Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 60 of 207
Found at i:17365094 original size:11 final size:10
Alignment explanation
Indices: 17365078--17365105 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17365068 TGTTATTTTA
17365078 TTTTTTTGTT
1 TTTTTTTGTT
17365088 TTTTTTTGTT
1 TTTTTTTGTT
17365098 TTTTTTTG
1 TTTTTTTG
17365106 CCTCCACTGT
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:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:17369918 original size:20 final size:19
Alignment explanation
Indices: 17369893--17369940 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
17369883 GTAATAAATT
17369893 ATATAAATAATA-ATAGTAAA
1 ATATAAATAATACATA--AAA
*
17369913 ATATAAA-AGTACATAAAA
1 ATATAAATAATACATAAAA
17369931 ATATAAATAA
1 ATATAAATAA
17369941 ATGAACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 10 0.42
19 4 0.17
20 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
ATATAAATAATACATAAAA
Found at i:17376177 original size:22 final size:23
Alignment explanation
Indices: 17376124--17376179 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
17376114 TTTAATTAAA
* * *
17376124 ATTAAAATTAAAATTAGTTTTTT
1 ATTAAAATTAAAACTAGATTGTT
*
17376147 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTAGATTGTT
17376169 ATTAAAATTAA
1 ATTAAAATTAA
17376180 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAACTAGATTGTT
Found at i:17376192 original size:16 final size:16
Alignment explanation
Indices: 17376155--17376194 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
17376145 TTAATAAAAT
* *
17376155 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
17376171 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
17376187 TAAAATTA
1 TAAAATTA
17376195 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:17376273 original size:59 final size:59
Alignment explanation
Indices: 17376205--17376433 Score: 431
Period size: 59 Copynumber: 3.9 Consensus size: 59
17376195 TCAAATTATT
*
17376205 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
17376264 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
17376323 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
* *
17376382 AATTATTTATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
17376434 ACAAACTTGA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 167 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:17376529 original size:24 final size:23
Alignment explanation
Indices: 17376500--17376544 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
17376490 AAATAAACTT
*
17376500 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAAATA-TATATTTTA
17376524 AAAATAAAAAAATATATATTT
1 AAAATAAAAAAATATATATTT
17376545 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAAAAAATATATATTTTA
Found at i:17382711 original size:14 final size:14
Alignment explanation
Indices: 17382694--17382744 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
17382684 AATAATAACC
17382694 AAATTTATTTAGTT
1 AAATTTATTTAGTT
*
17382708 AAATTTAATTA-TT
1 AAATTTATTTAGTT
17382721 AATCAATTTATTTAGTT
1 -A--AATTTATTTAGTT
17382738 AAATTTA
1 AAATTTA
17382745 ATTATTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (14 bp):
AAATTTATTTAGTT
Found at i:17382730 original size:30 final size:30
Alignment explanation
Indices: 17382695--17382759 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
17382685 ATAATAACCA
17382695 AATTTATTTAGTTAAATTTAATTATTAATC
1 AATTTATTTAGTTAAATTTAATTATTAATC
17382725 AATTTATTTAGTTAAATTTAATTATTAATC
1 AATTTATTTAGTTAAATTTAATTATTAATC
17382755 -ATTTA
1 AATTTA
17382760 CTATAAGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
AATTTATTTAGTTAAATTTAATTATTAATC
Found at i:17386366 original size:13 final size:13
Alignment explanation
Indices: 17386348--17386372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17386338 TACGCATTTC
17386348 TTTTATTTTATTA
1 TTTTATTTTATTA
17386361 TTTTATTTTATT
1 TTTTATTTTATT
17386373 TCTAGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:17389755 original size:17 final size:17
Alignment explanation
Indices: 17389733--17389768 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17389723 ACTAAAGAAC
17389733 AAGAAAGGAAAATAATT
1 AAGAAAGGAAAATAATT
17389750 AAGAAAGGAAAATAATT
1 AAGAAAGGAAAATAATT
17389767 AA
1 AA
17389769 AGTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (17 bp):
AAGAAAGGAAAATAATT
Found at i:17392237 original size:23 final size:24
Alignment explanation
Indices: 17392209--17392253 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17392199 GTAAAGTATT
*
17392209 AAAATAAAAACTAT-TATATTTTA
1 AAAATAAAAAATATATATATTTTA
17392232 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATATATATATTT
17392254 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAAAAAATATATATATTTTA
Found at i:17392518 original size:27 final size:28
Alignment explanation
Indices: 17392467--17392520 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
17392457 ACATGAATTT
* *
17392467 TTTCATAAATTTTGTCATGCTAAATAAA
1 TTTCATAAAATTTATCATGCTAAATAAA
17392495 TTTCATAAAATTTAT-ATGCTAAATAA
1 TTTCATAAAATTTATCATGCTAAATAA
17392521 CATAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTCATAAAATTTATCATGCTAAATAAA
Found at i:17392677 original size:10 final size:11
Alignment explanation
Indices: 17392636--17392711 Score: 63
Period size: 10 Copynumber: 7.1 Consensus size: 11
17392626 TTCCTCCCCT
17392636 CTTCTTC-TT-
1 CTTCTTCTTTC
*
17392645 CTTCTTTTTTTC
1 CTTC-TTCTTTC
*
17392657 TCTTCTCCTTTC
1 -CTTCTTCTTTC
17392669 CTT-TTCTTTC
1 CTTCTTCTTTC
17392679 CTTCTT-TTTC
1 CTTCTTCTTTC
*
17392689 TTTCTTTCTTT-
1 CTTC-TTCTTTC
17392700 CTTCTTCTTTC
1 CTTCTTCTTTC
17392711 C
1 C
17392712 CTCTCCTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 4 0.08
10 24 0.45
11 13 0.25
12 8 0.15
13 4 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTCTTCTTTC
Found at i:17392692 original size:18 final size:18
Alignment explanation
Indices: 17392639--17392710 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
17392629 CTCCCCTCTT
*
17392639 CTTCTTCTTCTTTTTTTC
1 CTTCTTCTTCTTTCTTTC
*
17392657 TCTTCTCCTTTCCTTTTCTTTC
1 -CTTCTTC-TT-C-TTTCTTTC
*
17392679 CTTCTTTTTCTTTCTTTC
1 CTTCTTCTTCTTTCTTTC
*
17392697 TTTCTTCTTCTTTC
1 CTTCTTCTTCTTTC
17392711 CCTCTCCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 20 0.45
19 7 0.16
20 4 0.09
21 6 0.14
22 7 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTTCTTCTTTCTTTC
Found at i:17392710 original size:14 final size:14
Alignment explanation
Indices: 17392640--17392710 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
17392630 TCCCCTCTTC
*
17392640 TTCTTCTTCTTTTT
1 TTCTTCTTCTTTCT
*
17392654 TTC-TCTTC-TCCT
1 TTCTTCTTCTTTCT
*
17392666 TTCCTT-TTCTTTCC
1 TT-CTTCTTCTTTCT
*
17392680 TTCTTTTTCTTTCT
1 TTCTTCTTCTTTCT
17392694 TTCTTTCTTC-TTCT
1 TTC-TTCTTCTTTCT
17392708 TTC
1 TTC
17392711 CCTCTCCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
12 4 0.09
13 12 0.26
14 25 0.54
15 5 0.11
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTCTTCTTTCT
Found at i:17392710 original size:32 final size:32
Alignment explanation
Indices: 17392608--17392711 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
17392598 AAATTACCTT
* * * * **
17392608 TTCTTTCTTTCTTTTTCCTTCCTCCCCTCTTC
1 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
17392640 TTC-TT-CTTCTTTTT-TTCTCTTCTCCTTTCCTT-
1 TTCTTTCCTTCTTTTTCTT-TCTT-T-CTTT-CTTC
17392672 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
1 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
17392704 TTCTTTCC
1 TTCTTTCC
17392712 CTCTCCTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
29 1 0.02
30 11 0.19
31 5 0.09
32 20 0.34
33 6 0.10
34 13 0.22
35 2 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (32 bp):
TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
Found at i:17393735 original size:17 final size:17
Alignment explanation
Indices: 17393709--17393742 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
17393699 TAATTTATCA
17393709 AAATTAATTATTTTAAAT
1 AAATTAATTA-TTTAAAT
17393727 AAATT-ATTATTTAAAT
1 AAATTAATTATTTAAAT
17393743 TTGAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTAATTATTTAAAT
Found at i:17394688 original size:22 final size:22
Alignment explanation
Indices: 17394660--17394710 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
17394650 CTCTCTAATC
*
17394660 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
17394682 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
17394704 CTCTCAA
1 CTCTCAA
17394711 ACTCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:17394797 original size:29 final size:31
Alignment explanation
Indices: 17394755--17394819 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
17394745 TCTCAAATCC
*
17394755 ATTTTTTTAAAATAATTAT-AA-TTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
*
17394784 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
17394815 ATTTT
1 ATTTT
17394820 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.53
30 2 0.06
31 13 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTATAAATTTTTTTAT
Found at i:17395911 original size:7 final size:7
Alignment explanation
Indices: 17395899--17395923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17395889 AGTTGATTGA
17395899 TATTTAG
1 TATTTAG
17395906 TATTTAG
1 TATTTAG
17395913 TATTTAG
1 TATTTAG
17395920 TATT
1 TATT
17395924 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:17396596 original size:18 final size:18
Alignment explanation
Indices: 17396575--17396609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17396565 AGGTATGTTT
* *
17396575 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
17396593 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
17396610 TCCTTTTCCG
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:17396901 original size:24 final size:24
Alignment explanation
Indices: 17396868--17396923 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
17396858 ATGCGGAACC
* *
17396868 GGAAGAACCACAACCACTACCGAA
1 GGAAGAACCACAACCACCACCAAA
* *
17396892 GGAAGGACCACAATCACCACCAAA
1 GGAAGAACCACAACCACCACCAAA
17396916 GGAAGAAC
1 GGAAGAAC
17396924 AATCGCCGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.30, G:0.20, T:0.04
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAAA
Found at i:17397194 original size:28 final size:28
Alignment explanation
Indices: 17397160--17397976 Score: 998
Period size: 28 Copynumber: 28.4 Consensus size: 28
17397150 TAACCTAACA
*
17397160 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397188 CTAACCTAAATTAACTAAAAACCCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397216 CTAACCCTAACCTAATTAACTAAAAACCCTAAT
1 CTAA-CCT-A---AATTAATTAAAAACCCTAAT
17397249 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397277 CTAACCTAAATTAACTAAAAA-CC----
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397300 CTAACCTAAATTAACTAAAAACCCTAATCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
*
17397330 AACCCTAACCTAAATTAACTAAAAACCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
17397362 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
17397390 CTAACCTAATTTAATTTAAAATCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397418 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
* **
17397447 CTAACTTAAATTAATTAAAAAATCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397475 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397503 CTAACCTAAATTAATTAAAAACTCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397531 CTAACCTAAATTAACTAAAAACCTTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397559 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
17397588 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397616 CTAACCTAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
*
17397646 AACCTTAACCTAAATTAACTAAAAACCCTAAT
1 ---C-TAACCTAAATTAATTAAAAACCCTAAT
*
17397678 CTAACCTAAATTAATTAAAAACCCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397706 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
17397734 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397762 CTAAACTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
17397790 CTAACCTAAATTAATTTAAAACCTTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
17397819 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
17397847 CTAACATAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
*
17397877 AACCCTAACCTAAATTAATT-AAAATCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
*
17397908 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
17397937 CTAACCTAAATTAATTAAAAACCCTAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
17397965 CTAACCTAAATT
1 CTAACCTAAATT
17397977 TTTTTGGCTT
Statistics
Matches: 695, Mismatches: 61, Indels: 66
0.85 0.07 0.08
Matches are distributed among these distances:
23 21 0.03
24 2 0.00
27 18 0.03
28 441 0.63
29 103 0.15
30 3 0.00
31 2 0.00
32 5 0.01
33 33 0.05
34 67 0.10
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:17397356 original size:17 final size:17
Alignment explanation
Indices: 17397302--17397356 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
17397292 TAAAAACCCT
17397302 AACCTAAATTAACTAAA
1 AACCTAAATTAACTAAA
***
17397319 AACCCT-AATCTAAC-CCT
1 AA-CCTAAAT-TAACTAAA
17397336 AACCTAAATTAACTAAA
1 AACCTAAATTAACTAAA
17397353 AACC
1 AACC
17397357 CTAATCTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 7 0.25
17 14 0.50
18 7 0.25
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (17 bp):
AACCTAAATTAACTAAA
Found at i:17397377 original size:113 final size:112
Alignment explanation
Indices: 17397160--17397976 Score: 827
Period size: 113 Copynumber: 7.1 Consensus size: 112
17397150 TAACCTAACA
*
17397160 CTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATTAACTAAAAACCCTAACCTAACCCTA
1 CTAACCTAAATTAATT-AAAAACC----CTAACCTAAATTAACTAAAAACCCTAATCTAA-CCTA
* *
17397225 ACCT-AATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAT
60 ACCTAAATTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAAT
*
17397277 CTAACCTAAATTAACTAAAAACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAACCTAAATTAACTAAAAACCCTAATCTAA-CCTAACCTA
* *
17397342 AATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAT
65 AATTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAAT
* * * *
17397390 CTAACCTAATTTAATTTAAAATCCTAATCTAACCTAAATTAATTTAAAACCCTAA-C---CCTAA
1 CTAACCTAAATTAA-TTAAAAACC----CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
* ** * *
17397451 CTTAAATTAATTAAAAAATCTAATCTAACCTAAATTAACTAAAAACCCTAAT
61 CCTAAATTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAAT
*
17397503 CTAACCTAAATTAATTAAAAACTCTAACCTAACCTAAATTAACTAAAAA-CC---T-TAATCTAA
1 CTAACCTAAATTAATTAAAAA--C---CCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
* *
17397563 CCTAAATTAATTTAAAACCCTAACCCTAACCTAAATTAATTAAAAAACCTAAT
61 CCTAAATTAATTAAAAACCCTAA-CCTAACCTAAATTAATTAAAAACCCTAAT
* * *** * *
17397616 CTAACCTAAATTAACTAAAAACCCTAACCTAACCTTAACCTAAATTAACTAAAAACCCTAATCTA
1 CTAACCTAAATTAATTAAAAACCCTAACCTAA-ATTAA-CTAAA--AAC-CCTAA-TCTAACCTA
*
17397681 ACCTAAATTAATTAAAAACCCTAACCTAACCTAAATTAACTAAAAACCCTAAT
60 ACCTAAATTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAAT
* * *
17397734 CTAACCTAAATTAATTTAAAACCCTAATCTAAACTAAATTAATTTAAAACCCTAA--T---CTAA
1 CTAACCTAAATTAATTAAAAACCCTAA-C----CTAAATTAACTAAAAACCCTAATCTAACCTAA
* * *
17397794 CCTAAATTAATTTAAAACCTTAACCCTAACCTAAATTAATTAAAAAACCTAAT
61 CCTAAATTAATTAAAAACCCTAA-CCTAACCTAAATTAATTAAAAACCCTAAT
* * ** **** *
17397847 CTAACATAAATTAACTAAAAACCCTAACCTAACCCTAACCTAAATTAATTAAAATCCTAATCTAA
1 CTAACCTAAATTAATTAAAAACCCTAACCTAA-ATTAA-CTAAA--AACCCTAAT-CTAACCTAA
*
17397912 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
61 CCTAAATTAATTAAAAACCCT-AACCTAACCTAAATTAATTAAAAACCCTAAT
17397965 CTAACCTAAATT
1 CTAACCTAAATT
17397977 TTTTTGGCTT
Statistics
Matches: 596, Mismatches: 60, Indels: 87
0.80 0.08 0.12
Matches are distributed among these distances:
108 14 0.02
109 7 0.01
110 8 0.01
111 1 0.00
112 103 0.17
113 242 0.41
114 8 0.01
115 2 0.00
116 7 0.01
117 17 0.03
118 140 0.23
119 36 0.06
121 3 0.01
122 4 0.01
123 4 0.01
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (112 bp):
CTAACCTAAATTAATTAAAAACCCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAACCTAA
ATTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAAT
Found at i:17397391 original size:141 final size:139
Alignment explanation
Indices: 17397160--17397976 Score: 863
Period size: 141 Copynumber: 5.7 Consensus size: 139
17397150 TAACCTAACA
* *
17397160 CTAACCTAAATTAATTAAAAAACCTAA--T--CTAACCTAAATTAACTAAAAACCCTAACCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACTAACCTAAATTAACTAAAAACCCTAATCTAA-
*
17397221 CCTAACCTAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
65 CCT-A---AATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
17397286 ATTAACTAAAAACC
126 ATTAACTAAAAACC
*
17397300 CTAACCTAAATTAACTAAAAACCCTAATCTAACCCTAACCTAAATTAACTAAAAACCCTAATCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAA--CTAACCTAAATTAACTAAAAACCCTAATCTA
* * *
17397365 ACCTAAATTAATTAAAAACCCTAATCTAACCTAATTTAATTTAAAATCCTAATCTAACCTAAATT
64 ACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
* *
17397430 AATTTAAAACC
129 AACTAAAAACC
* *
17397441 CTAACCCTAACTTAAATTAATTAAA---AAATCTAATCTAACCTAAATTAACTAAAAACCCTAAT
1 CTAA-CCTAAATT-AATTAA--AAACCCTAATCTAA-CTAACCTAAATTAACTAAAAACCCTAAT
* * * *
17397503 CTAACCTAAATTAATTAAAAACTCTAACCTAACCTAAATTAACTAAAAACCTTAATCTAACCTAA
61 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
*
17397568 ATTAATTTAAAACCCTAACC
126 ATTAA-CT-AAA----AACC
*
17397588 CTAACCTAAATTAATTAAAAAACCTAA--T--CTAACCTAAATTAACTAAAAACCCTAACCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACTAACCTAAATTAACTAAAAACCCTAA--T---
* *
17397649 CTTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAACCTAACCTA
61 C-TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTA
17397714 AATTAACTAAAAACCC
125 AATTAACTAAAAA-CC
* * *
17397730 TAATCTAACCTAAATTAATTTAAAACCCTAATCT-A--AA-CTAAATTAATTTAAAACCCTAATC
1 ----CTAACCTAAATTAATTAAAAACCCTAATCTAACTAACCTAAATTAACTAAAAACCCTAATC
* * * * *
17397791 TAACCTAAATTAATTTAAAACCTTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACATAA
62 TAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
17397856 ATTAACTAAAAACC
126 ATTAACTAAAAACC
** * **** *
17397870 CTAACCTAACCCTAACCTAAATTAATTAAAATCCTAATCTAACCTAAATTAATTAAAAACCCTAA
1 CTAACCTAA-ATTAA-TTAAA--AACCCTAAT-CTAA-CTAACCTAAATTAACTAAAAACCCT-A
* *
17397935 ACCTAACCTAAATTAATTAAAAACCCTAAACTAACCTAAATT
59 ATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
17397977 TTTTTGGCTT
Statistics
Matches: 578, Mismatches: 54, Indels: 84
0.81 0.08 0.12
Matches are distributed among these distances:
136 9 0.02
137 3 0.01
138 3 0.01
140 55 0.10
141 238 0.41
142 20 0.03
143 11 0.02
144 3 0.01
145 17 0.03
146 118 0.20
147 100 0.17
148 1 0.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.27
Consensus pattern (139 bp):
CTAACCTAAATTAATTAAAAACCCTAATCTAACTAACCTAAATTAACTAAAAACCCTAATCTAAC
CTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAA
CTAAAAACC
Found at i:17398014 original size:26 final size:26
Alignment explanation
Indices: 17397974--17398030 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
17397964 ACTAACCTAA
*
17397974 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGATTAATAATTTTACAT
17398000 ATTTTTTTGGATTAATAATTTTACAT
1 ATTTTTTTGGATTAATAATTTTACAT
17398026 ATTTT
1 ATTTT
17398031 GAACACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTTTGGATTAATAATTTTACAT
Found at i:17398087 original size:55 final size:57
Alignment explanation
Indices: 17398002--17398132 Score: 137
Period size: 55 Copynumber: 2.4 Consensus size: 57
17397992 TTTTACATAT
* * *
17398002 TTTTTTGGA-TTAATAATTTTACATATTTTGA-ACACTTTAATAACCATTAACACAA
1 TTTTTTGGACTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
* * ** *
17398057 -TTTTTGGACTTAATAATTTGAGAT-TATTTGATAAATTTTTCTAACCATTAAGAAAA
1 TTTTTTGGACTTAATAATTTGACATAT-TTTGATAAACTTTAATAACCATTAACAAAA
17398113 TTGTTTTGG-CTTAATAATTT
1 TT-TTTTGGACTTAATAATTT
17398133 TATATAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
54 9 0.14
55 18 0.29
56 18 0.29
57 12 0.19
58 6 0.10
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (57 bp):
TTTTTTGGACTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
Found at i:17408110 original size:11 final size:11
Alignment explanation
Indices: 17408088--17408127 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
17408078 AACTAATCCT
17408088 CTCTCAAATTTC
1 CTCTC-AATTTC
17408100 CTCTCAATTTC
1 CTCTCAATTTC
17408111 CTCTCAATTTC
1 CTCTCAATTTC
17408122 CT-TCAA
1 CTCTCAA
17408128 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:17408207 original size:12 final size:12
Alignment explanation
Indices: 17408168--17408210 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
17408158 TTAACTCCCT
17408168 TTTTTAAAAATA
1 TTTTTAAAAATA
* *
17408180 ATTTTAAAACTA
1 TTTTTAAAAATA
17408192 TTTTTAAAAAT-
1 TTTTTAAAAATA
17408203 TTTTTAAA
1 TTTTTAAA
17408211 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:17409323 original size:7 final size:7
Alignment explanation
Indices: 17409311--17409335 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17409301 AGTCGATTGA
17409311 TATTTAG
1 TATTTAG
17409318 TATTTAG
1 TATTTAG
17409325 TATTTAG
1 TATTTAG
17409332 TATT
1 TATT
17409336 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:17410473 original size:25 final size:26
Alignment explanation
Indices: 17410444--17410496 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
17410434 TATTTTGATA
17410444 TTATTTGATGTAATAAAATA-AAATT
1 TTATTTGATGTAATAAAATAGAAATT
17410469 TTATTTGATGTAATAAAATAGAAATT
1 TTATTTGATGTAATAAAATAGAAATT
17410495 TT
1 TT
17410497 TGATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (26 bp):
TTATTTGATGTAATAAAATAGAAATT
Found at i:17410563 original size:23 final size:23
Alignment explanation
Indices: 17410537--17411485 Score: 859
Period size: 23 Copynumber: 41.7 Consensus size: 23
17410527 AATACCCTTA
*
17410537 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
17410560 AATTAAAAATCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
17410582 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
17410604 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
17410628 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
**
17410651 AATTAAAAACTTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
17410673 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
17410696 AATTAAAAACCCTCAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
17410718 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
17410740 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
17410764 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17410787 AATTAAAAACCCTAAACCTTAA---
1 AATTAAAAACCCT-AACC-TAATTT
*
17410809 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17410832 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
17410855 AATTAAAAACCCCAAACCTTAA---
1 AATTAAAAA-CCCTAACC-TAATTT
* *
17410877 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
17410900 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17410923 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
17410945 ACTTAAAAAACCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
17410967 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
17410991 AATTAAAAACCTTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17411014 AATT-AAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
17411035 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17411058 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
17411080 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
17411103 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
17411126 AATTAAAAACCCAAAACCCAA---
1 AATTAAAAACCC-TAACCTAATTT
*
17411147 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
17411171 AATT-AAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
*
17411193 AATTAAAAACCCTAAACCCTAAACTT
1 AATTAAAAACCCT-AA-CCT-AATTT
* *
17411219 AA-AAACCCTAAACCCTAACCTAA-TG
1 AATTAA----AAACCCTAACCTAATTT
*
17411244 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
17411268 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
17411291 AATTAAAAATCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
17411313 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
17411336 AATTAAAAACCCTAAACCTAA---
1 AATTAAAAACCCT-AACCTAATTT
* * *
17411357 ACTTAAAAACCCTAAACTAATTC
1 AATTAAAAACCCTAACCTAATTT
*
17411380 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
17411402 ATTTAAAAACCCTAACTTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
17411425 AATTAAAAATCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
17411448 AATTAAAAACCCTAACATAATTA
1 AATTAAAAACCCTAACCTAATTT
17411471 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
17411486 ACCCTAAACC
Statistics
Matches: 781, Mismatches: 70, Indels: 150
0.78 0.07 0.15
Matches are distributed among these distances:
20 48 0.06
21 50 0.06
22 147 0.19
23 408 0.52
24 59 0.08
25 48 0.06
26 7 0.01
27 5 0.01
28 2 0.00
29 7 0.01
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:17410596 original size:45 final size:45
Alignment explanation
Indices: 17410530--17411601 Score: 970
Period size: 45 Copynumber: 23.7 Consensus size: 45
17410520 AACCATTAAT
* * *
17410530 ACCCTTAAA-TTAAAAATCCTAACCTAATTTAATTAAAAATCTTAA
1 ACCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
***
17410575 ACCCTAAACTTAAAAACCCTAACC-CCCTTAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
* **
17410619 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACTTTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
17410666 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTCA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
17410711 ACCCTAAACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
*
17410755 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
17410802 ACCTTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
17410846 A-CCTAATTTAATTAAAAACCCCAAACCTTAA---ACTTAAAAACCCT-A
1 ACCCTAA---ACTTAAAAA-CCCTAACC-TAATTTAATTAAAAACCCTAA
*
17410891 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
17410938 ACCCTAAACTTAAAAAACCTAACCTAA-TGAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
* *
17410982 A-CCTAATTAAATTAAAAACCTTAACCTAATTTAATT-AAAACCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
17411028 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
17411073 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
17411117 A-CCTAATTTAATTAAAAACCCAAAACCCAA---AACTTAAAAACCCT-A
1 ACCCTAA---ACTTAAAAACCC-TAACCTAATTTAA-TTAAAAACCCTAA
* *
17411162 A-CCTAATTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
17411208 ACCCTAAACTTAAAAACCCTAAACCCTAACCTAATGAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCT-AA-CCTAA--T--TTAA-TTAAAAACCCTAA
* *
17411259 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
17411306 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
17411351 A-CCTAAACTTAAAAACCCTAAACTAATTCAATTAAAAACCTTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * * *
17411395 ACCCTAAATTTAAAAACCCTAACTTAATTAAATTAAAAATCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
17411439 A-CCTAATTAAATTAAAAACCCTAACATAATTAAATTAAAAACCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
17411486 ACCCTAAACCCT--AAA--C---CCTAA---ACTTAAAAACCCTAA
1 ACCCTAAA-CTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * * *
17411522 CCCCCTTAACTTAAAAACCCTAACCTAATTAAATTATAAACCCT-A
1 -ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
17411567 A-CCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 ACCCTAA---ACTTAAAAACCCTAACCTAATTTAAT
17411602 AATTTTACTT
Statistics
Matches: 867, Mismatches: 77, Indels: 165
0.78 0.07 0.15
Matches are distributed among these distances:
36 16 0.02
37 6 0.01
38 3 0.00
39 4 0.00
40 1 0.00
42 1 0.00
43 39 0.04
44 120 0.14
45 366 0.42
46 198 0.23
47 52 0.06
48 19 0.02
49 2 0.00
50 3 0.00
51 11 0.01
52 13 0.01
53 13 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (45 bp):
ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
Found at i:17410676 original size:68 final size:68
Alignment explanation
Indices: 17410530--17411494 Score: 1120
Period size: 68 Copynumber: 14.1 Consensus size: 68
17410520 AACCATTAAT
* * * * *
17410530 ACCCTTAAA-TTAAAAATCCTAACCTAATTTAATTAAAAATCTTAAACCCTAA---ACTTAAAAA
1 ACCC-TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAA
17410591 CCCTAA
63 CCCTAA
* * *
17410597 CCCCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACT
1 -ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACC
*
17410662 TTAA
65 CTAA
*
17410666 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTCAACCCTAA---ACTTAAAAAC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAAC
17410728 CCT-A
64 CCTAA
17410732 A-CCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
17410796 CCCTAA
63 CCCTAA
* *
17410802 ACCTTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
*
17410867 CAA
66 TAA
*
17410870 ACCTTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
17410935 TAA
66 TAA
* * * *
17410938 ACCCTAAACTTAAAAAACCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAA-CC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
*
17411002 TTA
66 TAA
* *
17411005 A-CCT-AATTTAATTAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAA
1 ACCCTAAACTT-A--AAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAA
17411065 AACCCTAA
61 AACCCTAA
17411073 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
*
17411138 AAA
66 TAA
* *
17411141 ACCCAAAACTTAAAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
17411205 TAA
66 TAA
* *
17411208 ACCCTAAACTTAAAAACCCTAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTA
1 ACCCTAAACTTAAAAACCCT-AA-CCTAA--T--T-AAATTAAAAACCCTAACCTAATTTAATTA
17411273 AAAACCCT-A
59 AAAACCCTAA
* * *
17411282 A-CCTAATTTAATTAAAAATCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAA
1 ACCCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAA
17411343 AACCCTAA
61 AACCCTAA
* * * *
17411351 A-CCTAAACTTAAAAACCCTAAACTAATTCAATTAAAAACCTTAAACCCTAA---ATTTAAAAAC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAAC
17411412 CCT-A
64 CCTAA
* * * * *
17411416 A-CTTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAACATAATTAAATTAAAAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
17411480 CCCTAA
63 CCCTAA
17411486 ACCCTAAAC
1 ACCCTAAAC
17411495 CCTAAACCCT
Statistics
Matches: 789, Mismatches: 58, Indels: 100
0.83 0.06 0.11
Matches are distributed among these distances:
64 2 0.00
65 17 0.02
66 48 0.06
67 125 0.16
68 450 0.57
69 62 0.08
70 18 0.02
71 5 0.01
73 6 0.01
74 6 0.01
75 32 0.04
76 18 0.02
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (68 bp):
ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
TAA
Found at i:17411212 original size:30 final size:29
Alignment explanation
Indices: 17411176--17411259 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 29
17411166 AATTAAATTA
*
17411176 AAACCCTAACCTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAA-TAACTTAAAAACCCT
17411206 AAA--C---CCT-A-AACTTAAAAACCCT
1 AAACCCTAACCTAATAACTTAAAAACCCT
17411228 AAACCCTAACCTAATGAACTTAAAAACCCT
1 AAACCCTAACCTAAT-AACTTAAAAACCCT
17411258 AA
1 AA
17411260 CCTAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
22 16 0.36
24 2 0.04
25 3 0.07
27 3 0.07
28 2 0.04
30 19 0.42
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAACCTAATAACTTAAAAACCCT
Found at i:17411489 original size:7 final size:7
Alignment explanation
Indices: 17411477--17411508 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
17411467 ATTAAATTAA
17411477 AAACCCT
1 AAACCCT
17411484 AAACCCT
1 AAACCCT
17411491 AAACCCT
1 AAACCCT
17411498 AAACCCT
1 AAACCCT
17411505 AAAC
1 AAAC
17411509 TTAAAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:17411532 original size:23 final size:23
Alignment explanation
Indices: 17411491--17411569 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
17411481 CCTAAACCCT
* *
17411491 AAACCCTAA-ACCCTAAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
17411513 AAACCCTAACCCCCTTAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
*** * *
17411536 AAACCCTAACCTAATTAAATTAT
1 AAACCCTAACCCCCTTAACTTAA
17411559 AAACCCTAACC
1 AAACCCTAACC
17411570 TAATTTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 9 0.18
23 40 0.82
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (23 bp):
AAACCCTAACCCCCTTAACTTAA
Found at i:17411537 original size:105 final size:105
Alignment explanation
Indices: 17410588--17411592 Score: 496
Period size: 113 Copynumber: 9.0 Consensus size: 105
17410578 CTAAACTTAA
* * * *
17410588 AAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAA
1 AAACCCTAA-ACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAA
** *** *
17410653 TTAAAAACTTTAA-A-CCCTAAACTTAAAAACCCT-AACCTAATTAAATT
65 TTAAAAACCCTAACATAATTAAA-TTAAAAACCCTAAACC--------CT
* * * *
17410700 AAAAACCCTCAACCCTAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAA
1 --AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAA
* *
17410765 ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAAACTT
64 ATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACC-----C-T
* * * *
17410813 AAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCCAAACC---
1 --AAACCCTAAACCCTAA---ACTTAAAAACCCTAACCCAATTAAATTAAAAA-CCCTAACCTAA
* *
17410873 TTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTTAATT
60 TTAAA-TTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACC--------CT
* * * *
17410927 AAAAACCCTAAACCCTAAACTTAAAAAACCTAACCTAATGAACTTAAAAACCCTAACCTAATTAA
1 --AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAA
* * *
17410992 ATTAAAAACCTTAACCTAATTTAATT-AAAACCCTAAACCCT
64 ATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCT
* *
17411033 AAA-CTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC---TAAACTTAAAAACCCTA
1 AAACCCT--AAA--C---CCTAA---ACTTAAAAACCCT-AACCCAATTAAA-TTAAAAACCCTA
* * *
17411094 ACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAAACCC-
54 ACCTAATTAAATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCT
* * * *
17411145 AAAACTTAAAAACCCTAACCTAATTAAATTAAAACCCTAACCTAATTAAATTAAAAACCCTAAAC
1 AAACCCT--AAACCCTAA---ACTT--A--AAAACCCTAACCCAATTAAATTAAAAACCCT-AA-
* * * *
17411210 CCTAAACTTAAA--AACCCTAAACCCTAACCTAATGAACTTAAAAACCCT-AACCTAATTAAATT
55 CCT-AA-TTAAATTAA----AAACCCTAACATAATTAAATTAAAAACCCTAAACC--------CT
* *
17411272 AAAAACCCT-AA-CCTAATTTAATTAAAAATCCTAAACCC---TAAACTTAAAAACCCTAACCTA
1 --AAACCCTAAACCCTAA---ACTTAAAAACCCT-AACCCAATTAAA-TTAAAAACCCTAACCTA
* * * *
17411332 ATTTAATTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAAACTAATTCAATT
59 ATTAAATTAAAAACCCT-AACATAATTAAATTAAAAACCCTAAAC-----C--CT
* * ** *
17411384 AAAAACCTTAAACCCTAAATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAA
1 --AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAA
17411449 ATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCT
64 ATTAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCT
** *
17411491 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAAAT
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
* * *
17411556 TATAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
66 TAAAAACCCTAACATAATTAAATTAAAAACCCTAAAC
17411593 TAAATTAATA
Statistics
Matches: 739, Mismatches: 75, Indels: 163
0.76 0.08 0.17
Matches are distributed among these distances:
103 2 0.00
104 3 0.00
105 94 0.13
106 1 0.00
107 2 0.00
108 10 0.01
109 1 0.00
110 9 0.01
111 27 0.04
112 140 0.19
113 191 0.26
114 124 0.17
115 35 0.05
116 11 0.01
117 7 0.01
118 10 0.01
119 32 0.04
120 11 0.01
121 7 0.01
122 4 0.01
123 1 0.00
125 10 0.01
126 2 0.00
129 5 0.01
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (105 bp):
AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
TAAAAACCCTAACATAATTAAATTAAAAACCCTAAACCCT
Found at i:17411570 original size:23 final size:23
Alignment explanation
Indices: 17411504--17411600 Score: 113
Period size: 23 Copynumber: 4.1 Consensus size: 23
17411494 CCCTAAACCC
***
17411504 TAAACTTAAAAACCCTAACCCCCT
1 TAAA-TTAAAAACCCTAACCTAAT
*
17411528 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
17411551 TAAATTATAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
17411574 TTAATTAAAAACCCTAAACTAAAT
1 TAAATTAAAAACCCTAACCT-AAT
17411598 TAA
1 TAA
17411601 TAATTTTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 54 0.87
24 8 0.13
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAATTAAAAACCCTAACCTAAT
Found at i:17411740 original size:116 final size:116
Alignment explanation
Indices: 17411595--17411838 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
17411585 CCCTAAACTA
* **
17411595 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
* *
17411660 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
* *
17411711 AATTAATAATTTTACATTCACATAATGTTATATTTGGAAAAATGTTTTGACTGGTTCTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
17411776 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
17411827 AATTAATAATTT
1 AATTAATAATTT
17411839 CACAAACTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 40 0.33
116 80 0.67
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:17415076 original size:124 final size:123
Alignment explanation
Indices: 17414850--17415197 Score: 498
Period size: 124 Copynumber: 2.8 Consensus size: 123
17414840 CAAACATGCT
* *
17414850 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGTTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-CAAATTCTTCTCAAATAGCATCCTGCTA
* * * * *
17414915 GAAGCGATTTTATCCTATTTGCTCAGAAACGTGAAAAAAAGTTATTTCTTTCATGACCG
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* * *
17414974 ACTGTAGCAAAAGCCCGTCCACTAGGGCGCGATTTTCTAAATTCTCCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTC-AAATTCTTCTCAAATAGCATCCTGCTA
* *
17415039 GAAGCGATTTTATACTATTTGCTCAAAAATGTCAAAAAAAATTATTTCTTCCATGACCT
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
** * *
17415098 ACTGTAGCAAAAGCGCGTCCACGAGGGCATGATTTCACAAATTCTTCTCAAATAGCATTCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTT-TCAAATTCTTCTCAAATAGCATCCTGCTA
* * *
17415163 GAAGCGATTTTATACTATCTGATCAGAAACGTCAA
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAA
17415198 CTCGAAATTA
Statistics
Matches: 199, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
123 1 0.01
124 197 0.99
125 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (123 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCAAATTCTTCTCAAATAGCATCCTGCTAG
AAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:17418336 original size:24 final size:24
Alignment explanation
Indices: 17418308--17418355 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17418298 GAATTTTTAA
* *
17418308 GTTTTAAATTTTTTAAACTGAATT
1 GTTTTAAATTGTTTAAACTCAATT
17418332 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
17418356 TTTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:17423460 original size:9 final size:9
Alignment explanation
Indices: 17423446--17423472 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17423436 TTAAGCATAT
17423446 TTTAAATTA
1 TTTAAATTA
17423455 TTTAAATTA
1 TTTAAATTA
17423464 TTTAAATTA
1 TTTAAATTA
17423473 AAACAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATTA
Found at i:17424827 original size:20 final size:21
Alignment explanation
Indices: 17424805--17424849 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
17424795 TTTTCTCTCT
*
17424805 CTTTCT-TTTTCCGTTTT-TTT
1 CTTTCTATTCTCC-TTTTCTTT
17424825 CTTT-TATTCTCCTTTTCTTT
1 CTTTCTATTCTCCTTTTCTTT
17424845 CTTTC
1 CTTTC
17424850 CCTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (21 bp):
CTTTCTATTCTCCTTTTCTTT
Found at i:17434876 original size:16 final size:15
Alignment explanation
Indices: 17434855--17434895 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
17434845 GAAGTTGATA
17434855 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
17434871 ATAATTGATATAATT
1 ATAATTAATATAATT
17434886 ATATATTAAT
1 ATA-ATTAAT
17434896 GATTATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:17442951 original size:5 final size:6
Alignment explanation
Indices: 17442934--17442966 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
17442924 TACATAATAT
17442934 ATAAAA ATAAAA ATAAAA AT-AAA ATAAACA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATA
17442967 TGTTACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 16 0.64
7 4 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:17447448 original size:37 final size:37
Alignment explanation
Indices: 17447398--17447476 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17447388 TTATTACGAA
* *
17447398 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
17447435 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
17447472 GTCTT
1 GTCTT
17447477 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:17447712 original size:47 final size:47
Alignment explanation
Indices: 17447595--17447975 Score: 629
Period size: 47 Copynumber: 8.1 Consensus size: 47
17447585 CCCTTCGGGA
* * * * * * *
17447595 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
17447642 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17447688 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17447735 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17447782 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17447829 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17447876 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17447923 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17447972 CTTA
1 CTTA
17447976 CTATCATTTC
Statistics
Matches: 314, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 37 0.12
47 235 0.75
49 42 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17453666 original size:36 final size:37
Alignment explanation
Indices: 17453606--17453683 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
17453596 TATTACGAAA
* *
17453606 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
17453643 GTCTTA-CCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCGG
17453679 GTCTT
1 GTCTT
17453684 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.03
36 30 0.81
37 6 0.16
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:17454006 original size:47 final size:47
Alignment explanation
Indices: 17453801--17454178 Score: 556
Period size: 47 Copynumber: 8.1 Consensus size: 47
17453791 GCCCTTCGGA
* * * * * * *
17453801 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
17453848 C-CGTCACATA-ATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17453893 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17453937 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17453984 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17454030 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17454077 CTTATCACACTAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
17454124 CTTATCACATATATATACACTTTCACAAATTCAATCACAT-GGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCAC--ATTC-ATCACATCGGCCATTAGGC
17454175 CTTA
1 CTTA
17454179 CCTATCATTT
Statistics
Matches: 305, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
44 9 0.03
45 64 0.21
46 92 0.30
47 96 0.31
48 6 0.02
49 12 0.04
51 19 0.06
52 7 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17454053 original size:93 final size:94
Alignment explanation
Indices: 17453801--17454178 Score: 556
Period size: 93 Copynumber: 4.0 Consensus size: 94
17453791 GCCCTTCGGA
* * * * * * * **
17453801 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATA-ATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17453864 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
17453893 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17453955 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
17453984 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
17454048 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
17454077 CTTATCACACTAT-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
17454141 CACTTTCACAAATTCAATCACAT-GGCCATTAGGC
63 CACTTTCAC--ATTC-ATCACATCGGCCATTAGGC
17454175 CTTA
1 CTTA
17454179 CCTATCATTT
Statistics
Matches: 263, Mismatches: 11, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
89 1 0.00
90 36 0.14
91 43 0.16
92 15 0.06
93 108 0.41
94 19 0.07
96 16 0.06
98 18 0.07
99 7 0.03
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:17457971 original size:39 final size:37
Alignment explanation
Indices: 17457845--17458105 Score: 373
Period size: 39 Copynumber: 6.8 Consensus size: 37
17457835 ACACGTCACC
* * *
17457845 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATC-
1 AGCATGAATGCTCTTCGGGACTTAGC-CGGATACATCT
*
17457882 AGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCT
1 AGCATGAATGCTCTTCGGGACTTAG-CCGGATACATCT
17457919 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACAT--CT
17457958 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCT
1 AGCATGAATGCTCTTCGGGACTTAG-CCGGATACATCT
*
17457996 AGCATGAATGCTCTTCGGGACTTAGCCCGATACATCACT
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACAT--CT
17458035 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACAT--CT
17458074 AGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 AGCATGAATGCTCTTCGGGACTTAG-CCGGAT
17458106 TTAGTAACTC
Statistics
Matches: 207, Mismatches: 8, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
36 16 0.08
37 49 0.24
38 35 0.17
39 91 0.44
40 16 0.08
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (37 bp):
AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCT
Found at i:17457998 original size:77 final size:76
Alignment explanation
Indices: 17457845--17458105 Score: 395
Period size: 77 Copynumber: 3.4 Consensus size: 76
17457835 ACACGTCACC
* * * *
17457845 AGCATGATTGCTCTTCGGGATTTAGCACGGATATAT-C-AGCACGAATGCTCTTC-GGACTTAGC
1 AGCATGAATGCTCTTCGGGACTTAGC-CGGATACATCCTAGCATGAATGCTCTTCGGGACTTAGC
17457907 CCGGATACATCT
65 CCGGATACATCT
17457919 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGC
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATC-CTAGCATGAATGCTCTTCGGGACTTAGC
17457984 CCGGATACATCT
65 CCGGATACATCT
*
17457996 AGCATGAATGCTCTTCGGGACTTAGCCCGATACATCACTAGCATGAATGCTCTTCGGGACTTAG-
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATACATC-CTAGCATGAATGCTCTTCGGGACTTAGC
17458060 CCGGATACATCGCT
65 CCGGATACAT--CT
17458074 AGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 AGCATGAATGCTCTTCGGGACTTAG-CCGGAT
17458106 TTAGTAACTC
Statistics
Matches: 173, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
73 8 0.05
74 24 0.14
75 1 0.01
76 25 0.14
77 83 0.48
78 27 0.16
79 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (76 bp):
AGCATGAATGCTCTTCGGGACTTAGCCGGATACATCCTAGCATGAATGCTCTTCGGGACTTAGCC
CGGATACATCT
Found at i:17458062 original size:116 final size:113
Alignment explanation
Indices: 17457845--17458105 Score: 434
Period size: 116 Copynumber: 2.3 Consensus size: 113
17457835 ACACGTCACC
* * * *
17457845 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCAGCACGAATGCTCTTCGGACTTAGCCCG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAGCACGAATGCTCTTCGGACTTAGCCCG
17457910 GATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
66 GATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
*
17457958 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCTAGCATGAATGCTCTTCGGGACTTAGCC
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC-AGCACGAATGCTCTTC-GGACTTAGCC
17458023 C-GATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
64 CGGATACAT--CTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
17458074 AGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGAT
17458106 TTAGTAACTC
Statistics
Matches: 139, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
113 33 0.24
114 22 0.16
115 11 0.08
116 73 0.53
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (113 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAGCACGAATGCTCTTCGGACTTAGCCCG
GATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
Found at i:17458128 original size:77 final size:76
Alignment explanation
Indices: 17457845--17458144 Score: 339
Period size: 77 Copynumber: 3.9 Consensus size: 76
17457835 ACACGTCACC
* * * *
17457845 AGCATGATTGCTCTTCGGGATTTAGCACGGATATAT--C-AGCA-CGAATGCTCTTCGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATC-AATGC-CTTCGGACTTAG
17457906 CCCGGATACATCT
64 CCCGGATACATCT
* *
17457919 AGCATGAATGCTCTTCGGGACTTAG-CCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAATGC-CTTC-GGACTTAG
17457983 CCCGGATACATCT
64 CCCGGATACATCT
*
17457996 AGCATGAATGCTCTTCGGGACTTAGCCC-GATACATCACTAGCATGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAATGC-CTTC-GGACTTAG
17458060 -CCGGATACATCGCT
64 CCCGGATACAT--CT
** * *
17458074 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA-CAATG-CTTCGGATCTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCATCAATGCCTTCGGA-CTTAG
*
17458137 TCCGGATA
64 CCCGGATA
17458145 TGGTCACTTA
Statistics
Matches: 203, Mismatches: 11, Indels: 20
0.87 0.05 0.09
Matches are distributed among these distances:
73 8 0.04
74 23 0.11
75 1 0.00
76 27 0.13
77 90 0.44
78 39 0.19
79 8 0.04
80 7 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (76 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAATGCCTTCGGACTTAGCC
CGGATACATCT
Found at i:17458128 original size:116 final size:113
Alignment explanation
Indices: 17457845--17458144 Score: 387
Period size: 116 Copynumber: 2.6 Consensus size: 113
17457835 ACACGTCACC
* * *
17457845 AGCATGATTGCTCTTCGGGATTTAGCACGGATAT-A-TCAGCACGAATGCTCTTC-GGACTTAGC
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACTC-GCAC-AATGC-CTTCGGGACTTAGC
17457907 CCGGATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
63 CCGGATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
* * * *
17457958 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCTAGCATGAATGCTCTTCGGGACTTAGCC
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACTCGCA-CAATGC-CTTCGGGACTTAGCC
17458023 C-GATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
64 CGGATACAT--CTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
17458074 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATG-CTTC-GGATCTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGA--TA-TAACTCGCACAATGCCTTCGGGA-CTTAG
*
17458137 TCCGGATA
62 CCCGGATA
17458145 TGGTCACTTA
Statistics
Matches: 164, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
113 30 0.18
114 20 0.12
115 15 0.09
116 83 0.51
117 4 0.02
118 6 0.04
119 6 0.04
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (113 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACTCGCACAATGCCTTCGGGACTTAGCCCG
GATACATCTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCT
Found at i:17458526 original size:29 final size:29
Alignment explanation
Indices: 17458487--17458565 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
17458477 CTTAATAATC
*
17458487 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
17458517 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
17458546 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
17458566 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:17458608 original size:43 final size:43
Alignment explanation
Indices: 17458547--17458649 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
17458537 TGCATTTCAA
17458547 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
17458590 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
17458633 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
17458650 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:17460548 original size:37 final size:37
Alignment explanation
Indices: 17460498--17460576 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17460488 TTATTACGAA
* *
17460498 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
17460535 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
17460572 GTCTT
1 GTCTT
17460577 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:17460812 original size:47 final size:47
Alignment explanation
Indices: 17460695--17461069 Score: 616
Period size: 47 Copynumber: 8.1 Consensus size: 47
17460685 CCCTTCGGGA
* * * * * * *
17460695 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
17460742 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17460788 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17460835 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17460882 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17460929 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17460974 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17461019 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17461066 CTTA
1 CTTA
17461070 CTATCATTTC
Statistics
Matches: 312, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
45 89 0.29
46 37 0.12
47 186 0.60
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17460938 original size:22 final size:22
Alignment explanation
Indices: 17460910--17460983 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
17460900 TTTCACATTC
17460910 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
*** *** *
17460932 ATCACATATAC-ACTTTCACATT
1 ATCACATCGGCTA-TTAGGCCTT
17460954 CATCACATCGGCTATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
17460977 ATCACAT
1 ATCACAT
17460984 ATACACTTTC
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
21 1 0.03
22 20 0.57
23 13 0.37
24 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:17465079 original size:34 final size:34
Alignment explanation
Indices: 17465041--17465109 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
17465031 GAAAGAATTG
*
17465041 ATTTAACTTAAAGTAGTTATATGGAATTGATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
* * *
17465075 ATTTATCTTGAAGTATTTATATGGAATTCATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
17465109 A
1 A
17465110 ATAATAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (34 bp):
ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
Found at i:17465240 original size:23 final size:22
Alignment explanation
Indices: 17465165--17465247 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
17465155 GTAACATTTG
* *
17465165 ATATGCTTTAAATGCTGGCAAA
1 ATATGTTTTAAATGCTGTCAAA
* *
17465187 AGCATGTTTCAAATGCTGTCAAA
1 A-TATGTTTTAAATGCTGTCAAA
* * *
17465210 GTAGGTTTTAAATGTTGTCCAAA
1 ATATGTTTTAAATGCTGT-CAAA
17465233 ATATGTTTTAAATGC
1 ATATGTTTTAAATGC
17465248 CATCCAAAGC
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 14 0.30
23 33 0.70
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (22 bp):
ATATGTTTTAAATGCTGTCAAA
Found at i:17467880 original size:21 final size:23
Alignment explanation
Indices: 17467843--17467890 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
17467833 TGTTACATTT
17467843 AAATGCTAGCAAAAGTATG-TTC
1 AAATGCTAGCAAAAGTATGTTTC
*
17467865 AAATGCTATC-AAAGTATGTTTC
1 AAATGCTAGCAAAAGTATGTTTC
17467887 AAAT
1 AAAT
17467891 CTTGTCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (23 bp):
AAATGCTAGCAAAAGTATGTTTC
Found at i:17468065 original size:105 final size:104
Alignment explanation
Indices: 17467932--17468260 Score: 536
Period size: 105 Copynumber: 3.2 Consensus size: 104
17467922 AAGCATGTTT
* *
17467932 TAAGTG-TTCTCC-AAGTTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* *
17467995 AAGTGTTTATGTCAATTTTAATGCTAATATTATAGGTGGA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGG-GAA
* *
17468035 TAAGTGATTTTGCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* * *
17468100 AAGTGTTTATGTCGATTTTAATGCTGATATTATAAGCAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGGAA
17468139 GTAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAA
1 -TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAA
17468204 TAAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCGAA
65 TAAGTGTTTATGTCGATTTTAATGCTAATATTATAGG-GAA
17468245 TAAGTGTTTTTCCAAA
1 TAAGTGTTTTTCCAAA
17468261 AAAAACTATA
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
103 6 0.03
104 5 0.02
105 196 0.94
106 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (104 bp):
TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGGAA
Found at i:17468766 original size:72 final size:72
Alignment explanation
Indices: 17468649--17469115 Score: 429
Period size: 72 Copynumber: 6.5 Consensus size: 72
17468639 GAATGAATGA
* * ** *
17468649 ACACTCATTTGTCGGTTTTACCGACCAGAGCAGGGCACATTTATTTACCAGTTATAGTGACTATT
1 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACTAGT
17468714 GCTGGGC
66 GCTGGGC
* * * * * *
17468721 ACACTCATTTGAT-GATTTTATCGACCAGCGTAGGGCGCATTTATTT-CTCAATTATACCGACCA
1 ACACTCATTTG-TCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGC-CAGTTATACCGACTA
* *
17468784 GTGCTAGGT
64 GTGCTGGGC
* * * * * * * * *
17468793 ACACACAGTTGTCTTGGTTTTACCGAACAACACAAGGCACATTTATTTGTCGGTTATATCGACTA
1 ACACTCATTTGTC--GGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACTA
17468858 GTGCTGGGC
64 GTGCTGGGC
** * *
17468867 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGTGCATTTATTTGTCGGTTATACCGACTAGT
1 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACTAGT
*
17468932 GCTGGGT
66 GCTGGGC
* * * *
17468939 ACACTCATTTGTCGGTTTTACTGACCAGCGCAGGGCACATTTATTTGTCAATTATACTGA-TCAG
1 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACT-AG
* *
17469003 AGCTGGAC
65 TGCTGGGC
* * * ** ** * * * *
17469011 ACACTTATTTGTCGGTATTACTGAAGAATGTAGGGCACATTTATTTGTCAGTTACACCGACAAGT
1 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACTAGT
17469076 GCTGGGC
66 GCTGGGC
* * *
17469083 ACACACATTT-TCAAGTTTTACCGACTAGCGCAG
1 ACACTCATTTGTC-GGTTTTACCGACCAGCGCAG
17469116 TGTAACACCT
Statistics
Matches: 315, Mismatches: 71, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
71 5 0.02
72 255 0.81
73 1 0.00
74 54 0.17
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (72 bp):
ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGCCAGTTATACCGACTAGT
GCTGGGC
Found at i:17468868 original size:36 final size:36
Alignment explanation
Indices: 17468828--17469085 Score: 198
Period size: 36 Copynumber: 7.2 Consensus size: 36
17468818 AACAACACAA
*
17468828 GGCACATTTATTTGTCGGTTATATCGACTAGTGCTG
1 GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
* * * * * *
17468864 GGCACACTCATTTGTCGGTTTTACCGACCAGCGCAG
1 GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
**
17468900 GGTGCATTTATTTGTCGGTTATACCGACTAGTGCTG
1 GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
* * * * * * * *
17468936 GGTACACTCATTTGTCGGTTTTACTGACCAGCGCAG
1 GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
** * *
17468972 GGCACATTTATTTGTCAATTATACTGA-TCAGAGCTG
1 GGCACATTTATTTGTCGGTTATACCGACT-AGTGCTG
* * * ** *
17469008 GACACACTTATTTGTCGG-TATTACTGAAGAATG-TAG
1 GGCACATTTATTTGTCGGTTA-TACCGACTAGTGCT-G
* * *
17469044 GGCACATTTATTTGTCAGTTACACCGACAAGTGCTG
1 GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
17469080 GGCACA
1 GGCACA
17469086 CACATTTTCA
Statistics
Matches: 169, Mismatches: 47, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
35 3 0.02
36 163 0.96
37 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (36 bp):
GGCACATTTATTTGTCGGTTATACCGACTAGTGCTG
Found at i:17468926 original size:146 final size:144
Alignment explanation
Indices: 17468657--17469031 Score: 400
Period size: 146 Copynumber: 2.6 Consensus size: 144
17468647 GAACACTCAT
* * * ** *
17468657 TTGTCGGTTTTACCGACCAGA-GCAGGGCACATTTATTTACCAGTTATAGT-GACTATTGCTGGG
1 TTGTCGGTTTTACCGAACA-ACACAAGGCACATTTATTTGTCAGTTATA-TCGACTAGTGCTGGG
* * *
17468720 CACACTCATTTGAT-GATTTTATCGACCAGCGTAGGGCGCATTTATTTCTCAATTATACCGACCA
64 CACACTCATTTG-TCGGTTTTACCGACCAGCGCAGGGCGCATTTATTTCTCAATTATACCGACCA
17468784 GTGCTAGGTACACACAG
128 GTGCTAGGTACACACAG
*
17468801 TTGTCTTGGTTTTACCGAACAACACAAGGCACATTTATTTGTCGGTTATATCGACTAGTGCTGGG
1 TTGTC--GGTTTTACCGAACAACACAAGGCACATTTATTTGTCAGTTATATCGACTAGTGCTGGG
* * ** *
17468866 CACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGTGCATTTATTTGTCGGTTATACCGACTAG
64 CACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCGCATTTATTTCTCAATTATACCGACCAG
* * *
17468931 TGCTGGGTACACTCAT
129 TGCTAGGTACACACAG
* * * * * * * *
17468947 TTGTCGGTTTTACTGACCAGCGCAGGGCACATTTATTTGTCAATTATA-CTGA-TCAGAGCTGGA
1 TTGTCGGTTTTACCGAACAACACAAGGCACATTTATTTGTCAGTTATATC-GACT-AGTGCTGGG
* *
17469010 CACACTTATTTGTCGGTATTAC
64 CACACTCATTTGTCGGTTTTAC
17469032 TGAAGAATGT
Statistics
Matches: 195, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
143 2 0.01
144 70 0.36
145 3 0.02
146 120 0.62
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (144 bp):
TTGTCGGTTTTACCGAACAACACAAGGCACATTTATTTGTCAGTTATATCGACTAGTGCTGGGCA
CACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCGCATTTATTTCTCAATTATACCGACCAGTG
CTAGGTACACACAG
Found at i:17481307 original size:24 final size:24
Alignment explanation
Indices: 17481262--17481308 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17481252 GTTCCAGAAA
*
17481262 AAAAGAGAAGAAACTAAGAGAGAG
1 AAAAGAGAAGAAAATAAGAGAGAG
*
17481286 AAAAGAAGGAGAAAATAA-AGAGA
1 AAAAG-AGAAGAAAATAAGAGAGA
17481309 AACAGCGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.66, C:0.02, G:0.28, T:0.04
Consensus pattern (24 bp):
AAAAGAGAAGAAAATAAGAGAGAG
Found at i:17483330 original size:49 final size:49
Alignment explanation
Indices: 17483274--17483368 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
17483264 TGCGACAGCT
* *
17483274 AATGTCTGCTTTGTTGATCTTCATGATATGGCAGTACCCCAACATGCAA
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATGCAA
*
17483323 AATGTCTGCTTTGTTGAACGTCATGATGTGGCAGTACCCCAACATG
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATG
17483369 TAAATAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (49 bp):
AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATGCAA
Found at i:17487414 original size:98 final size:98
Alignment explanation
Indices: 17487245--17487422 Score: 347
Period size: 98 Copynumber: 1.8 Consensus size: 98
17487235 TTCCATAGGT
*
17487245 TTATCAACACAAATGTACATACTAATATGTTTTTATCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
17487310 CTATAGAAATATAAACCATAATACATTATTTAA
66 CTATAGAAATATAAACCATAATACATTATTTAA
17487343 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
17487408 CTATAGAAATATAAA
66 CTATAGAAATATAAA
17487423 AAAGTCAATC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (98 bp):
TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
CTATAGAAATATAAACCATAATACATTATTTAA
Found at i:17487969 original size:43 final size:44
Alignment explanation
Indices: 17487916--17488005 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 44
17487906 GAAATCATGG
* ***
17487916 AGAATAAATTTAATCGTCGATAAAAGGTTTTATCACTTTGAGCA
1 AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
* *
17487960 AGAA-AAATTTGATCCTCGATAAAAGGAAGTATCATTTTGAGCA
1 AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
17488003 AGA
1 AGA
17488006 TCGTTCTGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (44 bp):
AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
Found at i:17500959 original size:24 final size:25
Alignment explanation
Indices: 17500912--17500959 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17500902 AAATAATCAA
** *
17500912 TTTAATTTAAAATATATGATAATAT
1 TTTAATTTAAAATATACAAAAATAT
17500937 TTTAATTTAAAAT-TACAAAAATA
1 TTTAATTTAAAATATACAAAAATA
17500960 ATCATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAAAATATACAAAAATAT
Found at i:17507379 original size:15 final size:15
Alignment explanation
Indices: 17507359--17507388 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17507349 GTCACATCCC
17507359 AAAAATTGGGTTAGT
1 AAAAATTGGGTTAGT
17507374 AAAAATTGGGTTAGT
1 AAAAATTGGGTTAGT
17507389 GAAACCCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
AAAAATTGGGTTAGT
Found at i:17514625 original size:16 final size:16
Alignment explanation
Indices: 17514604--17514634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17514594 GGGGAAAATA
*
17514604 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
17514620 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
17514635 AGTAAATAGG
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:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:17514758 original size:30 final size:31
Alignment explanation
Indices: 17514719--17514778 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17514709 AGAGGTGGGA
*
17514719 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
17514750 TGGG-AGGGACTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
17514779 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:17515006 original size:9 final size:9
Alignment explanation
Indices: 17514992--17515028 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17514982 TATAGTTTAA
17514992 TATTCGAAT
1 TATTCGAAT
17515001 TATTCGAAT
1 TATTCGAAT
*
17515010 TATTCGAGT
1 TATTCGAAT
17515019 TATTCGAAT
1 TATTCGAAT
17515028 T
1 T
17515029 CAAAAATTCA
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:17515099 original size:9 final size:9
Alignment explanation
Indices: 17515082--17515112 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17515072 TTGAGTTGAT
17515082 TCGAATAAC
1 TCGAATAAC
*
17515091 TCGATTAAC
1 TCGAATAAC
17515100 TCGAATAAC
1 TCGAATAAC
17515109 TCGA
1 TCGA
17515113 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:17521270 original size:18 final size:18
Alignment explanation
Indices: 17521247--17521281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17521237 AAATTATGGG
*
17521247 CTCACATGCTCGTGTGGA
1 CTCACATGCCCGTGTGGA
17521265 CTCACATGCCCGTGTGG
1 CTCACATGCCCGTGTGG
17521282 GCCCCTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (18 bp):
CTCACATGCCCGTGTGGA
Found at i:17534868 original size:27 final size:27
Alignment explanation
Indices: 17534838--17534929 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
17534828 CCATCACGTG
*
17534838 ATAAAATGGCTATTATGCCCCTAAGTT
1 ATAAAATGACTATTATGCCCCTAAGTT
**
17534865 ATAAAATGACGGTTATGCCCC-AATGTT
1 ATAAAATGACTATTATGCCCCTAA-GTT
17534892 ATAAAATGACTATTATGCCCCTATA-TT
1 ATAAAATGACTATTATGCCCCTA-AGTT
17534919 ATAAAATGACT
1 ATAAAATGACT
17534930 TATGCTTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 53 0.93
28 1 0.02
29 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (27 bp):
ATAAAATGACTATTATGCCCCTAAGTT
Found at i:17541019 original size:33 final size:33
Alignment explanation
Indices: 17540982--17541046 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
17540972 TAGGAGGAGT
* *
17540982 TAATTAAGGAATTTTAAAGGTTATTAGAAAATC
1 TAATTAAGGAATTCTAAAGGTTATCAGAAAATC
*
17541015 TAATTAAGGAATTCTAGAGGTTATCAGAAAAT
1 TAATTAAGGAATTCTAAAGGTTATCAGAAAAT
17541047 TTGATAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.34
Consensus pattern (33 bp):
TAATTAAGGAATTCTAAAGGTTATCAGAAAATC
Found at i:17542161 original size:27 final size:27
Alignment explanation
Indices: 17542115--17542262 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
17542105 ACCCCCAAAG
* *
17542115 TGTTATAAAATGACTGTTATG-CCCTCA
1 TGTTGTAAAATGACTATTATGCCCCT-A
* * *
17542142 CGTGGTAAAATAACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
* **
17542169 TGTTATAAAATGACGGTTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
17542196 TGTTGTAAAATGACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
17542223 TGTTGTAAAATGACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
*
17542250 TGTTATAAAATGA
1 TGTTGTAAAATGA
17542263 TTGTATGCTT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 101 0.96
28 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
TGTTGTAAAATGACTATTATGCCCCTA
Found at i:17542587 original size:34 final size:33
Alignment explanation
Indices: 17542538--17542614 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 33
17542528 TGCATGTTTA
* *
17542538 AACTGTTACTGTCACTGTAATGGGCTAGGGCCC
1 AACTGATACTGTCACTGTAATGGGCTAAGGCCC
17542571 ACACTGATACTGTCACTGTAATGGGCTAAGGCCC
1 A-ACTGATACTGTCACTGTAATGGGCTAAGGCCC
17542605 AACTGA-ACTG
1 AACTGATACTG
17542615 AACTGTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 4 0.10
33 6 0.15
34 31 0.76
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (33 bp):
AACTGATACTGTCACTGTAATGGGCTAAGGCCC
Found at i:17544049 original size:18 final size:19
Alignment explanation
Indices: 17544011--17544049 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17544001 AGGAAGCAGA
* *
17544011 TTTTCAAAAGATGTATTTT
1 TTTTCAAAACATGTATGTT
17544030 TTTTCAAAACAT-TATGTT
1 TTTTCAAAACATGTATGTT
17544048 TT
1 TT
17544050 CGTACCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTCAAAACATGTATGTT
Found at i:17547441 original size:22 final size:22
Alignment explanation
Indices: 17547377--17547442 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 22
17547367 ATCTGCATCG
*
17547377 TTGAGTGGTTTATCCACACCAT
1 TTGAGTGGTTTATTCACACCAT
* *
17547399 TTGAGTAGCTTTTATTTACACCAT
1 TTGAGT-G-GTTTATTCACACCAT
17547423 TTGAGTGGTTTATTCACACC
1 TTGAGTGGTTTATTCACACC
17547443 GTATTAGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
TTGAGTGGTTTATTCACACCAT
Found at i:17547496 original size:45 final size:44
Alignment explanation
Indices: 17547424--17547509 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
17547414 TTACACCATT
** * * *
17547424 TGAGTGGTTTATTCACACCGTATTAGCAACTTTTATCTGCAACAA
1 TGAGTGGTTTAACCACACCATACTAGC-ACTTTAATCTGCAACAA
* *
17547469 TGAGTGGTTTAACCACACTATACTAGCAGTTTAATCTGCAA
1 TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAA
17547510 ACATGTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 12 0.35
45 22 0.65
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAACAA
Found at i:17547621 original size:18 final size:18
Alignment explanation
Indices: 17547598--17547632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17547588 TTTTTTTACT
* *
17547598 AGTGGTTTATTCACAACG
1 AGTGGTTCATCCACAACG
17547616 AGTGGTTCATCCACAAC
1 AGTGGTTCATCCACAAC
17547633 AATTAGTGGT
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:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
AGTGGTTCATCCACAACG
Found at i:17550766 original size:17 final size:18
Alignment explanation
Indices: 17550732--17550767 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17550722 AAAATAAATG
17550732 AAATATATTATATTATAA
1 AAATATATTATATTATAA
*
17550750 AAATTTATTAT-TTATAA
1 AAATATATTATATTATAA
17550767 A
1 A
17550768 GTTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATATTATATTATAA
Found at i:17550870 original size:16 final size:15
Alignment explanation
Indices: 17550849--17550882 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17550839 AAGGAAACAT
17550849 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
17550865 AATAATTCAATATAA
1 AATAATTAAATATAA
17550880 AAT
1 AAT
17550883 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:17552015 original size:2 final size:2
Alignment explanation
Indices: 17552008--17552033 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17551998 TGATCTTGTA
17552008 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
17552034 TCAAACTATT
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:17553187 original size:10 final size:10
Alignment explanation
Indices: 17553160--17553226 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
17553150 ACTAAAATAA
*
17553160 AAATTAAATT
1 AAATTAAAAT
* *
17553170 GAACTAAAAT
1 AAATTAAAAT
17553180 AAATTAAAAT
1 AAATTAAAAT
17553190 AAATTAAAA-
1 AAATTAAAAT
*
17553199 ATAATTAATTAT
1 A-AATTAA-AAT
*
17553211 AAAATTAAATT
1 -AAATTAAAAT
17553222 AAATT
1 AAATT
17553227 GAAGAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 35 0.78
11 2 0.04
12 6 0.13
13 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:17553212 original size:21 final size:22
Alignment explanation
Indices: 17553175--17553219 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17553165 AAATTGAACT
17553175 AAAATAAATTAAAAT-AAATTA
1 AAAATAAATTAAAATAAAATTA
*
17553196 AAAAT-AATTAATTATAAAATTA
1 AAAATAAATTAA-AATAAAATTA
17553218 AA
1 AA
17553220 TTAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATTAAAATAAAATTA
Found at i:17559930 original size:50 final size:49
Alignment explanation
Indices: 17559870--17560054 Score: 155
Period size: 50 Copynumber: 3.7 Consensus size: 49
17559860 GATGGTCACG
17559870 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AAGATAGGTCGTA
* * * *
17559920 TGTGTAGTACTATGTGCAGGCTACTATGCGTATC-G--GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGATAG-GTCG-T-A
* * * **
17559969 CGTGT-GTACTATGTGCAGGCTACTACGTGTATCGGATAG-TGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AGAT-A-GGTCGTA
* * * *
17560019 TGTGTAGCACTATGTGTAGGCTACTATGTGAACCAG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG
17560055 TATCATTAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
48 27 0.25
49 7 0.06
50 36 0.33
51 25 0.23
52 4 0.04
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGATAGGTCGTA
Found at i:17560001 original size:48 final size:46
Alignment explanation
Indices: 17559871--17560044 Score: 161
Period size: 48 Copynumber: 3.5 Consensus size: 46
17559861 ATGGTCACGT
* *
17559871 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGGTCGTAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATC-G---GATAGGTCGTAC
* * *
17559921 GTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGCTTCGATCAC
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-GTCG-T-AC
*
17559970 GTGT-GTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCAC
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-G-TCGT-AC
* *
17560018 ATGTGTAGCACTATGTGTAGGCTACTA
1 --GTGTAGTACTATGTGCAGGCTACTA
17560045 TGTGAACCAG
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
48 37 0.35
49 8 0.08
50 34 0.32
51 18 0.17
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (46 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGGTCGTAC
Found at i:17566310 original size:16 final size:16
Alignment explanation
Indices: 17566289--17566319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17566279 TTTTATATTA
*
17566289 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
17566305 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
17566320 AAATTAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:17575384 original size:62 final size:63
Alignment explanation
Indices: 17575244--17575385 Score: 169
Period size: 62 Copynumber: 2.3 Consensus size: 63
17575234 ATTTATATGC
* ** * * * * *
17575244 TACACGGCCTAGACACACGTCCATGTCCTCTGCTCGTGTGGTTTTAAAACATAAATAGTGAGT
1 TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
* **
17575307 TACACGGCCTGGACACACGCCCATGTCCTAGGC-CGTGTAGTCTTAAGTCACAAACAGAGAGT
1 TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
*
17575369 TACACGGCTTAGACACA
1 TACACGGCCTAGACACA
17575386 TGCCTGTGTC
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
62 37 0.56
63 29 0.44
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (63 bp):
TACACGGCCTAGACACACGCCCATGTCCTAGGCTCGTGTAGTCTTAAAACACAAACAGAGAGT
Found at i:17576267 original size:126 final size:125
Alignment explanation
Indices: 17576062--17576320 Score: 430
Period size: 126 Copynumber: 2.1 Consensus size: 125
17576052 TATGGAAGCC
*
17576062 AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAATAAAAAGGGAA
1 AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGGAA
* * * *
17576127 AGAATGATAGAATTAATTCAGAATGATTTAAGTTAACCACCAACCAGCCTTCCGGCGTTT
66 AGAACGATAAAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
17576187 AG-AAAAAGATAAAAAGAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
1 AGCAAAAAGAT-AAAA-AAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGG
* *
17576251 AAAGAACGGTAAAATTAATTCAAAATGATTTAAGTTAACCATCAACCAGCCTTCCAGCGTTT
64 AAAGAACGATAAAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
17576313 AGCAAAAA
1 AGCAAAAA
17576321 TATTTCCCTA
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
124 8 0.06
125 6 0.05
126 105 0.85
127 5 0.04
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (125 bp):
AGCAAAAAGATAAAAAAAGAAAGAAAGAAGAAAACAAAGAACTAGAGAAGGAAAGAAAAAGGGAA
AGAACGATAAAATTAATTCAAAATGATTTAAGTTAACCACCAACCAGCCTTCCAGCGTTT
Found at i:17578588 original size:6 final size:6
Alignment explanation
Indices: 17578577--17578611 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
17578567 AAATTATAAT
*
17578577 ATATTA ATATTA CTATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
17578612 CATAACATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:17580568 original size:93 final size:95
Alignment explanation
Indices: 17580451--17580623 Score: 219
Period size: 94 Copynumber: 1.8 Consensus size: 95
17580441 ACCGAAATAA
* * * * * * *
17580451 TAATTAATTTGTATTTGAACCCTATAATTTATATAAATTTTGCA-ATTGGT-TT-GCACGAACAC
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTAT-AAGATTGGTATTCGCA-AAACAC
*
17580513 GTGTAATTTTAAGAACTATGAACGCATGACGT
64 GTGTAATATTAAGAACTATGAACGCATGACGT
*
17580545 TAATAAATTT-TATTTGAATCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
1 TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
17580609 GTAATATTAAGAACT
66 GTAATATTAAGAACT
17580624 GCAGACGAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 1 0.01
93 31 0.46
94 32 0.48
95 3 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (95 bp):
TAATAAATTTGTATTTGAACCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGT
GTAATATTAAGAACTATGAACGCATGACGT
Found at i:17580851 original size:97 final size:96
Alignment explanation
Indices: 17580552--17580852 Score: 257
Period size: 97 Copynumber: 3.1 Consensus size: 96
17580542 CGTTAATAAA
* * * * * *
17580552 TTTTATTTGAATCCTATAAATTAAATAAACTATAAGATTGGTATTCGCAAAACACGTGTAATATT
1 TTTTATTTGAATCCTAAAAATTAAATAAATTATAAAATTGAT-TTTGCAAAACATGTGTAATATT
* * * * *
17580617 AAGAACTGCAGACGAATAAATGAAGATGATGGT
65 AAGAACTACATAAGAATAAATGAAGATCA-GTT
* * ** *
17580650 TTGTATTTGAA-CTCTAAAAATCAAATAAATTATACTATCGATTTT-CACAAACATGTGTAATAT
1 TTTTATTTGAATC-CTAAAAATTAAATAAATTATAAAATTGATTTTGCA-AAACATGTGTAATAT
* * * * * *
17580713 TGAGAACTACATATGAATAAACGACG-GCAATAAT
64 TAAGAACTACATAAGAATAAATGAAGATCAGT--T
* * * *
17580747 TTATATTTGAATCCTAAAAATTAAATAAGTTATAAAATTGTTCTTTGCAAAACATGTGCAATATT
1 TTTTATTTGAATCCTAAAAATTAAATAAATTATAAAATTGAT-TTTGCAAAACATGTGTAATATT
* * *
17580812 AAGAACAACATAAGATTTAATGAAGATCAGTT
65 AAGAACTACATAAGAATAAATGAAGATCAGTT
17580844 TTTTATTTG
1 TTTTATTTG
17580853 GAAATCTAGG
Statistics
Matches: 157, Mismatches: 38, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
96 3 0.02
97 80 0.51
98 69 0.44
99 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (96 bp):
TTTTATTTGAATCCTAAAAATTAAATAAATTATAAAATTGATTTTGCAAAACATGTGTAATATTA
AGAACTACATAAGAATAAATGAAGATCAGTT
Found at i:17582569 original size:17 final size:17
Alignment explanation
Indices: 17582547--17582586 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17582537 TTAGGTCGTA
17582547 TGGGCCACAC-AGGCGTG
1 TGGGCCACACGA-GCGTG
17582564 TGGGCCACACGAGCGTG
1 TGGGCCACACGAGCGTG
17582581 TGGGCC
1 TGGGCC
17582587 TACATGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.15, C:0.30, G:0.42, T:0.12
Consensus pattern (17 bp):
TGGGCCACACGAGCGTG
Found at i:17583568 original size:28 final size:28
Alignment explanation
Indices: 17583529--17583598 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
17583519 ACATGCAGTA
* * *
17583529 ACAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
17583556 ACAGTAACAGTGTGAGATTTAGCCCAAT
1 ACAGTAACAGTGTGAGACTTAGCCCAAT
*
17583584 ACAATAACAGTGTGA
1 ACAGTAACAGTGTGA
17583599 TAATGCAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGAGACTTAGCCCAAT
Found at i:17583952 original size:27 final size:27
Alignment explanation
Indices: 17583922--17584225 Score: 253
Period size: 27 Copynumber: 11.4 Consensus size: 27
17583912 TCGACTCCTA
**
17583922 GGGGTATAACAGTCATTTTACCCTAT-G
1 GGGGTATTTCAGTCATTTTACCCT-TCG
*
17583949 GGGGTATTTCAGTCATTTTACCCTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
17583976 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* **
17584003 GGGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCCTTCG
** * * **
17584030 GAAGTA-TTCTGGTCA-TTTACCTTTTA
1 GGGGTATTTC-AGTCATTTTACCCTTCG
17584056 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * **
17584083 GAGGTATTTCGGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * * **
17584110 AGGGTATTTCGGTCA-TTGA-CCTGTTA
1 GGGGTATTTCAGTCATTTTACCCT-TCG
* * *
17584136 TGGGTATTTC-GATCATTTTACCTTTTG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* ** *
17584163 GGGGTATTTTAGTCATTTTACATTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
17584190 GGGATATTTCAGTCA-TTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTTCG
17584216 GGGGTATTTC
1 GGGGTATTTC
17584226 GGGCTTACCA
Statistics
Matches: 233, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.02
26 58 0.25
27 168 0.72
28 3 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:17584071 original size:107 final size:106
Alignment explanation
Indices: 17583934--17584227 Score: 355
Period size: 107 Copynumber: 2.8 Consensus size: 106
17583924 GGTATAACAG
* * *
17583934 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCTTTTAGGGGTATTTCAGTCATTTTACCCTTC-GGGGTATTTCAGTCATTTTACCC
* * *
17583999 TTCGGGGGTATTTCGGTCATTTTACCCT-TTA-GAAGTA-TTCTGG
65 TTTGGGGGTATTTCGGTCA-TTGA-CCTGTTATG-AGTATTTC-GA
*
17584042 TCA-TTTACCTTTTAGGGGTATTTCAGTCATTTTACCCTTCGGAGGTATTTCGGTCATTTTACCC
1 TCATTTTACCTTTTAGGGGTATTTCAGTCATTTTACCCTTCGG-GGTATTTCAGTCATTTTACCC
** *
17584106 TTTAAGGGTATTTCGGTCATTGACCTGTTATGGGTATTTCGA
65 TTTGGGGGTATTTCGGTCATTGACCTGTTATGAGTATTTCGA
* * ** *
17584148 TCATTTTACCTTTTGGGGGTATTTTAGTCATTTTACATTTTGGGGATATTTCAGTCA-TTTACCC
1 TCATTTTACCTTTTAGGGGTATTTCAGTCATTTTACCCTTCGGGG-TATTTCAGTCATTTTACCC
17584212 TTTGGGGGTATTTCGG
65 TTTGGGGGTATTTCGG
17584228 GCTTACCACT
Statistics
Matches: 162, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
105 3 0.02
106 38 0.23
107 118 0.73
108 3 0.02
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (106 bp):
TCATTTTACCTTTTAGGGGTATTTCAGTCATTTTACCCTTCGGGGTATTTCAGTCATTTTACCCT
TTGGGGGTATTTCGGTCATTGACCTGTTATGAGTATTTCGA
Found at i:17584226 original size:80 final size:80
Alignment explanation
Indices: 17583922--17584225 Score: 321
Period size: 80 Copynumber: 3.8 Consensus size: 80
17583912 TCGACTCCTA
** * * *
17583922 GGGGTATAACAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCA
1 GGGGTATTTCAGTCATTTTACCCTTTGGGGATATTTCAGTCA-TTTACCCTTTAGGGGTATTTCA
17583987 GTCATTTTACCCTTCG
65 GTCATTTTACCCTTCG
* * * * *
17584003 GGGGTATTTCGGTCATTTTACCCTTT-AGAAGTA-TTCTGGTCATTTACCTTTTAGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTTGGGGA-TATTTC-AGTCATTTACCCTTTAGGGGTATTTC
17584066 AGTCATTTTACCCTTCG
64 AGTCATTTTACCCTTCG
* * * * * *
17584083 GAGGTATTTCGGTCATTTTACCCTTTAAGGG-TATTTCGGTCATTGA-CCTGTTATGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTT-GGGGATATTTCAGTCATTTACCCT-TTAGGGGTATTTC
* *
17584146 -GATCATTTTACCTTTTG
64 AG-TCATTTTACCCTTCG
* ** *
17584163 GGGGTATTTTAGTCATTTTACATTTTGGGGATATTTCAGTCATTTACCCTTTGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTTGGGGATATTTCAGTCATTTACCCTTTAGGGGTATTTC
17584226 GGGCTTACCA
Statistics
Matches: 186, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
79 6 0.03
80 145 0.78
81 34 0.18
82 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (80 bp):
GGGGTATTTCAGTCATTTTACCCTTTGGGGATATTTCAGTCATTTACCCTTTAGGGGTATTTCAG
TCATTTTACCCTTCG
Found at i:17586726 original size:98 final size:96
Alignment explanation
Indices: 17586436--17586731 Score: 278
Period size: 98 Copynumber: 3.0 Consensus size: 96
17586426 ATTGATATTT
* * *
17586436 ACAAAACAGGTGTAATATTGATAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACT
1 ACAAAACACGTGTAATATTGATAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTT-AACT
17586501 CTAAAAATCAAATCAATTATACGATCGATCTTC
65 CTAAAAATCAAATCAATTATACGATC-ATCTTC
* * * * * ** *
17586534 AC--AACACGAGTAATATTGATAACTACATATGAATACATGATGA-TAATAATTTATATTTTAAT
1 ACAAAACACGTGTAATATTGATAACTGCATAAGAATAAATGAAGACT-ATGGTTTGTA-TTTAA-
* * **
17586596 CTCGT--AAATTAAATAAATTATAATATTCATCTTC
63 CTC-TAAAAATCAAATCAATTATACGA-TCATCTTC
* ** * * *
17586630 ACAAAACACGTGTAATATTAAGCATTGCATAAGAGTAAATGAAGACTATGGTTTGTATATTAACA
1 ACAAAACACGTGTAATATTGATAACTGCATAAGAATAAATGAAGACTATGGTTTGTAT-TTAACT
*
17586695 CTAAAAATCAAATCAATTATCCGATCAATCTTC
65 CTAAAAATCAAATCAATTATACGATC-ATCTTC
17586728 ACAA
1 ACAA
17586732 GTACGTGTAA
Statistics
Matches: 152, Mismatches: 34, Indels: 24
0.72 0.16 0.11
Matches are distributed among these distances:
96 68 0.45
97 13 0.09
98 70 0.46
99 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (96 bp):
ACAAAACACGTGTAATATTGATAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTAACTC
TAAAAATCAAATCAATTATACGATCATCTTC
Found at i:17586840 original size:194 final size:193
Alignment explanation
Indices: 17586386--17586855 Score: 503
Period size: 194 Copynumber: 2.4 Consensus size: 193
17586376 CAATAATAAT
* * * * * **
17586386 TAATTTCTATTTGAATCCTATAAATTAAATAAACTATATGATTGATATTTACAAAACAGGTGTAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTA-AAAACACATGTAA
* * *
17586451 TATTGATAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACTCTAAAAATCAAATCA
65 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCA
* * ** * ** *
17586516 ATTATACGATCGATCTTCACAACACGAGTAATATTGATAACTACATATGAATACATGATGATAA
130 ATTATACGATCAATCTTCACAACACGAGTAACATAAAGAACTACATATGAATACATGAACACAA
* * * * * * *
17586580 TAATTTATATTTTAATCTCGTAAATTAAATAAATTATAATATTCATCTTCACAAAACACGTGTAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTA-AAAACACATGTAA
* * * * *
17586645 TATTAAGCATTGCATAAGAGTAAATGAAGACTATGGTTTGTATATT-AACACTAAAAATCAAATC
65 TATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTAT-TTGAACACTAAAAATCAAATC
* * * * * * * *
17586709 AATTATCCGATCAATCTTCACAAGTACGTGTAACGTAAAGAATTGCGTCTGAATGA-ATGAACAC
129 AATTATACGATCAATCTTCACAA-CACGAGTAACATAAAGAACTACATATGAAT-ACATGAACAC
17586773 AA
192 AA
* **
17586775 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGTTCTTTTTAAACACATGTAAT
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTAAAAACACATGTAAT
*
17586840 ATTAAGAACCGCATAA
66 ATTAAGAACTGCATAA
17586856 TTAAAGATTT
Statistics
Matches: 224, Mismatches: 49, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
194 152 0.68
195 71 0.32
196 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (193 bp):
TAATTTATATTTGAATCCCATAAATTAAATAAATTATAAGATTGATCTTTAAAAACACATGTAAT
ATTAAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCAA
TTATACGATCAATCTTCACAACACGAGTAACATAAAGAACTACATATGAATACATGAACACAA
Found at i:17588720 original size:36 final size:38
Alignment explanation
Indices: 17588675--17588759 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 38
17588665 AGTTGTAAGG
* * * *
17588675 GACTATTCATCTATATCAC-TAAATGC-TAGGAGTTGT
1 GACTATTCATCTACATAACTTAAATACATAAGAGTTGT
*
17588711 GACTATTCATTTACATAACTTAAATACTATAAGAGTTGT
1 GACTATTCATCTACATAACTTAAATAC-ATAAGAGTTGT
17588750 GACTATTCAT
1 GACTATTCAT
17588760 GCATATGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 16 0.39
37 6 0.15
39 19 0.46
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (38 bp):
GACTATTCATCTACATAACTTAAATACATAAGAGTTGT
Found at i:17588820 original size:32 final size:32
Alignment explanation
Indices: 17588784--17588847 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17588774 TTTCATCTTC
* *
17588784 AAGTCTCTTCGCATTATTAACTCTTCATAATT
1 AAGTCTCTTCACATTAGTAACTCTTCATAATT
* *
17588816 AAGTCTCTTCACATTCGTAACTTTTCATAATT
1 AAGTCTCTTCACATTAGTAACTCTTCATAATT
17588848 TATTTTCTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (32 bp):
AAGTCTCTTCACATTAGTAACTCTTCATAATT
Found at i:17593315 original size:32 final size:32
Alignment explanation
Indices: 17593279--17593342 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17593269 ACTTTTTATC
* *
17593279 TTCAAGTCTCTTCGCATTATTAACTCTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
* *
17593311 TTCAAGTCTCTTCACATTCGTAACTTTTCATA
1 TTCAAGTCTCTTCACATTAGTAACTCTTCATA
17593343 ATTTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTAGTAACTCTTCATA
Found at i:17594388 original size:3 final size:3
Alignment explanation
Indices: 17594380--17594414 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17594370 TTCAAGCATA
17594380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17594415 CCATTTAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17595015 original size:97 final size:97
Alignment explanation
Indices: 17594913--17595269 Score: 245
Period size: 97 Copynumber: 3.7 Consensus size: 97
17594903 AAACACGCGT
* * *
17594913 AATATTAAGAACTGCATAAGAATAAATGAAGACGATTGTTTGCATTTGAACTCTAAAAATTAAAT
1 AATATTAAGAACTGCATAAGAATAAATGAAGACAATAGTTTGTATTTGAA-TCTAAAAATTAAAT
* * * *
17594978 CAATTATACGATCGGTCTTCACAAAA-ACCTAT
65 CAATTATACAATCGGTATTCACAAAACACATAC
* * ** * * * * * *
17595010 TATATTGAGAACAACATATGATTAAATGATGACAATAATTTATATTTGAATCTCATAAATTAAAT
1 AATATTAAGAACTGCATAAGAATAAATGAAGACAATAGTTTGTATTTGAATCT-AAAAATTAAAT
* * ** *
17595075 AAATTATA-ATATCGATATTTGCAAAACACATGC
65 CAATTATACA-ATCGGTATTCACAAAACACATAC
* * * * *
17595108 AATATTAAGAGCTGCATAAGAATAAATGAAGA-ATATGGTTTGTATTTGAATAATAGAAATCAAA
1 AATATTAAGAACTGCATAAGAATAAATGAAGACA-ATAGTTTGTATTTGAAT-CTAAAAATTAAA
* * * * **
17595172 TCAATTATACAATCAGTTTTCAC-AAATACGTGT
64 TCAATTATACAATCGGTATTCACAAAACACATAC
* * *** * * * * *
17595205 AACATTAAGAATTATGTATGAATTAATGAAGACAATAATTTATATTTGAATCCAATAAATTAAAT
1 AATATTAAGAACTGCATAAGAATAAATGAAGACAATAGTTTGTATTTGAATCTAA-AAATTAAAT
17595270 AAATAAAATA
Statistics
Matches: 192, Mismatches: 60, Indels: 16
0.72 0.22 0.06
Matches are distributed among these distances:
96 4 0.02
97 121 0.63
98 65 0.34
99 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (97 bp):
AATATTAAGAACTGCATAAGAATAAATGAAGACAATAGTTTGTATTTGAATCTAAAAATTAAATC
AATTATACAATCGGTATTCACAAAACACATAC
Found at i:17595158 original size:98 final size:97
Alignment explanation
Indices: 17594849--17595158 Score: 250
Period size: 97 Copynumber: 3.2 Consensus size: 97
17594839 GAATGACAAC
* * * * * * **
17594849 AATAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTC-ATA-TCGTAAAACACGCG
1 AATAGTTTGTATTTGAATCTCATAAATTAAATAAATTATAATA-TCGATATTCGCAAAACACATG
17594912 TAATATTAAGAACTGCATAAGAATAAATGAAGA
65 TAATATTAAGAACTGCATAAGAATAAATGAAGA
* * * * * ** * * * *
17594945 CGATTGTTTGCATTTGAA-CTCTAAAAATTAAATCAATTATACGATCGGTCTTCACAAAA-ACCT
1 -AATAGTTTGTATTTGAATCTC-ATAAATTAAATAAATTATAATATCGATATTCGCAAAACACAT
* * * ** * * *
17595008 ATTATATTGAGAACAACATATGATTAAATGATGA
64 GTAATATTAAGAACTGCATAAGAATAAATGAAGA
* * *
17595042 CAATAATTTATATTTGAATCTCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATG
1 -AATAGTTTGTATTTGAATCTCATAAATTAAATAAATTATAATATCGATATTCGCAAAACACATG
* *
17595107 CAATATTAAGAGCTGCATAAGAATAAATGAAGA
65 TAATATTAAGAACTGCATAAGAATAAATGAAGA
*
17595140 ATATGGTTTGTATTTGAAT
1 A-ATAGTTTGTATTTGAAT
17595159 AATAGAAATC
Statistics
Matches: 154, Mismatches: 53, Indels: 11
0.71 0.24 0.05
Matches are distributed among these distances:
96 4 0.03
97 100 0.65
98 50 0.32
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (97 bp):
AATAGTTTGTATTTGAATCTCATAAATTAAATAAATTATAATATCGATATTCGCAAAACACATGT
AATATTAAGAACTGCATAAGAATAAATGAAGA
Found at i:17595178 original size:195 final size:193
Alignment explanation
Indices: 17594832--17595273 Score: 505
Period size: 195 Copynumber: 2.3 Consensus size: 193
17594822 AAGTACTACG
* * * *
17594832 TATGAATGAATGACA-ACAATAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTCA
1 TATGAATTAATGA-AGACAATAATTTATATTTGAAT-CCATAAATTAAATAAATTATAATATTCA
* * * * *
17594896 TATCGTAAAACACGCGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATTGTTTGCATTTG
64 TATCGCAAAACACACGCAATATTAAGAACTGCATAAGAATAAATGAAGAAGATGGTTTGCATTTG
* * * * * * *
17594961 AACTCTAAAAATTAAATCAATTATACGATCGGTCTTCACAAAAACCTATTATATTGAGAACAACA
129 AACTATAAAAATCAAATCAATTATACAATCAGTCTTCACAAAAACCTATAACATTAAGAACAACA
*
17595026 TATG-ATTAAATGATGACAATAATTTATATTTGAATCTCATAAATTAAATAAATTATAATA-TCG
1 TATGAATT-AATGAAGACAATAATTTATATTTGAATC-CATAAATTAAATAAATTATAATATTC-
* * * * *
17595089 ATATTTGCAAAACACATGCAATATTAAGAGCTGCATAAGAATAAATGAAGAATATGGTTTGTATT
63 ATA-TCGCAAAACACACGCAATATTAAGAACTGCATAAGAATAAATGAAGAAGATGGTTTGCATT
* * * * * **
17595154 TGAA-TAATAGAAATCAAATCAATTATACAATCAGTTTTCACAAATACGTGTAACATTAAGAATT
127 TGAACT-ATAAAAATCAAATCAATTATACAATCAGTCTTCACAAAAACCTATAACATTAAGAACA
**
17595218 ATG
191 ACA
17595221 TATGAATTAATGAAGACAATAATTTATATTTGAATCCAATAAATTAAATAAAT
1 TATGAATTAATGAAGACAATAATTTATATTTGAATCC-ATAAATTAAATAAAT
17595274 AAAATAAAAT
Statistics
Matches: 208, Mismatches: 32, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
193 5 0.02
194 54 0.26
195 146 0.70
196 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (193 bp):
TATGAATTAATGAAGACAATAATTTATATTTGAATCCATAAATTAAATAAATTATAATATTCATA
TCGCAAAACACACGCAATATTAAGAACTGCATAAGAATAAATGAAGAAGATGGTTTGCATTTGAA
CTATAAAAATCAAATCAATTATACAATCAGTCTTCACAAAAACCTATAACATTAAGAACAACA
Found at i:17596838 original size:16 final size:17
Alignment explanation
Indices: 17596806--17596843 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
17596796 AAACATTAAT
17596806 ATTCATATCATTAAAAA
1 ATTCATATCATTAAAAA
*
17596823 ATTCATATCATAAAAAA
1 ATTCATATCATTAAAAA
17596840 ATTC
1 ATTC
17596844 GATAACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTCATATCATTAAAAA
Found at i:17600039 original size:3 final size:3
Alignment explanation
Indices: 17600031--17600079 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
17600021 AGTATAGAGT
*
17600031 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
17600077 ATA
1 ATA
17600080 TGTACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17603144 original size:28 final size:28
Alignment explanation
Indices: 17603107--17603163 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
17603097 TGAAACTTAT
17603107 TTGAATCAAGAAAAATGATCGTAAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
17603135 TTGAATCAAGAAAAATGATCGTAAATTA
1 TTGAATCAAGAAAAATGATCGTAAATTA
17603163 T
1 T
17603164 GGTAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (28 bp):
TTGAATCAAGAAAAATGATCGTAAATTA
Found at i:17605857 original size:52 final size:52
Alignment explanation
Indices: 17605779--17605882 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
17605769 TCGCTCCCAA
*
17605779 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAGGAGCATCAAGTT
1 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAAGAGCATCAAGTT
17605831 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAAGAGCATCAAGTT
1 ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAAGAGCATCAAGTT
17605883 CACTAATTTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (52 bp):
ATGCTCTCCTAAGTATAGAAACATAAATTTAAAGGATTAAGAGCATCAAGTT
Found at i:17607498 original size:32 final size:33
Alignment explanation
Indices: 17607442--17607507 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
17607432 TCTGAGAAAA
17607442 CTAATAAGAAAATAAAAAAAACAGTGAAGAAGAT
1 CTAATAAGAAAAT-AAAAAAACAGTGAAGAAGAT
*
17607476 CTAATAAGAACAT-AAAAAACAGTGAAGAAGAT
1 CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
17607508 TAAAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.61
34 12 0.39
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (33 bp):
CTAATAAGAAAATAAAAAAACAGTGAAGAAGAT
Done.