0.05, G:0.30, T:0.37
Consensus pattern (7 bp):
AGGTTTA
Found at i:58966240 original size:14 final size:14
Alignment explanation
Indices: 58966208--58966282 Score: 80
Period size: 14 Copynumber: 5.4 Consensus size: 14
58966198 TCCATAATCC
*
58966208 AAGGTTTAGGGTC-
1 AAGGTTTAAGGTCT
*
58966221 ATAGGTCTAAGGTCT
1 A-AGGTTTAAGGTCT
*
58966236 AAGGTTTAGGGTCT
1 AAGGTTTAAGGTCT
* *
58966250 AAAGTTTAAGGTTT
1 AAGGTTTAAGGTCT
*
58966264 AAGGTTTAAGGTTT
1 AAGGTTTAAGGTCT
58966278 AAGGT
1 AAGGT
58966283 CCAGGGTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
13 1 0.02
14 50 0.96
15 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.36
Consensus pattern (14 bp):
AAGGTTTAAGGTCT
Found at i:58966248 original size:21 final size:21
Alignment explanation
Indices: 58966223--58966282 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
58966213 TTAGGGTCAT
*
58966223 AGGTCTAAGGTCTAAGGTTTA
1 AGGTCTAAGGTTTAAGGTTTA
* *
58966244 GGGTCTAAAGTTTAAGGTTTA
1 AGGTCTAAGGTTTAAGGTTTA
*
58966265 AGGTTTAAGGTTTAAGGT
1 AGGTCTAAGGTTTAAGGT
58966283 CCAGGGTCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.05, G:0.30, T:0.37
Consensus pattern (21 bp):
AGGTCTAAGGTTTAAGGTTTA
Found at i:58966338 original size:7 final size:7
Alignment explanation
Indices: 58966328--58966367 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
58966318 TTAGGGTCAT
58966328 AGGTCTA
1 AGGTCTA
58966335 AGGTCTA
1 AGGTCTA
*
58966342 AGGTTTA
1 AGGTCTA
*
58966349 GGGTCTA
1 AGGTCTA
*
58966356 AGGTTTA
1 AGGTCTA
58966363 AGGTC
1 AGGTC
58966368 CAGGGTCCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.33, T:0.33
Consensus pattern (7 bp):
AGGTCTA
Found at i:58966344 original size:28 final size:28
Alignment explanation
Indices: 58966313--58966367 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
58966303 TCCATAATCC
58966313 AAGGTTTAGGGTC-ATAGGTCTAAGGTCT
1 AAGGTTTAGGGTCTA-AGGTCTAAGGTCT
*
58966341 AAGGTTTAGGGTCTAAGGTTTAAGGTC
1 AAGGTTTAGGGTCTAAGGTCTAAGGTC
58966368 CAGGGTCCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.09, G:0.33, T:0.33
Consensus pattern (28 bp):
AAGGTTTAGGGTCTAAGGTCTAAGGTCT
Found at i:58966345 original size:14 final size:14
Alignment explanation
Indices: 58966313--58966367 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
58966303 TCCATAATCC
*
58966313 AAGGTTTAGGGTC-
1 AAGGTTTAAGGTCT
*
58966326 ATAGGTCTAAGGTCT
1 A-AGGTTTAAGGTCT
*
58966341 AAGGTTTAGGGTCT
1 AAGGTTTAAGGTCT
58966355 AAGGTTTAAGGTC
1 AAGGTTTAAGGTC
58966368 CAGGGTCCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 1 0.03
14 33 0.94
15 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.33, T:0.33
Consensus pattern (14 bp):
AAGGTTTAAGGTCT
Found at i:58966372 original size:21 final size:21
Alignment explanation
Indices: 58966224--58966374 Score: 74
Period size: 21 Copynumber: 7.2 Consensus size: 21
58966214 TAGGGTCATA
* **
58966224 GGTCTAAGGTCTAAGGTTTAG
1 GGTCTAAGGTTTAAGGTCCAG
* ** *
58966245 GGTCTAAAGTTTAAGGTTTAA
1 GGTCTAAGGTTTAAGGTCCAG
*
58966266 GGTTTAAGGTTTAAGGTCCAG
1 GGTCTAAGGTTTAAGGTCCAG
* * * *
58966287 GGTC-CAGG-GTACAGCATCCAT
1 GGTCTAAGGTTTA-AG-GTCCAG
** * * *
58966308 AATCCAAGGTTTAGGGT-CATA
1 GGTCTAAGGTTTAAGGTCCA-G
* **
58966329 GGTCTAAGGTCTAAGGTTTAG
1 GGTCTAAGGTTTAAGGTCCAG
58966350 GGTCTAAGGTTTAAGGTCCAG
1 GGTCTAAGGTTTAAGGTCCAG
58966371 GGTC
1 GGTC
58966375 CAGGGTTCAG
Statistics
Matches: 94, Mismatches: 30, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.02
20 7 0.07
21 78 0.83
22 5 0.05
23 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (21 bp):
GGTCTAAGGTTTAAGGTCCAG
Found at i:58966397 original size:105 final size:105
Alignment explanation
Indices: 58966182--58966381 Score: 321
Period size: 105 Copynumber: 1.9 Consensus size: 105
58966172 CTGGACCATG
58966182 GGTCCAGGGTACAGCATCCATAATCCAAGGTTTAGGGTCATAGGTCTAAGGTCTAAGGTTTAGGG
1 GGTCCAGGGTACAGCATCCATAATCCAAGGTTTAGGGTCATAGGTCTAAGGTCTAAGGTTTAGGG
* * * * *
58966247 TCTAAAGTTTAAGGTTTAAGGTTTAAGGTTTAAGGTCCAG
66 TCTAAAGTTTAAGGTTCAAGGGTCAAGGGTTAAGGTCCAA
58966287 GGTCCAGGGTACAGCATCCATAATCCAAGGTTTAGGGTCATAGGTCTAAGGTCTAAGGTTTAGGG
1 GGTCCAGGGTACAGCATCCATAATCCAAGGTTTAGGGTCATAGGTCTAAGGTCTAAGGTTTAGGG
* * *
58966352 TCTAAGGTTTAAGG-TCCAGGGTCCAGGGTT
66 TCTAAAGTTTAAGGTTCAAGGGTCAAGGGTT
58966382 CAGGATTGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
104 10 0.11
105 78 0.89
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (105 bp):
GGTCCAGGGTACAGCATCCATAATCCAAGGTTTAGGGTCATAGGTCTAAGGTCTAAGGTTTAGGG
TCTAAAGTTTAAGGTTCAAGGGTCAAGGGTTAAGGTCCAA
Found at i:58970164 original size:3 final size:3
Alignment explanation
Indices: 58970156--58970186 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58970146 TAAATAAAAT
58970156 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
58970187 GCAAGGCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:58972894 original size:16 final size:17
Alignment explanation
Indices: 58972873--58972906 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58972863 GTAAGGGTAT
58972873 AATAAA-ATATTTAAAA
1 AATAAATATATTTAAAA
*
58972889 AATAAATATTTTTAAAA
1 AATAAATATATTTAAAA
58972906 A
1 A
58972907 GAGACAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAAATATATTTAAAA
Found at i:58973554 original size:31 final size:31
Alignment explanation
Indices: 58973519--58973585 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
58973509 AAAAAACATT
58973519 AATAGCCCAATGACTTAAATAAAAACTTTTG
1 AATAGCCCAATGACTTAAATAAAAACTTTTG
** * *
58973550 AATAGTTCAGTGACTTAAATGAAAACTTTTG
1 AATAGCCCAATGACTTAAATAAAAACTTTTG
58973581 AATAG
1 AATAG
58973586 TTCGTTGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (31 bp):
AATAGCCCAATGACTTAAATAAAAACTTTTG
Found at i:58973586 original size:31 final size:31
Alignment explanation
Indices: 58973529--58973588 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
58973519 AATAGCCCAA
58973529 TGACTTAAATAAAAACTTTTGAATAGTTCAG
1 TGACTTAAATAAAAACTTTTGAATAGTTCAG
*
58973560 TGACTTAAATGAAAACTTTTGAATAGTTC
1 TGACTTAAATAAAAACTTTTGAATAGTTC
58973589 GTTGATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTCAG
Found at i:58977088 original size:2 final size:2
Alignment explanation
Indices: 58977083--58977107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58977073 AATTGATCTA
58977083 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
58977108 AGAACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:58978214 original size:9 final size:8
Alignment explanation
Indices: 58978187--58978212 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
58978177 AACCGAATTA
58978187 TTATTTTT
1 TTATTTTT
58978195 TTATTTTT
1 TTATTTTT
58978203 TTATTTTT
1 TTATTTTT
58978211 TT
1 TT
58978213 TAATAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:58981938 original size:3 final size:3
Alignment explanation
Indices: 58981932--58981959 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58981922 ATTTTAAAAA
58981932 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
58981960 GATTTTAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58990160 original size:21 final size:23
Alignment explanation
Indices: 58990136--58990180 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
58990126 TTTTCACCTA
*
58990136 TTTATAATTT-TA-AAAATAATT
1 TTTATAATTTCTAGAAAAAAATT
58990157 TTTATAATTTCTAGAAAAAAATT
1 TTTATAATTTCTAGAAAAAAATT
58990180 T
1 T
58990181 ACTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATAATTTCTAGAAAAAAATT
Found at i:58990181 original size:21 final size:21
Alignment explanation
Indices: 58990134--58990189 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
58990124 AATTTTCACC
58990134 TATTTATAATTTTAAAAATAA
1 TATTTATAATTTTAAAAATAA
*
58990155 TTTTTATAATTTCTAGAAAA-AA
1 TATTTATAATTT-TA-AAAATAA
58990177 -ATTTACTAATTTT
1 TATTTA-TAATTTT
58990190 TATATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 16 0.53
22 10 0.33
23 4 0.13
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTTATAATTTTAAAAATAA
Found at i:58999932 original size:17 final size:16
Alignment explanation
Indices: 58999899--58999946 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
58999889 TGCTTTAAAC
*
58999899 CTATATTTATTATTATA
1 CTATATTTA-TAATATA
58999916 CTATATTTATGAATATA
1 CTATATTTAT-AATATA
* *
58999933 TTATAATTATAATA
1 CTATATTTATAATA
58999947 GTGATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (16 bp):
CTATATTTATAATATA
Found at i:59002815 original size:50 final size:51
Alignment explanation
Indices: 59002753--59002851 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 51
59002743 AAAGTTTACG
* * *
59002753 CATTCTGTCAATTCCGTCTTGATTTAACAAATTTACCT-TCAACATTTATA
1 CATTCTGTCAATTCAGTCTTAATTTAACAAATTTACCTCACAACATTTATA
* * *
59002803 CATTTTGTCAATTTAGTCTTAATTTAACAAATTTAGCTCACAACATTTA
1 CATTCTGTCAATTCAGTCTTAATTTAACAAATTTACCTCACAACATTTA
59002852 CACACTATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 33 0.79
51 9 0.21
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (51 bp):
CATTCTGTCAATTCAGTCTTAATTTAACAAATTTACCTCACAACATTTATA
Found at i:59004746 original size:31 final size:30
Alignment explanation
Indices: 59004689--59004762 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
59004679 CGTTAATATA
59004689 TAATAATTATTATTAATAGTTTTAAAATTTT
1 TAATAATTATTATTAATAGTTTTAAAA-TTT
* **
59004720 TAATAATTATT-TTCATTTTTTATAAAATTT
1 TAATAATTATTATTAATAGTTT-TAAAATTT
*
59004750 AAATAATT-TTATT
1 TAATAATTATTATT
59004763 TTTAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.05
30 19 0.51
31 16 0.43
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TAATAATTATTATTAATAGTTTTAAAATTT
Found at i:59004777 original size:23 final size:24
Alignment explanation
Indices: 59004737--59004783 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
59004727 TATTTTCATT
*
59004737 TTTTATAAAATTTAAATAATTTTA
1 TTTTATAAAATTTAAATAAATTTA
* *
59004761 TTTT-TAAATTTTTAATAAATTTA
1 TTTTATAAAATTTAAATAAATTTA
59004784 AATCAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATAAAATTTAAATAAATTTA
Found at i:59005777 original size:21 final size:21
Alignment explanation
Indices: 59005753--59005799 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
59005743 AATTTTGTGA
59005753 TTTTTAAT-TAAATTTTAATAT
1 TTTTTAATATAAATTTTAAT-T
*
59005774 TTTTT-TTATAAATTTTAATT
1 TTTTTAATATAAATTTTAATT
59005794 TTTTTA
1 TTTTTA
59005800 TAGTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTAATATAAATTTTAATT
Found at i:59005797 original size:17 final size:16
Alignment explanation
Indices: 59005775--59005823 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
59005765 TTTTAATATT
59005775 TTTTTTATAAATTTTAA
1 TTTTTT-TAAATTTTAA
*
59005792 TTTTTTTATAGTTTTAA
1 TTTTTTTA-AATTTTAA
59005809 TGTCTTTTTAAATTT
1 T-T-TTTTTAAATTT
59005824 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.07
17 14 0.52
18 5 0.19
19 6 0.22
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTTTTAAATTTTAA
Found at i:59005797 original size:18 final size:18
Alignment explanation
Indices: 59005774--59005823 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
59005764 ATTTTAATAT
59005774 TTTTTTTATAAATTTTAA
1 TTTTTTTATAAATTTTAA
*
59005792 TTTTTTTAT-AGTTTTAA
1 TTTTTTTATAAATTTTAA
*
59005809 TGTCTTTT-TAAATTT
1 T-TTTTTTATAAATTT
59005824 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTTTATAAATTTTAA
Found at i:59016530 original size:16 final size:17
Alignment explanation
Indices: 59016501--59016541 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
59016491 TTATTGAAAA
*
59016501 TTTAAATTTATATATAT
1 TTTAAATTTATATAAAT
59016518 TTTAAATTT-TATAAAT
1 TTTAAATTTATATAAAT
59016534 TATTAAAT
1 T-TTAAAT
59016542 CAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATATAAAT
Found at i:59020950 original size:2 final size:2
Alignment explanation
Indices: 59020943--59020987 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
59020933 TGTGGTTTGA
59020943 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
59020985 AC A
1 AC A
59020988 TATATGCGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:59021976 original size:22 final size:22
Alignment explanation
Indices: 59021951--59021992 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59021941 AAGGTTGTTG
59021951 TTTGATAAATTGAAAAGTTATA
1 TTTGATAAATTGAAAAGTTATA
*
59021973 TTTGATAAATTGAAAGGTTA
1 TTTGATAAATTGAAAAGTTA
59021993 AGTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TTTGATAAATTGAAAAGTTATA
Found at i:59023960 original size:22 final size:19
Alignment explanation
Indices: 59023935--59023976 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
59023925 TTTATAAAAT
59023935 AGTTAATTATTATTAAATTATA
1 AGTTAATT-TT-TTAAA-TATA
59023957 AGTTAATTTTTTAAATATA
1 AGTTAATTTTTTAAATATA
59023976 A
1 A
59023977 TCATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 2 0.10
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
AGTTAATTTTTTAAATATA
Found at i:59029157 original size:10 final size:10
Alignment explanation
Indices: 59029142--59029182 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
59029132 CTCTCCATAC
59029142 ATACATATAT
1 ATACATATAT
59029152 ATACATATAT
1 ATACATATAT
59029162 ATACATACATGAT
1 ATACAT--AT-AT
59029175 ATACATAT
1 ATACATAT
59029183 CACTATGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 16 0.57
11 2 0.07
12 2 0.07
13 8 0.29
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (10 bp):
ATACATATAT
Found at i:59029157 original size:14 final size:14
Alignment explanation
Indices: 59029137--59029181 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
59029127 TTCATCTCTC
59029137 CATACATACATATA
1 CATACATACATATA
* *
59029151 TATACATATATATA
1 CATACATACATATA
*
59029165 CATACAT-GATATA
1 CATACATACATATA
59029178 CATA
1 CATA
59029182 TCACTATGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (14 bp):
CATACATACATATA
Found at i:59032243 original size:11 final size:12
Alignment explanation
Indices: 59032227--59032293 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 12
59032217 AATATATATA
59032227 TGTATGTG-ATG
1 TGTATGTGTATG
59032238 TGTATGTGTATG
1 TGTATGTGTATG
* **
59032250 TGTCTGTACATG
1 TGTATGTGTATG
* *
59032262 TATATGTATATG
1 TGTATGTGTATG
* *
59032274 TATATGTATATG
1 TGTATGTGTATG
*
59032286 TATATGTG
1 TGTATGTG
59032294 AATGAAGTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
11 8 0.17
12 40 0.83
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (12 bp):
TGTATGTGTATG
Found at i:59032244 original size:6 final size:6
Alignment explanation
Indices: 59032235--59032292 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
59032225 TATGTATGTG
* * * * *
59032235 ATGTGT ATGTGT ATGTGT CTGTAC ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
59032283 ATGTAT ATGT
1 ATGTAT ATGT
59032293 GAATGAAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.26, C:0.03, G:0.22, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:59034574 original size:15 final size:16
Alignment explanation
Indices: 59034549--59034578 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59034539 TAAAACCTAA
59034549 ATTTATTACAATATTT
1 ATTTATTACAATATTT
59034565 ATTT-TTACAATATT
1 ATTTATTACAATATT
59034579 CGTTTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATTACAATATTT
Found at i:59038957 original size:15 final size:16
Alignment explanation
Indices: 59038932--59038961 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59038922 AATATTAATT
59038932 GTATATTAAATATATA
1 GTATATTAAATATATA
59038948 GTAT-TTAAATATAT
1 GTATATTAAATATAT
59038962 CATAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
GTATATTAAATATATA
Found at i:59039234 original size:2 final size:2
Alignment explanation
Indices: 59039227--59039252 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59039217 TTTCATATTC
59039227 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
59039253 GCTTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59040619 original size:31 final size:31
Alignment explanation
Indices: 59040582--59040648 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
59040572 TTAACAGCTT
*
59040582 AGTGACTTAAAT-AAAAATTTTTGAATAGTTA
1 AGTGACTTAAATGAAAAA-TTTCGAATAGTTA
* *
59040613 AGTGACTTAAATGAAACATTTCGAATAGTTT
1 AGTGACTTAAATGAAAAATTTCGAATAGTTA
59040644 AGTGA
1 AGTGA
59040649 TTATTTTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAATTTCGAATAGTTA
Found at i:59041064 original size:19 final size:19
Alignment explanation
Indices: 59041040--59041081 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
59041030 ATAAAGTTAC
59041040 AAAAAA-AAATAAAAAATTT
1 AAAAAATAAA-AAAAAATTT
*
59041059 AAAAAATAAAAACAAATTT
1 AAAAAATAAAAAAAAATTT
59041078 AAAA
1 AAAA
59041082 TTACAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAAAAAAATTT
Found at i:59041512 original size:14 final size:15
Alignment explanation
Indices: 59041486--59041519 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
59041476 ATATTTGATT
*
59041486 TTTTTTCACATTAAC
1 TTTTTTCACATTAAA
59041501 TTTTTTCA-ATTAAA
1 TTTTTTCACATTAAA
59041515 TTTTT
1 TTTTT
59041520 CAACTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTTCACATTAAA
Found at i:59042358 original size:30 final size:30
Alignment explanation
Indices: 59042305--59042389 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
59042295 TCTTCAATGT
* * *
59042305 CGTTTGTTCCCTTGTCATCTGTGTCCCTGC
1 CGTTAGTTTCCTTGTCATTTGTGTCCCTGC
* *
59042335 CGTTCAG-TTCCTTCTCATTTGTGTCCTTGC
1 CGTT-AGTTTCCTTGTCATTTGTGTCCCTGC
*
59042365 CGTTTGTTTCCTTGTCATTTGTGTC
1 CGTTAGTTTCCTTGTCATTTGTGTC
59042390 TTTCTGCTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.96
31 1 0.02
ACGTcount: A:0.05, C:0.28, G:0.19, T:0.48
Consensus pattern (30 bp):
CGTTAGTTTCCTTGTCATTTGTGTCCCTGC
Found at i:59042370 original size:15 final size:15
Alignment explanation
Indices: 59042350--59042389 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
59042340 AGTTCCTTCT
59042350 CATTTGTGTCCTTGC
1 CATTTGTGTCCTTGC
* * *
59042365 CGTTTGTTTCCTTGT
1 CATTTGTGTCCTTGC
59042380 CATTTGTGTC
1 CATTTGTGTC
59042390 TTTCTGCTGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.23, G:0.20, T:0.53
Consensus pattern (15 bp):
CATTTGTGTCCTTGC
Found at i:59045012 original size:34 final size:36
Alignment explanation
Indices: 59044936--59045013 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 36
59044926 TTTATTAAAA
* *
59044936 TAATAA-ATTATATTAATTATATATATTTGATTTAT
1 TAATAATATTATATTAAATATAAATATTTGATTTAT
*
59044971 T-AT-ATATTATTTTAAATATAAATATTT-ATTT-T
1 TAATAATATTATATTAAATATAAATATTTGATTTAT
59045003 TAATAATATTA
1 TAATAATATTA
59045014 AAAATAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
32 2 0.05
33 7 0.19
34 27 0.73
35 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (36 bp):
TAATAATATTATATTAAATATAAATATTTGATTTAT
Found at i:59045014 original size:29 final size:32
Alignment explanation
Indices: 59044944--59045029 Score: 79
Period size: 34 Copynumber: 2.7 Consensus size: 32
59044934 AATAATAAAT
* *
59044944 TATATTAATTATATATATTTGATTTATTATATA
1 TATATTAAATATAAATATTT-ATTTATTATATA
*
59044977 TTATTTTAAATATAAATATTTATTT-TTA-ATA
1 -TATATTAAATATAAATATTTATTTATTATATA
*
59045008 -ATATTAAAAATAATTATATTTA
1 TATATTAAATATAA--ATATTTA
59045030 CAATCAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 11 0.24
31 10 0.22
32 3 0.07
33 4 0.09
34 17 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
TATATTAAATATAAATATTTATTTATTATATA
Found at i:59051596 original size:19 final size:19
Alignment explanation
Indices: 59051572--59051608 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
59051562 TAAGGTTAAT
59051572 AAGAATTTGGGTCACATAC
1 AAGAATTTGGGTCACATAC
59051591 AAGAATTTGGGTCACATA
1 AAGAATTTGGGTCACATA
59051609 TCTTTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (19 bp):
AAGAATTTGGGTCACATAC
Found at i:59053233 original size:20 final size:20
Alignment explanation
Indices: 59053191--59053233 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
59053181 AACATTATAT
*
59053191 AAGTTATTTAAAATATTAAA
1 AAGTTATTTAAAAGATTAAA
*
59053211 AAGTTA-TTGAAAGATTAATA
1 AAGTTATTTAAAAGATTAA-A
59053231 AAG
1 AAG
59053234 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (20 bp):
AAGTTATTTAAAAGATTAAA
Found at i:59065227 original size:13 final size:13
Alignment explanation
Indices: 59065209--59065234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59065199 TAAAATTTAA
59065209 ATATTTAAAAAAT
1 ATATTTAAAAAAT
59065222 ATATTTAAAAAAT
1 ATATTTAAAAAAT
59065235 TAAAAAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATTTAAAAAAT
Found at i:59068589 original size:7 final size:7
Alignment explanation
Indices: 59068577--59068605 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
59068567 AAAATAAATG
59068577 TATTAAA
1 TATTAAA
59068584 TATTAAA
1 TATTAAA
59068591 TATTAAA
1 TATTAAA
59068598 TATTAAA
1 TATTAAA
59068605 T
1 T
59068606 TAAAAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATTAAA
Found at i:59072609 original size:111 final size:111
Alignment explanation
Indices: 59072415--59072638 Score: 430
Period size: 111 Copynumber: 2.0 Consensus size: 111
59072405 CCGTGATTCA
*
59072415 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGACGTGGTCTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGAAGTGGTCTGCATGCATAT
59072480 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
*
59072526 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGAAGTGGTTTGCATGCATAT
1 TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGAAGTGGTCTGCATGCATAT
59072591 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
66 CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
59072637 TT
1 TT
59072639 ATCTTGTTAA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (111 bp):
TTGGCTATTGAAATGAAAATAACGTGTTTGACATTGTTTCAGAGTGAAGTGGTCTGCATGCATAT
CTTATTAAGTAGGCTTTCTTTAATTTGATATGAAATATTTCTCCTG
Found at i:59088127 original size:31 final size:31
Alignment explanation
Indices: 59088091--59088157 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
59088081 AACAGCCCAG
* * *
59088091 ATGACTTCAATAAAAACTTTTGAATAGTTTA
1 ATGACTTAAATAAAAACTTTCGAATAGTTCA
*
59088122 ATGACTTAAATGAAAACTTTCGAATAGTTCA
1 ATGACTTAAATAAAAACTTTCGAATAGTTCA
59088153 ATGAC
1 ATGAC
59088158 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (31 bp):
ATGACTTAAATAAAAACTTTCGAATAGTTCA
Found at i:59105376 original size:25 final size:25
Alignment explanation
Indices: 59105348--59105404 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
59105338 ATGCTCTCAT
59105348 GAGCTGTAAATTAAG-AAGCTAATAC
1 GAGCTGTAAA-TAAGTAAGCTAATAC
** * *
59105373 GAGCTACAAATCAGTAAGCTCATAC
1 GAGCTGTAAATAAGTAAGCTAATAC
59105398 GAGCTGT
1 GAGCTGT
59105405 GGTGTGTCCG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (25 bp):
GAGCTGTAAATAAGTAAGCTAATAC
Found at i:59109477 original size:6 final size:6
Alignment explanation
Indices: 59109445--59109483 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
59109435 ATTTTTTAGA
* * *
59109445 AATTAT AAATAT AAATAT AATTAT AATTAT AATTTT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
59109484 CTAAACAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:59121708 original size:2 final size:2
Alignment explanation
Indices: 59121701--59121731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59121691 ATTCAAATTC
59121701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59121732 ACTGCCTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59122565 original size:19 final size:19
Alignment explanation
Indices: 59122541--59122580 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
59122531 ACAACAAAAT
*
59122541 AATAGTAACATAATAGTGA
1 AATAGTAACAAAATAGTGA
*
59122560 AATAGTAGCAAAATAGTGA
1 AATAGTAACAAAATAGTGA
59122579 AA
1 AA
59122581 AAACAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (19 bp):
AATAGTAACAAAATAGTGA
Found at i:59122945 original size:19 final size:21
Alignment explanation
Indices: 59122918--59122958 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59122908 TTTTAAATTT
*
59122918 TTTTATCTAT-TTTTTTTTTA
1 TTTTATCTATGTTTCTTTTTA
59122938 TTTT-TCTATGTTTCTTTTTA
1 TTTTATCTATGTTTCTTTTTA
59122958 T
1 T
59122959 GATTTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATCTATGTTTCTTTTTA
Found at i:59134737 original size:7 final size:8
Alignment explanation
Indices: 59134720--59134746 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
59134710 AAAACAAGCG
59134720 AAAAAGAA
1 AAAAAGAA
59134728 AAAAAGAA
1 AAAAAGAA
59134736 AAAAAGAA
1 AAAAAGAA
59134744 AAA
1 AAA
59134747 TACCTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:59136416 original size:20 final size:20
Alignment explanation
Indices: 59136391--59136430 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59136381 CGTAAAATGA
*
59136391 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
59136411 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
59136431 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:59136420 original size:34 final size:35
Alignment explanation
Indices: 59136376--59136442 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
59136366 CAGTAAAATA
*
59136376 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
59136410 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
59136443 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:59136446 original size:14 final size:15
Alignment explanation
Indices: 59136370--59136446 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
59136360 GATTGCCAGT
* *
59136370 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
59136384 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
59136398 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
59136418 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
59136433 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
59136447 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:59138893 original size:22 final size:22
Alignment explanation
Indices: 59138842--59138895 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
59138832 TGCAAAAAAA
* *
59138842 ATTGTTTTACTGTTGTTTTTCC
1 ATTGTTTTGCAGTTGTTTTTCC
* *
59138864 ACTATTTTGCAGTTG-TTTTCC
1 ATTGTTTTGCAGTTGTTTTTCC
59138885 TATTGTTTTGC
1 -ATTGTTTTGC
59138896 TATCATTCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (22 bp):
ATTGTTTTGCAGTTGTTTTTCC
Found at i:59141343 original size:19 final size:18
Alignment explanation
Indices: 59141319--59141363 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
59141309 GTTGAAGTTT
59141319 TTTTTTATTTTCTTTGCTG
1 TTTTTT-TTTTCTTTGCTG
*
59141338 TTTTTTTTTTGTTT--TG
1 TTTTTTTTTTCTTTGCTG
59141354 TTTTTTTTTT
1 TTTTTTTTTT
59141364 TCTCTTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 12 0.48
18 7 0.28
19 6 0.24
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTCTTTGCTG
Found at i:59141494 original size:12 final size:13
Alignment explanation
Indices: 59141467--59141496 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59141457 ATTTTGGAGC
*
59141467 TTTTTGCTTGATT
1 TTTTTGCTCGATT
59141480 TTTTTGCTCGATT
1 TTTTTGCTCGATT
59141493 TTTT
1 TTTT
59141497 CTTTTTGTTT
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:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (13 bp):
TTTTTGCTCGATT
Found at i:59142268 original size:75 final size:75
Alignment explanation
Indices: 59142189--59142470 Score: 413
Period size: 75 Copynumber: 3.8 Consensus size: 75
59142179 GCTCGACATA
* * * *
59142189 CGACCCAAAGCTTAACTCACCTCTCGGATTATGAGTTGATCTTTGAAAAACGGAAATTGAAAATA
1 CGACCCGAAGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATA
*
59142254 CATTAGCGCG
66 CATTAGCGTG
* * * * *
59142264 CGACCCGAGGCTCAACTCACCTCTCAGTTTATGAGTTGATTTTTAAAAAATAGAAATTGAAAATA
1 CGACCCGAAGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATA
* *
59142329 CCTCAGCGTG
66 CATTAGCGTG
*
59142339 CGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATA
1 CGACCCGAAGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATA
*
59142404 CTTTAGCGTG
66 CATTAGCGTG
*
59142414 CGACCCG-AGACTCAACTCACCTCTCGGGTTATGAGTTGATTTTTGAAAAACAGAAAT
1 CGACCCGAAG-CTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAAT
59142471 AAAAATATGT
Statistics
Matches: 186, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
74 1 0.01
75 185 0.99
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (75 bp):
CGACCCGAAGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATA
CATTAGCGTG
Found at i:59143158 original size:2 final size:2
Alignment explanation
Indices: 59143151--59143177 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59143141 CCTGTTTGTT
59143151 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
59143178 CTATTTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59147282 original size:28 final size:28
Alignment explanation
Indices: 59147249--59147302 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
59147239 TAATTTATGT
* *
59147249 AAGATGAACACAATATTTTTTTTTAAAG
1 AAGATGAACACAATATTATTCTTTAAAG
* *
59147277 AAGATGACCACATTATTATTCTTTAA
1 AAGATGAACACAATATTATTCTTTAA
59147303 TTTCTCATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (28 bp):
AAGATGAACACAATATTATTCTTTAAAG
Found at i:59155067 original size:6 final size:6
Alignment explanation
Indices: 59155060--59155096 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
59155050 GGGCCCTCAC
*
59155060 CATCAC CATCAA CCATCAA CATCAA CATCAA CATCAA
1 CATCAA CATCAA -CATCAA CATCAA CATCAA CATCAA
59155097 TAGGAAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (6 bp):
CATCAA
Found at i:59155088 original size:19 final size:18
Alignment explanation
Indices: 59155060--59155096 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
59155050 GGGCCCTCAC
*
59155060 CATCACCATCAACCATCAA
1 CATCAACATCAA-CATCAA
59155079 CATCAACATCAACATCAA
1 CATCAACATCAACATCAA
59155097 TAGGAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (18 bp):
CATCAACATCAACATCAA
Found at i:59155090 original size:12 final size:13
Alignment explanation
Indices: 59155058--59155096 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
59155048 CAGGGCCCTC
*
59155058 ACCATCACCATCA
1 ACCATCAACATCA
59155071 ACCATCAACATCA
1 ACCATCAACATCA
59155084 A-CATCAACATCA
1 ACCATCAACATCA
59155096 A
1 A
59155097 TAGGAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCATCAACATCA
Found at i:59156074 original size:29 final size:30
Alignment explanation
Indices: 59156031--59156089 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
59156021 TAATTAGATC
*
59156031 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
59156061 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
59156090 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:59159704 original size:19 final size:18
Alignment explanation
Indices: 59159680--59159718 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
59159670 TTGATTCAGT
59159680 TAACACAA-AAGTAATAATA
1 TAACACAATAAG-AA-AATA
59159699 TAACACAATAAGAAAATA
1 TAACACAATAAGAAAATA
59159717 TA
1 TA
59159719 TAAAGCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 10 0.53
20 3 0.16
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (18 bp):
TAACACAATAAGAAAATA
Found at i:59166215 original size:54 final size:52
Alignment explanation
Indices: 59165941--59166501 Score: 483
Period size: 51 Copynumber: 10.9 Consensus size: 52
59165931 GAGCCAGCAG
* * * * *
59165941 CAGCATC-GACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATC-TTCAACAA
1 CAGCATCAG-CCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
* * * * * *
59165992 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCAT-ATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
** * * *
59166043 CAGCATCCA-CCTCCTCAAGATATTTATCAAAGTTCCGATCATC-TTCAACAA
1 CAGCAT-CAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
* * * * * *
59166094 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCAT-ATTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
*
59166145 CAGCATCAGCCTCCTCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTT--TCAACAA
*
59166199 CAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTT--TCAACAA
*
59166253 CAG-AGTCAGCCTCCTCCGGAAAGTTATCAGAGTTCCGATCAT-TTTCAACAA
1 CAGCA-TCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
* * * *
59166304 CAGCAAT-ATCAC-CCTCGAGAAAGTTATCAG-GATTCGGAACATC-TTCAACAA
1 CAGC-ATCAGC-CTCCTCGGGAAAGTTATCAGAG-TTCCGATCATCTTTCAACAA
* * * * * *
59166355 CGGCATCGGCCACCTCGAGAAAGTTATCAGTGTTCCAATCATC-TTCAACAA
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
* * *
59166406 CAGC-TACAGCCT--TC-GGAAAGTTATCATCAGAGTTTCAATCATC-TTCAACAG
1 CAGCAT-CAGCCTCCTCGGGAAAG-T-T-ATCAGAGTTCCGATCATCTTTCAACAA
* * ** *
59166457 CAGCAGCATCAGCCTCGGGAAAGTTATCAGAGCTCCGATCATCTT
1 CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTT
59166502 CCTCCTCGAG
Statistics
Matches: 423, Mismatches: 60, Indels: 53
0.79 0.11 0.10
Matches are distributed among these distances:
48 5 0.01
49 3 0.01
50 7 0.02
51 290 0.69
52 8 0.02
53 6 0.01
54 104 0.25
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (52 bp):
CAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATCTTTCAACAA
Found at i:59166516 original size:36 final size:36
Alignment explanation
Indices: 59166469--59166538 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
59166459 GCAGCATCAG
* * *
59166469 CCTCGGGAAAGTTATCAGAGCTCCGATCATCTTCCT
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
*
59166505 CCTCGAGAAAGTTATCAAAATTCCGATCATCTTC
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTC
59166539 AGCAACAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (36 bp):
CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
Found at i:59177020 original size:9 final size:9
Alignment explanation
Indices: 59177006--59177036 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
59176996 GATTCAATAT
59177006 AAAAAAAAG
1 AAAAAAAAG
59177015 AAAAAAAAG
1 AAAAAAAAG
*
59177024 AAGAAAAAG
1 AAAAAAAAG
59177033 AAAA
1 AAAA
59177037 GGAGAGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:59178410 original size:50 final size:49
Alignment explanation
Indices: 59178345--59179231 Score: 537
Period size: 50 Copynumber: 17.8 Consensus size: 49
59178335 TGCAATTTAG
* * *
59178345 AAGATTGAAGCCACAACAGCGAATCTTATTTCCCAGGCGATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
* * * * ****
59178395 TAGATTGAAGTCACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* * *
59178445 AAGATTGAAGCCACAATGGCGAATCTTATTTCCCAGGCGATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
* * * * * ****
59178495 CAGATTGAAGTCACAACGGCGAATCTTGCTTCCCCGACATTGTAATTTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* * *
59178545 AAGATTGAAGCCATAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
* * ** * ****
59178595 CAGATTGAAGTCACAACGGCGAATCTTGTTTCCCCGACATTGCAATTTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* *
59178645 AAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGTA-ATGCAGCAGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCA-G-ACATGCAGCGGAA
* ** * * ****
59178695 CAGATTGAAATCACAACGGCAAATCTTGCTTCCTC-GACATTGCAATTTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGACA-TGCAGCGGAA
* *
59178745 AAGATTAAAGTCACAACGGCGAATCTTACTT-CCA-ACCAATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGA-C-ATGCAGCGGAA
* * * * ** * ***
59178794 CAGATTGAAGTCACATCGGTGAATCTCGCTTCCCCGACATTGCA-ATTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* * * * * * * *
59178843 AAGATTGAAGCTAAAACGGTGAATCTTACTT-TCAGGCGGTGAAGTGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
* * * *** * * ****
59178892 CAGATTGAAACTACAACGGCGAATCACGCTTCCCCGACATTACAATTAAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* *** * *
59178942 AAGATTGAAGCCACAACGACGAATCTTACTT-CCAGGTGGTGTAGTGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCA-GACATGCAGCGGAA
* * * * * *
59178991 TAGATTGAAGCTACAACGACGAATCTTATTTCCCAGGCGATGTAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
* * *
59179041 CAGATTGAAGCCACAACGGTGAATCTTACTTCCTAGACGATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC-ATGCAGCGGAA
** * * * ****
59179091 CTGATTGAAGCCACAACGGTGAATCTCACTTCCCCGACATTGCAATTTAA
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACA-TGCAGCGGAA
* * * *
59179141 AATATTGAGGCCACAACGGCGAATCTTACTTTTCCAGGCAATGCAGCGGAA
1 AAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGAC-ATGCAGCGGAA
* * * * *
59179192 TAGATTGAAGCTACAACGGCGAGTCTTCCTTCCCCGACAT
1 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACAT
59179232 TGCAATCTCA
Statistics
Matches: 626, Mismatches: 185, Indels: 53
0.72 0.21 0.06
Matches are distributed among these distances:
48 9 0.01
49 130 0.21
50 444 0.71
51 41 0.07
52 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (49 bp):
AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGACATGCAGCGGAA
Found at i:59178507 original size:100 final size:100
Alignment explanation
Indices: 59178334--59179237 Score: 1088
Period size: 100 Copynumber: 9.1 Consensus size: 100
59178324 ATACTATAGT
* * *
59178334 TTGCAATTTAGAAGATTGAAGCCACAACAGCGAATCTTATTTCCCAGGCGATGCAGCGGAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
59178399 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
*
59178434 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
59178499 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* *
59178534 TTGTAATTTAAAAGATTGAAGCCATAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
*
59178599 TTGAAGTCACAACGGCGAATCTTGTTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
** *
59178634 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGTAATGCAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * *
59178699 TTGAAATCACAACGGCAAATCTTGCTTCCTCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * ** *
59178734 TTGCAATTTAAAAGATTAAAGTCACAACGGCGAATCTTACTT-CCAACCAATGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * *
59178798 TTGAAGTCACATCGGTGAATCTCGCTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * * * *
59178833 TTGCAA-TTAAAAGATTGAAGCTAAAACGGTGAATCTTACTTT--CAGGCGGTGAAGTGGAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
* **
59178895 ATTGAA-ACTACAACGGCGAATCACGCTTCCCCGACA
65 ATTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGACA
* * * * * * * * *
59178931 TTACAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTT-CCAGGTGGTGTAGTGGAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* ** * *
59178995 TTGAAG-CTACAACGACGAATCTTATTTCCCAGGCGA
66 TTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGAC-A
* **** * * * * * *
59179031 -TGTAGCGGAACAGATTGAAGCCACAACGGTGAATCTTACTTCCTAGACGATGCAGCGGAACTGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
* * **
59179095 TTGAAGCCACAACGGTGAATCTCACTTCCCCGACA
66 TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
* * * * *
59179130 TTGCAATTTAAAATATTGAGGCCACAACGGCGAATCTTACTTTTCCAGGCAATGCAGCGGAATAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
* *
59179195 ATTGAAG-CTACAACGGCGAGTCTTCCTTCCCCGACA
65 ATTGAAGTC-ACAACGGCGAATCTTGCTTCCCCGACA
59179231 TTGCAAT
1 TTGCAAT
59179238 CTCATTTCTC
Statistics
Matches: 687, Mismatches: 106, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
97 1 0.00
98 78 0.11
99 159 0.23
100 393 0.57
101 56 0.08
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGTCACAACGGCGAATCTTGCTTCCCCGACA
Found at i:59178863 original size:49 final size:49
Alignment explanation
Indices: 59178810--59178952 Score: 119
Period size: 49 Copynumber: 2.9 Consensus size: 49
59178800 GAAGTCACAT
59178810 CGGTGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCTAAAA
1 CGGTGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCTAAAA
** * * * ** * * * *
59178859 CGGTGAATCTTACTT-TCAGGCGGTG-AAGTGGAACAGATTGAAACTACAA
1 CGGTGAATCTCGCTTCCCCGACATTGCAA-T-TAAAAGATTGAAGCTAAAA
* * *
59178908 CGGCGAATCACGCTTCCCCGACATTACAATTAAAAAGATTGAAGC
1 CGGTGAATCTCGCTTCCCCGACATTGCAATT-AAAAGATTGAAGC
59178953 CACAACGACG
Statistics
Matches: 65, Mismatches: 24, Indels: 9
0.66 0.24 0.09
Matches are distributed among these distances:
47 2 0.03
48 6 0.09
49 39 0.60
50 16 0.25
51 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (49 bp):
CGGTGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCTAAAA
Found at i:59179402 original size:18 final size:18
Alignment explanation
Indices: 59179376--59179413 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59179366 GAAGATTACA
*
59179376 AGTCTTATCTCCCTAAGC
1 AGTCCTATCTCCCTAAGC
*
59179394 AGTCCTATCTCTCTAAGC
1 AGTCCTATCTCCCTAAGC
59179412 AG
1 AG
59179414 AAGTGGAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (18 bp):
AGTCCTATCTCCCTAAGC
Found at i:59180957 original size:3 final size:3
Alignment explanation
Indices: 59180949--59180984 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
59180939 AATCTAGTAC
59180949 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59180985 CATCATCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59181261 original size:20 final size:20
Alignment explanation
Indices: 59181236--59181296 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
59181226 CATAAATATG
59181236 TATTTTATATATGTTCTTTA
1 TATTTTATATATGTTCTTTA
59181256 TATTTTA-ACTATG-------
1 TATTTTATA-TATGTTCTTTA
59181269 TATTTTATATATGTTCTTTA
1 TATTTTATATATGTTCTTTA
59181289 TATTTTAT
1 TATTTTAT
59181297 GAATCATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 18
0.64 0.00 0.36
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
19 1 0.03
20 19 0.59
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTATATATGTTCTTTA
Found at i:59181270 original size:33 final size:33
Alignment explanation
Indices: 59181232--59181295 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
59181222 TTTTCATAAA
59181232 TATGTATTTTATATATGTTCTTTATATTTTAAC
1 TATGTATTTTATATATGTTCTTTATATTTTAAC
59181265 TATGTATTTTATATATGTTCTTTATATTTTA
1 TATGTATTTTATATATGTTCTTTATATTTTA
59181296 TGAATCATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (33 bp):
TATGTATTTTATATATGTTCTTTATATTTTAAC
Found at i:59181393 original size:18 final size:16
Alignment explanation
Indices: 59181372--59181411 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
59181362 ATGCTTACTC
59181372 ATATATATATATATTTTA
1 ATATATA-ATA-ATTTTA
59181390 ATATATAATAATTTTA
1 ATATATAATAATTTTA
*
59181406 AAATAT
1 ATATAT
59181412 GTACATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATAATAATTTTA
Found at i:59182031 original size:109 final size:110
Alignment explanation
Indices: 59181717--59182149 Score: 597
Period size: 110 Copynumber: 4.0 Consensus size: 110
59181707 TCAAAAAAGG
* * *
59181717 AAAATTTTTCAAAATAAGGCAATGTTTTGCCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTT-AAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * **
59181782 TGGGTGTCGATTCTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 TGGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
*
59181828 AAAAAGTTTAAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
**
59181893 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
* * *
59181938 AAAAATTTTAAAATAAGGCAATGTTTTG-CATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCC
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
59182002 GGGTGTCGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTC
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
* * * * * * *
59182047 AAAAATTTCAAAATAAGGCAATGTTGTG-CGTTTGGAAATTCGAG-GAACGTACCCTAATGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * *
59182110 AGGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
59182150 CTTGAATTTC
Statistics
Matches: 298, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 29 0.10
108 23 0.08
109 115 0.39
110 124 0.42
111 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (110 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT
Found at i:59199976 original size:6 final size:6
Alignment explanation
Indices: 59199928--59199957 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
59199918 GACCCGTTTT
59199928 AAATTA AAATTA AAATTA AAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA
59199958 TTTTTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:59200009 original size:16 final size:16
Alignment explanation
Indices: 59199972--59200011 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
59199962 TTAATAAAAT
* *
59199972 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
59199988 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
59200004 TAAAATTA
1 TAAAATTA
59200012 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:59200011 original size:22 final size:22
Alignment explanation
Indices: 59199944--59199996 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
59199934 AAATTAAAAT
* * *
59199944 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
59199966 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
59199988 TAAAATTAA
1 TAAAATTAA
59199997 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:59200090 original size:59 final size:59
Alignment explanation
Indices: 59200022--59200191 Score: 304
Period size: 59 Copynumber: 2.9 Consensus size: 59
59200012 TCAAATTATT
*
59200022 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
59200081 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATTA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
* *
59200140 AATTATTAATTGTATTAACTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
59200192 ACAAACTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:59200286 original size:23 final size:24
Alignment explanation
Indices: 59200258--59200302 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
59200248 AAATAAACTT
*
59200258 AAAATAAAAACTAT-TATATTTTA
1 AAAATAAAAAATATATATATTTTA
59200281 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATATATATATTT
59200303 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAAAAAATATATATATTTTA
Found at i:59204418 original size:76 final size:76
Alignment explanation
Indices: 59204292--59204444 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
59204282 GATGTGGGGA
59204292 GTTAGTGTCAGGTTCCAGCTTTGGTTGTGTGGAGTGTGGGTTTTACCTACACAAGCAGTGTGCTG
1 GTTAGTGTCAGGTTCCAGCTTTGGTTGTGTGGAGTGTGGGTTTTACCTACACAAGCAGTGTGCTG
59204357 AGGCACCTGCT
66 AGGCACCTGCT
59204368 GTTAGTGTCAGGTTCCAGCTTTGGTTGTGTGGAGTGTGGGTTTTACCTACACAAGCAGTGTGCTG
1 GTTAGTGTCAGGTTCCAGCTTTGGTTGTGTGGAGTGTGGGTTTTACCTACACAAGCAGTGTGCTG
59204433 AGGCACCTGCT
66 AGGCACCTGCT
59204444 G
1 G
59204445 AGATGAATCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.33
Consensus pattern (76 bp):
GTTAGTGTCAGGTTCCAGCTTTGGTTGTGTGGAGTGTGGGTTTTACCTACACAAGCAGTGTGCTG
AGGCACCTGCT
Found at i:59206092 original size:109 final size:108
Alignment explanation
Indices: 59205829--59206136 Score: 471
Period size: 109 Copynumber: 2.9 Consensus size: 108
59205819 GATATAAGAA
* * * * *
59205829 GATATTTGACTATTTGGTCCAACGAG--AAATCGAAACCCAGCACATTAGAGCACATTTTCTCAA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
59205892 ATTTCCAAACACAAAACATTGCCTTATTTCGAAATTTTAAAAG
66 ATTTCCAAACACAAAACATTGCCTTATTTCGAAATTTTAAAAG
*
59205935 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCTAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
59206000 ATTTCCAAACACAAAATATTGCCTTATTTCGAAATTTTTAAAAG
66 ATTTCCAAACACAAAACATTGCCTTATTTCGAAA-TTTTAAAAG
* * * *
59206044 GATATTTGGTTATTTGGTCGAATGAGAAAAATCGCAACCCAGCACATTACGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
59206109 ATTTCCAAACGCAAAACA-T-CCTTATTTC
66 ATTTCCAAACACAAAACATTGCCTTATTTC
59206137 ATTTCCCCTC
Statistics
Matches: 185, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 24 0.13
107 9 0.05
108 67 0.36
109 85 0.46
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (108 bp):
GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
ATTTCCAAACACAAAACATTGCCTTATTTCGAAATTTTAAAAG
Found at i:59206153 original size:19 final size:19
Alignment explanation
Indices: 59206129--59206180 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 19
59206119 GCAAAACATC
59206129 CTTATTTCATTTCCCCTCT
1 CTTATTTCATTTCCCCTCT
59206148 CTTATTAATCTCATTTCCCCTCT
1 CTTA-T--T-TCATTTCCCCTCT
59206171 CTTATTTCAT
1 CTTATTTCAT
59206181 ACTCAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 8 0.28
20 2 0.07
22 2 0.07
23 17 0.59
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (19 bp):
CTTATTTCATTTCCCCTCT
Found at i:59211416 original size:21 final size:21
Alignment explanation
Indices: 59211392--59211453 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
59211382 AAGAGAATGG
*
59211392 AAAATAAAGA-AAAAAAGTTAA
1 AAAATAAA-ACAAAAAAATTAA
59211413 AAAATAAAACAAAAAAATTAA
1 AAAATAAAACAAAAAAATTAA
*
59211434 AATACTCAAAACAAATAAAA
1 AA-AAT-AAAACAAA-AAAA
59211454 ATATGGGGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 20 0.57
22 2 0.06
23 8 0.23
24 4 0.11
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAACAAAAAAATTAA
Found at i:59211444 original size:23 final size:22
Alignment explanation
Indices: 59211392--59211453 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
59211382 AAGAGAATGG
*
59211392 AAAAT-AAAGAAAAAAAGTTAA
1 AAAATAAAACAAAAAAAGTTAA
59211413 AAAATAAAACAAAAAAA-TTAA
1 AAAATAAAACAAAAAAAGTTAA
*
59211434 AATACTCAAAACAAATAAAA
1 AA-AAT-AAAACAAA-AAAA
59211454 ATATGGGGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 11 0.31
22 12 0.34
23 8 0.23
24 4 0.11
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAATAAAACAAAAAAAGTTAA
Found at i:59212159 original size:23 final size:24
Alignment explanation
Indices: 59212116--59212167 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
59212106 CCCGTTTTTT
59212116 AAATAAACACAAAAAAAATTT-AGA
1 AAATAAACACAAAAAAAATTTCA-A
*
59212140 AAATAAA-A-AAAAAAGTATTTCAA
1 AAATAAACACAAAAAA-AATTTCAA
59212163 AAATA
1 AAATA
59212168 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.24
23 11 0.44
24 8 0.32
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (24 bp):
AAATAAACACAAAAAAAATTTCAA
Found at i:59218263 original size:21 final size:21
Alignment explanation
Indices: 59218211--59218263 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
59218201 TCCTAAGCCT
* *
59218211 CAAATCCTAACCCTTAAACCC
1 CAAATCCTAAACCTCAAACCC
*
59218232 CAAA-CTTTAAACCTCAAACCC
1 CAAATC-CTAAACCTCAAACCC
*
59218253 TAAATCCTAAA
1 CAAATCCTAAA
59218264 AAAGTTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (21 bp):
CAAATCCTAAACCTCAAACCC
Found at i:59226277 original size:61 final size:60
Alignment explanation
Indices: 59226174--59226291 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 60
59226164 ACCAACAGTA
* * *
59226174 GTCACCCAACTATGGATTTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTG
1 GTCACCCAACTATGGAGTATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTATAAATTG
*
59226234 GTCACCCAACTAT-TAGTATTTTCTTTCTCTTGGTCACCCAACTATGAAAAGTTATAAA
1 GTCACCCAACTATGGAGTATTTTCTTT-T-TTGGTCACCCAACTATGAAAAGTTATAAA
59226292 ATGATCACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 10 0.19
60 14 0.27
61 28 0.54
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (60 bp):
GTCACCCAACTATGGAGTATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTATAAATTG
Found at i:59229213 original size:46 final size:43
Alignment explanation
Indices: 59229162--59229280 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 43
59229152 CATATTTGAT
*
59229162 AAAAAATAAAATATATATTTAATATATAATTCGGATTAAAAGTCCA
1 AAAAAAT-AAATATATATTTAATATATAATTCGGATTAAAAAT--A
* * * * *
59229208 AAAAAAT--ATATTTAATAAAAAGTAT-ATT-TGATTAAAAATA
1 AAAAAATAAATATATATTTAATA-TATAATTCGGATTAAAAATA
*
59229248 AATAAATAAATATATATTTAATATATAATTCGG
1 AAAAAATAAATATATATTTAATATATAATTCGG
59229281 GTCCGGGCCA
Statistics
Matches: 56, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
40 7 0.12
41 3 0.05
42 22 0.39
43 14 0.25
44 3 0.05
46 7 0.12
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (43 bp):
AAAAAATAAATATATATTTAATATATAATTCGGATTAAAAATA
Found at i:59229233 original size:16 final size:15
Alignment explanation
Indices: 59229209--59229270 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
59229199 AAAAGTCCAA
59229209 AAAAATATATTTAAT
1 AAAAATATATTTAAT
*
59229224 AAAAAGTATATTTGATT
1 AAAAA-TATATTT-AAT
* *
59229241 AAAAATA-AATAAAT
1 AAAAATATATTTAAT
*
59229255 AAATATATATTTAAT
1 AAAAATATATTTAAT
59229270 A
1 A
59229271 TATAATTCGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
14 8 0.22
15 13 0.35
16 9 0.24
17 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
AAAAATATATTTAAT
Found at i:59230288 original size:16 final size:15
Alignment explanation
Indices: 59230261--59230300 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
59230251 GTTTTATTTT
59230261 TATTTTTAATTAAATA
1 TATTTTT-ATTAAATA
*
59230277 TACTTTTTATTATATA
1 TA-TTTTTATTAAATA
59230293 TATTTTTA
1 TATTTTTA
59230301 GACTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTTTATTAAATA
Found at i:59232383 original size:29 final size:28
Alignment explanation
Indices: 59232319--59232386 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
59232309 TAATTTAGAC
*
59232319 TTATTTAATTTTTTAATAATATAAAGAC
1 TTATTTAATTTTTTAATAATATAAAGAA
* *
59232347 TAAATTAATTTATTTAATAATA-ATAAGAA
1 TTATTTAATTT-TTTAATAATATA-AAGAA
59232376 TTATTTAATTT
1 TTATTTAATTT
59232387 GGTCCTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (28 bp):
TTATTTAATTTTTTAATAATATAAAGAA
Found at i:59234733 original size:234 final size:235
Alignment explanation
Indices: 59234321--59234795 Score: 889
Period size: 234 Copynumber: 2.0 Consensus size: 235
59234311 GATATCTTGG
59234321 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATGTAGAATCTTGAATGTATCA
1 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATGTAGAATCTTGAATGTATCA
59234386 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
66 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
* **
59234451 TAGGCATTAGATGAAGTTTTGGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
131 TAGGCATTAGATGAAATTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
*
59234516 TCCCTG-AAAAAAAAAACTAAAATAAACAATCCGGATAGT
196 TCCCTGAAAAAAAAAAACTAAAATAAACAATCCGGATAGC
*
59234555 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATGAAGATAATGTAGAATCTTGAATGTATCA
1 TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATGTAGAATCTTGAATGTATCA
59234620 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
66 TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
*
59234685 TAGGCATTAGATGAAATTTCAGAAAAGTCAACATTTCAGGTGTGGTCATTCTGGATCTAAATCTT
131 TAGGCATTAGATGAAATTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
59234750 TCCCTGAAAAAAAAAAACTAAAATAAACAATCCGGATAGC
196 TCCCTGAAAAAAAAAAACTAAAATAAACAATCCGGATAGC
59234790 TCATTT
1 TCATTT
59234796 AAATAAAGAA
Statistics
Matches: 234, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
234 196 0.84
235 38 0.16
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (235 bp):
TCATTTGTTCCTATTTTCTTTTTAATCAGAATTCATCAAGATAATGTAGAATCTTGAATGTATCA
TAAACATTTTTAGACATTTATTTCCATGCTTTGCTAGCATAGTTATTGACTAATTTTTAGAGGAT
TAGGCATTAGATGAAATTTCAGAAAAGTCAACATTTCAGGTATGGTCATTCTGGATCTAAATCTT
TCCCTGAAAAAAAAAAACTAAAATAAACAATCCGGATAGC
Done.