Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 352 of 425
Found at i:108859793 original size:58 final size:59
Alignment explanation
Indices: 108859707--108859836 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 59
108859697 ATATGTTATG
*
108859707 ATTTTTATT-AATTTATATTTTAATAATAATTATATTAAAA-ATGTTATTAAATTA-TATATT
1 ATTTTTATTAAATTT-CA-TTTAATAATAATTATATTAAAATATG--ATTAAATTATTATATT
* * *
108859767 A-TTTTATTAAATTTCATTTAATAATAATTATGTTAAAATATGATTAAATTATTTTTTT
1 ATTTTTATTAAATTTCATTTAATAATAATTATATTAAAATATGATTAAATTATTATATT
108859825 ATTTTTATTAAA
1 ATTTTTATTAAA
108859837 ATATATAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
57 9 0.15
58 26 0.42
59 21 0.34
60 6 0.10
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (59 bp):
ATTTTTATTAAATTTCATTTAATAATAATTATATTAAAATATGATTAAATTATTATATT
Found at i:108860677 original size:6 final size:6
Alignment explanation
Indices: 108860663--108860693 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
108860653 TTCTCAGTCT
108860663 CCAAT- CCAATC CCAATC CCAATC CCAATC CC
1 CCAATC CCAATC CCAATC CCAATC CCAATC CC
108860694 CTCCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCAATC
Found at i:108862295 original size:31 final size:31
Alignment explanation
Indices: 108862257--108862319 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
108862247 TCATATCCTT
*
108862257 ATTGCCAGAAAGATAATAGGAAGACAGAGAC
1 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
108862288 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
1 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
108862319 A
1 A
108862320 ATCCAGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.11
Consensus pattern (31 bp):
ATTGCCAGAAAGACAATAGGAAGACAGAGAC
Found at i:108864591 original size:29 final size:29
Alignment explanation
Indices: 108864558--108864623 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
108864548 AATTGGTCAA
108864558 ACACAGATTTGGGCTTAAGCCCATTACAG
1 ACACAGATTTGGGCTTAAGCCCATTACAG
*
108864587 ACACAGATTTGGGCTTGAGCCCATTACAG
1 ACACAGATTTGGGCTTAAGCCCATTACAG
108864616 ACACAGAT
1 ACACAGAT
108864624 ATAGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (29 bp):
ACACAGATTTGGGCTTAAGCCCATTACAG
Found at i:108869103 original size:14 final size:16
Alignment explanation
Indices: 108869072--108869106 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
108869062 GCAACCCAAT
108869072 TTTTTATTTCTCTTTA
1 TTTTTATTTCTCTTTA
108869088 TTTTTA-TTCT-TTTA
1 TTTTTATTTCTCTTTA
108869102 TTTTT
1 TTTTT
108869107 TATTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTCTCTTTA
Found at i:108869107 original size:15 final size:16
Alignment explanation
Indices: 108869070--108869110 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
108869060 AGGCAACCCA
108869070 ATTTTTTATTTCTCTTT
1 ATTTTTTA-TTCTCTTT
108869087 A-TTTTTATTCT-TTT
1 ATTTTTTATTCTCTTT
108869101 ATTTTTTATT
1 ATTTTTTATT
108869111 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.17
15 12 0.52
16 6 0.26
17 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTTATTCTCTTT
Found at i:108869141 original size:21 final size:21
Alignment explanation
Indices: 108869099--108869149 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
108869089 TTTTATTCTT
* **
108869099 TTATTTTTTATTATATTTTAA
1 TTATTTATTATTATATCGTAA
*
108869120 TTATTTATTATTTTATCGTAA
1 TTATTTATTATTATATCGTAA
*
108869141 TCATTTATT
1 TTATTTATT
108869150 TCTTAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTATTATTATATCGTAA
Found at i:108869659 original size:5 final size:5
Alignment explanation
Indices: 108869649--108869681 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
108869639 AAAACTGTGA
108869649 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
108869682 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:108871211 original size:20 final size:20
Alignment explanation
Indices: 108871188--108871225 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108871178 TTAAATTCCA
*
108871188 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
108871208 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
108871226 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:108873824 original size:8 final size:7
Alignment explanation
Indices: 108873798--108873822 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
108873788 ACATGCAAAC
108873798 AAAATAA
1 AAAATAA
108873805 AAAATAA
1 AAAATAA
108873812 AAAATAA
1 AAAATAA
108873819 AAAA
1 AAAA
108873823 ATTCAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:108874154 original size:24 final size:23
Alignment explanation
Indices: 108874108--108874161 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
108874098 AACCCTAATA
*
108874108 TAATATTAATCTAACATCAATCT
1 TAATATTAATATAACATCAATCT
* **
108874131 CTAATATTAATATAATATTTATCT
1 -TAATATTAATATAACATCAATCT
108874155 TAATATT
1 TAATATT
108874162 TTCGTCGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATATTAATATAACATCAATCT
Found at i:108875836 original size:6 final size:6
Alignment explanation
Indices: 108875825--108875857 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
108875815 CGCAACATCC
108875825 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCC
108875858 ACCACCAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TCCTCT
Found at i:108879831 original size:5 final size:5
Alignment explanation
Indices: 108879821--108879852 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
108879811 TTATGTTTTA
108879821 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
108879853 ATAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:108879915 original size:13 final size:13
Alignment explanation
Indices: 108879893--108879926 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
108879883 CGAAACAGAG
*
108879893 AAGAACAGGGGAGA
1 AAGAA-AGGGAAGA
108879907 AAGAAAGGGAAGA
1 AAGAAAGGGAAGA
108879920 AAGAAAG
1 AAGAAAG
108879927 AAAGGGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.03, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGAAAGGGAAGA
Found at i:108879939 original size:17 final size:17
Alignment explanation
Indices: 108879904--108879937 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
108879894 AGAACAGGGG
108879904 AGAAAGAAAGGGAAGAA
1 AGAAAGAAAGGGAAGAA
108879921 AGAAAGAAAGGG-AGAA
1 AGAAAGAAAGGGAAGAA
108879937 A
1 A
108879938 AGGGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGGAAGAA
Found at i:108881179 original size:18 final size:19
Alignment explanation
Indices: 108881158--108881196 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
108881148 ATATATAGAT
108881158 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
108881176 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
108881195 AT
1 AT
108881197 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:108881546 original size:39 final size:39
Alignment explanation
Indices: 108881436--108881570 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
108881426 GACCTCGAGT
* * * *
108881436 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
108881477 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
108881515 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
108881554 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
108881571 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:108881714 original size:18 final size:19
Alignment explanation
Indices: 108881693--108881733 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
108881683 AATGAAATAA
108881693 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
108881711 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
108881730 GAAA
1 GAAA
108881734 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:108886089 original size:16 final size:15
Alignment explanation
Indices: 108886049--108886090 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
108886039 ATCAATCTAA
108886049 AATATTATTTATATT
1 AATATTATTTATATT
108886064 AATATATATTTAATAGTT
1 AATAT-TATTT-ATA-TT
108886082 AA-ATTATTT
1 AATATTATTT
108886091 TTTATTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 5 0.21
18 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
AATATTATTTATATT
Found at i:108886479 original size:2 final size:2
Alignment explanation
Indices: 108886472--108886496 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108886462 GTCCAACTAG
108886472 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 T
108886497 TTAATCCGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108887869 original size:2 final size:2
Alignment explanation
Indices: 108887862--108887887 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
108887852 AAATTTTTAA
108887862 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
108887888 TTCCCCATCA
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:108888885 original size:13 final size:13
Alignment explanation
Indices: 108888867--108888897 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
108888857 AAATCAATCA
108888867 ACAACCCAACCAC
1 ACAACCCAACCAC
108888880 ACAACCCAACCAC
1 ACAACCCAACCAC
108888893 ACAAC
1 ACAAC
108888898 AATTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAACCCAACCAC
Found at i:108893703 original size:17 final size:17
Alignment explanation
Indices: 108893681--108893715 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108893671 AAAGGCAGTG
108893681 AACTTAATTAATTAAGA
1 AACTTAATTAATTAAGA
108893698 AACTTAATTAATTAAGA
1 AACTTAATTAATTAAGA
108893715 A
1 A
108893716 CAAAAAACAA
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:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
AACTTAATTAATTAAGA
Found at i:108894501 original size:18 final size:18
Alignment explanation
Indices: 108894478--108894526 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
108894468 TTATAAAATA
108894478 ATATTATATTAATTATAT
1 ATATTATATTAATTATAT
*
108894496 ATATTAAATAATAATTATAT
1 ATATT--ATATTAATTATAT
108894516 ATATTTATATT
1 ATA-TTATATT
108894527 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 15 0.58
21 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATATTAATTATAT
Found at i:108894799 original size:31 final size:31
Alignment explanation
Indices: 108894764--108894824 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
108894754 GTTGAGTTTA
108894764 TTTTACCATTACTCTAGTACTAATTTATGTG
1 TTTTACCATTACTCTAGTACTAATTTATGTG
*
108894795 TTTTACCATTGCTCTAGTACTAATTTATGT
1 TTTTACCATTACTCTAGTACTAATTTATGT
108894825 TATCTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (31 bp):
TTTTACCATTACTCTAGTACTAATTTATGTG
Found at i:108899890 original size:2 final size:2
Alignment explanation
Indices: 108899883--108899907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108899873 TGAAACTATG
108899883 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 T
108899908 GTACGGTATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108904367 original size:10 final size:9
Alignment explanation
Indices: 108904334--108904367 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
108904324 TTTAATTAAT
108904334 TTTTAAAAA
1 TTTTAAAAA
108904343 TTTTAAAAA
1 TTTTAAAAA
108904352 TATTTAAAATA
1 T-TTTAAAA-A
108904363 TTTTA
1 TTTTA
108904368 TACTGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 10 0.43
10 11 0.48
11 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:108907162 original size:11 final size:12
Alignment explanation
Indices: 108907135--108907163 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
108907125 ATAATAAGAA
108907135 CATTCAAATATT
1 CATTCAAATATT
108907147 CATTCAAATA-T
1 CATTCAAATATT
108907158 CATTCA
1 CATTCA
108907164 CAATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:108911294 original size:19 final size:18
Alignment explanation
Indices: 108911270--108911317 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
108911260 AAAAAACTAG
*
108911270 AAATAAATAATATTAATAA
1 AAATAAATAATATGAAT-A
108911289 AAATAAAATAA-ATGAATA
1 AAAT-AAATAATATGAATA
108911307 AAAT-AATAATA
1 AAATAAATAATA
108911318 ACTAACGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 5 0.19
19 9 0.35
20 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATGAATA
Found at i:108911307 original size:13 final size:12
Alignment explanation
Indices: 108911270--108911318 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
108911260 AAAAAACTAG
108911270 AAATAAATAATA
1 AAATAAATAATA
*
108911282 TTAATAAA-AATA
1 -AAATAAATAATA
108911294 AAATAAATGAATA
1 AAATAAAT-AATA
108911307 AAAT-AATAATA
1 AAATAAATAATA
108911318 A
1 A
108911319 CTAACGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 11 0.34
12 7 0.22
13 14 0.44
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:108911311 original size:24 final size:24
Alignment explanation
Indices: 108911261--108911318 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
108911251 TACTATGAAA
*
108911261 AAAAACTAGAAATAAATAATATTAAT
1 AAAAA-TA-AAATAAATAATATAAAT
108911287 AAAAATAAAATAAATGAATA-AAAT
1 AAAAATAAAATAAAT-AATATAAAT
*
108911311 AATAATAA
1 AAAAATAA
108911319 CTAACGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 18 0.62
25 6 0.21
26 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (24 bp):
AAAAATAAAATAAATAATATAAAT
Found at i:108914990 original size:22 final size:22
Alignment explanation
Indices: 108914956--108915001 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
108914946 TCTTTTAAAA
*
108914956 CACAAACATTCAATTATATTGG
1 CACAAACAATCAATTATATTGG
*
108914978 CACAATCAATCAATTATATTGG
1 CACAAACAATCAATTATATTGG
108915000 CA
1 CA
108915002 TAATACATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CACAAACAATCAATTATATTGG
Found at i:108916602 original size:51 final size:51
Alignment explanation
Indices: 108916526--108916627 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
108916516 AAATGAGAGA
108916526 AAATGCTCCCAATTAGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
1 AAATGCTCCCAATTAGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
*
108916577 AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
1 AAATGCTCCCAATTAGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
108916628 TGAAAATGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (51 bp):
AAATGCTCCCAATTAGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
Found at i:108926428 original size:29 final size:29
Alignment explanation
Indices: 108926384--108926445 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
108926374 TTCACCAATC
*
108926384 CCAATTAGTCACTACCCTAGTAGGATCTT
1 CCAACTAGTCACTACCCTAGTAGGATCTT
* *
108926413 CCAACTAGTCATTACCCTAGTGGGATCTT
1 CCAACTAGTCACTACCCTAGTAGGATCTT
108926442 CCAA
1 CCAA
108926446 TCTTAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CCAACTAGTCACTACCCTAGTAGGATCTT
Found at i:108941180 original size:22 final size:22
Alignment explanation
Indices: 108941154--108941200 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
108941144 AGCTGGAAAT
*
108941154 GGGAAGCTCTTTCGAGTTGAAC
1 GGGAAGCTCTTTCGAGCTGAAC
108941176 GGGAAGCTCTTTCGAGCTGAAC
1 GGGAAGCTCTTTCGAGCTGAAC
108941198 GGG
1 GGG
108941201 TGGTGAGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.23
Consensus pattern (22 bp):
GGGAAGCTCTTTCGAGCTGAAC
Found at i:108944438 original size:2 final size:2
Alignment explanation
Indices: 108944431--108944477 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
108944421 TGAATGAAGT
108944431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108944473 TA TA T
1 TA TA T
108944478 TTGCTTATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108945147 original size:22 final size:22
Alignment explanation
Indices: 108945122--108945163 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
108945112 GTTAGTAAAG
108945122 ATGTGAAGTTAGTTGAATTCAT
1 ATGTGAAGTTAGTTGAATTCAT
*
108945144 ATGTGGAGTTAGTTGAATTC
1 ATGTGAAGTTAGTTGAATTC
108945164 TTAAGTCAAA
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:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (22 bp):
ATGTGAAGTTAGTTGAATTCAT
Found at i:108946726 original size:21 final size:21
Alignment explanation
Indices: 108946682--108946731 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
108946672 TACACGTCCA
* * *
108946682 TGTGGAGGCCACACACGCCTG
1 TGTGAAGGCCACACACACCCG
108946703 TGTGAAGGCCACACACACCCG
1 TGTGAAGGCCACACACACCCG
*
108946724 TGTAAAGG
1 TGTGAAGG
108946732 GGACACTCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (21 bp):
TGTGAAGGCCACACACACCCG
Found at i:108948685 original size:27 final size:28
Alignment explanation
Indices: 108948624--108948685 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
108948614 ATTTTATGCG
108948624 TTTAATTTTTAATTATTTTAATAAATGA
1 TTTAATTTTTAATTATTTTAATAAATGA
* * *
108948652 TGT-ATTTTTAATTATTTTAATTAAT-T
1 TTTAATTTTTAATTATTTTAATAAATGA
108948678 TTTAATTT
1 TTTAATTT
108948686 ATTATTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTAATTTTTAATTATTTTAATAAATGA
Found at i:108948772 original size:19 final size:20
Alignment explanation
Indices: 108948728--108948773 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
108948718 ATTAACTTGT
108948728 TTAAAAATTCAAATATAATA
1 TTAAAAATTCAAATATAATA
** *
108948748 AAAAAAATT-AAATATCATA
1 TTAAAAATTCAAATATAATA
108948767 TTAAAAA
1 TTAAAAA
108948774 GACTAATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAAAATTCAAATATAATA
Found at i:108950985 original size:2 final size:2
Alignment explanation
Indices: 108950978--108951006 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
108950968 CTCCCACTCC
108950978 TA 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 TA T
108951007 TATTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108951184 original size:16 final size:15
Alignment explanation
Indices: 108951150--108951183 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
108951140 ATTTTTATTT
108951150 TATATTGTTTAAAAA
1 TATATTGTTTAAAAA
*
108951165 TATATTTTTTAAAAA
1 TATATTGTTTAAAAA
108951180 -ATAT
1 TATAT
108951184 AATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATATTGTTTAAAAA
Found at i:108953502 original size:17 final size:17
Alignment explanation
Indices: 108953482--108953515 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
108953472 ATGTTTAGGT
108953482 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
**
108953499 TTAATTTTTTTAATTAA
1 TTAAAATTTTTAATTAA
108953516 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:108957282 original size:24 final size:24
Alignment explanation
Indices: 108957250--108957300 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
108957240 TTTGCTCCTA
108957250 TCTGATATAGTGTAATTTTTTTTT
1 TCTGATATAGTGTAATTTTTTTTT
108957274 TCTGATATAGTGTAATTTTTTTTT
1 TCTGATATAGTGTAATTTTTTTTT
108957298 TCT
1 TCT
108957301 TTTTCGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.06, G:0.12, T:0.63
Consensus pattern (24 bp):
TCTGATATAGTGTAATTTTTTTTT
Found at i:108957397 original size:21 final size:22
Alignment explanation
Indices: 108957373--108957415 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
108957363 GAAAAAATTA
*
108957373 AGTA-TGTTGCATTGCAAAAGC
1 AGTATTGTTGCACTGCAAAAGC
*
108957394 AGTATTGTTGTACTGCAAAAGC
1 AGTATTGTTGCACTGCAAAAGC
108957416 TGATTCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
AGTATTGTTGCACTGCAAAAGC
Found at i:108960699 original size:39 final size:39
Alignment explanation
Indices: 108960640--108960719 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
108960630 ATCTGTGCCT
*
108960640 AAATGTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
1 AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
*
108960679 AAATCTGAGGGAGAGGTTAATGTGGCAACTGATTCTTCA
1 AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
108960718 AA
1 AA
108960720 GGCTGCTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (39 bp):
AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
Found at i:108971031 original size:30 final size:29
Alignment explanation
Indices: 108970959--108971044 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 29
108970949 GATTAAATCA
*
108970959 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTT-AAGTATATAATTGAACC
*
108970989 ACAATTAGAGTTTAACGTATATAATT-ACACC
1 A-AATTAAAGTTTAA-GTATATAATTGA-ACC
* *
108971020 AAATTAAAGTTTATGTATACAATTG
1 AAATTAAAGTTTAAGTATATAATTG
108971045 CACATTAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
29 9 0.19
30 15 0.32
31 23 0.49
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (29 bp):
AAATTAAAGTTTAAGTATATAATTGAACC
Found at i:108972196 original size:2 final size:2
Alignment explanation
Indices: 108972189--108972230 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
108972179 TTACTTTTTA
108972189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108972231 TGTTACGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108977173 original size:23 final size:23
Alignment explanation
Indices: 108977147--108977192 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
108977137 AAATTAAATC
*
108977147 TCTAAGATTATAGA-ATCATATCT
1 TCTAAGATT-TACATATCATATCT
108977170 TCTAAGATTTACATATCATATCT
1 TCTAAGATTTACATATCATATCT
108977193 AATATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (23 bp):
TCTAAGATTTACATATCATATCT
Found at i:108983835 original size:25 final size:25
Alignment explanation
Indices: 108983789--108983836 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
108983779 TAGGTATGTA
* *
108983789 TTAATAAAATATATTATTAATTTTG
1 TTAATAAAATATATAATAAATTTTG
108983814 TTAATAAAATGATA-AATAAATTT
1 TTAATAAAAT-ATATAATAAATTT
108983837 AAACATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAATAAAATATATAATAAATTTTG
Found at i:108985039 original size:2 final size:2
Alignment explanation
Indices: 108985032--108985062 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
108985022 AGACCTTGTA
108985032 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
108985063 GGGGCGTAGC
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:108985301 original size:2 final size:2
Alignment explanation
Indices: 108985294--108985320 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108985284 TTCACCCCTG
108985294 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
108985321 GATACTATTA
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:108987155 original size:2 final size:2
Alignment explanation
Indices: 108987143--108987181 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
108987133 AGGTCAAATT
108987143 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
108987182 TTGTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108988629 original size:20 final size:19
Alignment explanation
Indices: 108988599--108988636 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
108988589 TATAGGGGTG
108988599 ATTTAAAATTTTATCATTA
1 ATTTAAAATTTTATCATTA
108988618 ATTTATAAATTTTATCATT
1 ATTTA-AAATTTTATCATT
108988637 TTGGTCGGGG
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:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAAAATTTTATCATTA
Found at i:108998407 original size:3 final size:3
Alignment explanation
Indices: 108998399--108998451 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
108998389 AACAGTTAAA
108998399 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108998447 AAT AA
1 AAT AA
108998452 ATCTAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:108998584 original size:21 final size:20
Alignment explanation
Indices: 108998553--108998616 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 20
108998543 AAATAATATT
108998553 AATATATAAATAGAAATAGA
1 AATATATAAATAGAAATAGA
108998573 AATATAATAAATAGAAATATGA
1 AATAT-ATAAATAGAAATA-GA
* *
108998595 CAATAGTAGAAATATAAATAGA
1 -AATA-TATAAATAGAAATAGA
108998617 TAAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.13
21 13 0.34
22 4 0.11
23 15 0.39
24 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (20 bp):
AATATATAAATAGAAATAGA
Found at i:108998586 original size:15 final size:15
Alignment explanation
Indices: 108998566--108998611 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
108998556 ATATAAATAG
*
108998566 AAATAGAAATATAAT
1 AAATAGAAATATAAC
*
108998581 AAATAGAAATATGAC
1 AAATAGAAATATAAC
108998596 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
108998612 ATAGATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
16 1 0.04
17 10 0.38
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAC
Found at i:108998599 original size:29 final size:27
Alignment explanation
Indices: 108998560--108998616 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 27
108998550 ATTAATATAT
108998560 AAATAGAAATAG-A-AATATAATAAATAG
1 AAATAGAAATAGTAGAA-AT-ATAAATAG
108998587 AAATATGACAATAGTAGAAATATAAATAG
1 AAATA-GA-AATAGTAGAAATATAAATAG
108998616 A
1 A
108998617 TAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 5 0.19
28 2 0.08
29 14 0.54
30 3 0.12
31 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (27 bp):
AAATAGAAATAGTAGAAATATAAATAG
Found at i:108998647 original size:17 final size:14
Alignment explanation
Indices: 108998604--108998637 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
108998594 ACAATAGTAG
108998604 AAATATAAA-TAGAT
1 AAATA-AAATTAGAT
108998618 AAATAAAATTAGAT
1 AAATAAAATTAGAT
108998632 AAATAA
1 AAATAA
108998638 TAGTATTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AAATAAAATTAGAT
Found at i:109000836 original size:6 final size:6
Alignment explanation
Indices: 109000823--109000868 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
109000813 GTTAATTGTT
*
109000823 ATTG-A ATTGAA ATTGAA ATTGAA ATTGAA ATT-AA AATGTAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTG-AA ATTGA
109000869 TTGGAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 8 0.22
6 23 0.64
7 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATTGAA
Found at i:109001211 original size:5 final size:5
Alignment explanation
Indices: 109001196--109001237 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
109001186 AGTGCAAAAG
* *
109001196 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
109001238 ATGATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:109001710 original size:45 final size:45
Alignment explanation
Indices: 109001646--109001838 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
109001636 CTGTTACCGC
* * *
109001646 TACTGCTACTGTTACCGATTCGGCACTTCGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* *
109001691 TACTGCTACTGTTACCGATTCGACACTGTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * *
109001736 TATTGTTACCGTTACCGATTCGACACTTTGTGTGTCAAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * *
109001781 TACTGTTACCGTTACCGATTC-AGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAATATTGT
109001826 TACTGTTACTGTT
1 TACTGTTACTGTT
109001839 CCGGATTTGT
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.01
45 133 0.99
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
Found at i:109002035 original size:18 final size:18
Alignment explanation
Indices: 109002014--109002198 Score: 139
Period size: 18 Copynumber: 10.3 Consensus size: 18
109002004 TAACCGATTA
*
109002014 TTACTGAATAATTAACTG
1 TTACTGAATAATTGACTG
* *
109002032 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
109002050 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
109002068 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
109002086 TTATTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
109002104 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
109002122 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
109002140 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
109002159 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
109002176 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
109002194 TTACT
1 TTACT
109002199 AGATAACCGA
Statistics
Matches: 134, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 19 0.14
18 99 0.74
19 16 0.12
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:109003308 original size:36 final size:36
Alignment explanation
Indices: 109003262--109003354 Score: 186
Period size: 36 Copynumber: 2.6 Consensus size: 36
109003252 ATGACTCAAC
109003262 AATTTAATAATATAAATAATATAAAATGTGAAATTT
1 AATTTAATAATATAAATAATATAAAATGTGAAATTT
109003298 AATTTAATAATATAAATAATATAAAATGTGAAATTT
1 AATTTAATAATATAAATAATATAAAATGTGAAATTT
109003334 AATTTAATAATATAAATAATA
1 AATTTAATAATATAAATAATA
109003355 GATATAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (36 bp):
AATTTAATAATATAAATAATATAAAATGTGAAATTT
Found at i:109003331 original size:17 final size:17
Alignment explanation
Indices: 109003275--109003331 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
109003265 TTAATAATAT
109003275 AAATAATATAAAATGTG
1 AAATAATATAAAATGTG
* *
109003292 AAATTTAATTTAATAATAT-
1 AAA--TAATATAA-AATGTG
109003311 AAATAATATAAAATGTG
1 AAATAATATAAAATGTG
109003328 AAAT
1 AAAT
109003332 TTAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
19 10 0.31
20 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
AAATAATATAAAATGTG
Found at i:109003867 original size:9 final size:9
Alignment explanation
Indices: 109003853--109003889 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
109003843 TATAGTTTGA
109003853 TATTCGAAT
1 TATTCGAAT
109003862 TATTCGAAT
1 TATTCGAAT
*
109003871 TATTCGAGT
1 TATTCGAAT
109003880 TATTCGAAT
1 TATTCGAAT
109003889 T
1 T
109003890 CGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:109008857 original size:35 final size:35
Alignment explanation
Indices: 109008818--109008887 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
109008808 TTGGATTTGG
109008818 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
1 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
109008853 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
1 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
109008888 GACTTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (35 bp):
TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
Found at i:109008885 original size:18 final size:18
Alignment explanation
Indices: 109008829--109008885 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
109008819 ATGTTTATAA
109008829 TTTGGATTAAAATGATGC
1 TTTGGATTAAAATGATGC
*** * **
109008847 TTT-GATTATGTTTATAA
1 TTTGGATTAAAATGATGC
109008864 TTTGGATTAAAATGATGC
1 TTTGGATTAAAATGATGC
109008882 TTTG
1 TTTG
109008886 ATGACTTGTT
Statistics
Matches: 26, Mismatches: 12, Indels: 2
0.65 0.30 0.05
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (18 bp):
TTTGGATTAAAATGATGC
Found at i:109015949 original size:27 final size:27
Alignment explanation
Indices: 109015909--109015995 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
109015899 AGGAAGCGTC
109015909 CTGGTGGCTATGCCACAATTTATCTAT
1 CTGGTGGCTATGCCACAATTTATCTAT
* * *
109015936 CTGGTGGCTCTGCCAC-ATATATCTGT
1 CTGGTGGCTATGCCACAATTTATCTAT
109015962 CCTGGTGGCTATGCCACAA-TTATCTGAT
1 -CTGGTGGCTATGCCACAATTTATCT-AT
109015990 CTGGTG
1 CTGGTG
109015996 TGTAACGCCC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.16
27 41 0.80
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTTATCTAT
Found at i:109017248 original size:53 final size:53
Alignment explanation
Indices: 109017167--109017317 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
109017157 CTTACACGGT
* *
109017167 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
109017222 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
109017275 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
109017318 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:109018711 original size:27 final size:26
Alignment explanation
Indices: 109018673--109018749 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
109018663 GGCCGTTACA
109018673 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACA-ATATCTGTTC
*
109018700 TGGTGGCTCTGCCACAATATCTGTATT
1 TGGTGGCTCTGCCACAATATCTGT-TC
* *
109018727 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
109018750 GCAACCTCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 9 0.20
27 36 0.80
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:109021434 original size:71 final size:71
Alignment explanation
Indices: 109021348--109021511 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109021338 CGATTTGTCT
109021348 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109021413 CTTTCA
66 CTTTCA
109021419 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109021484 CTTTCA
66 CTTTCA
109021490 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
109021512 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:109021549 original size:71 final size:70
Alignment explanation
Indices: 109021348--109021545 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
109021338 CGATTTGTCT
* * * *
109021348 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109021413 CTTTCA
65 CTTTCA
* * * *
109021419 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109021484 CTTTCA
65 CTTTCA
* *
109021490 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
109021546 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:109026608 original size:2 final size:2
Alignment explanation
Indices: 109026601--109026632 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
109026591 TTGACAATTG
109026601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109026633 GATTCAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109029358 original size:34 final size:34
Alignment explanation
Indices: 109029315--109029379 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
109029305 ATACTACAGG
* *
109029315 TAAAACTGCTTTTTCAGTTTCTTTTAGAAATTCT
1 TAAAACTGCTTTTTCAGTTCCTTCTAGAAATTCT
109029349 TAAAACTGCTTTTTCAGTTCCTTCTAGAAAT
1 TAAAACTGCTTTTTCAGTTCCTTCTAGAAAT
109029380 CCTTCTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (34 bp):
TAAAACTGCTTTTTCAGTTCCTTCTAGAAATTCT
Found at i:109030496 original size:32 final size:32
Alignment explanation
Indices: 109030455--109030529 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
109030445 ATATTATACT
* *
109030455 AGCCGAAACCCTTTTACCCTA-TTTCCTTCCAA
1 AGCCCAAACCCTTTTACCCTATTTTCC-CCCAA
* *
109030487 AGCCCAAACCTTTTTACTCTATTTTCCCCCAA
1 AGCCCAAACCCTTTTACCCTATTTTCCCCCAA
109030519 AGCCCAAACCC
1 AGCCCAAACCC
109030530 CATCCCCCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.27, C:0.40, G:0.05, T:0.28
Consensus pattern (32 bp):
AGCCCAAACCCTTTTACCCTATTTTCCCCCAA
Found at i:109030707 original size:37 final size:39
Alignment explanation
Indices: 109030629--109030717 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 39
109030619 TAAATTTATG
109030629 CTTCTTCTTCAAAAATCCCTAAATTAAACCCCAAAATCCATT
1 CTTCTTCTTCAAAAATCCCTAAATTAAA-CCC--AATCCATT
* *
109030671 TTTCTTCTTCAAAAATCCCTAAATTAAA-CC-TTCCATT
1 CTTCTTCTTCAAAAATCCCTAAATTAAACCCAATCCATT
109030708 CTTCTTCTTC
1 CTTCTTCTTC
109030718 TTCTTCTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
37 15 0.34
40 2 0.05
42 27 0.61
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.38
Consensus pattern (39 bp):
CTTCTTCTTCAAAAATCCCTAAATTAAACCCAATCCATT
Found at i:109033198 original size:29 final size:30
Alignment explanation
Indices: 109033166--109033222 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
109033156 TTTAATCCTT
* *
109033166 TTTTTTATATAATTTA-TTTATTTTAAATA
1 TTTTGTATATAATTTATTTTACTTTAAATA
*
109033195 TTTTGTATATTATTTATTTTACTTTAAA
1 TTTTGTATATAATTTATTTTACTTTAAA
109033223 CCTTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTGTATATAATTTATTTTACTTTAAATA
Found at i:109033234 original size:30 final size:28
Alignment explanation
Indices: 109033167--109033234 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
109033157 TTAATCCTTT
* *
109033167 TTTTTATATAATTTATTTATTTTAAATA
1 TTTTTATATAATTTATTTACTTTAAACA
* *
109033195 TTTTGTATATTATTTATTTTACTTTAAACC
1 TTTT-TATATAATTTA-TTTACTTTAAACA
109033225 TTATTTATAT
1 TT-TTTATAT
109033235 GTAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 10 0.30
30 17 0.52
31 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTTATATAATTTATTTACTTTAAACA
Found at i:109033264 original size:12 final size:12
Alignment explanation
Indices: 109033247--109033329 Score: 63
Period size: 12 Copynumber: 7.3 Consensus size: 12
109033237 AAAAAAAATA
109033247 TTTATTTATTAT
1 TTTATTTATTAT
109033259 TTTA-TTATGTA-
1 TTTATTTAT-TAT
109033270 -TTATTTATTAT
1 TTTATTTATTAT
*
109033281 ATTATTTA-TAT
1 TTTATTTATTAT
109033292 TTTATTGTA-TA-
1 TTTATT-TATTAT
109033303 -TTATTTATTAT
1 TTTATTTATTAT
* * *
109033314 ATTATGTATAAT
1 TTTATTTATTAT
109033326 TTTA
1 TTTA
109033330 AAATTTGTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
9 2 0.03
10 12 0.20
11 16 0.27
12 29 0.49
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:109033277 original size:19 final size:19
Alignment explanation
Indices: 109033255--109033327 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
109033245 TATTTATTTA
109033255 TTATTTTATTATGTATTAT
1 TTATTTTATTATGTATTAT
109033274 TTA--TTA-TAT-TATT-T
1 TTATTTTATTATGTATTAT
* * *
109033288 ATATTTTATTGTATATTAT
1 TTATTTTATTATGTATTAT
* *
109033307 TTATTATATTATGTATAAT
1 TTATTTTATTATGTATTAT
109033326 TT
1 TT
109033328 TAAAATTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 3 0.07
15 4 0.10
16 6 0.14
17 5 0.12
18 4 0.10
19 20 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTATTTTATTATGTATTAT
Found at i:109033305 original size:33 final size:33
Alignment explanation
Indices: 109033248--109033329 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 33
109033238 AAAAAAATAT
*
109033248 TTATTTATTATTTTATTATGTATTATTTATTATA
1 TTATTTA-TATTTTATTATATATTATTTATTATA
*
109033282 TTATTTATATTTTATTGTATATTATTTATTATA
1 TTATTTATATTTTATTATATATTATTTATTATA
*
109033315 TTATGTATAATTTTA
1 TTATTTAT-ATTTTA
109033330 AAATTTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 31 0.70
34 13 0.30
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (33 bp):
TTATTTATATTTTATTATATATTATTTATTATA
Found at i:109033382 original size:15 final size:15
Alignment explanation
Indices: 109033343--109033383 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
109033333 TTTGTAAATT
109033343 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
109033358 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
109033371 ATTATTAAATATT
1 ATTATTAAATATT
109033384 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:109033673 original size:22 final size:23
Alignment explanation
Indices: 109033631--109033688 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
109033621 ATAATTTGTT
* *
109033631 TATTTATTTTTGTATGTTTTTTG
1 TATTTATTTTAGTATGTTTTTAG
109033654 TATTTA-TTTAGTAT-TGTTTTAG
1 TATTTATTTTAGTATGT-TTTTAG
109033676 TATGTTTATTTTA
1 TA--TTTATTTTA
109033689 TCTCATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 14 0.48
23 6 0.21
24 4 0.14
25 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (23 bp):
TATTTATTTTAGTATGTTTTTAG
Found at i:109033721 original size:18 final size:18
Alignment explanation
Indices: 109033698--109033732 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109033688 ATCTCATAAA
*
109033698 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
109033716 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
109033733 ATATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:109047448 original size:22 final size:22
Alignment explanation
Indices: 109047422--109047475 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
109047412 ACAATTTTTA
109047422 TTTTATTTTTCTTCACTAACAT
1 TTTTATTTTTCTTCACTAACAT
109047444 TTTTATTTTTCTTCACTAACAT
1 TTTTATTTTTCTTCACTAACAT
109047466 TTTTATTTTT
1 TTTTATTTTT
109047476 TTTAGTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTTTTCTTCACTAACAT
Found at i:109047485 original size:27 final size:25
Alignment explanation
Indices: 109047415--109047478 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 25
109047405 TATAGATACA
109047415 ATTTTTATTTTATTTTTCTTCACTAAC
1 ATTTTTATTTT-TTTTT-TTCACTAAC
*
109047442 ATTTTTA---TTTTTCTTCACTAAC
1 ATTTTTATTTTTTTTTTTCACTAAC
109047464 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
109047479 AGTTTCAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 16 0.48
23 4 0.12
24 1 0.03
25 5 0.15
27 7 0.21
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTATTTTTTTTTTTCACTAAC
Found at i:109049580 original size:3 final size:3
Alignment explanation
Indices: 109049572--109049615 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
109049562 TATCAGACTT
109049572 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
109049616 AACTACCGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:109052059 original size:26 final size:26
Alignment explanation
Indices: 109052030--109052116 Score: 147
Period size: 26 Copynumber: 3.3 Consensus size: 26
109052020 ATAATGGTAT
*
109052030 TTCCATGATAATGGATTAGGTAAATA
1 TTCCATGATAATGGATTAGGTAAATG
*
109052056 TTCCATGATAATGGGTTAGGTAAATG
1 TTCCATGATAATGGATTAGGTAAATG
*
109052082 TTCCATGATAATGGTTTAGGTAAATG
1 TTCCATGATAATGGATTAGGTAAATG
109052108 TTCCATGAT
1 TTCCATGAT
109052117 CGGCATTTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
TTCCATGATAATGGATTAGGTAAATG
Found at i:109053753 original size:27 final size:27
Alignment explanation
Indices: 109053713--109053853 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
109053703 AGGAAGCGTC
109053713 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* * *
109053740 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
109053767 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
109053794 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
109053821 TTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
109053848 CTGGTG
1 CTGGTG
109053854 ACTTCATCAC
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.10
27 84 0.87
28 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:109053795 original size:54 final size:53
Alignment explanation
Indices: 109053713--109053853 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
109053703 AGGAAGCGTC
*
109053713 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
109053767 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
109053821 TTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
109053854 ACTTCATCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:109066267 original size:15 final size:15
Alignment explanation
Indices: 109066247--109066275 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
109066237 GTATTGTTAC
109066247 TTGATAACACGGTGA
1 TTGATAACACGGTGA
109066262 TTGATAACACGGTG
1 TTGATAACACGGTG
109066276 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:109072621 original size:20 final size:20
Alignment explanation
Indices: 109072580--109072621 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
109072570 AGCACGTGTA
* *
109072580 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
109072600 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
109072620 TT
1 TT
109072622 AATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:109075870 original size:43 final size:43
Alignment explanation
Indices: 109075804--109075962 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
109075794 AGCTCGTACA
* *
109075804 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATAG
* *
109075847 ATGCC-ACTGTCCCAAACAGGGTCTTACACATAATC--ATATACG
1 ATGCCAAC-GTCCCAAACATGGTCTTACACGTAATCAAATATA-G
* * *
109075889 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACGT-AATCA-AATATAG
* *
109075933 ATGCCAACGTCCCAAACGTGGTTTTACACG
1 ATGCCAACGTCCCAAACATGGTCTTACACG
109075963 ATATCACACC
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 5 0.05
42 28 0.29
43 33 0.34
44 27 0.28
45 2 0.02
46 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATAG
Found at i:109079608 original size:19 final size:19
Alignment explanation
Indices: 109079584--109079627 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
109079574 AAGGACACAC
109079584 GGCCAAACCACATGCCCAT
1 GGCCAAACCACATGCCCAT
109079603 GGCCAAACCACATGCCCAT
1 GGCCAAACCACATGCCCAT
109079622 GTGCCA
1 G-GCCA
109079628 GGCCATGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.30, C:0.41, G:0.18, T:0.11
Consensus pattern (19 bp):
GGCCAAACCACATGCCCAT
Found at i:109085092 original size:15 final size:15
Alignment explanation
Indices: 109085072--109085131 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
109085062 TAATATAATT
109085072 AATGATATATATAAA
1 AATGATATATATAAA
109085087 AATGATATATACT-AA
1 AATGATATATA-TAAA
* *
109085102 AATCATATAGTATATA
1 AATGATATA-TATAAA
*
109085118 AATAATATATATAA
1 AATGATATATATAA
109085132 CGAATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 26 0.68
16 12 0.32
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (15 bp):
AATGATATATATAAA
Found at i:109085229 original size:17 final size:17
Alignment explanation
Indices: 109085164--109085230 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 17
109085154 AATGTATAGT
109085164 AAAATAAATAATAT-A-
1 AAAATAAATAATATAAC
*
109085179 AAAATACATATAACATATAGC
1 AAAATA-A-AT-A-ATATAAC
*
109085200 AAAAATACA-AATATAAC
1 -AAAATAAATAATATAAC
109085217 AAAATAAATAATAT
1 AAAATAAATAATAT
109085231 TATAATGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 13 0.32
18 2 0.05
19 4 0.10
20 1 0.03
22 6 0.15
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.24
Consensus pattern (17 bp):
AAAATAAATAATATAAC
Found at i:109091141 original size:28 final size:29
Alignment explanation
Indices: 109091095--109091206 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
109091085 AGGACCTGGA
* **
109091095 CACACAGGCGTGTCCTTGGCCGTGTGGTC
1 CACACAGGCGTGTCTTTGGCCGTGTGACC
*
109091124 TA-ACAGGCGTGTCTTTGGCCGTGTGACC
1 CACACAGGCGTGTCTTTGGCCGTGTGACC
* *
109091152 CACACGGGCATGTCTTTGGCCGTGTGACC
1 CACACAGGCGTGTCTTTGGCCGTGTGACC
* * * *
109091181 CACACGGGCATATCTTTGGCCATGTG
1 CACACAGGCGTGTCTTTGGCCGTGTG
109091207 GATTTCGAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.33
29 49 0.67
ACGTcount: A:0.14, C:0.29, G:0.31, T:0.26
Consensus pattern (29 bp):
CACACAGGCGTGTCTTTGGCCGTGTGACC
Found at i:109091172 original size:29 final size:29
Alignment explanation
Indices: 109091133--109091206 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
109091123 CTAACAGGCG
109091133 TGTCTTTGGCCGTGTGACCCACACGGGCA
1 TGTCTTTGGCCGTGTGACCCACACGGGCA
109091162 TGTCTTTGGCCGTGTGACCCACACGGGCA
1 TGTCTTTGGCCGTGTGACCCACACGGGCA
* *
109091191 TATCTTTGGCCATGTG
1 TGTCTTTGGCCGTGTG
109091207 GATTTCGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTCTTTGGCCGTGTGACCCACACGGGCA
Found at i:109093904 original size:11 final size:11
Alignment explanation
Indices: 109093883--109093932 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
109093873 GTCCATCTCA
109093883 TTTA-TTTTAT
1 TTTATTTTTAT
*
109093893 TTTATCTTTAT
1 TTTATTTTTAT
109093904 TTTATTTTTATT
1 TTTATTTTTA-T
109093916 TTTATTTTTAT
1 TTTATTTTTAT
109093927 TTTATT
1 TTTATT
109093933 AAACTTCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 4 0.11
11 21 0.58
12 11 0.31
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:109093912 original size:6 final size:6
Alignment explanation
Indices: 109093883--109093929 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
109093873 GTCCATCTCA
*
109093883 TTTA-T TTTA-T TTTATC TTTA-T TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
109093928 TT
1 TT
109093930 ATTAAACTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 13 0.34
6 25 0.66
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:109095581 original size:14 final size:14
Alignment explanation
Indices: 109095562--109095591 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
109095552 AAGTAACACA
109095562 TTTTAATCTCATGC
1 TTTTAATCTCATGC
109095576 TTTTAATCTCATGC
1 TTTTAATCTCATGC
109095590 TT
1 TT
109095592 AGCATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTAATCTCATGC
Found at i:109097624 original size:27 final size:27
Alignment explanation
Indices: 109097584--109097724 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
109097574 AGGAAGCGTC
*
109097584 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
109097611 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
109097637 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
109097665 CTGGTGGTTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
109097692 CTGGTGGCTCTGTCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
109097719 CTGGTG
1 CTGGTG
109097725 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:109097663 original size:54 final size:54
Alignment explanation
Indices: 109097581--109097724 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
109097571 TGGAGGAAGC
109097581 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
109097635 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGTTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
109097689 GTTCTGGTGGCTCTGTCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
109097725 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:109097733 original size:27 final size:27
Alignment explanation
Indices: 109097597--109097741 Score: 108
Period size: 27 Copynumber: 5.4 Consensus size: 27
109097587 GTGGCTATGC
*
109097597 CACAATTATCTG-ATCTGGTGGC-TCTGC
1 CACAA-TATCTGTATCTGGT-GCTTCTGT
* * *
109097624 CACATATATCTGT-CCTGGTGGC-TATGC
1 CACA-ATATCTGTATCTGGT-GCTTCTGT
* *
109097651 CACAATTATCTG-ATCTGGTGGTTCTGC
1 CACAA-TATCTGTATCTGGTGCTTCTGT
109097678 CACATATATCTGT-TCTGGTGGC-TCTGT
1 CACA-ATATCTGTATCTGGT-GCTTCTGT
109097705 CACAATATCTGTATCTGGTGACTTC-GT
1 CACAATATCTGTATCTGGTG-CTTCTGT
109097732 CACAATATCT
1 CACAATATCT
109097742 AGCAGCCTCG
Statistics
Matches: 100, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
26 11 0.11
27 84 0.84
28 5 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
CACAATATCTGTATCTGGTGCTTCTGT
Found at i:109097736 original size:81 final size:80
Alignment explanation
Indices: 109097584--109097741 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
109097574 AGGAAGCGTC
*
109097584 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
109097649 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * * *
109097665 CTGGTGGTTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGTCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
109097728 -TCGTCACAATATCT
64 AT-GCCACAATATCT
109097742 AGCAGCCTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:109101177 original size:17 final size:16
Alignment explanation
Indices: 109101155--109101257 Score: 53
Period size: 17 Copynumber: 6.6 Consensus size: 16
109101145 AGTGGTTATC
109101155 TTAATATTAAATTTAAT
1 TTAATATT-AATTTAAT
*
109101172 TTAATA-T-ATTTTA-
1 TTAATATTAATTTAAT
109101185 TTAAT-TTAA--TAGAT
1 TTAATATTAATTTA-AT
109101199 TTAATATTAAATTTAAT
1 TTAATATT-AATTTAAT
* * *
109101216 CTAATATTTATCTTGA-
1 TTAATATTAAT-TTAAT
109101232 -TAAGTATT-ATATTAAT
1 TTAA-TATTAAT-TTAAT
109101248 TTAATATTAA
1 TTAATATTAA
109101258 AGTGATTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
12 1 0.02
13 7 0.11
14 11 0.17
15 10 0.15
16 13 0.20
17 22 0.33
18 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (16 bp):
TTAATATTAATTTAAT
Found at i:109101190 original size:18 final size:19
Alignment explanation
Indices: 109101167--109101215 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
109101157 AATATTAAAT
*
109101167 TTAATTTAATATATTT-TA
1 TTAATTTAATAGATTTATA
109101185 TTAATTTAATAGATTTAATA
1 TTAATTTAATAGATTT-ATA
109101205 TTAAATTTAAT
1 TT-AATTTAAT
109101216 CTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 15 0.56
20 4 0.15
21 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAATTTAATAGATTTATA
Found at i:109106969 original size:44 final size:42
Alignment explanation
Indices: 109106890--109106995 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 42
109106880 TGGCTGAATA
* * * *
109106890 AATGGCACTATGTGTGCGATACCGATATTAATTCGGTTTATTGT
1 AATGGCACTAAGTGTGCGATACCAATATTAATTCGG-CTACT-T
* * *
109106934 AATGGCACTAAGTGTGTGATACTAATA-TAGCTTCGGCTACTT
1 AATGGCACTAAGTGTGCGATACCAATATTA-ATTCGGCTACTT
109106976 AATTGGCACTAAGTGTGCGA
1 AA-TGGCACTAAGTGTGCGA
109106996 GTTACTACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.06
43 21 0.40
44 28 0.54
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (42 bp):
AATGGCACTAAGTGTGCGATACCAATATTAATTCGGCTACTT
Found at i:109107004 original size:30 final size:30
Alignment explanation
Indices: 109106970--109107028 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
109106960 ATAGCTTCGG
*
109106970 CTACTTAATTGGCACTAAGTGTGCGAGTTA
1 CTACTTAATTGGCACTAAGTGCGCGAGTTA
109107000 CTACTTAATTGGCACTAAGTGCGCGAGTT
1 CTACTTAATTGGCACTAAGTGCGCGAGTT
109107029 CATTGAACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
CTACTTAATTGGCACTAAGTGCGCGAGTTA
Found at i:109110276 original size:26 final size:26
Alignment explanation
Indices: 109110247--109110302 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
109110237 TGATAAAAAT
109110247 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109110273 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109110299 TGAT
1 TGAT
109110303 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109114498 original size:20 final size:21
Alignment explanation
Indices: 109114422--109114498 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 21
109114412 ACATACAAAA
*
109114422 ATACA-AT-AAAATAATTAAT
1 ATACATATAAAAATAAATAAT
* *
109114441 ATATATATAAAAATATATAAT
1 ATACATATAAAAATAAATAAT
*
109114462 ATA-ATATAAATGGAATAAATAAC
1 ATACATATAAA---AATAAATAAT
109114485 ATACA-ATAAAAATA
1 ATACATATAAAAATA
109114499 TGACATATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.09
20 13 0.28
21 13 0.28
23 16 0.34
24 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
ATACATATAAAAATAAATAAT
Found at i:109114576 original size:23 final size:23
Alignment explanation
Indices: 109114550--109114593 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
109114540 ATAAATAAAA
*
109114550 TAATATATTATTA-TATATATAAC
1 TAATAT-TTATAAGTATATATAAC
*
109114573 TAATGTTTATAAGTATATATA
1 TAATATTTATAAGTATATATA
109114594 TATATAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATTTATAAGTATATATAAC
Found at i:109116222 original size:44 final size:44
Alignment explanation
Indices: 109116174--109116754 Score: 376
Period size: 44 Copynumber: 13.2 Consensus size: 44
109116164 TCTATTATTC
**
109116174 TCGATCTGCTCTCTGCCAATACAGAGACACCAAATCTGCTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* *
109116218 TCGATCTGCTCTCTACCAATACAGAGACGCCAAA--T-C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * ** * * * *
109116258 TAGATTTGCT-TCAACGTAA-ACACATGAAAGCCAAATCAGCTATATCT
1 TCGATCTGCTCTCTGC-CAATACAGA-G-ATGCCAAATCTGC--TATCT
* *
109116305 TCGATCTGTTCTCCGCCGAATACAGAGATGCCAAATCTG-TCATCT
1 TCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGCT-ATCT
* * * * *
109116350 TTGATTTGCTTTCTACCAATACAGAGATACCAAATCTGCTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
*
109116394 TCGATCTGCTCTCTGCCAATATAGAGATGCCAAA--T-C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * * * **
109116434 TAGA-CTTGCT-TCAATG-TAA-ACACGTGGAAGCCAAATCAACTATGTCT
1 TCGATC-TGCTCTC--TGCCAATACA-G-AGATGCCAAATCTGCTA--TCT
* * *
109116481 TCGATCTTCTCTCCGCCGAATACAAAGATGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGCTATCT
* * *
109116526 TTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * *
109116570 TCGATCTGCTCTCTGCCAATACAGAGATGTCAAATCTGGTATAT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* *
109116614 TCGATCTGCTCTCCGCCAATACAGAGATGTCAAA-C--C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * * ** * * * *
109116654 TAGATTTGCTTTAAC-GTAAATGC-GTGAAAGCCAAATCAGCTATGTCT
1 TCGATCTGCTCT--CTGCCAATACAGAG-ATGCCAAATCTGCTA--TCT
* * * *
109116701 TCGATCTGTTCCCTGCCAATACAGAGATGCCAAATCTGTTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
*
109116745 TGGATCTGCT
1 TCGATCTGCT
109116755 TCGATGTAAA
Statistics
Matches: 412, Mismatches: 84, Indels: 82
0.71 0.15 0.14
Matches are distributed among these distances:
39 13 0.03
40 43 0.10
41 30 0.07
42 4 0.01
43 1 0.00
44 195 0.47
45 36 0.09
46 17 0.04
47 55 0.13
48 11 0.03
49 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
Found at i:109116484 original size:176 final size:176
Alignment explanation
Indices: 109116176--109116605 Score: 666
Period size: 176 Copynumber: 2.4 Consensus size: 176
109116166 TATTATTCTC
* *
109116176 GATCTGCTCTCTGCCAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTACCAATACA
1 GATCTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
* * *
109116241 GAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATATCTT
66 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATATCTT
*
109116306 CGATCTGT-TCTCCGCCGAATACAGAGATGCCAAATCTG-TCATCTTT
131 CGATCT-TCTCTCCGCCGAATACAAAGATGCCAAATCTGCT-ATCTTT
* * * *
109116352 GATTTGCTTTCTACCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATATA
1 GATCTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
* * * *
109116417 GAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACACGTGGAAGCCAAATCAACTATGTCTT
66 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATATCTT
109116482 CGATCTTCTCTCCGCCGAATACAAAGATGCCAAATCTGCTATCTTT
131 CGATCTTCTCTCCGCCGAATACAAAGATGCCAAATCTGCTATCTTT
* * *
109116528 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTGTCTTCGATCTGCTCTCTGCCAATACA
1 GATCTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
*
109116593 GAGATGTCAAATC
66 GAGATGCCAAATC
109116606 TGGTATATTC
Statistics
Matches: 230, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 228 0.99
177 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (176 bp):
GATCTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATATCTT
CGATCTTCTCTCCGCCGAATACAAAGATGCCAAATCTGCTATCTTT
Found at i:109116562 original size:220 final size:220
Alignment explanation
Indices: 109116300--109116754 Score: 610
Period size: 220 Copynumber: 2.1 Consensus size: 220
109116290 AAATCAGCTA
* * * *
109116300 TATCTTCGATCTGTTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATTTGCTTTCTA
1 TATCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTA
* * * *
109116365 CCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATATAGAGATGCCAAATC
66 CCAATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAACC
* *
109116430 ATCTTAGACTTGCTTCAATGTAAACACGTGGAAGCCAAATCAACTATGTCTTCGATCT-TCTCTC
131 ATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGT-TC-C
109116494 C-GCCGAATACAAAGATGCCAAATCTGC
194 CTGCC-AATACAAAGATGCCAAATCTGC
* * ** *
109116521 TATCTTTGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGTTGTCTTCGATCTGCTCTCTG
1 TATCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTA
** * *
109116585 CCAATACAGAGATGTCAAATCTGGTATATTCGATCTGCTCTCCGCCAATACAGAGATGTCAAACC
66 CCAATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAACC
* * ** *
109116650 ATCTTAGATTTGCTTTAACGTAAATGCGTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTCCCT
131 ATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGTTCCCT
* *
109116715 GCCAATACAGAGATGCCAAATCTGT
196 GCCAATACAAAGATGCCAAATCTGC
* *
109116740 TGTCTTGGATCTGCT
1 TATCTTCGATCTGCT
109116755 TCGATGTAAA
Statistics
Matches: 204, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
219 35 0.17
220 149 0.73
221 20 0.10
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (220 bp):
TATCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTA
CCAATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAACC
ATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGTTCCCT
GCCAATACAAAGATGCCAAATCTGC
Found at i:109117709 original size:7 final size:6
Alignment explanation
Indices: 109117694--109117751 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 6
109117684 GGCCTCTCTA
*
109117694 TTTTTC TTTTTCC TTTTTTC TTTTTT TCTTTTC -TTTTC -TTTTC -TTTTC
1 TTTTTC TTTTT-C -TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC
109117742 TTTTT- TTTTT
1 TTTTTC TTTTT
109117752 TTGAAATCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
5 20 0.43
6 15 0.33
7 6 0.13
8 5 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:109117713 original size:8 final size:7
Alignment explanation
Indices: 109117694--109117753 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
109117684 GGCCTCTCTA
109117694 TTTTTCT
1 TTTTTCT
*
109117701 TTTTCCT
1 TTTTTCT
109117708 TTTTTCT
1 TTTTTCT
109117715 TTTTT-T
1 TTTTTCT
*
109117721 CTTTTCT
1 TTTTTCT
109117728 TTTCTT-T
1 TTT-TTCT
109117735 TCTTTTCT
1 T-TTTTCT
109117743 TTTTT-T
1 TTTTTCT
109117749 TTTTT
1 TTTTT
109117754 GAAATCTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
6 11 0.24
7 28 0.62
8 6 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:109117717 original size:5 final size:5
Alignment explanation
Indices: 109117709--109117753 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
109117699 CTTTTTCCTT
109117709 TTTTC -TTT- TTTTC TTTTC TTTTC TTTTC TTTTC TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
109117754 GAAATCTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 14 0.37
5 24 0.63
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (5 bp):
TTTTC
Found at i:109130716 original size:19 final size:19
Alignment explanation
Indices: 109130692--109130782 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
109130682 ATAATCTTCA
109130692 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109130711 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109130730 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109130747 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109130765 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
109130783 ATATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Done.