Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 167 of 173
Found at i:50060591 original size:17 final size:17
Alignment explanation
Indices: 50060569--50060603 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50060559 TTTAAGCATA
50060569 TTATTATTATTATTATC
1 TTATTATTATTATTATC
50060586 TTATTATTATTATTATC
1 TTATTATTATTATTATC
50060603 T
1 T
50060604 ACGTTAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATTATTATTATC
Found at i:50062444 original size:4 final size:4
Alignment explanation
Indices: 50062435--50062489 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
50062425 AAGTTAGGAA
50062435 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
50062483 ATGT ATG
1 ATGT ATG
50062490 CCCTACAGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:50064821 original size:3 final size:3
Alignment explanation
Indices: 50064806--50064870 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
50064796 AAGAGCAACT
*
50064806 ATA ATA ATG ATA ATA ATA ATA ATA ATA CA-A A-A ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
50064849 ATA GA-A AT- ATA ATA ATGA ATA A
1 ATA -ATA ATA ATA ATA AT-A ATA A
50064871 ATGAGTATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.15
3 40 0.75
4 5 0.09
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:50070527 original size:21 final size:21
Alignment explanation
Indices: 50070501--50070561 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
50070491 AGCTTTGCCG
50070501 ATTAGGCACTATATGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* ** *
50070522 ATTAGGCACCACGTGTGTTGT
1 ATTAGGCACTATATGTGTCGT
*
50070543 -TTCAGGCACTTTATGTGTC
1 ATT-AGGCACTATATGTGTC
50070562 ATATACTGCT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (21 bp):
ATTAGGCACTATATGTGTCGT
Found at i:50071671 original size:25 final size:25
Alignment explanation
Indices: 50071637--50071688 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
50071627 GATACTGTGG
50071637 ATTTATTCAGCTTGTGAATTATTAA
1 ATTTATTCAGCTTGTGAATTATTAA
50071662 ATTTATTCAGCTTGTGAATTATTAA
1 ATTTATTCAGCTTGTGAATTATTAA
50071687 AT
1 AT
50071689 ATAGCTTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (25 bp):
ATTTATTCAGCTTGTGAATTATTAA
Found at i:50073749 original size:20 final size:21
Alignment explanation
Indices: 50073712--50073761 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
50073702 TAATAATAAT
50073712 AATTATATTAAGAATTTTATTA
1 AATTATA-TAAGAATTTTATTA
50073734 AATTATATAA-AATTTTATTA
1 AATTATATAAGAATTTTATTA
50073754 AATTATAT
1 AATTATAT
50073762 TTAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 3 0.11
22 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:50073762 original size:10 final size:10
Alignment explanation
Indices: 50073712--50073762 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
50073702 TAATAATAAT
50073712 AATTATATTAA
1 AATTATATT-A
*
50073723 GAATTTTATTA
1 -AATTATATTA
*
50073734 AATTATATAA
1 AATTATATTA
*
50073744 AATTTTATTA
1 AATTATATTA
50073754 AATTATATT
1 AATTATATT
50073763 TAATAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 24 0.73
11 1 0.03
12 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATTATATTA
Found at i:50074062 original size:16 final size:16
Alignment explanation
Indices: 50074009--50074054 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
50073999 TGAATTACTG
* *
50074009 ATTACAGCTTTATTCA
1 ATTACAACTCTATTCA
50074025 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
50074041 ATTACAACTCTATT
1 ATTACAACTCTATT
50074055 TCATTACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:50078339 original size:90 final size:91
Alignment explanation
Indices: 50078245--50078427 Score: 262
Period size: 92 Copynumber: 2.0 Consensus size: 91
50078235 CTAATCATAA
* ** *
50078245 ATTACTAGCAAAATAACTATAAAATTAATTTTTT-TTAAAAATT-CATTACTAAAAAGTCACGAA
1 ATTACTAACAAAATAACTATAAAATT-ATTTTTTAAAAAAAATTACATTACTAAAAAGTCACAAA
*
50078308 ACACTAAACTAACCACTAACAATTTAT
65 ACACTAAACTAAACACTAACAATTTAT
*
50078335 ATTACTAACAAAATAACTATAAAATTATTTTTTAAAAAAAAATTACATTACTAAAAATTCACAAA
1 ATTACTAACAAAATAACTATAAAATTATTTTTT-AAAAAAAATTACATTACTAAAAAGTCACAAA
* *
50078400 ACCCTAAACTAAACACTTACAATTTAT
65 ACACTAAACTAAACACTAACAATTTAT
50078427 A
1 A
50078428 ACCTAATCCC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 7 0.09
90 25 0.30
91 7 0.09
92 43 0.52
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (91 bp):
ATTACTAACAAAATAACTATAAAATTATTTTTTAAAAAAAATTACATTACTAAAAAGTCACAAAA
CACTAAACTAAACACTAACAATTTAT
Found at i:50078427 original size:197 final size:204
Alignment explanation
Indices: 50078183--50078613 Score: 490
Period size: 197 Copynumber: 2.1 Consensus size: 204
50078173 TTATATAAAA
* *
50078183 ATTACATAAAAAATCACAAGACACTAAACTGAACACTAACAATTTATATAACCTAAT-CATAAAT
1 ATTAC-TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCCATAAAT
* * * * *
50078247 TACTAGCAAAATAACTATAA-AATTA-ATTTTTTTT-AA-AAATT-CATTACT-AAAAAGTCACG
63 TACTAACAAAATAA--ATAACAATAACATTTTTTTTAAAGAAATTACATTACTAAAAAAATAACA
* * * * * *
50078306 AAACACTAAA-CTAACCA-CTAA-C-AAT-TTATATTACTAACAAAATAACTATAAAATTATTTT
126 AAACACAAAACCTAACAATATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTT
50078366 TTAAAAAAAAATTAC
191 TT-AAAAAAAATTAC
* * *
50078381 ATTACTAAAAATTCACAAAACCCTAAACTAAACACTTACAATTTATAACCTAATCCCATAAATTA
1 ATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT-CCATAAATTA
*
50078446 CTAACAAAATAAATAACTATAACATTTTTTTTAAAAAGAAATTACATTACTAAAAAAATAACAAA
65 CTAACAAAATAAATAACAATAACATTTTTTTT--AAAGAAATTACATTACTAAAAAAATAACAAA
*
50078511 ACACAAAACGCTAACAATTTATAACCTAATCATAAACTACTAACAAATTAACTATAAAATTATTT
128 ACACAAAAC-CTAACAA--TATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTT
*
50078576 TTTAAAAAAAATTAT
190 TTTAAAAAAAATTAC
*
50078591 ATTACTAAAAACTCACAAAACAC
1 ATTACTAAAAAATCACAAAACAC
50078614 AACAATTTAT
Statistics
Matches: 194, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
195 15 0.08
196 5 0.03
197 60 0.31
198 5 0.03
200 2 0.01
201 5 0.03
202 7 0.04
203 17 0.09
205 6 0.03
208 3 0.02
209 1 0.01
210 35 0.18
211 33 0.17
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (204 bp):
ATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCCATAAATTAC
TAACAAAATAAATAACAATAACATTTTTTTTAAAGAAATTACATTACTAAAAAAATAACAAAACA
CAAAACCTAACAATATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAA
AAAAATTAC
Found at i:50078912 original size:8 final size:8
Alignment explanation
Indices: 50078899--50078924 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50078889 TACATTACCT
50078899 TTTTTTTC
1 TTTTTTTC
50078907 TTTTTTTC
1 TTTTTTTC
50078915 TTTTTTTC
1 TTTTTTTC
50078923 TT
1 TT
50078925 CTCCTTTCTC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:50078938 original size:22 final size:22
Alignment explanation
Indices: 50078913--50078955 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50078903 TTTCTTTTTT
50078913 TCTTTT-TTTCTTCTCCTTTCTC
1 TCTTTTCTTTC-TCTCCTTTCTC
*
50078935 TCTTTTCTTTCTCTCTTTTCT
1 TCTTTTCTTTCTCTCCTTTCT
50078956 TCCCTACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TCTTTTCTTTCTCTCCTTTCTC
Found at i:50078946 original size:13 final size:13
Alignment explanation
Indices: 50078897--50078956 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
50078887 AATACATTAC
*
50078897 CTTTTTTTTCT-T
1 CTTTTCTTTCTCT
* * *
50078909 TTTTTCTTTTTTT
1 CTTTTCTTTCTCT
*
50078922 CTTCTCCTTTCTCT
1 CTT-TTCTTTCTCT
50078936 CTTTTCTTTCTCT
1 CTTTTCTTTCTCT
50078949 CTTTTCTT
1 CTTTTCTT
50078957 CCCTACACAC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 8 0.21
13 20 0.53
14 10 0.26
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
CTTTTCTTTCTCT
Found at i:50082484 original size:24 final size:24
Alignment explanation
Indices: 50082457--50082508 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50082447 TTAGTAAGTC
*
50082457 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50082481 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50082505 AAAT
1 AAAT
50082509 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50084455 original size:24 final size:24
Alignment explanation
Indices: 50084428--50084479 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50084418 TTAGTAAGTC
*
50084428 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50084452 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50084476 AAAT
1 AAAT
50084480 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50094717 original size:40 final size:39
Alignment explanation
Indices: 50094666--50094795 Score: 217
Period size: 40 Copynumber: 3.3 Consensus size: 39
50094656 ATTTATTTTT
50094666 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
50094706 AAAATTTAAAAAAGTTTTTTAAAAATATTTTAAAATTAAA
1 AAAA-TTAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
50094746 AAAATTAAAAAAATATTTTAAAAATATTTTAAAATT-AA
1 AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
50094784 AAAATTAAAAAA
1 AAAATTAAAAAA
50094796 TAAATATATT
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
38 14 0.16
39 30 0.35
40 40 0.47
41 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:50094747 original size:39 final size:39
Alignment explanation
Indices: 50094666--50094795 Score: 208
Period size: 39 Copynumber: 3.3 Consensus size: 39
50094656 ATTTATTTTT
*
50094666 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATT-AA
*
50094706 AAAATTTAAAAAAGTTTTTTAAAAATATTTTAAAATTAA
1 AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
* *
50094745 AAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTAA
1 AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
50094784 AAAA-TTAAAAAA
1 AAAATTTAAAAAA
50094796 TAAATATATT
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
38 8 0.09
39 42 0.49
40 35 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:50094780 original size:10 final size:11
Alignment explanation
Indices: 50094674--50094779 Score: 70
Period size: 11 Copynumber: 10.4 Consensus size: 11
50094664 TTAAAATTAA
50094674 AAAAAGTATTTT
1 AAAAA-TATTTT
50094686 AAAAATATTTT
1 AAAAATATTTT
50094697 --AAA-A--TT
1 AAAAATATTTT
* *
50094703 AAAAAAATTTA
1 AAAAATATTTT
*
50094714 AAAAAGTTTTTT
1 AAAAA-TATTTT
50094726 AAAAATATTTT
1 AAAAATATTTT
50094737 --AAA-A--TT
1 AAAAATATTTT
* **
50094743 AAAAAAATTAA
1 AAAAATATTTT
50094754 AAAAATATTTT
1 AAAAATATTTT
50094765 AAAAATATTTT
1 AAAAATATTTT
50094776 AAAA
1 AAAA
50094780 TTAAAAAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
6 4 0.05
8 8 0.11
9 8 0.11
11 40 0.55
12 13 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:50100496 original size:18 final size:17
Alignment explanation
Indices: 50100468--50100505 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
50100458 TAACAATAAT
50100468 ATAAAAATATTAAAAAA
1 ATAAAAATATTAAAAAA
*
50100485 ATAAACAATATTATAAAA
1 ATAAA-AATATTAAAAAA
50100503 ATA
1 ATA
50100506 TTGAAAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATTAAAAAA
Found at i:50100540 original size:29 final size:28
Alignment explanation
Indices: 50100459--50100541 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
50100449 CAGGAGCAAT
*
50100459 AACAATAATATAAAAATATTAAAAAAATA
1 AACAATAATATAAAAATA-TAGAAAAATA
* * *
50100488 AACAATATTATAAAAATATTGAAAAGTGCA
1 AACAATAATATAAAAATATAGAAAAAT--A
50100518 AACAATAATA-AAAAATATAGAAAA
1 AACAATAATATAAAAATATAGAAAA
50100542 TTTAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.13
29 30 0.65
30 10 0.22
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (28 bp):
AACAATAATATAAAAATATAGAAAAATA
Found at i:50111736 original size:16 final size:16
Alignment explanation
Indices: 50111684--50111738 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
50111674 TAAAGATCCG
50111684 ATTCAAAGTCATTTTAA
1 ATTC-AAGTCATTTTAA
*
50111701 ATTCAAGT--TGTTT-G
1 ATTCAAGTCAT-TTTAA
50111715 ATTCAAGTCATTTTAA
1 ATTCAAGTCATTTTAA
50111731 ATTCAAGT
1 ATTCAAGT
50111739 TGTTTTGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.28
15 6 0.19
16 13 0.41
17 4 0.12
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (16 bp):
ATTCAAGTCATTTTAA
Found at i:50111744 original size:16 final size:16
Alignment explanation
Indices: 50111695--50111744 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
50111685 TTCAAAGTCA
50111695 TTTTAAATTCAAGTTG
1 TTTTAAATTCAAGTTG
* **
50111711 -TTT-GATTCAAGTCA
1 TTTTAAATTCAAGTTG
50111725 TTTTAAATTCAAGTTG
1 TTTTAAATTCAAGTTG
50111741 TTTT
1 TTTT
50111745 GAGTAAGACG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 8 0.31
15 6 0.23
16 12 0.46
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTTAAATTCAAGTTG
Found at i:50111746 original size:31 final size:31
Alignment explanation
Indices: 50111683--50111743 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
50111673 ATAAAGATCC
50111683 GATTCAAAGTCATTTTAAATTCAAGTTGTTT
1 GATTCAAAGTCATTTTAAATTCAAGTTGTTT
50111714 GATTC-AAGTCATTTTAAATTCAAGTTGTTT
1 GATTCAAAGTCATTTTAAATTCAAGTTGTTT
50111744 TGAGTAAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (31 bp):
GATTCAAAGTCATTTTAAATTCAAGTTGTTT
Found at i:50116657 original size:23 final size:24
Alignment explanation
Indices: 50116615--50116660 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
50116605 TCACGAACAA
50116615 ACTCATTTATTAGCTCGTTTATTG
1 ACTCATTTATTAGCTCGTTTATTG
*
50116639 ACTCATTTA-TGGCTCGTTTATT
1 ACTCATTTATTAGCTCGTTTATT
50116661 TATTAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (24 bp):
ACTCATTTATTAGCTCGTTTATTG
Found at i:50118379 original size:16 final size:18
Alignment explanation
Indices: 50118344--50118380 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50118334 TGCAATATGA
50118344 TTTTTACAATATTATTTC
1 TTTTTACAATATTATTTC
*
50118362 TTTTTATAAT-TT-TTTC
1 TTTTTACAATATTATTTC
50118378 TTT
1 TTT
50118381 AAATATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTACAATATTATTTC
Found at i:50128778 original size:21 final size:22
Alignment explanation
Indices: 50128752--50128794 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
50128742 GCTCAAAATT
*
50128752 CACCTGCTGCGGAGTAC-ACTC
1 CACCTGCTGCGAAGTACTACTC
50128773 CACCTGCTGCGAAGTACTACTC
1 CACCTGCTGCGAAGTACTACTC
50128795 ACTCCTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (22 bp):
CACCTGCTGCGAAGTACTACTC
Found at i:50143267 original size:14 final size:15
Alignment explanation
Indices: 50143245--50143321 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
50143235 CAATCAAACA
50143245 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
50143259 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
50143274 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
50143294 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
50143308 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
50143322 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:50143286 original size:20 final size:20
Alignment explanation
Indices: 50143261--50143300 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50143251 AATATTTTCC
*
50143261 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
50143281 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
50143301 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:50143306 original size:34 final size:35
Alignment explanation
Indices: 50143249--50143315 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
50143239 CAAACACCAG
*
50143249 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
50143284 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
50143316 TATTTTACTG
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:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:50147200 original size:9 final size:9
Alignment explanation
Indices: 50147186--50147210 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50147176 TTTTTTATTT
50147186 AAATTTTTA
1 AAATTTTTA
50147195 AAATTTTTA
1 AAATTTTTA
50147204 AAATTTT
1 AAATTTT
50147211 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:50154476 original size:20 final size:20
Alignment explanation
Indices: 50154433--50154475 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
50154423 CATGTATAAA
50154433 TTTTAGTTTTTTTATTTCAT
1 TTTTAGTTTTTTTATTTCAT
*
50154453 TTTTA-TTTTTTTATTTTAT
1 TTTTAGTTTTTTTATTTCAT
50154472 TTTT
1 TTTT
50154476 TCTTATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTAGTTTTTTTATTTCAT
Found at i:50154874 original size:24 final size:22
Alignment explanation
Indices: 50154831--50154875 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
50154821 AAACCCCAAA
*
50154831 CCCTAAATCCCTAACCCCTAAC
1 CCCTAAATCCCTAACACCTAAC
50154853 CCCTAAATCCCCCTAACACCTAA
1 CCCTAAAT--CCCTAACACCTAA
50154876 AGCATAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (22 bp):
CCCTAAATCCCTAACACCTAAC
Found at i:50155682 original size:41 final size:41
Alignment explanation
Indices: 50155625--50155784 Score: 230
Period size: 41 Copynumber: 3.9 Consensus size: 41
50155615 TTTTATTATT
*
50155625 ATTAGCGGTGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
50155666 ATTAGCGGCGCAATTTCAAAAAAGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
50155707 ATTAGCGGCGCTATCTCAAAAACGCTGCTAAAGGACCGAGC
1 ATTAGCGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
* * * *
50155748 ATTAGTGGCACTACTCCAAAAACGCCGCTAAAGGCCC
1 ATTAGCGGCGCTATTTCAAAAACGCCGCTAAAGGCCC
50155785 CAAAAACTCA
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:50155946 original size:40 final size:40
Alignment explanation
Indices: 50155860--50155947 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
50155850 ATTTTTGGCG
*
50155860 GCGTTTTTCGAAAAGCGCCGCTAATGCTCGATCTTTAGCT
1 GCGTTTTTAGAAAAGCGCCGCTAATGCTCGATCTTTAGCT
* * * *
50155900 GTGTTTTTATAAAAGCGCCGCTAATGCTTGATTTTTAG-T
1 GCGTTTTTAGAAAAGCGCCGCTAATGCTCGATCTTTAGCT
50155939 AGCGTTTTT
1 -GCGTTTTT
50155948 TATCCAAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
GCGTTTTTAGAAAAGCGCCGCTAATGCTCGATCTTTAGCT
Found at i:50160261 original size:19 final size:19
Alignment explanation
Indices: 50160218--50160265 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
50160208 TTAGGTTATA
*
50160218 ATCACTTCAA-TT-TTTGG
1 ATCATTTCAAGTTGTTTGG
50160235 -TC-TTTCAAGTTGTTTGG
1 ATCATTTCAAGTTGTTTGG
50160252 ATCATTTCAAGTTG
1 ATCATTTCAAGTTG
50160266 GAGCGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 4 0.15
17 5 0.19
18 2 0.08
19 10 0.38
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (19 bp):
ATCATTTCAAGTTGTTTGG
Found at i:50174124 original size:20 final size:20
Alignment explanation
Indices: 50174099--50174148 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
50174089 TGGCTTAAAA
50174099 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
50174119 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
50174136 GTGGTAGTGGATT
1 TTGGTAGTGGATT
50174149 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:50178762 original size:20 final size:20
Alignment explanation
Indices: 50178737--50178786 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
50178727 TGGCTTAAAA
50178737 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
50178757 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
50178774 GTGGTAGTGGATT
1 TTGGTAGTGGATT
50178787 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:50180898 original size:126 final size:126
Alignment explanation
Indices: 50180673--50180910 Score: 449
Period size: 126 Copynumber: 1.9 Consensus size: 126
50180663 GAGAATTGGG
* *
50180673 TTTTTTTTTTCTCAGCAACCAAACGAGCTAAGAAATCTGAAAGGAAAGTGAAAAAGATATAACCT
1 TTTTTTTTTTCTCAGCAACCAAACAAGCTAAGAAATCTGAAAAGAAAGTGAAAAAGATATAACCT
*
50180738 TGAATTGGAACTAGTGTTTGGCTTTTGAGTCAAAGCAGTCAAATGAATTGGTTCTTCTTTT
66 TGAATTGAAACTAGTGTTTGGCTTTTGAGTCAAAGCAGTCAAATGAATTGGTTCTTCTTTT
50180799 TTTTTTTTTTCTCAGCAACCAAACAAGCTAAGAAATCTGAAAAGAAAGTGAAAAAGATATAACCT
1 TTTTTTTTTTCTCAGCAACCAAACAAGCTAAGAAATCTGAAAAGAAAGTGAAAAAGATATAACCT
50180864 TGAATTGAAACTAGTGTTTGGCTTTTGAGTCAAAGCAGTCAAATGAA
66 TGAATTGAAACTAGTGTTTGGCTTTTGAGTCAAAGCAGTCAAATGAA
50180911 ATTACTCAAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (126 bp):
TTTTTTTTTTCTCAGCAACCAAACAAGCTAAGAAATCTGAAAAGAAAGTGAAAAAGATATAACCT
TGAATTGAAACTAGTGTTTGGCTTTTGAGTCAAAGCAGTCAAATGAATTGGTTCTTCTTTT
Found at i:50183236 original size:174 final size:175
Alignment explanation
Indices: 50182937--50183284 Score: 463
Period size: 174 Copynumber: 2.0 Consensus size: 175
50182927 GTTCCTAAGT
* *
50182937 TGTTTTTTACAATTTTGATCCTATTTCATGTTCAATGAAAACGACCAAAAGTTTGTTTTAATGTG
1 TGTTTTTTACAATTTCGATCCTATTTCATGTTCAATGAAAACGACCAAAAG-TTGTTTGAATGTG
*
50183002 GTTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTGTGGTTGTTTTA
65 GTTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTTTTA
* *
50183067 TAATATTATGTTGATTGCTAGTTGAGGTCTTTTGGTGGCAATAGTA
130 TAATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAATAGTA
* * *
50183113 TGTTTTTTAGC-ATTTCGATCCTATTTTCATGTTGAATGAAAACGACCAGAAG-TG-TTGGATGT
1 TGTTTTTTA-CAATTTCGATCCTA-TTTCATGTTCAATGAAAACGACCAAAAGTTGTTTGAATGT
* * * * *
50183175 -GTTTTTCGAGTTATATGCACAT-ATCAAATCTTTTTGGCTCAAGCTGTGTCATTTCTGGTTGTT
64 GGTTTTT-GAGTTATAAGCA-ATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTT
* * * *
50183238 TTGTAATATTATGTTGGTTGTTTGTTGAGATCTTTTGGTGCCAATAG
127 TTATAATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAATAG
50183285 CCTGGTAGCA
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
173 6 0.04
174 94 0.62
175 4 0.03
176 20 0.13
177 27 0.18
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (175 bp):
TGTTTTTTACAATTTCGATCCTATTTCATGTTCAATGAAAACGACCAAAAGTTGTTTGAATGTGG
TTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTTTTAT
AATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAATAGTA
Found at i:50189931 original size:174 final size:175
Alignment explanation
Indices: 50189632--50189977 Score: 457
Period size: 174 Copynumber: 2.0 Consensus size: 175
50189622 GTTCCTAAGT
* *
50189632 TGTTTTTTACAATTTTGATCCTATTTCATGTTCAATGAAAACGACCAAAAGTTTGTTTTAATGTG
1 TGTTTTTTACAATTTCGATCCTATTTCATGTTCAATGAAAACGACCAAAAG-TTGTTTGAATGTG
*
50189697 GTTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTGTGGTTGTTTTA
65 GTTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTTTTA
* *
50189762 TAATATTATGTTGATTGCTAGTTGAGGTCTTTTGGTGGCAATGGTA
130 TAATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAATGGTA
* * *
50189808 TGTTTTTTAGC-ATTTCGATCCTATTTTCATGTTGAATGAAAACGACCAGAAG-TG-TTGGATGT
1 TGTTTTTTA-CAATTTCGATCCTA-TTTCATGTTCAATGAAAACGACCAAAAGTTGTTTGAATGT
* ** * * * *
50189870 -GTTTTTCGAGTTATATGCCCTTATCAAATCTTTTTGGCTCAAGCTGTGTAATTTCTGGTTGTTT
64 GGTTTTT-GAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTTT
* * * *
50189934 TGTAATATTATGTTGGTTGTTTGTTGAGATCTTTTGGTGCCAAT
128 TATAATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAAT
50189978 AGCCTGGTAG
Statistics
Matches: 148, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
173 6 0.04
174 93 0.63
175 2 0.01
176 20 0.14
177 27 0.18
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.45
Consensus pattern (175 bp):
TGTTTTTTACAATTTCGATCCTATTTCATGTTCAATGAAAACGACCAAAAGTTGTTTGAATGTGG
TTTTTGAGTTATAAGCAATCACCAAAGCTTTTTGGCTCAAGCTGTGTAACTTCTGGTTGTTTTAT
AATATTATGTTGATTGCTAGTTGAGATCTTTTGGTGCCAATGGTA
Found at i:50194398 original size:32 final size:32
Alignment explanation
Indices: 50194343--50194441 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
50194333 TAACTATTGG
*
50194343 TAATTAAAATCAATGCT-TAATTAAGCCTTGATT
1 TAATT-AAATCAATGCTAT-ATTAAGGCTTGATT
* *
50194376 TAATTAAATGAATGCTATATTAAGGTTTGATT
1 TAATTAAATCAATGCTATATTAAGGCTTGATT
* *
50194408 TAATTAAATCAATGCCATATGAAGGCTTGATT
1 TAATTAAATCAATGCTATATTAAGGCTTGATT
50194440 TA
1 TA
50194442 GGCCGGTCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
32 52 0.90
33 6 0.10
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.39
Consensus pattern (32 bp):
TAATTAAATCAATGCTATATTAAGGCTTGATT
Found at i:50198833 original size:5 final size:5
Alignment explanation
Indices: 50198823--50198881 Score: 118
Period size: 5 Copynumber: 11.8 Consensus size: 5
50198813 AACCTAAATA
50198823 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
50198873 TATAT TATA
1 TATAT TATA
50198882 AGCATAAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:50210565 original size:4 final size:4
Alignment explanation
Indices: 50210556--50210591 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
50210546 AAATCTGCCA
*
50210556 TATG TATG TATG TATG TATG TATG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
50210592 CAAAGCTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:50213906 original size:19 final size:18
Alignment explanation
Indices: 50213876--50213915 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
50213866 TTGTTTTATT
*
50213876 TTTATATATATTATGTAA
1 TTTATATATATTATATAA
50213894 TTTATAGTATATTATATAA
1 TTTATA-TATATTATATAA
50213913 TTT
1 TTT
50213916 TAAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTATATATATTATATAA
Found at i:50213923 original size:19 final size:19
Alignment explanation
Indices: 50213875--50213933 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
50213865 TTTGTTTTAT
* *
50213875 TTTTATATATATTATGTAA
1 TTTTAAATATATTATATAA
*
50213894 -TTTATAGTATATTATATAA
1 TTTTA-AATATATTATATAA
*
50213913 TTTTAAATATAATAATATAA
1 TTTTAAATAT-ATTATATAA
50213933 T
1 T
50213934 ACTATGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 15 0.47
20 13 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTAAATATATTATATAA
Found at i:50214014 original size:21 final size:21
Alignment explanation
Indices: 50213989--50214033 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50213979 AAAATCATCT
*
50213989 AAAATATTAAATATTAAATTA
1 AAAATAATAAATATTAAATTA
* * *
50214010 AAAATAATATATATTTACTTA
1 AAAATAATAAATATTAAATTA
50214031 AAA
1 AAA
50214034 CGAGCTTAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATAAATATTAAATTA
Found at i:50220474 original size:21 final size:22
Alignment explanation
Indices: 50220431--50220477 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
50220421 AAAGTTATAA
50220431 AAAATAATTTTATATTAAATTT
1 AAAATAATTTTATATTAAATTT
50220453 AAAAT-ATTTT-TATTAAATTT
1 AAAATAATTTTATATTAAATTT
*
50220473 TAAAT
1 AAAAT
50220478 TGGGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 5 0.21
22 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATAATTTTATATTAAATTT
Found at i:50222633 original size:4 final size:4
Alignment explanation
Indices: 50222626--50222653 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
50222616 TTTTTTTCCC
50222626 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
50222654 AAGTCTTAAT
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:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:50223870 original size:3 final size:3
Alignment explanation
Indices: 50223851--50223884 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
50223841 TATAATTTGG
* *
50223851 TCT TTT TCT TTT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
50223885 TTTTTTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:50226613 original size:16 final size:16
Alignment explanation
Indices: 50226589--50226619 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50226579 CAAATAACCT
*
50226589 AATCTAAAACAAATTG
1 AATCCAAAACAAATTG
50226605 AATCCAAAACAAATT
1 AATCCAAAACAAATT
50226620 CAAAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.23
Consensus pattern (16 bp):
AATCCAAAACAAATTG
Found at i:50228223 original size:16 final size:16
Alignment explanation
Indices: 50228204--50228241 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50228194 TTTTATATGT
50228204 TATAAATTCTATAAT-A
1 TATAAATTCTA-AATAA
*
50228220 TATAAATTTTAAATAA
1 TATAAATTCTAAATAA
50228236 TATAAA
1 TATAAA
50228242 ACATTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAATTCTAAATAA
Found at i:50228230 original size:32 final size:32
Alignment explanation
Indices: 50228168--50228230 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
50228158 GATTATAGTA
* *
50228168 ATGTTATATATTACTATAGATTTAATTTTTAT
1 ATGTTATAAATTACTATAGATTTAAATTTTAT
50228200 ATGTTATAAATT-CTATA-ATATATAAATTTTA
1 ATGTTATAAATTACTATAGAT-T-TAAATTTTA
50228231 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.07
31 6 0.22
32 19 0.70
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (32 bp):
ATGTTATAAATTACTATAGATTTAAATTTTAT
Found at i:50230881 original size:31 final size:29
Alignment explanation
Indices: 50230807--50230886 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
50230797 GAATCAAATC
*
50230807 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATC-AAATTTCATATATAAAATTACACA
* * *
50230837 AAATCAAAATTCATATATAACATTATACA
1 AAATCAAATTTCATATATAAAATTACACA
*
50230866 TTGAATCAAATTTCATATATA
1 --AAATCAAATTTCATATATA
50230887 GTTTTAATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.48
30 5 0.12
31 17 0.40
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATCAAATTTCATATATAAAATTACACA
Found at i:50231761 original size:32 final size:31
Alignment explanation
Indices: 50231725--50231796 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
50231715 AAATTAAAGT
* *
50231725 ATGATAAAATTGTAT-TTTGTCTCCTTTCAAAA
1 ATGATAAAATT-TATGTTTAT-TCCCTTCAAAA
50231757 ATGATAAAA-TTATGTTTATTCCCTTCAAAA
1 ATGATAAAATTTATGTTTATTCCCTTCAAAA
*
50231787 ATGATGAAAT
1 ATGATAAAAT
50231797 GATAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 21 0.60
31 5 0.14
32 9 0.26
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (31 bp):
ATGATAAAATTTATGTTTATTCCCTTCAAAA
Found at i:50232038 original size:23 final size:21
Alignment explanation
Indices: 50231990--50232045 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
50231980 AAATATCTAT
50231990 CTATATATAATATGTTTTGGC
1 CTATATATAATATGTTTTGGC
50232011 CTATATATAATATGTTTTGGC
1 CTATATATAATATGTTTTGGC
50232032 CTATATATATATAT
1 CTATATATA-ATAT
50232046 ATAATATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (21 bp):
CTATATATAATATGTTTTGGC
Found at i:50236430 original size:16 final size:16
Alignment explanation
Indices: 50236393--50236431 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
50236383 GAAGCAATAG
50236393 ATATTT-TCGTCAAAT
1 ATATTTATCGTCAAAT
*
50236408 ATAATTTATCTTCAAAT
1 AT-ATTTATCGTCAAAT
50236425 ATATTTA
1 ATATTTA
50236432 AATTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 9 0.43
17 10 0.48
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (16 bp):
ATATTTATCGTCAAAT
Found at i:50267028 original size:3 final size:3
Alignment explanation
Indices: 50267022--50267068 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
50267012 TTTAGCCACT
*
50267022 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
50267067 TT
1 TT
50267069 TGTTTATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:50267627 original size:15 final size:15
Alignment explanation
Indices: 50267603--50267632 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50267593 TACACCCATA
*
50267603 TATATGTACATATTT
1 TATATATACATATTT
50267618 TATATATACATATTT
1 TATATATACATATTT
50267633 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATATACATATTT
Found at i:50399142 original size:19 final size:19
Alignment explanation
Indices: 50399118--50399164 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
50399108 TCTCTTTCTT
*
50399118 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
50399137 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
50399156 TGTGCATTA
1 TTTGCATTA
50399165 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:50400276 original size:6 final size:6
Alignment explanation
Indices: 50400265--50400303 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
50400255 AAACTTAACC
50400265 AAATAA AAATAAAA AAATAA AAATAA AAAT-A AAATAA AA
1 AAATAA AAAT--AA AAATAA AAATAA AAATAA AAATAA AA
50400304 CCAATACTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
8 6 0.20
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:50400282 original size:14 final size:14
Alignment explanation
Indices: 50400265--50400293 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50400255 AAACTTAACC
50400265 AAATAAAAATAAAA
1 AAATAAAAATAAAA
50400279 AAATAAAAATAAAA
1 AAATAAAAATAAAA
50400293 A
1 A
50400294 TAAAATAAAA
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAAAATAAAA
Found at i:50400309 original size:20 final size:19
Alignment explanation
Indices: 50400261--50400309 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
50400251 AAAAAAACTT
50400261 AACCAAATAAAAATAAAAAA
1 AACC-AATAAAAATAAAAAA
**
50400281 ATAAAAATAAAAATAAAATAA
1 A-ACCAATAAAAATAAAA-AA
50400302 AACCAATA
1 AACCAATA
50400310 CTCGTAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (19 bp):
AACCAATAAAAATAAAAAA
Found at i:50401822 original size:33 final size:33
Alignment explanation
Indices: 50401783--50401859 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
50401773 ACAAACATAC
50401783 AAAGTAATACTTAAATAATGCATGATATACAAA
1 AAAGTAATACTTAAATAATGCATGATATACAAA
*
50401816 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATACTTAAATAATGCATGATATACAAA
50401849 AAGAGTAATAC
1 AA-AGTAATAC
50401860 AATATCAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 34 0.83
34 7 0.17
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (33 bp):
AAAGTAATACTTAAATAATGCATGATATACAAA
Found at i:50402200 original size:19 final size:19
Alignment explanation
Indices: 50402141--50402200 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
50402131 AAAAGAATTT
* *
50402141 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
50402160 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
50402176 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
50402196 ATAAA
1 ATAAA
50402201 TAAATAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 10 0.32
19 7 0.23
20 7 0.23
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:50402461 original size:50 final size:54
Alignment explanation
Indices: 50402334--50402463 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 54
50402324 TACATAACAT
*
50402334 ATATAAAAAAATGATAAGTA-ATATAGAATAAAAAAAAATATAATAAATGTTATATA
1 ATATAAAATAATGA-AAGTATATATAGAATAAAAAAAAATATAAT-AATG-TATATA
* * *
50402390 ATA-AAATATAATTTAAA-TATATATAGAA-AATAAGAAATATAAT-A-G-ATATA
1 ATATAAA-ATAA-TGAAAGTATATATAGAATAAAAAAAAATATAATAATGTATATA
50402440 ATATAAAATAATGAAAGTATATAT
1 ATATAAAATAATGAAAGTATATAT
50402464 GTAAAAACAA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
49 4 0.06
50 19 0.30
51 3 0.05
52 1 0.02
53 1 0.02
55 18 0.28
56 16 0.25
57 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (54 bp):
ATATAAAATAATGAAAGTATATATAGAATAAAAAAAAATATAATAATGTATATA
Found at i:50402497 original size:19 final size:18
Alignment explanation
Indices: 50402475--50402534 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
50402465 TAAAAACAAT
50402475 ATATATAAATAATTAATAA
1 ATATATAAATAATTAA-AA
* *
50402494 ATATATAATACAAGTAAAA
1 ATATATAA-ATAATTAAAA
*
50402513 ATATAAAAATAATATAAAA
1 ATATATAAATAAT-TAAAA
50402532 ATA
1 ATA
50402535 ATGATGTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.09
19 25 0.74
20 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATATAAATAATTAAAA
Found at i:50402528 original size:11 final size:11
Alignment explanation
Indices: 50402512--50402550 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
50402502 TACAAGTAAA
50402512 AATATAAAAAT
1 AATATAAAAAT
50402523 AATATAAAAAT
1 AATATAAAAAT
*
50402534 AATGATGTAAAAT
1 AAT-AT-AAAAAT
50402547 AATA
1 AATA
50402551 ATAATTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 14 0.56
12 3 0.12
13 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:50409719 original size:14 final size:13
Alignment explanation
Indices: 50409699--50409730 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
50409689 TGTCATAGAT
50409699 TTTAACTGGAAAC
1 TTTAACTGGAAAC
50409712 TGTTAACTGGAAAC
1 T-TTAACTGGAAAC
50409726 TTTAA
1 TTTAA
50409731 ACAGATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (13 bp):
TTTAACTGGAAAC
Found at i:50412401 original size:20 final size:19
Alignment explanation
Indices: 50412376--50412413 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
50412366 TAAAAAAATA
50412376 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATA-TTTTTT
50412396 TATTTTTAAAATATTTTT
1 TATTTTTAAAATATTTTT
50412414 AAAATACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTTAAAATATTTTTT
Found at i:50412410 original size:11 final size:11
Alignment explanation
Indices: 50412375--50412445 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
50412365 TTAAAAAAAT
50412375 ATATTTTTAAA
1 ATATTTTTAAA
50412386 ATACTTTTT---
1 ATA-TTTTTAAA
*
50412395 TTATTTTTAAA
1 ATATTTTTAAA
50412406 ATATTTTTAAA
1 ATATTTTTAAA
50412417 ATACTTTTTAAA
1 ATA-TTTTTAAA
*
50412429 AT-TTTCTAAA
1 ATATTTTTAAA
50412439 AT-TTTTT
1 ATATTTTT
50412446 TTGGTGTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 5 0.10
9 2 0.04
10 13 0.25
11 16 0.31
12 15 0.29
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:50412440 original size:10 final size:10
Alignment explanation
Indices: 50412398--50412445 Score: 60
Period size: 10 Copynumber: 4.5 Consensus size: 10
50412388 ACTTTTTTTA
50412398 TTTTTAAAAT
1 TTTTTAAAAT
50412408 ATTTTTAAAAT
1 -TTTTTAAAAT
50412419 ACTTTTTAAAAT
1 --TTTTTAAAAT
*
50412431 TTTCTAAAAT
1 TTTTTAAAAT
50412441 TTTTT
1 TTTTT
50412446 TTGGTGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.39
11 10 0.30
12 10 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:50412443 original size:31 final size:31
Alignment explanation
Indices: 50412375--50412446 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
50412365 TTAAAAAAAT
**
50412375 ATATTTTTAAAATACTTTTTTTATTTTTAAA
1 ATATTTTTAAAATACTTTTTAAATTTTTAAA
50412406 ATATTTTTAAAATACTTTTTAAAATTTTCTAAA
1 ATATTTTTAAAATACTTTTT-AAATTTT-TAAA
*
50412439 ATTTTTTT
1 ATATTTTT
50412447 TGGTGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 20 0.56
32 5 0.14
33 11 0.31
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (31 bp):
ATATTTTTAAAATACTTTTTAAATTTTTAAA
Found at i:50412447 original size:22 final size:23
Alignment explanation
Indices: 50412398--50412440 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50412388 ACTTTTTTTA
*
50412398 TTTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATATTTCTAAAATAC
50412421 TTTTTAAAAT-TTTCTAAAAT
1 TTTTTAAAATATTTCTAAAAT
50412441 TTTTTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTAAAATATTTCTAAAATAC
Found at i:50415214 original size:31 final size:31
Alignment explanation
Indices: 50415176--50415300 Score: 121
Period size: 31 Copynumber: 4.1 Consensus size: 31
50415166 CTTTGCCAAG
*
50415176 TGTGTATTTTCAGAACAGGAAAACACCGAAA
1 TGTGTATTTTCAGAACAGGACAACACCGAAA
** ** *
50415207 TGTGTATTTAGAGAA-A-GACAACATTGAAG
1 TGTGTATTTTCAGAACAGGACAACACCGAAA
*
50415236 TGGTGTATTTTCAGAACAGGACAATACCGAAA
1 T-GTGTATTTTCAGAACAGGACAACACCGAAA
** *
50415268 TGCATATTTTCAAAAC-GAGACAACACCGAAA
1 TGTGTATTTTCAGAACAG-GACAACACCGAAA
50415299 TG
1 TG
50415301 CGTAGGACAA
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
29 10 0.14
30 14 0.19
31 40 0.54
32 10 0.14
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (31 bp):
TGTGTATTTTCAGAACAGGACAACACCGAAA
Found at i:50415364 original size:29 final size:29
Alignment explanation
Indices: 50415327--50415431 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
50415317 AGTGTGTATT
* * *
50415327 TTCATAACAAGACAGCACTGAAGTGCATA
1 TTCAGAACAAGACAACACTAAAGTGCATA
* *
50415356 TTCAGAACAAGACAACA-TCAAAGTGTGTATT
1 TTCAGAACAAGACAACACT-AAA--GTGCATA
* *
50415387 TTCAGAACAGGACAACACCAAAGTGCATA
1 TTCAGAACAAGACAACACTAAAGTGCATA
*
50415416 TTCAGAACAAGGCAAC
1 TTCAGAACAAGACAAC
50415432 GCTGAAATGC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 36 0.59
31 24 0.39
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (29 bp):
TTCAGAACAAGACAACACTAAAGTGCATA
Found at i:50415411 original size:60 final size:60
Alignment explanation
Indices: 50415306--50415460 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 60
50415296 AAATGCGTAG
* * * * * **
50415306 GACAACACCGAAGTGTGTATTTTCATAACAAGACAGCACTGAAGTGCATATTCAGAACAA
1 GACAACATCAAAGTGTGTATTTTCAGAACAGGACAACACCAAAGTGCATATTCAGAACAA
50415366 GACAACATCAAAGTGTGTATTTTCAGAACAGGACAACACCAAAGTGCATATTCAGAACAA
1 GACAACATCAAAGTGTGTATTTTCAGAACAGGACAACACCAAAGTGCATATTCAGAACAA
* * * *
50415426 GGCAACGCTGAAA-TGCGTATTTTCAGAACAGGACA
1 GACAAC-ATCAAAGTGTGTATTTTCAGAACAGGACA
50415461 GATTAAAGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
60 79 0.95
61 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (60 bp):
GACAACATCAAAGTGTGTATTTTCAGAACAGGACAACACCAAAGTGCATATTCAGAACAA
Found at i:50415632 original size:31 final size:31
Alignment explanation
Indices: 50415572--50415634 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
50415562 TTAGAACAAG
* ** *
50415572 ACAACATCAAAGTGCATATTTTCAGAATAAA
1 ACAACAACAAAGTGCATATTTAAAAAATAAA
*
50415603 ACAACAACGAAGTGCATATTTAAAAAATAAA
1 ACAACAACAAAGTGCATATTTAAAAAATAAA
50415634 A
1 A
50415635 ACACTGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (31 bp):
ACAACAACAAAGTGCATATTTAAAAAATAAA
Found at i:50417469 original size:23 final size:23
Alignment explanation
Indices: 50417443--50417488 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50417433 TCGCTCTCGT
50417443 TGTCAGTCATTGTCTCTTAACCC
1 TGTCAGTCATTGTCTCTTAACCC
50417466 TGTCAGTCATTGTCTCTTAACCC
1 TGTCAGTCATTGTCTCTTAACCC
50417489 ATGCTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (23 bp):
TGTCAGTCATTGTCTCTTAACCC
Found at i:50419522 original size:25 final size:25
Alignment explanation
Indices: 50419488--50419537 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
50419478 CAATAATCAA
50419488 AGAAAATGTGAAGTTAATGATGGAT
1 AGAAAATGTGAAGTTAATGATGGAT
*
50419513 AGAAAATGTGAAGTTAATGCTGGAT
1 AGAAAATGTGAAGTTAATGATGGAT
50419538 GTTGGGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.28, T:0.28
Consensus pattern (25 bp):
AGAAAATGTGAAGTTAATGATGGAT
Found at i:50421304 original size:11 final size:11
Alignment explanation
Indices: 50421285--50421317 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
50421275 AAATATTAAT
*
50421285 AATTTTAAAAA
1 AATTCTAAAAA
50421296 AATTCT-AAAA
1 AATTCTAAAAA
50421306 AATTCTAAAAA
1 AATTCTAAAAA
50421317 A
1 A
50421318 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (11 bp):
AATTCTAAAAA
Found at i:50421307 original size:10 final size:10
Alignment explanation
Indices: 50421292--50421319 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50421282 AATAATTTTA
50421292 AAAAAATTCT
1 AAAAAATTCT
50421302 AAAAAATTCT
1 AAAAAATTCT
50421312 AAAAAATT
1 AAAAAATT
50421320 AAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:50421343 original size:9 final size:9
Alignment explanation
Indices: 50421289--50421346 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
50421279 ATTAATAATT
50421289 TTAAAAAAA
1 TTAAAAAAA
*
50421298 TTCTAAAAAA
1 TT-AAAAAAA
*
50421308 TTCTAAAAAA
1 TT-AAAAAAA
*
50421318 TTAAAAATA
1 TTAAAAAAA
50421327 -TAAAAAAA
1 TTAAAAAAA
50421335 TTAAAAAAA
1 TTAAAAAAA
50421344 TTA
1 TTA
50421347 TTGACATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.16
9 18 0.42
10 18 0.42
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:50421680 original size:6 final size:7
Alignment explanation
Indices: 50421652--50421679 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50421642 TTAATATTAA
50421652 TATTTTT
1 TATTTTT
50421659 TATTTTT
1 TATTTTT
50421666 TATTTTT
1 TATTTTT
50421673 TATTTTT
1 TATTTTT
50421680 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:50423964 original size:12 final size:13
Alignment explanation
Indices: 50423943--50423971 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50423933 ATTGTATGCA
50423943 AAAAACAAAAAAC
1 AAAAACAAAAAAC
50423956 AAAAA-AAAAAAC
1 AAAAACAAAAAAC
50423968 AAAA
1 AAAA
50423972 TATTACTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:50427321 original size:21 final size:21
Alignment explanation
Indices: 50427282--50427321 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50427272 TAACATAAAA
* *
50427282 TAATATATGATATACATATTT
1 TAATATATAAAATACATATTT
*
50427303 TAATATATAAAATATATAT
1 TAATATATAAAATACATAT
50427322 ATATATAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TAATATATAAAATACATATTT
Found at i:50427473 original size:3 final size:3
Alignment explanation
Indices: 50427465--50427538 Score: 80
Period size: 3 Copynumber: 24.0 Consensus size: 3
50427455 ATATAAAAAG
* *
50427465 ATA ATA ATA ACA ATA ATA TTA ATA A-A TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
50427510 A-A GATA ATA ATA ATA ATA ACTAA ATA ATA
1 ATA -ATA ATA ATA ATA ATA A-T-A ATA ATA
50427539 GAATTACTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 4 0.07
5 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:50427489 original size:21 final size:21
Alignment explanation
Indices: 50427471--50427533 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
50427461 AAAGATAATA
* * *
50427471 ATAACAATAATATTAATAAAT
1 ATAATAATAATAATAATAAAG
50427492 ATAATAATAATAATAATAAAG
1 ATAATAATAATAATAATAAAG
50427513 ATAATAATAATAATAACTAAA
1 ATAATAATAATAATAA-TAAA
50427534 TAATAGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAATAATAATAATAATAAAG
Found at i:50427516 original size:15 final size:15
Alignment explanation
Indices: 50427457--50427525 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
50427447 ATAAGTAAAT
50427457 ATAA-AAAGATAATA
1 ATAATAAAGATAATA
* *
50427471 ATAACAATA-ATATTA
1 ATAATAA-AGATAATA
*
50427486 ATAAATATAATAATAATA
1 AT-AATA-AA-GATAATA
50427504 ATAATAAAGATAATA
1 ATAATAAAGATAATA
50427519 ATAATAA
1 ATAATAA
50427526 TAACTAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 4 0.09
15 22 0.49
16 7 0.16
17 5 0.11
18 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAATAAAGATAATA
Found at i:50429000 original size:100 final size:100
Alignment explanation
Indices: 50428874--50429824 Score: 1623
Period size: 100 Copynumber: 9.5 Consensus size: 100
50428864 ATCTTTTTGT
* * *
50428874 TGCATCGCCAGGGAGGTGAGATTCGCTGTTGTAGCTTCAATATTTTAAATTGCAATGTCGAGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
**
50428939 GTGAGATTTGCTATCGTAGCTTCAATCTGTTCCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
*
50428974 TGTATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
*
50429039 GTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
50429074 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* *
50429139 TTGAGATTTGCCGTCGTAGCTTCAATTTGTTCCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
*
50429174 TGCATCGCCAAGGAGGTGAGATTCGTTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* * * *
50429239 GTGAGATTTACCGTCGAAGCTTCAATCTGTTTCGT
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
* * *
50429274 TGCATCCCCAATGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGAGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
50429339 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
*
50429374 TGCATCGCCAAGGAGGTGAGATTTGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
50429439 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
* *
50429474 TGCATCGCCAAGGAGGTGAGATTTGCTGTTGTAGCTTCAATCTTTTAAATTGTAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* * *
50429539 GTGAGATTTGTCGTCATAGCTTCAATCTGTTCTGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
50429574 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
*
50429639 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTTCGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
* * * *
50429674 TGCATCTCCAAGAAGGTGAGTTTCGTTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
* *
50429739 GTGAGATTTGTCGTCGTAGCTTCAATCTGTTCTGC
66 GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
*
50429774 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTGAATT
1 TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATT
50429825 ACAGACTATG
Statistics
Matches: 799, Mismatches: 52, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 799 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (100 bp):
TGCATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAA
GTGAGATTTGCCGTCGTAGCTTCAATCTGTTCCGC
Found at i:50437692 original size:19 final size:19
Alignment explanation
Indices: 50437670--50437708 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50437660 CAATTTCATT
50437670 AGAAAAAT-TTTACTATAAA
1 AGAAAAATCTTTAC-ATAAA
*
50437689 AGAAATATCTTTACATAAA
1 AGAAAAATCTTTACATAAA
50437708 A
1 A
50437709 TAGATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (19 bp):
AGAAAAATCTTTACATAAA
Found at i:50441402 original size:21 final size:21
Alignment explanation
Indices: 50441378--50441417 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50441368 TAACATAAAA
*
50441378 TAATATATGATATACATATTT
1 TAATATATAATATACATATTT
*
50441399 TAATATATAATATATATAT
1 TAATATATAATATACATAT
50441418 ATAGATACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
TAATATATAATATACATATTT
Found at i:50441565 original size:3 final size:3
Alignment explanation
Indices: 50441557--50441627 Score: 74
Period size: 3 Copynumber: 23.0 Consensus size: 3
50441547 ATATAAAAAC
* *
50441557 ATA ATA ATA ACA ATA ATA TTA ATA A-A TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
50441602 A-A GATA ATA ATA ATA ACTAA ATA ATA
1 ATA -ATA ATA ATA ATA A-T-A ATA ATA
50441628 GAATTACTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
2 2 0.03
3 50 0.86
4 4 0.07
5 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:50441617 original size:21 final size:21
Alignment explanation
Indices: 50441563--50441617 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
50441553 AAACATAATA
* * *
50441563 ATAACAATAATATTAATAAAT
1 ATAATAATAATAATAATAAAG
50441584 ATAATAATAATAATAATAAAG
1 ATAATAATAATAATAATAAAG
50441605 ATAATAATAATAA
1 ATAATAATAATAA
50441618 CTAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAATAATAATAATAATAAAG
Found at i:50445006 original size:3 final size:3
Alignment explanation
Indices: 50444998--50445030 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
50444988 AAATGAGAGG
50444998 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50445031 CAATTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50446458 original size:17 final size:17
Alignment explanation
Indices: 50446436--50446481 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
50446426 CTAAGTTTAG
50446436 AAATAATTGTAAATATT
1 AAATAATTGTAAATATT
* *
50446453 AAATAATTG-GATTATT
1 AAATAATTGTAAATATT
50446469 AAATAATTGTAAA
1 AAATAATTGTAAA
50446482 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATAATTGTAAATATT
Found at i:50446602 original size:16 final size:16
Alignment explanation
Indices: 50446583--50446613 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50446573 TAGAAAATTT
50446583 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
50446599 TTTCAAATTTATATG
1 TTTCAAATATATATG
50446614 CTCTAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:50447705 original size:20 final size:20
Alignment explanation
Indices: 50447680--50447717 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50447670 ATATCCTGAA
50447680 TTATTTGATTCTAATCAATT
1 TTATTTGATTCTAATCAATT
* *
50447700 TTATTTTATTTTAATCAA
1 TTATTTGATTCTAATCAA
50447718 ATTGATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTATTTGATTCTAATCAATT
Found at i:50449685 original size:18 final size:18
Alignment explanation
Indices: 50449659--50449731 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 18
50449649 TACAACCGTT
50449659 TACGATACTATTCACGTA
1 TACGATACTATTCACGTA
* * *
50449677 TACGGTACTGTTCAC-CA
1 TACGATACTATTCACGTA
* *
50449694 -ACGGTACTATTCATGTA
1 TACGATACTATTCACGTA
* * *
50449711 GACGATACTGTTCACATA
1 TACGATACTATTCACGTA
50449729 TAC
1 TAC
50449732 AGTAGTTGGG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 12 0.29
17 2 0.05
18 28 0.67
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGATACTATTCACGTA
Found at i:50451987 original size:18 final size:15
Alignment explanation
Indices: 50451950--50451986 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
50451940 CAGCTAATAT
50451950 TGAAGAAACAAATGA
1 TGAAGAAACAAATGA
50451965 TGAAGAAACAAATGA
1 TGAAGAAACAAATGA
50451980 TGAAGAA
1 TGAAGAA
50451987 GTTTCGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.22, T:0.14
Consensus pattern (15 bp):
TGAAGAAACAAATGA
Found at i:50452078 original size:23 final size:23
Alignment explanation
Indices: 50452048--50452093 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50452038 CCAAGAAGAG
50452048 AGATTCGTAAGCCTGCTCGGTTT
1 AGATTCGTAAGCCTGCTCGGTTT
50452071 AGATTCGTAAGCCTGCTCGGTTT
1 AGATTCGTAAGCCTGCTCGGTTT
50452094 GATGATATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
AGATTCGTAAGCCTGCTCGGTTT
Found at i:50454446 original size:16 final size:16
Alignment explanation
Indices: 50454425--50454484 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
50454415 ACTTAAATTT
50454425 AAATTTATTATTATTA
1 AAATTTATTATTATTA
50454441 AAATTTATTATTAATATA
1 AAATTTATTATT-AT-TA
*
50454459 AAA-TTA-TAATATTAA
1 AAATTTATTATTATT-A
50454474 ATAATTTATTA
1 A-AATTTATTA
50454485 AAATAATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 17 0.46
17 8 0.22
18 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTATTATTATTA
Found at i:50482072 original size:17 final size:16
Alignment explanation
Indices: 50482050--50482082 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
50482040 TAATTAAATT
50482050 ATTATAAATTTATAAAA
1 ATTATAAA-TTATAAAA
50482067 ATTATAAATTATAAAA
1 ATTATAAATTATAAAA
50482083 TCCGATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAAATTATAAAA
Found at i:50487574 original size:42 final size:42
Alignment explanation
Indices: 50487424--50487595 Score: 192
Period size: 42 Copynumber: 4.1 Consensus size: 42
50487414 GAAAAAAGTA
* * * * *
50487424 CCGCTATAGAACATGACATTTAGCGGCGCTTTACCCTCAAACG
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTA-TCACAAACG
** * *
50487467 CCGCTAAAGGTCATGATCTTTA--G-CG-TTTATCACAAACT
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTATCACAAACG
50487505 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGACGC-TTTATCACAAACG
50487548 CCGCTAAAG-ACATGACCTTTAGCGACGCTTTTATCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGACGC-TTTATCACAAACG
*
50487590 CTGCTA
1 CCGCTA
50487596 TAAGTACCGT
Statistics
Matches: 111, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
38 25 0.23
39 4 0.04
40 3 0.03
41 3 0.03
42 38 0.34
43 38 0.34
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
CCGCTAAAGAACATGACCTTTAGCGACGCTTTATCACAAACG
Found at i:50489350 original size:4 final size:4
Alignment explanation
Indices: 50489341--50489371 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
50489331 TAGAAAGGAC
50489341 TAAT TAAT TAAT TAAT TAAT TAA- TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
50489372 ACAAGTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:50491067 original size:31 final size:31
Alignment explanation
Indices: 50491003--50491071 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
50490993 TTAAAAAAAA
**** *
50491003 TAGTGACTTAAATAAAAACTTTTGAATAGTT
1 TAGTGACTTAAATAAAAACTGCCAAATAATT
*
50491034 TAGTGACTTAAATGAAAACTGCCAAATAATT
1 TAGTGACTTAAATAAAAACTGCCAAATAATT
50491065 TAGTGAC
1 TAGTGAC
50491072 CAAATTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTGCCAAATAATT
Found at i:50491650 original size:32 final size:31
Alignment explanation
Indices: 50491603--50491692 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 31
50491593 TAAAATTGTG
* *
50491603 AAAAAAATAAGAAAATAGCAAAAGAACAGTAA
1 AAAAAAACAATAAAATAGCAAAA-AACAGTAA
* *
50491635 GAAAAAACAATAAAATAGCAACAAAATAGTAA
1 AAAAAAACAATAAAATAGCAA-AAAACAGTAA
*
50491667 AAAAACAACAATAAAATAGTAAAAAA
1 AAAAA-AACAATAAAATAGCAAAAAA
50491693 AGCAACTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 33 0.66
33 17 0.34
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (31 bp):
AAAAAAACAATAAAATAGCAAAAAACAGTAA
Found at i:50508966 original size:34 final size:35
Alignment explanation
Indices: 50508899--50508966 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
50508889 TCAAACACCA
* *
50508899 TAAAATATTTTCTAATAAATCACTTTACAGAAAAG
1 TAAAACATTTTCTAAGAAATCACTTTACAGAAAAG
* * *
50508934 TAAAACATTTTCT-AGAAATTATTTTACGGAAAA
1 TAAAACATTTTCTAAGAAATCACTTTACAGAAAA
50508967 TATTTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (35 bp):
TAAAACATTTTCTAAGAAATCACTTTACAGAAAAG
Found at i:50515375 original size:21 final size:19
Alignment explanation
Indices: 50515351--50515394 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
50515341 TATTTAAGTT
50515351 TTTATTAATTTAGCATATAAA
1 TTTATTAATTT--CATATAAA
* *
50515372 TTTATTTATTTTATATAAA
1 TTTATTAATTTCATATAAA
50515391 TTTA
1 TTTA
50515395 GTATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTATTAATTTCATATAAA
Found at i:50516348 original size:12 final size:14
Alignment explanation
Indices: 50516325--50516356 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50516315 CTCTCTCAAC
50516325 AAAAATTACAAAA-
1 AAAAATTACAAAAT
50516338 AAAAATT-CAAAAT
1 AAAAATTACAAAAT
50516351 AAAAAT
1 AAAAAT
50516357 ATTTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATTACAAAAT
Found at i:50516420 original size:20 final size:20
Alignment explanation
Indices: 50516383--50516422 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50516373 AAATTTTTAT
* *
50516383 TTTTTAAAAAATTATAAAAA
1 TTTTAAAAAAAATATAAAAA
*
50516403 TTTTAAAAAAAATCTAAAAA
1 TTTTAAAAAAAATATAAAAA
50516423 AATGTATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTTAAAAAAAATATAAAAA
Found at i:50523924 original size:28 final size:27
Alignment explanation
Indices: 50523883--50523939 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
50523873 AGGAAGAAGA
*
50523883 AATTTAAAATATTTTTAAAT-TAAAAAT
1 AATTTAAAACA-TTTTAAATATAAAAAT
*
50523910 AATTTATAAACATTTTAAATATGAAAAT
1 AATTTA-AAACATTTTAAATATAAAAAT
50523938 AA
1 AA
50523940 ACTATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
AATTTAAAACATTTTAAATATAAAAAT
Found at i:50524509 original size:10 final size:10
Alignment explanation
Indices: 50524494--50524540 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
50524484 TATAAGATAT
*
50524494 TTATTATTTA
1 TTATTAGTTA
50524504 TTATTAGTTA
1 TTATTAGTTA
50524514 TTAGTTA-TTA
1 TTA-TTAGTTA
50524524 GTTATTAGTTA
1 -TTATTAGTTA
50524535 TTATTA
1 TTATTA
50524541 AATTAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (10 bp):
TTATTAGTTA
Found at i:50524514 original size:14 final size:15
Alignment explanation
Indices: 50524497--50524537 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
50524487 AAGATATTTA
50524497 TTATTTA-TTATTAG
1 TTATTTAGTTATTAG
50524511 TTA-TTAGTTATTAG
1 TTATTTAGTTATTAG
50524525 TTA-TTAGTTATTA
1 TTATTTAGTTATTA
50524538 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTATTTAGTTATTAG
Found at i:50524515 original size:21 final size:19
Alignment explanation
Indices: 50524494--50524540 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 19
50524484 TATAAGATAT
50524494 TTATTATTTATTATTAGTTA
1 TTATTA-TTATTATTAGTTA
50524514 TTAGTTATTAGTTATTAGTTA
1 TTA-TTATTA-TTATTAGTTA
50524535 TTATTA
1 TTATTA
50524541 AATTAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (19 bp):
TTATTATTATTATTAGTTA
Found at i:50527588 original size:17 final size:17
Alignment explanation
Indices: 50527561--50527600 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50527551 AACTTCAATT
*
50527561 AATTT-TAAATATTTTA
1 AATTTATAAATACTTTA
50527577 AATTTATAAATACTTTA
1 AATTTATAAATACTTTA
*
50527594 AAATTAT
1 AATTTAT
50527601 TTTTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTATAAATACTTTA
Found at i:50532896 original size:83 final size:83
Alignment explanation
Indices: 50532757--50532923 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
50532747 AATGTCATTC
*
50532757 TCCTGCCCCTTCTCTTTCGTTTGTTTTTCTTTTCTGATAGTGCAATCCTCATTGCAACCATAAAT
1 TCCTGCCCCTTCTCTTTCGTTTGTTTTTCTTTTCTGATAGTGCAATCCTCATTGCAACCATAAAC
50532822 GATGATTTAGAGAACATG
66 GATGATTTAGAGAACATG
50532840 TCCTGCCCCTTCTCTTTCGTTTGTTTTTCTTTTCTGATAGTGCAATCCTCATTGCAACCATAAAC
1 TCCTGCCCCTTCTCTTTCGTTTGTTTTTCTTTTCTGATAGTGCAATCCTCATTGCAACCATAAAC
50532905 GATGATTTAGAGAACATG
66 GATGATTTAGAGAACATG
50532923 T
1 T
50532924 TTCCCTTTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (83 bp):
TCCTGCCCCTTCTCTTTCGTTTGTTTTTCTTTTCTGATAGTGCAATCCTCATTGCAACCATAAAC
GATGATTTAGAGAACATG
Found at i:50539996 original size:26 final size:26
Alignment explanation
Indices: 50539966--50540016 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50539956 ACCAATGAAC
*
50539966 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
50539992 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
50540017 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:50540050 original size:103 final size:104
Alignment explanation
Indices: 50539829--50540094 Score: 437
Period size: 103 Copynumber: 2.6 Consensus size: 104
50539819 TAACCGTTAT
* *
50539829 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
50539894 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
50539933 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
50539996 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
50540036 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
50540095 TTTATATACA
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
103 94 0.62
104 57 0.38
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:50540453 original size:29 final size:29
Alignment explanation
Indices: 50540420--50540483 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50540410 TAATCCACCA
50540420 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
50540449 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
50540479 CCCAA
1 CCCAA
50540484 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:50540457 original size:30 final size:30
Alignment explanation
Indices: 50540427--50540483 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50540417 CCACCCAACT
50540427 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
50540456 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
50540484 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Done.