Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 40 of 295
Found at i:11419754 original size:78 final size:78
Alignment explanation
Indices: 11419608--11419902 Score: 432
Period size: 78 Copynumber: 3.8 Consensus size: 78
11419598 ATGTAAACAC
* * * *
11419608 ATGAAGGTCAGATCTACTATGTCTTCGATTTGCTCCACGTCTAATACAGTGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11419673 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * *
11419686 ATGATGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
11419750 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
11419764 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
11419829 TGGATCTGCTTCA
66 TGGATCTGCTTCA
** * *
11419842 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTCGTCGAATA-TGAAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAG-AGATGCCAAATC
11419903 TGTTTCTTCG
Statistics
Matches: 195, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
77 3 0.02
78 190 0.97
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11426420 original size:20 final size:20
Alignment explanation
Indices: 11426386--11426460 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
11426376 ATATGTGGGA
11426386 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
*
11426403 ATATGATATGCGCATGATATG
1 -TATGATATGCACATGATATG
*
11426424 TATGATATGTACATGATATG
1 TATGATATGCACATGATATG
*
11426444 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
11426461 GTAATCGTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:11426439 original size:11 final size:11
Alignment explanation
Indices: 11426393--11426445 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
11426383 GGATATGATA
11426393 TACATGAT-TG
1 TACATGATATG
*
11426403 -ATATGATATG
1 TACATGATATG
**
11426413 CGCATGATATG
1 TACATGATATG
11426424 T--ATGATATG
1 TACATGATATG
11426433 TACATGATATG
1 TACATGATATG
11426444 TA
1 TA
11426446 TGAAATGCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 15 0.43
10 2 0.06
11 18 0.51
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (11 bp):
TACATGATATG
Found at i:11426540 original size:25 final size:25
Alignment explanation
Indices: 11426512--11426594 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 25
11426502 GGAAGTGCAA
11426512 AAAGGGCTTATGCCCCAGTTTATTG
1 AAAGGGCTTATGCCCCAGTTTATTG
* *
11426537 AAAGGGGCATATGCCCCAGTTTATCG
1 AAA-GGGCTTATGCCCCAGTTTATTG
11426563 AAAAGGGCTT-TGCCCCAG-TTATT-
1 -AAAGGGCTTATGCCCCAGTTTATTG
11426586 AAAGAGGCT
1 AAAG-GGCT
11426595 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.08
23 4 0.08
24 4 0.08
25 11 0.22
26 25 0.49
27 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTTATTG
Found at i:11426549 original size:26 final size:25
Alignment explanation
Indices: 11426515--11426604 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 25
11426505 AGTGCAAAAA
11426515 GGGCTTATGCCCCAGTTTATTGAAAG
1 GGGC-TATGCCCCAGTTTATTGAAAG
* *
11426541 GGGCATATGCCCCAGTTTATCGAAAA
1 GGGC-TATGCCCCAGTTTATTGAAAG
*
11426567 GGGCTTTGCCCCAG-TTATT-AAAG
1 GGGCTATGCCCCAGTTTATTGAAAG
* *
11426590 AGGCTAGGCCTCCAG
1 GGGCTATGCC-CCAG
11426605 ATATATGATA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 10 0.19
24 8 0.15
25 9 0.17
26 27 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
GGGCTATGCCCCAGTTTATTGAAAG
Found at i:11434475 original size:20 final size:21
Alignment explanation
Indices: 11434440--11434493 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
11434430 TGATATGTGA
11434440 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
11434458 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
11434479 G-TATGAAATGCACAT
1 GATATGATATGCACAT
11434494 AATGTAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:11434617 original size:25 final size:26
Alignment explanation
Indices: 11434546--11434617 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
11434536 GAGGAAGTGC
**
11434546 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
11434572 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
11434598 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
11434618 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 10 0.23
26 34 0.77
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:11439694 original size:23 final size:22
Alignment explanation
Indices: 11439651--11439708 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11439641 AAAAGGTATC
* *
11439651 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11439672 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11439695 TGCATATCATATCT
1 TACAAATCATATCT
11439709 AAGATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11439702 original size:17 final size:19
Alignment explanation
Indices: 11439687--11439758 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
11439677 AATCATATCT
11439687 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11439706 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
*
11439724 TCTAAGATT--ATGTCATA
1 TCTAAGATTGCATATCATA
11439741 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11439759 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.30
18 15 0.32
19 17 0.36
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11439723 original size:18 final size:18
Alignment explanation
Indices: 11439687--11439750 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
11439677 AATCATATCT
*
11439687 TCTAAGATTGCATATCATA
1 TCTAAGATTGTA-ATCATA
11439706 TCTAAGATTGTAATCATA
1 TCTAAGATTGTAATCATA
* *
11439724 TCTAAGATTAT-GTCATA
1 TCTAAGATTGTAATCATA
11439741 TCTAAGATTG
1 TCTAAGATTG
11439751 CATATCATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.34
18 16 0.39
19 11 0.27
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGTAATCATA
Found at i:11442867 original size:93 final size:93
Alignment explanation
Indices: 11442708--11442878 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11442698 GGATGGTTGA
* * * *
11442708 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
11442773 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
11442801 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
11442866 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11442879 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11442881 original size:46 final size:46
Alignment explanation
Indices: 11442714--11442883 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
11442704 TTGAGCATCT
* * * *
11442714 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
* *
11442760 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC--CC
11442807 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
* *
11442853 GAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11442884 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.54
47 28 0.27
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
Found at i:11449531 original size:93 final size:92
Alignment explanation
Indices: 11449362--11449531 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
11449352 GGATGGTTGA
* *
11449362 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
11449427 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCAAGTTCGTGAGATGTAACTAG
* *
11449454 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
11449519 TGAGTCCAAGTTC
65 TGAGTCCAAGTTC
11449532 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 33 0.46
93 39 0.54
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:11457800 original size:32 final size:32
Alignment explanation
Indices: 11457758--11457819 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
11457748 TTCTTTTTTT
*
11457758 TTTGCAAAAATTCTATTCTCTTC-CCCCCTCCA
1 TTTGCAAAAATTCCA-TCTCTTCTCCCCCTCCA
*
11457790 TTTGCCAAAATTCCATCTCTTCTCCCCCTC
1 TTTGCAAAAATTCCATCTCTTCTCCCCCTC
11457820 TCGTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.19, C:0.40, G:0.03, T:0.37
Consensus pattern (32 bp):
TTTGCAAAAATTCCATCTCTTCTCCCCCTCCA
Found at i:11460290 original size:21 final size:21
Alignment explanation
Indices: 11460266--11460307 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11460256 TGCTAATCAG
*
11460266 AGAGTACCGAAGTAATGAACA
1 AGAGTACAGAAGTAATGAACA
* *
11460287 AGAGTATAGAAGTACTGAACA
1 AGAGTACAGAAGTAATGAACA
11460308 GAGCGCACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.17
Consensus pattern (21 bp):
AGAGTACAGAAGTAATGAACA
Found at i:11462508 original size:57 final size:57
Alignment explanation
Indices: 11462435--11462670 Score: 301
Period size: 57 Copynumber: 4.1 Consensus size: 57
11462425 ATGCCAATAG
* * * *
11462435 GGATGTGATCTGTTGCCTTTGGGCTTAGCACTTTGGTTCATTCTGGTGTGTTTGAAA
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * *
11462492 GGATGTGACCTATTGCCTTTGGGCTTAACACTTTGGTGCGTTCTAGTGTGTTTGAAG
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * * * *
11462549 GGATGTGACCTGTTTCTTTTGGTCTTAACACTTTGGTGCCTTCTAGTGTGTTTGAAG
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
* * ** * *
11462606 GGATGTGACCTGTTGCCTTTGGTCTTAACACCTCAGTGCTTTCTAGTGTGCTTGAAA
1 GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
*
11462663 GGGTGTGA
1 GGATGTGA
11462671 TTTATTGCCT
Statistics
Matches: 158, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 158 1.00
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.40
Consensus pattern (57 bp):
GGATGTGACCTGTTGCCTTTGGGCTTAACACTTTGGTGCATTCTAGTGTGTTTGAAA
Found at i:11462709 original size:114 final size:114
Alignment explanation
Indices: 11462475--11462700 Score: 249
Period size: 114 Copynumber: 2.0 Consensus size: 114
11462465 CTTTGGTTCA
* * **
11462475 TTCTGGTGTGTTTGAAAGGATGTGACCTATTGCCTTTGGGCTTAACACTTTGGTGCGTTCTAGTG
1 TTCTAGTGTGTTTGAAAGGATGTGACCTATTGCCTTTGGGCTTAACACCTCAGTGCGTTCTAGTG
* * * * * ***
11462540 TGTTTGAAGGGATGTGACCTGTTTCTTTTGGTCTTAACACTTTGGTGCC
66 TGCTTGAAGGGATGTGACCTATTCCTTTAGGTCCTAACACTTCAATGCC
* * * *
11462589 TTCTAGTGTGTTTGAAGGGATGTGACCTGTTGCCTTTGGTCTTAACACCTCAGTGCTTTCTAGTG
1 TTCTAGTGTGTTTGAAAGGATGTGACCTATTGCCTTTGGGCTTAACACCTCAGTGCGTTCTAGTG
** *
11462654 TGCTTGAAAGGG-TGTGATTTATTGCCTTTAGG-CCTAGCACTTCAATG
66 TGCTTG-AAGGGATGTGACCTATT-CCTTTAGGTCCTAACACTTCAATG
11462701 TTCTCTAGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
114 80 0.88
115 11 0.12
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.40
Consensus pattern (114 bp):
TTCTAGTGTGTTTGAAAGGATGTGACCTATTGCCTTTGGGCTTAACACCTCAGTGCGTTCTAGTG
TGCTTGAAGGGATGTGACCTATTCCTTTAGGTCCTAACACTTCAATGCC
Found at i:11466529 original size:18 final size:18
Alignment explanation
Indices: 11466487--11466533 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11466477 ACGGGCATAA
*
11466487 ATTCATATATGCATTATC
1 ATTCATATATTCATTATC
* * *
11466505 ATACATATATTCATTCTT
1 ATTCATATATTCATTATC
11466523 ATTCATATATT
1 ATTCATATATT
11466534 TATACACTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTCATATATTCATTATC
Found at i:11470017 original size:25 final size:25
Alignment explanation
Indices: 11469982--11470045 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
11469972 CACAGCTCTT
* *
11469982 ATGAGCGTCCCGATATTTGGCACTC
1 ATGAGCTTCCCGATATTTAGCACTC
* *
11470007 ATGAGCTTCCC-ATTATTTAGCTCTT
1 ATGAGCTTCCCGA-TATTTAGCACTC
11470032 ATGAGCTTCCCGAT
1 ATGAGCTTCCCGAT
11470046 TAATGGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGATATTTAGCACTC
Found at i:11470074 original size:50 final size:50
Alignment explanation
Indices: 11469975--11470074 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
11469965 GACACACCAC
* *
11469975 AGCTCTTATGAGCGTCCCGATATTTGGCACTCATGAGCTTCCCATTATTT
1 AGCTCTTATGAGCGTCCCGATATATGGCACTCATGAGCTTCCCAATATTT
* ** * *
11470025 AGCTCTTATGAGCTTCCCGAT-TAATGGCTTTCTTGAGCTTCCTAATATTT
1 AGCTCTTATGAGCGTCCCGATAT-ATGGCACTCATGAGCTTCCCAATATTT
11470075 GGCTAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (50 bp):
AGCTCTTATGAGCGTCCCGATATATGGCACTCATGAGCTTCCCAATATTT
Found at i:11476238 original size:19 final size:19
Alignment explanation
Indices: 11476214--11476253 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11476204 AATTGGTTTC
11476214 TAATATGAATGCTATATGA
1 TAATATGAATGCTATATGA
11476233 TAATATGAATGCTATATGA
1 TAATATGAATGCTATATGA
11476252 TA
1 TA
11476254 TGAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TAATATGAATGCTATATGA
Found at i:11479142 original size:17 final size:17
Alignment explanation
Indices: 11479120--11479153 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11479110 GAAGAATGTG
11479120 AGGTTTGAATGCCCTGA
1 AGGTTTGAATGCCCTGA
*
11479137 AGGTTTGAATGCTCTGA
1 AGGTTTGAATGCCCTGA
11479154 TAAATGGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (17 bp):
AGGTTTGAATGCCCTGA
Found at i:11482394 original size:25 final size:25
Alignment explanation
Indices: 11482366--11482415 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11482356 CAGCTCTTAT
* * *
11482366 GAGCATCTCGATATTTGGCTCTCAC
1 GAGCATCCCAATACTTGGCTCTCAC
*
11482391 GAGCTTCCCAATACTTGGCTCTCAC
1 GAGCATCCCAATACTTGGCTCTCAC
11482416 AATCTTCCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (25 bp):
GAGCATCCCAATACTTGGCTCTCAC
Found at i:11492649 original size:23 final size:22
Alignment explanation
Indices: 11492623--11492706 Score: 61
Period size: 23 Copynumber: 3.8 Consensus size: 22
11492613 TATTTTCTTT
11492623 ATATAATTTATTTATTATAAAAA
1 ATAT-ATTTATTTATTATAAAAA
*
11492646 ATATACTTATATTATTACT--AAA
1 ATATATTTAT-TTATTA-TAAAAA
* *
11492668 ATACCATTTATATATT-TATAAAA
1 ATA-TATTTATTTATTATA-AAAA
11492691 A-AT-TTTATTTATTATA
1 ATATATTTATTTATTATA
11492707 CATTGTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
20 10 0.21
21 2 0.04
22 16 0.33
23 19 0.40
24 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATTTATTTATTATAAAAA
Found at i:11507884 original size:118 final size:119
Alignment explanation
Indices: 11507703--11507924 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
11507693 TCCTCGTTCA
*
11507703 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
11507768 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
11507822 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
11507884 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
11507925 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11507924 original size:40 final size:40
Alignment explanation
Indices: 11507701--11507924 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
11507691 GCTCCTCGTT
* *
11507701 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
11507741 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
11507781 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
11507821 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
11507859 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
11507900 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11507925 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:11511541 original size:16 final size:14
Alignment explanation
Indices: 11511500--11511552 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
11511490 TTTATAACTT
11511500 TGAATGCAAATG-A
1 TGAATGCAAATGCA
11511513 TGCAATG-AAATGCTA
1 TG-AATGCAAATGC-A
11511528 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
11511543 TGAATGCAAA
1 TGAATGCAAA
11511553 AAGGACATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:11515387 original size:18 final size:19
Alignment explanation
Indices: 11515350--11515387 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11515340 GAGTAATTAT
*
11515350 TTAAAATATACATATATAA
1 TTAAAATACACATATATAA
*
11515369 TTAAAATACA-ATATTTAA
1 TTAAAATACACATATATAA
11515387 T
1 T
11515388 AATGCATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAATACACATATATAA
Found at i:11521770 original size:27 final size:28
Alignment explanation
Indices: 11521733--11521872 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
11521723 AGCATGGCTG
* *
11521733 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11521759 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
11521787 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
11521814 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
11521841 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11521868 CCAGA
1 CCAGA
11521873 ATGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:11523514 original size:26 final size:26
Alignment explanation
Indices: 11523478--11523587 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
11523468 CATGAAATTC
11523478 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
11523504 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11523530 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11523556 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
11523582 TTATCA
1 TTATCA
11523588 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:11525136 original size:22 final size:22
Alignment explanation
Indices: 11525107--11525166 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
11525097 CTAGAACATT
* *
11525107 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTAACA-ATTC
*
11525130 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAACAATTC
11525151 AGTGCTCTCTGTTTAA
1 AGTGCTCTCTGTTTAA
11525167 TAGTTCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAACAATTC
Found at i:11525173 original size:22 final size:21
Alignment explanation
Indices: 11525107--11525173 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
11525097 CTAGAACATT
*
11525107 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTA--ATATTC
*
11525130 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAATA-TTC
11525151 AGTGCTCTCTGTTTAATAGTTC
1 AGTGCTCTCTGTTTAATA-TTC
11525173 A
1 A
11525174 TAATAATGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 33 0.87
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (21 bp):
AGTGCTCTCTGTTTAATATTC
Found at i:11525892 original size:33 final size:34
Alignment explanation
Indices: 11525849--11525920 Score: 128
Period size: 33 Copynumber: 2.1 Consensus size: 34
11525839 GGGACACTTG
*
11525849 GTTAATGAGAAAACAAAACGACAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
11525883 -TTAATGAGAAAACAAAACGAAAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
11525916 GTTAA
1 GTTAA
11525921 CTTAAGCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (34 bp):
GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
Found at i:11528949 original size:31 final size:31
Alignment explanation
Indices: 11528911--11528973 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11528901 ACTGGCCATA
11528911 CTAGTCCCAATTCATCCATCTATCTTTGTAT
1 CTAGTCCCAATTCATCCATCTATCTTTGTAT
11528942 CTAGTCCCAATTCATCCATCTATCTTTGTAT
1 CTAGTCCCAATTCATCCATCTATCTTTGTAT
11528973 C
1 C
11528974 ACACAACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.06, T:0.41
Consensus pattern (31 bp):
CTAGTCCCAATTCATCCATCTATCTTTGTAT
Found at i:11529448 original size:34 final size:34
Alignment explanation
Indices: 11529405--11529473 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11529395 AATTTCAGCA
11529405 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
1 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
11529439 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
1 CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
11529473 C
1 C
11529474 CCCATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (34 bp):
CTCAAATTACTTGTGTGTAAGCAAGCAATACGCT
Found at i:11554226 original size:44 final size:44
Alignment explanation
Indices: 11554163--11554253 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
11554153 TAATTGTAAT
* * * *
11554163 TTAAATTCTAATTCTTTTTAAATGTGTAATTAGT-ACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTA-TAACAACTTCTA
*
11554207 TTAAATTATAGTTATTTTTAAATGTATAATTATAACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
11554251 TTA
1 TTA
11554254 TATTTCAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
Found at i:11555139 original size:11 final size:11
Alignment explanation
Indices: 11555123--11555155 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11555113 AATAAACTTT
11555123 GTAATTTTATA
1 GTAATTTTATA
11555134 GTAATTTTATA
1 GTAATTTTATA
*
11555145 ATAATTTTATA
1 GTAATTTTATA
11555156 TTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
GTAATTTTATA
Found at i:11555531 original size:3 final size:3
Alignment explanation
Indices: 11555523--11555549 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11555513 GGGTTTATAT
11555523 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
11555550 GAAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11557484 original size:16 final size:17
Alignment explanation
Indices: 11557453--11557485 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11557443 TTCATAAGTA
11557453 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
11557470 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
11557486 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:11557831 original size:46 final size:46
Alignment explanation
Indices: 11557771--11558268 Score: 703
Period size: 46 Copynumber: 10.8 Consensus size: 46
11557761 TTTGACATAA
* * * * * *
11557771 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGT
*** * * **
11557817 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
** ***
11557863 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
** * *
11557908 TGCCATGGTATCTTTTGACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
11557954 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* * *
11558000 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
11558046 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* *
11558092 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
11558138 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
11558184 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
11558230 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
11558269 TTCAGAAAGC
Statistics
Matches: 409, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 40 0.10
46 369 0.90
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
Found at i:11558128 original size:21 final size:21
Alignment explanation
Indices: 11558058--11558129 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
11558048 CCATGGTATC
11558058 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
11558079 TTTCATATCATGTTGTCATGGTA-TC-
1 TTTCA-ACCATG--GTC-T--TACACA
11558104 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
11558125 TTTCA
1 TTTCA
11558130 TATCCTGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:11561170 original size:5 final size:5
Alignment explanation
Indices: 11561140--11561208 Score: 65
Period size: 5 Copynumber: 14.2 Consensus size: 5
11561130 TGCAAATAAA
* *
11561140 AATAT -ATAGT AATAT AA-AT TATAT AATAT AATAT AA-AA ATATAT AATAT
1 AATAT AATA-T AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT
*
11561189 AATGT -ATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT A
11561209 TAAAAAAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 11 0.21
5 36 0.69
6 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:11561215 original size:37 final size:36
Alignment explanation
Indices: 11561135--11561214 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
11561125 TAATTTGCAA
11561135 ATAAAAATATATAGTAATATAAATTATATAATATAAT
1 ATAAAAA-ATATAGTAATATAAATTATATAATATAAT
11561172 AT-AAAAATATA-TAATAT-AATGTATATAATATAAT
1 ATAAAAAATATAGTAATATAAAT-TATATAATATAAT
11561206 ATATAAAAA
1 ATA-AAAAA
11561215 AAGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 3 0.08
34 21 0.52
35 5 0.12
36 9 0.22
37 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAAAAAATATAGTAATATAAATTATATAATATAAT
Found at i:11561376 original size:20 final size:20
Alignment explanation
Indices: 11561336--11561397 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
11561326 ACATATAAAA
*
11561336 ATATAATGAAATA-A-ATA-
1 ATATAATAAAATATATATAC
11561353 ATATAATAAAGATATATA-AC
1 ATATAATAAA-ATATATATAC
*
11561373 ATATAATAAAATTTATATAC
1 ATATAATAAAATATATATAC
11561393 ATATA
1 ATATA
11561398 TAATGTTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.24
18 3 0.08
19 8 0.21
20 18 0.47
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATAATAAAATATATATAC
Found at i:11563318 original size:173 final size:173
Alignment explanation
Indices: 11563131--11563528 Score: 629
Period size: 173 Copynumber: 2.3 Consensus size: 173
11563121 ATGCCAAATC
* * * * * *
11563131 ATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTACTGT-GTCTTCGATTTG-CTCC
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTACTATACT-TTCGATTTGTC-CC
*
11563194 TTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATC
64 TTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATC
*
11563259 TGCTATGTATCTACTCTCCATCGAAATGGAGATGTCAGATCTGTT
129 TGCTATGTATCTACTCTCCATCGAAATGGAGATGCCAGATCTGTT
* * *
11563304 ATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCCAGATCTGCTATACTTTTGATTTGTCCCTT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTACTATACTTTCGATTTGTCCCTT
11563369 GTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTG
66 GTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTG
* *
11563434 CTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTT
131 CTATGTATCTACTCTCCATCGAAATGGAGATGCCAGATCTGTT
* *
11563477 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGCTTT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTACTATACTTT
11563529 GGTCTGTTAC
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
173 206 0.99
174 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (173 bp):
ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTACTATACTTTCGATTTGTCCCTT
GTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTG
CTATGTATCTACTCTCCATCGAAATGGAGATGCCAGATCTGTT
Found at i:11563424 original size:87 final size:87
Alignment explanation
Indices: 11563120--11563524 Score: 266
Period size: 87 Copynumber: 4.7 Consensus size: 87
11563110 ACAATACAGA
* * * * * * * *
11563120 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTACTGTGTCTTCG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGTATTTG
*
11563185 ATTTG-CTCCTTGTGAACACAAG
66 ATTTGTC-CCTTGTAAACACAAG
** *
11563207 GATGCCAAATCATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATT
* * * * ***
11563270 T-A-CTCTCCATCG-AAA-TGGA-
64 TGATTTGTCCCTTGTAAACACAAG
* * * *
11563289 GATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCCAGATCTGCTATACT
1 GATGCCAAATC----ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTAT-GT
11563354 -TTTGATTTGTCCCTTGTAAACACAAG
61 ATTTGATTTGTCCCTTGTAAACACAAG
** *
11563380 GATGCCAAATCATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATT
* * * * ***
11563443 TG--CTCTCCGTCG-AAA-TGGA-
64 TGATTTGTCCCTTGTAAACACAAG
*
11563462 GATGCCAGATCTGTTATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
1 GATGCCAAATC----ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
11563525 CTTTGGTCTG
Statistics
Matches: 244, Mismatches: 50, Indels: 49
0.71 0.15 0.14
Matches are distributed among these distances:
82 19 0.08
83 2 0.01
84 5 0.02
85 12 0.05
86 89 0.36
87 96 0.39
88 8 0.03
89 3 0.01
90 1 0.00
91 9 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (87 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGTATTTG
ATTTGTCCCTTGTAAACACAAG
Found at i:11563493 original size:86 final size:86
Alignment explanation
Indices: 11563218--11563524 Score: 299
Period size: 86 Copynumber: 3.6 Consensus size: 86
11563208 ATGCCAAATC
** *
11563218 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATCTACTCTCCATC
1 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATC
*
11563281 GAAATGGAGATGTCAGATCTGTT
64 GAAATGGAGATGCCAGATCTGTT
* * * * * *
11563304 ATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCCAGATCTGCTATACT-TTTGATTTGTCCCT
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTAT-GTATCTG--CTCTCCAT
* *** *
11563368 TGTAAACACAAGGATGCCAAATC----
63 CG-AAA-TGGA-GATGCCAGATCTGTT
** *
11563391 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
1 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATC
11563454 GAAATGGAGATGCCAGATCTGTT
64 GAAATGGAGATGCCAGATCTGTT
11563477 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
11563525 CTTTGGTCTG
Statistics
Matches: 174, Mismatches: 30, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
82 10 0.06
83 1 0.01
84 3 0.02
85 8 0.05
86 84 0.48
87 48 0.28
88 7 0.04
89 3 0.02
90 1 0.01
91 9 0.05
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGA
AATGGAGATGCCAGATCTGTT
Found at i:11575515 original size:14 final size:13
Alignment explanation
Indices: 11575505--11575608 Score: 65
Period size: 12 Copynumber: 8.2 Consensus size: 13
11575495 GTATAGTATA
* *
11575505 ATATATATAGTGT
1 ATATATATAATAT
*
11575518 ATA-ATATAATTT
1 ATATATATAATAT
* * *
11575530 ACAAATA-AAAAT
1 ATATATATAATAT
*
11575542 ATATA-GTAATAT
1 ATATATATAATAT
*
11575554 AAATTATATAATAT
1 ATA-TATATAATAT
*
11575568 A-ATATAAAATAT
1 ATATATATAATAT
*
11575580 ATA-ATATAATGT
1 ATATATATAATAT
11575592 ATATAATATAATAT
1 ATAT-ATATAATAT
11575606 ATA
1 ATA
11575609 AAAAAAGTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
12 41 0.59
13 10 0.14
14 18 0.26
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:11575525 original size:5 final size:5
Alignment explanation
Indices: 11575517--11575606 Score: 75
Period size: 5 Copynumber: 18.8 Consensus size: 5
11575507 ATATATAGTG
* * *
11575517 TATAA TATAA TTTACA AATAA -A-AA TAT-A TAGTAA TATAA -ATTA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA
* *
11575565 TATAA TATAA AAT-A TATAA TATAA TGT-A TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
11575607 TAAAAAAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
3 2 0.03
4 14 0.21
5 46 0.68
6 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:11575562 original size:19 final size:18
Alignment explanation
Indices: 11575534--11575701 Score: 93
Period size: 19 Copynumber: 9.1 Consensus size: 18
11575524 TAATTTACAA
11575534 ATAAAA-ATATATAGTAAT
1 ATAAAATATATATA-TAAT
*
11575552 ATAAATTATATAATATAAT
1 ATAAAATATAT-ATATAAT
11575571 ATAAAATATATAATATAATGT
1 ATAAAATATAT-ATATAA--T
*
11575592 ATATAATATAATATATAA-
1 ATAAAATAT-ATATATAAT
11575610 A-AAAAGTAT-TATGATAGAT
1 ATAAAA-TATATAT-ATA-AT
*
11575629 AGTAAAATATAATATGTAAT
1 A-TAAAATAT-ATATATAAT
*
11575649 A-AAAAT-TCATAAATAA-
1 ATAAAATAT-ATATATAAT
*
11575665 ATATAATGA-A-ATATAAT
1 ATAAAAT-ATATATATAAT
*
11575682 ATAAAATATGTATACTAAT
1 ATAAAATATATATA-TAAT
11575701 A
1 A
11575702 ATAATAATGT
Statistics
Matches: 118, Mismatches: 12, Indels: 39
0.70 0.07 0.23
Matches are distributed among these distances:
16 10 0.08
17 24 0.20
18 18 0.15
19 31 0.26
20 9 0.08
21 21 0.18
22 5 0.04
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (18 bp):
ATAAAATATATATATAAT
Found at i:11582942 original size:10 final size:9
Alignment explanation
Indices: 11582917--11583017 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
11582907 CAATATATGG
*
11582917 TAAAAATGA
1 TAAAAATAA
11582926 T-AAAATAAA
1 TAAAAAT-AA
11582935 TAAAAATAA
1 TAAAAATAA
* *
11582944 TAAAATTTA
1 TAAAAATAA
* * *
11582953 TTAAATTTA
1 TAAAAATAA
11582962 TAAAAATATA
1 TAAAAATA-A
* *
11582972 TTTAAAATTTAT
1 --TAAAA-ATAA
*
11582984 TAAAAATTA
1 TAAAAATAA
11582993 TAAAAATATA
1 TAAAAATA-A
*
11583003 TAAAAATAG
1 TAAAAATAA
11583012 TAAAAA
1 TAAAAA
11583018 AACGTAAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
8 5 0.07
9 39 0.55
10 20 0.28
12 5 0.07
13 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATAA
Found at i:11582980 original size:30 final size:31
Alignment explanation
Indices: 11582944--11583003 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
11582934 ATAAAAATAA
*
11582944 TAAAATTTATT-AAATTTATAAAAATATATT
1 TAAAATTTATTAAAAATTATAAAAATATATT
11582974 TAAAATTTATTAAAAATTATAAAAATATAT
1 TAAAATTTATTAAAAATTATAAAAATATAT
11583004 AAAAATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAAATTTATTAAAAATTATAAAAATATATT
Found at i:11583018 original size:10 final size:10
Alignment explanation
Indices: 11582927--11583071 Score: 70
Period size: 10 Copynumber: 14.8 Consensus size: 10
11582917 TAAAAATGAT
*
11582927 AAAATAAATA
1 AAAATATATA
11582937 AAAATA-AT-
1 AAAATATATA
*
11582945 AAAATTTAT-
1 AAAATATATA
* *
11582954 TAAATTTATA
1 AAAATATATA
*
11582964 AAAATATATTT
1 AAAATATA-TA
*
11582975 AAAATTTATTA
1 AAAATATA-TA
11582986 AAAAT-TATA
1 AAAATATATA
11582995 AAAATATATA
1 AAAATATATA
11583005 AAAATAGTA-A
1 AAAATA-TATA
**
11583015 AAAA-ACGT-
1 AAAATATATA
*
11583023 AAAATGTATA
1 AAAATATATA
* *
11583033 GAAATATAGA
1 AAAATATATA
*
11583043 AAAAAATTATA
1 AAAATA-TATA
* *
11583054 AAATTTTATA
1 AAAATATATA
*
11583064 AAATTATA
1 AAAATATA
11583072 AGAGAGTTAT
Statistics
Matches: 104, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
8 9 0.09
9 21 0.20
10 51 0.49
11 23 0.22
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAATATATA
Found at i:11583019 original size:30 final size:30
Alignment explanation
Indices: 11582959--11583066 Score: 80
Period size: 31 Copynumber: 3.6 Consensus size: 30
11582949 TTTATTAAAT
* * *
11582959 TTATAAAAATATATTTAAAAT-TTATTAAAAA
1 TTATAAAAATATA-TAAAAATAGTA-AAAAAA
11582990 TTATAAAAATATATAAAAATAGTAAAAAAA
1 TTATAAAAATATATAAAAATAGTAAAAAAA
** *
11583020 -CGT-AAAATGTATAGAAATATAG-AAAAAAA
1 TTATAAAAATATATA-AAA-ATAGTAAAAAAA
* *
11583049 TTATAAAATTTTATAAAA
1 TTATAAAAATATATAAAA
11583067 TTATAAGAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
28 9 0.15
29 11 0.18
30 19 0.31
31 23 0.37
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (30 bp):
TTATAAAAATATATAAAAATAGTAAAAAAA
Found at i:11591464 original size:29 final size:30
Alignment explanation
Indices: 11591405--11591462 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11591395 TCCGAGCCTT
*
11591405 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11591435 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11591463 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11591914 original size:50 final size:50
Alignment explanation
Indices: 11591800--11592041 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
11591790 ATTTGGGTAA
* * * *
11591800 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
11591856 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11591906 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11591956 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
11592006 AGAACATCCCATGTAAAACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
11592042 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:11591984 original size:100 final size:103
Alignment explanation
Indices: 11591800--11592049 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
11591790 ATTTGGGTAA
*
11591800 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
11591865 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11591906 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
11591968 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
11592006 AGAACATCCCATGTAAAACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11592050 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11596694 original size:16 final size:14
Alignment explanation
Indices: 11596673--11596706 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
11596663 ATAAAACATT
11596673 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
11596689 TTATAAATTTTATA
1 TTATAAATTTTATA
11596703 TTAT
1 TTAT
11596707 TTTTTTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:11598833 original size:43 final size:43
Alignment explanation
Indices: 11598755--11598850 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
11598745 AGCCTCAAGC
* *
11598755 CTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
* *
11598798 CTTATCTTTCTGAGGTAGCAAGAAAGC-AGACTGAAGATTAAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAG-CTGAAGATT-GAG-T
11598843 CTTATCTC
1 CTTATCTC
11598851 CCTAAGCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 2 0.04
43 33 0.73
44 2 0.04
45 8 0.18
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
Found at i:11599031 original size:176 final size:174
Alignment explanation
Indices: 11598700--11599107 Score: 525
Period size: 176 Copynumber: 2.3 Consensus size: 174
11598690 TGAAGATTGA
* * *
11598700 AAGA-GGCAAATCTTATCTCTATGTATCGACAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCT
1 AAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACAAGCCTTATCTCT
* *
11598764 CTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGAC
66 CTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
11598829 TGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCG
131 TGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAAC--ATCG
* * * * *
11598875 AAGATGGCGAGTCTTATCTCCATGTATCGATAATGGAACAGATTTTAGCCACTAGCCTTATCTCT
1 AAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACAAGCCTTATCTCT
* * * *
11598940 CTGAGGTAGCAAGAGAGTAGGTTGGCA-ATTGTAGTCTTATCTTCCTGAGGTAACAAGAAAGTAG
66 CTGAGGTAGCAAGAGAGCAAGTT-GAAGATTG-AGTCTTATCTTCCTGAGGTAACAAGAAAGCAG
* * * * * *
11599004 ACTGAAGATTGAAGAT-TTATTTCCCTAAGTAGTTGTGGAGCATCG
129 ACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACATCG
* * * * *
11599049 AGGCTGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGTCACCAAGCCT
1 AAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCA-CAAGCCT
11599108 ATTTCCCTAA
Statistics
Matches: 199, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
174 46 0.23
175 10 0.05
176 97 0.49
177 46 0.23
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (174 bp):
AAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACAAGCCTTATCTCT
CTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAACAAGAAAGCAGAC
TGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACATCG
Found at i:11600871 original size:30 final size:31
Alignment explanation
Indices: 11600800--11600871 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
11600790 ATGTTATTTT
*
11600800 ATACAT-ATATATATTTTTTTAAATCTACTTGT
1 ATACATAAT-TAT-TTTTTTTAAATCTACTTGC
*
11600832 ATACGTAATTATTTTTTTTAAATCTA-TTGC
1 ATACATAATTATTTTTTTTAAATCTACTTGC
*
11600862 ATATATAATT
1 ATACATAATT
11600872 TATGATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 11 0.31
31 14 0.40
32 8 0.23
33 2 0.06
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (31 bp):
ATACATAATTATTTTTTTTAAATCTACTTGC
Found at i:11603342 original size:18 final size:18
Alignment explanation
Indices: 11603307--11603343 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11603297 ACTCATTTAC
* *
11603307 TTTTTTAAAATTATAATT
1 TTTTTTAAAAATAAAATT
11603325 TTTTTTAAAAATAAAATT
1 TTTTTTAAAAATAAAATT
11603343 T
1 T
11603344 AAATTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTAAAAATAAAATT
Found at i:11603795 original size:21 final size:21
Alignment explanation
Indices: 11603770--11603816 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11603760 ACAAAATGGT
*
11603770 TTTTTCATGTAAAAAT-TAAAG
1 TTTTTCATATAAAAATCT-AAG
*
11603791 TTTTTCTTATAAAAATCTAAG
1 TTTTTCATATAAAAATCTAAG
11603812 TTTTT
1 TTTTT
11603817 TTCTGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTCATATAAAAATCTAAG
Found at i:11608519 original size:125 final size:126
Alignment explanation
Indices: 11608363--11608600 Score: 372
Period size: 125 Copynumber: 1.9 Consensus size: 126
11608353 TTTATTCATT
* *
11608363 ATTTAATCTATTTTTTATTTTAATATTGTACATAT-TTAATGTGTTATTATGATTAATTAGTTTC
1 ATTTAATCTATTTTTTATTTTAATATCGTACATATATT-ATGTGTTATTATGATTAATTAATTTC
** *
11608427 AAACCATACGGTTCATTAATTATTGTATGTTATTTTTAAATAAACATCTATAATCATATATA
65 AAACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCTATAATCATATATA
11608489 ATTTAATCTA-TTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
1 ATTTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
* * * *
11608553 AACTATATGTTTCATTAATTATTACATGTTATTTTTAAACATACATCT
66 AACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCT
11608601 GTATTTTAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
125 90 0.88
126 12 0.12
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.51
Consensus pattern (126 bp):
ATTTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
AACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCTATAATCATATATA
Found at i:11615128 original size:10 final size:10
Alignment explanation
Indices: 11615115--11615147 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11615105 AGCTGAATTT
11615115 TTTTATAAAA
1 TTTTATAAAA
11615125 TTTTATAAAA
1 TTTTATAAAA
11615135 TTTT-TAATAA
1 TTTTATAA-AA
11615145 TTT
1 TTT
11615148 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:11625164 original size:45 final size:45
Alignment explanation
Indices: 11625073--11625189 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
11625063 CCGGTATTTC
* * * * *
11625073 GCCTGCTAGGCTCGAA-G-CCTAATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGACATCATA
11625116 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
11625161 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
11625190 CTGTACGATA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 15 0.23
44 1 0.02
45 49 0.74
46 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
Found at i:11631188 original size:15 final size:14
Alignment explanation
Indices: 11631142--11631196 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
11631132 TTTCTATAAC
*
11631142 TATGAATGCAAACG
1 TATGAATGCAAATG
*
11631156 -ATGCGATG-AAATG
1 TATG-AATGCAAATG
11631169 CTATGAGATGCAAATG
1 -TATGA-ATGCAAATG
11631185 TATGAATGCAAA
1 TATGAATGCAAA
11631197 AAAACATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 7 0.21
14 10 0.30
15 11 0.33
16 5 0.15
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (14 bp):
TATGAATGCAAATG
Found at i:11635190 original size:5 final size:5
Alignment explanation
Indices: 11635173--11635262 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
11635163 TATTTTACAT
* * *
11635173 ATAAA ATATA ATAAA AT-AA ATAAT ATAAA AAATAA ATAAAA ATAAA A-AAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA AT-AAA ATAAA ATAAA
* * *
11635223 CAGAAT ATATAT ATAAA ATAAA ATAAA ATATATA ATAAA A
1 -ATAAA ATA-AA ATAAA ATAAA ATAAA ATA-A-A ATAAA A
11635263 GATTTTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
4 7 0.10
5 40 0.59
6 16 0.24
7 5 0.07
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (5 bp):
ATAAA
Found at i:11635199 original size:17 final size:17
Alignment explanation
Indices: 11635177--11635244 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
11635167 TTACATATAA
11635177 AATATAATAAAATAAAT
1 AATATAATAAAATAAAT
11635194 AATATAA-AAAATAAAT
1 AATATAATAAAATAAAT
* * *
11635210 AAAAATAAAAAAACAGAAT
1 -AATATAATAAAATA-AAT
11635229 -ATATATATAAAATAAA
1 AATATA-ATAAAATAAA
11635245 ATAAAATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.21
17 19 0.45
18 11 0.26
19 3 0.07
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (17 bp):
AATATAATAAAATAAAT
Found at i:11635204 original size:26 final size:25
Alignment explanation
Indices: 11635175--11635245 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
11635165 TTTTACATAT
* *
11635175 AAAATATAATAAAATAAATAATATAA
1 AAAATATAATAAAATAAA-AAAACAA
*
11635201 AAAATA-AATAAAAATAAAAAAACAG
1 AAAATATAAT-AAAATAAAAAAACAA
*
11635226 AATATATATATAAAATAAAA
1 AAAATATA-ATAAAATAAAA
11635246 TAAAATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 12 0.32
26 24 0.63
27 2 0.05
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (25 bp):
AAAATATAATAAAATAAAAAAACAA
Found at i:11635229 original size:19 final size:20
Alignment explanation
Indices: 11635186--11635262 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
11635176 AAATATAATA
*
11635186 AAATAAATAATATAAAAAAT
1 AAATAAATAATATAAAAAAC
11635206 AAATAAA-AATA-AAAAAAC
1 AAATAAATAATATAAAAAAC
* *
11635224 AGAATATAT-ATATAAAATA-
1 A-AATAAATAATATAAAAAAC
11635243 AAATAAA-ATATATAATAAAA
1 AAATAAATA-ATATAA-AAAA
11635263 GATTTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 12 0.26
19 19 0.41
20 15 0.33
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (20 bp):
AAATAAATAATATAAAAAAC
Found at i:11635245 original size:23 final size:22
Alignment explanation
Indices: 11635173--11635262 Score: 53
Period size: 21 Copynumber: 4.3 Consensus size: 22
11635163 TATTTTACAT
* * *
11635173 ATAAAATATAATAAAATAAATA
1 ATAAAATAAAACAAAATATATA
* * *
11635195 ATATAA-AAAA-TAAATA-AAA
1 ATAAAATAAAACAAAATATATA
* * * *
11635214 ATAAAAAAACAGAATATATAT-
1 ATAAAATAAAACAAAATATATA
*
11635235 ATAAAATAAAATAAAATATATA
1 ATAAAATAAAACAAAATATATA
11635257 ATAAAA
1 ATAAAA
11635263 GATTTTTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 7 0.14
20 8 0.16
21 24 0.47
22 12 0.24
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (22 bp):
ATAAAATAAAACAAAATATATA
Found at i:11643299 original size:221 final size:221
Alignment explanation
Indices: 11642916--11643359 Score: 888
Period size: 221 Copynumber: 2.0 Consensus size: 221
11642906 TCCTTGGAAA
11642916 GTGTCTTAGGTTCAGGCTCTTCTATAAGTGGCAGCTTTCCAAAATCCTTCACAGGAGGTTGATTT
1 GTGTCTTAGGTTCAGGCTCTTCTATAAGTGGCAGCTTTCCAAAATCCTTCACAGGAGGTTGATTT
11642981 TCCATTGGCTAAGCTTAAGAAGATGGGCAGACAGGCAACAAGGTAAAATAGAAGATGAAGCTTGA
66 TCCATTGGCTAAGCTTAAGAAGATGGGCAGACAGGCAACAAGGTAAAATAGAAGATGAAGCTTGA
11643046 AATTTTTGGAGTTTGGGTTTGGCTAAATGTACAATTGTTGAGGTGAGATGGTTAACTAGAAGAAA
131 AATTTTTGGAGTTTGGGTTTGGCTAAATGTACAATTGTTGAGGTGAGATGGTTAACTAGAAGAAA
11643111 ACGTGGCTACTGATGAATTCAGCAGG
196 ACGTGGCTACTGATGAATTCAGCAGG
11643137 GTGTCTTAGGTTCAGGCTCTTCTATAAGTGGCAGCTTTCCAAAATCCTTCACAGGAGGTTGATTT
1 GTGTCTTAGGTTCAGGCTCTTCTATAAGTGGCAGCTTTCCAAAATCCTTCACAGGAGGTTGATTT
11643202 TCCATTGGCTAAGCTTAAGAAGATGGGCAGACAGGCAACAAGGTAAAATAGAAGATGAAGCTTGA
66 TCCATTGGCTAAGCTTAAGAAGATGGGCAGACAGGCAACAAGGTAAAATAGAAGATGAAGCTTGA
11643267 AATTTTTGGAGTTTGGGTTTGGCTAAATGTACAATTGTTGAGGTGAGATGGTTAACTAGAAGAAA
131 AATTTTTGGAGTTTGGGTTTGGCTAAATGTACAATTGTTGAGGTGAGATGGTTAACTAGAAGAAA
11643332 ACGTGGCTACTGATGAATTCAGCAGG
196 ACGTGGCTACTGATGAATTCAGCAGG
11643358 GT
1 GT
11643360 ATCTCTGCCA
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 223 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (221 bp):
GTGTCTTAGGTTCAGGCTCTTCTATAAGTGGCAGCTTTCCAAAATCCTTCACAGGAGGTTGATTT
TCCATTGGCTAAGCTTAAGAAGATGGGCAGACAGGCAACAAGGTAAAATAGAAGATGAAGCTTGA
AATTTTTGGAGTTTGGGTTTGGCTAAATGTACAATTGTTGAGGTGAGATGGTTAACTAGAAGAAA
ACGTGGCTACTGATGAATTCAGCAGG
Found at i:11647356 original size:20 final size:21
Alignment explanation
Indices: 11647331--11647380 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
11647321 GCTTGCACAG
11647331 GTTTGCACTTTGATGCC-TTT
1 GTTTGCACTTTGATGCCTTTT
*
11647351 GTTTGCACTTTGGTGCCTTTT
1 GTTTGCACTTTGATGCCTTTT
*
11647372 GTTTTCACT
1 GTTTGCACT
11647381 ACTGTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.52
Consensus pattern (21 bp):
GTTTGCACTTTGATGCCTTTT
Found at i:11651128 original size:26 final size:26
Alignment explanation
Indices: 11651091--11651148 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
11651081 TGATACAAAT
11651091 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11651117 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11651143 TGATAA
1 TGATAA
11651149 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11652798 original size:27 final size:27
Alignment explanation
Indices: 11652757--11652896 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
11652747 GAGGAAGCGT
*
11652757 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
11652784 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11652811 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11652838 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
11652866 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
11652892 TCTGG
1 TCTGG
11652897 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:11652842 original size:54 final size:55
Alignment explanation
Indices: 11652757--11652896 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
11652747 GAGGAAGCGT
* * *
11652757 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
11652811 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
11652866 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
11652897 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:11656880 original size:26 final size:26
Alignment explanation
Indices: 11656843--11656926 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11656833 TGATACAAAT
* *
11656843 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11656869 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11656895 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11656921 TGATAA
1 TGATAA
11656927 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11658577 original size:27 final size:27
Alignment explanation
Indices: 11658536--11658648 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
11658526 GCGGAAGCGT
*
11658536 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11658563 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11658590 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
11658618 TCTAGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
11658644 TCTGG
1 TCTGG
11658649 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.05
27 55 0.75
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:11658641 original size:54 final size:54
Alignment explanation
Indices: 11658534--11658648 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
11658524 TGGCGGAAGC
* *
11658534 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* * * *
11658588 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
11658642 GTTCTGG
1 GTTCTGG
11658649 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:11658734 original size:19 final size:22
Alignment explanation
Indices: 11658710--11658749 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
11658700 CTCCCCACAC
11658710 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
11658729 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
11658750 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:11661865 original size:7 final size:7
Alignment explanation
Indices: 11661853--11661878 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11661843 AAGTTAAAAA
11661853 AATAATT
1 AATAATT
11661860 AATAATT
1 AATAATT
11661867 AATAATT
1 AATAATT
11661874 AATAA
1 AATAA
11661879 AGGATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:11663476 original size:18 final size:16
Alignment explanation
Indices: 11663433--11663476 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11663423 CCGTTATGTC
11663433 CGCGACCGCGA-CAAA
1 CGCGACCGCGACCAAA
11663448 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACC--AAA
11663465 CGCGACCGCGAC
1 CGCGACCGCGAC
11663477 TGCAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 6 0.24
17 8 0.32
18 6 0.24
ACGTcount: A:0.30, C:0.41, G:0.30, T:0.00
Consensus pattern (16 bp):
CGCGACCGCGACCAAA
Found at i:11665874 original size:38 final size:40
Alignment explanation
Indices: 11665832--11665909 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 40
11665822 ATTCAATACA
*
11665832 AAAATATATATTATATTTAT-TTGT-GTTTTTAATATAAT
1 AAAATATATATTATATTTATATAGTAGTTTTTAATATAAT
*
11665870 AAAATATTTATTATATTTATAGTAGTAGTTTTTAATATAA
1 AAAATATATATTATATTTATA-TAGTAGTTTTTAATATAA
11665910 ATTATTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 19 0.54
40 3 0.09
41 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (40 bp):
AAAATATATATTATATTTATATAGTAGTTTTTAATATAAT
Found at i:11668629 original size:33 final size:33
Alignment explanation
Indices: 11668587--11668657 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
11668577 ATAGCTTAAA
11668587 GAATGGCCTTAATAAAAACTTCTTTCCCATATT
1 GAATGGCCTTAATAAAAACTTCTTTCCCATATT
11668620 GAATGGCCTTAATAAAAACTTCTTTCCCATATT
1 GAATGGCCTTAATAAAAACTTCTTTCCCATATT
11668653 GAATG
1 GAATG
11668658 AGATGCTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (33 bp):
GAATGGCCTTAATAAAAACTTCTTTCCCATATT
Found at i:11680999 original size:3 final size:3
Alignment explanation
Indices: 11680991--11681042 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11680981 ATGATACTCT
11680991 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11681039 TTC T
1 TTC T
11681043 GTTGCTGCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:11687239 original size:15 final size:15
Alignment explanation
Indices: 11687219--11687258 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11687209 TTTGATAAAC
*
11687219 TGAAAAATTAAGTAT
1 TGAAAAATTAAATAT
* *
11687234 TGAAAATTTAAATCT
1 TGAAAAATTAAATAT
11687249 TGAAAAATTA
1 TGAAAAATTA
11687259 TGTGCTCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (15 bp):
TGAAAAATTAAATAT
Found at i:11688353 original size:23 final size:23
Alignment explanation
Indices: 11688317--11688366 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11688307 TAAACAAAAT
11688317 AAAAACCACAAAAAATATAGACAA
1 AAAAACCACAAAAAATATAGA-AA
* *
11688341 AAAAACCA-TAAAATTATAGAAA
1 AAAAACCACAAAAAATATAGAAA
11688363 AAAA
1 AAAA
11688367 TCACGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 10 0.42
24 8 0.33
ACGTcount: A:0.72, C:0.12, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAAACCACAAAAAATATAGAAA
Found at i:11688944 original size:23 final size:24
Alignment explanation
Indices: 11688918--11688966 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
11688908 GATCAAATAT
*
11688918 ATATTTAATATA-TTAAAAAATTA
1 ATATTAAATATATTTAAAAAATTA
11688941 ATATTAAATATATTTTAAAAAATTA
1 ATATTAAATATA-TTTAAAAAATTA
11688966 A
1 A
11688967 AGTACGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
25 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTAAATATATTTAAAAAATTA
Found at i:11690485 original size:14 final size:14
Alignment explanation
Indices: 11690466--11690492 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11690456 AAAAAATCGG
11690466 TTTGAATCCTATGA
1 TTTGAATCCTATGA
11690480 TTTGAATCCTATG
1 TTTGAATCCTATG
11690493 CGATGGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTGAATCCTATGA
Found at i:11692180 original size:36 final size:36
Alignment explanation
Indices: 11692131--11692206 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
11692121 TGACCCCTCT
* * * * *
11692131 CATCTCGCTATTCATCCTCGTTGACTCATCCGTTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
*
11692167 CATCTCGCCATTCAACATCGTTGACCCATCTGCTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
11692203 CATC
1 CATC
11692207 GTGAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.41, G:0.11, T:0.32
Consensus pattern (36 bp):
CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
Found at i:11694864 original size:46 final size:46
Alignment explanation
Indices: 11694814--11694909 Score: 104
Period size: 46 Copynumber: 2.1 Consensus size: 46
11694804 TATTTTTGTG
* * *
11694814 TTCTCAAAT-CTGCAATGTATGTAGGAGCTCGGAACCTAATCCTGTA
1 TTCTCAAATGC-GCAACGTATGCAGCAGCTCGGAACCTAATCCTGTA
* * * * *
11694860 TTCTCGAGTGCGTAACGTATGCAGCAGCTCGGAACCTATTCTTGTA
1 TTCTCAAATGCGCAACGTATGCAGCAGCTCGGAACCTAATCCTGTA
11694906 TTCT
1 TTCT
11694910 TGAGTCCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (46 bp):
TTCTCAAATGCGCAACGTATGCAGCAGCTCGGAACCTAATCCTGTA
Found at i:11694927 original size:46 final size:46
Alignment explanation
Indices: 11694839--11694929 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
11694829 TGTATGTAGG
* ** *
11694839 AGCTCGGAACCTAATCCTGTATTCTCGAGTGCGTAACGTATGCAGC
1 AGCTCGGAACCTAATCCTGTATTCTCGAGTCCACAACATATGCAGC
* * *
11694885 AGCTCGGAACCTATTCTTGTATTCTTGAGTCCACAACATATGCAG
1 AGCTCGGAACCTAATCCTGTATTCTCGAGTCCACAACATATGCAG
11694930 GAGTTTGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (46 bp):
AGCTCGGAACCTAATCCTGTATTCTCGAGTCCACAACATATGCAGC
Found at i:11696825 original size:40 final size:40
Alignment explanation
Indices: 11696781--11696876 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
11696771 TAATTCCCAG
* ** * *
11696781 AATTTCTATTGTTTTGGCAGTATATTTAATGATTTACTAA
1 AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
** * * *
11696821 AATTTCTAAGGGTTTATCAAAATATTTGATGAGTTACAAA
1 AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
11696861 AATTTCTATTGTTTTA
1 AATTTCTATTGTTTTA
11696877 CCAATATTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (40 bp):
AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
Found at i:11697048 original size:20 final size:20
Alignment explanation
Indices: 11696985--11697075 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
11696975 ATGGGCTTAT
* *
11696985 CAAAATATCTAAGAATTTGC
1 CAAAATATCTAACAATTTAC
* * * *
11697005 CTATATATCTAACAACTGAC
1 CAAAATATCTAACAATTTAC
*
11697025 CAAAATATCTAACAATTTAT
1 CAAAATATCTAACAATTTAC
* * **
11697045 CAAAATTTCTATCGTTTTAC
1 CAAAATATCTAACAATTTAC
*
11697065 CAATATATCTA
1 CAAAATATCTA
11697076 GCAAATTATT
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (20 bp):
CAAAATATCTAACAATTTAC
Found at i:11697110 original size:40 final size:40
Alignment explanation
Indices: 11697023--11697102 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
11697013 CTAACAACTG
* * * *
11697023 ACCAAAATATCTAACAATTTATCAAAATTTCTATCGTTTT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
* * *
11697063 ACCAATATATCTAGCAAATTATTAACATTTCTATCATTAT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
11697103 GTCAATATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (40 bp):
ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
Found at i:11697255 original size:39 final size:39
Alignment explanation
Indices: 11697200--11697345 Score: 127
Period size: 40 Copynumber: 3.7 Consensus size: 39
11697190 ACAATTTTTT
* * *
11697200 TTTTAAAGATTTACCAATATTTCTAAGGA-TTCCCAAAA
1 TTTTAACGATTTACCAATATTTCTAAAGATTTACCAAAA
*
11697238 TATTTAACGATTTACCAAAATTTCTAAAGATTTACCAAAA
1 T-TTTAACGATTTACCAATATTTCTAAAGATTTACCAAAA
* * * *
11697278 TTTCTATC-ATTTTACCAATATTTAT-GAGACTTTACCGAAA
1 TTT-TAACGA-TTTACCAATATTTCTAAAGA-TTTACCAAAA
* * *
11697318 TTTTAAAGATTTTATCAATATTTTTAAA
1 TTTTAACGA-TTTACCAATATTTCTAAA
11697346 TTTTCTAAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 33 0.38
40 52 0.60
41 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (39 bp):
TTTTAACGATTTACCAATATTTCTAAAGATTTACCAAAA
Found at i:11697292 original size:40 final size:39
Alignment explanation
Indices: 11697201--11697300 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 39
11697191 CAATTTTTTT
* * *
11697201 TTTAAAGATTTACCAATATTTCTAAGGATTCCCAAAATA
1 TTTAACGATTTACCAATATTTCTAAAGATTACCAAAATA
*
11697240 TTTAACGATTTACCAAAATTTCTAAAGATTTACCAAAAT-
1 TTTAACGATTTACCAATATTTCTAAAGA-TTACCAAAATA
*
11697279 TTCTATC-ATTTTACCAATATTT
1 TT-TAACGA-TTTACCAATATTT
11697301 ATGAGACTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
39 28 0.54
40 24 0.46
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (39 bp):
TTTAACGATTTACCAATATTTCTAAAGATTACCAAAATA
Found at i:11697295 original size:20 final size:20
Alignment explanation
Indices: 11697203--11697283 Score: 103
Period size: 20 Copynumber: 4.1 Consensus size: 20
11697193 ATTTTTTTTT
*
11697203 TAAAGATTTACCAATATTTC
1 TAAAGATTTACCAAAATTTC
* *
11697223 TAAGGA-TTCCCAAAATATT-
1 TAAAGATTTACCAAAAT-TTC
*
11697242 TAACGATTTACCAAAATTTC
1 TAAAGATTTACCAAAATTTC
11697262 TAAAGATTTACCAAAATTTC
1 TAAAGATTTACCAAAATTTC
11697282 TA
1 TA
11697284 TCATTTTACC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
19 15 0.29
20 37 0.71
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (20 bp):
TAAAGATTTACCAAAATTTC
Found at i:11697331 original size:20 final size:19
Alignment explanation
Indices: 11697200--11697329 Score: 95
Period size: 20 Copynumber: 6.6 Consensus size: 19
11697190 ACAATTTTTT
*
11697200 TTTTAAAGATTTACCAATA
1 TTTTAAAGATTTACCAAAA
* *
11697219 TTTCTAAGGA-TTCCCAAAA
1 TTT-TAAAGATTTACCAAAA
*
11697238 TATTTAACGATTTACCAAAA
1 T-TTTAAAGATTTACCAAAA
11697258 TTTCTAAAGATTTACCAAAA
1 TTT-TAAAGATTTACCAAAA
* * *
11697278 TTTCTATCA-TTTTACCAATA
1 TTT-TA-AAGATTTACCAAAA
* *
11697298 -TTTATGAGACTTTACCGAAA
1 TTTTA-AAGA-TTTACCAAAA
11697318 TTTTAAAGATTT
1 TTTTAAAGATTT
11697330 TATCAATATT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
18 4 0.04
19 23 0.26
20 57 0.64
21 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (19 bp):
TTTTAAAGATTTACCAAAA
Found at i:11697416 original size:164 final size:163
Alignment explanation
Indices: 11697232--11697628 Score: 412
Period size: 164 Copynumber: 2.4 Consensus size: 163
11697222 CTAAGGATTC
* * * *
11697232 CCAAAATATTTAACGATTTACCAAAATTTCTAAAGATTTACCAAAATTTCTATCATTTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAAGATTTACCAATATATCTAACA-TTTACCAAT
* * * * **
11697297 ATT-TATGAGACTTTACCGAA-AT-TTTAAAGATTTTATCAATATTTTTAAATTTTCTAAAC-CT
65 ATTCTAT--CACTTTACC-AATATGTAT-AAGACTTTACCAATATTTCCAAATTTTCTAAACAC-
11697358 TATACCAAGTAC-TAACAATTACCAAAATTTCTATAAC-A
125 TATACCAAGT-CTTAACAATTACCAAAATTTCTATAACTA
* * *
11697396 CCAAAATATCTAAGGATTTACCAATATTTCT-AAGCATTTACCAATATATCTAAGGATTTACCAA
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAAG-ATTTACCAATATATCTAA-CATTTACC-A
* ** * * *
11697460 AAATTCTATCTTTTTACCAATATGTATGAGACTTTACCCATATTTCCAATTTTTCTAAACACTAT
63 ATATTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTAT
* *
11697525 ACCAAGTCTTAACAATTACTAAAATTTCTATGACTTTA
128 ACCAAGTCTTAACAATTACCAAAATTTCTATAAC--TA
** *
11697563 CCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAAGATTTACCAATATATCTAAC-ATTTACCAAT
11697628 A
65 A
11697629 ACTTTAAGGA
Statistics
Matches: 193, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
163 6 0.03
164 116 0.60
165 9 0.05
166 6 0.03
167 54 0.28
168 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (163 bp):
CCAAAATATCTAACGATTTACCAAAATTTCTAAAGATTTACCAATATATCTAACATTTACCAATA
TTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATACC
AAGTCTTAACAATTACCAAAATTTCTATAACTA
Found at i:11697427 original size:20 final size:20
Alignment explanation
Indices: 11697395--11697459 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
11697385 TTTCTATAAC
*
11697395 ACCAAAATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
* *
11697415 ACCAATATTTCTAAGCATTT
1 ACCAATATATCTAAGGATTT
11697435 ACCAATATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
11697455 ACCAA
1 ACCAA
11697460 AAATTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (20 bp):
ACCAATATATCTAAGGATTT
Found at i:11697467 original size:20 final size:21
Alignment explanation
Indices: 11697398--11697467 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 21
11697388 CTATAACACC
11697398 AAAATATCTAAGGATTTACC-
1 AAAATATCTAAGGATTTACCA
* * *
11697418 AATATTTCTAAGCATTTACC-
1 AAAATATCTAAGGATTTACCA
*
11697438 AATATATCTAAGGATTTACCA
1 AAAATATCTAAGGATTTACCA
11697459 AAAAT-TCTA
1 AAAATATCTA
11697468 TCTTTTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 39 0.91
21 4 0.09
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATATCTAAGGATTTACCA
Found at i:11697589 original size:40 final size:39
Alignment explanation
Indices: 11697534--11697832 Score: 194
Period size: 40 Copynumber: 7.5 Consensus size: 39
11697524 TACCAAGTCT
* *
11697534 TAACAA-TTACTAAAATTTCTATGACTTTACCAAAATATC
1 TAACAATTTACCAAAATTTCTAGGA-TTTACCAAAATATC
* *
11697573 TAATAATTTACCAAAATTTCTAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTCT-AGGATTTACCAAAATATC
* * *
11697613 TAACAATTTACCAATAACTTT-AAGGATTTTCTAAAATATC
1 TAACAATTTACCAA-AA-TTTCTAGGATTTACCAAAATATC
* * * * *
11697653 TAATAGTTTTCCAAAATTTCTAAGGATTTACCGATATATC
1 TAACAATTTACCAAAATTTCT-AGGATTTACCAAAATATC
* * * * *
11697693 TAACAAATTACTAAAAATTT-TA-AAGTGTTACCAAAACATA
1 TAACAATTTAC-CAAAATTTCTAGGA-T-TTACCAAAATATC
** * * * *
11697733 TAATGATTTACCAAAATTTTCAATGTTTTATCAAAATATC
1 TAACAATTTACCAAAA-TTTCTAGGATTTACCAAAATATC
* * * * *
11697773 TAACGATTTACCAAAATTTTTATTGATTTACCAATATTTTC
1 TAACAATTTACCAAAATTTCTA-GGATTTACCAA-AATATC
*
11697814 TAA-AATTTTACCAATATTT
1 TAACAA-TTTACCAAAATTT
11697833 TCAAAATTTC
Statistics
Matches: 199, Mismatches: 46, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
38 4 0.02
39 17 0.09
40 142 0.71
41 33 0.17
42 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (39 bp):
TAACAATTTACCAAAATTTCTAGGATTTACCAAAATATC
Found at i:11697800 original size:20 final size:20
Alignment explanation
Indices: 11697540--11697812 Score: 104
Period size: 20 Copynumber: 13.7 Consensus size: 20
11697530 GTCTTAACAA
* *
11697540 TTACTAAAATTTCT-ATGACT
1 TTACCAAAATTTTTAATGA-T
* * *
11697560 TTACCAAAATATCTAATAAT
1 TTACCAAAATTTTTAATGAT
* *
11697580 TTACCAAAATTTCTAAGGAT
1 TTACCAAAATTTTTAATGAT
* * * **
11697600 TTACCAATATATCTAACAAT
1 TTACCAAAATTTTTAATGAT
* *
11697620 TTACCAATAA-CTTTAAGGAT
1 TTACCAA-AATTTTTAATGAT
* * * *
11697640 TTTCTAAAATATCTAAT-AGT
1 TTACCAAAATTTTTAATGA-T
* * *
11697660 TTTCCAAAATTTCTAAGGAT
1 TTACCAAAATTTTTAATGAT
* * * * ** *
11697680 TTACCGATATATCTAACAAA
1 TTACCAAAATTTTTAATGAT
* * *
11697700 TTACTAAAAATTTTAAAG-T
1 TTACCAAAATTTTTAATGAT
** *
11697719 GTTACCAAAACATATAATGAT
1 -TTACCAAAATTTTTAATGAT
* *
11697740 TTACCAAAATTTTCAATGTT
1 TTACCAAAATTTTTAATGAT
* * * *
11697760 TTATCAAAATATCTAACGAT
1 TTACCAAAATTTTTAATGAT
*
11697780 TTACCAAAATTTTTATTGAT
1 TTACCAAAATTTTTAATGAT
*
11697800 TTACCAATATTTT
1 TTACCAAAATTTT
11697813 CTAAAATTTT
Statistics
Matches: 185, Mismatches: 61, Indels: 14
0.71 0.23 0.05
Matches are distributed among these distances:
19 3 0.02
20 176 0.95
21 6 0.03
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTTTAATGAT
Found at i:11697804 original size:80 final size:79
Alignment explanation
Indices: 11697534--11697806 Score: 268
Period size: 80 Copynumber: 3.4 Consensus size: 79
11697524 TACCAAGTCT
* *
11697534 TAACAA-TTACTAAAATTTCT-ATGACTTTACCAAAATATCTAATAATTTACCAAAATTTCTAAG
1 TAACAATTTACCAAAATTTTTAATGA-TTTACCAAAATATCTAAT-ATTTACCAAAATTTCTAAG
11697597 GATTTACCAATATATC
64 GATTTACCAATATATC
* * * * *
11697613 TAACAATTTACCAATAA-CTTTAAGGATTTTCTAAAATATCTAATAGTTTTCCAAAATTTCTAAG
1 TAACAATTTACCAA-AATTTTTAATGATTTACCAAAATATCTAATA-TTTACCAAAATTTCTAAG
*
11697677 GATTTACCGATATATC
64 GATTTACCAATATATC
* * * * * *
11697693 TAACAAATTACTAAAAATTTTAAAG-TGTTACCAAAACATATAATGATTTACCAAAATTT-TCAA
1 TAACAATTTACCAAAATTTTTAATGAT-TTACCAAAATATCTAAT-ATTTACCAAAATTTCT-AA
* * * *
11697756 TGTTTTATCAAAATATC
63 GGATTTACCAATATATC
* *
11697773 TAACGATTTACCAAAATTTTTATTGATTTACCAA
1 TAACAATTTACCAAAATTTTTAATGATTTACCAA
11697807 TATTTTCTAA
Statistics
Matches: 157, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
79 11 0.07
80 139 0.89
81 7 0.04
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (79 bp):
TAACAATTTACCAAAATTTTTAATGATTTACCAAAATATCTAATATTTACCAAAATTTCTAAGGA
TTTACCAATATATC
Found at i:11697825 original size:21 final size:20
Alignment explanation
Indices: 11697799--11697841 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
11697789 TTTTTATTGA
11697799 TTTACCAATATTTTCTAAAAT
1 TTTACCAATATTTTC-AAAAT
11697820 TTTACCAATATTTTCAAAAT
1 TTTACCAATATTTTCAAAAT
11697840 TT
1 TT
11697842 CTAAACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTACCAATATTTTCAAAAT
Found at i:11697966 original size:20 final size:20
Alignment explanation
Indices: 11697941--11698011 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
11697931 CCAATATTCC
11697941 TAAGGATTTACTAAAATTTT
1 TAAGGATTTACTAAAATTTT
*
11697961 TAAGGATTTACCAAAATATTT
1 TAAGGATTTACTAAAAT-TTT
* *
11697982 GACA-G-TTTACTAATATTTT
1 TA-AGGATTTACTAAAATTTT
*
11698001 TAAAGATTTAC
1 TAAGGATTTAC
11698012 CAACATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.02
19 5 0.12
20 30 0.71
21 5 0.12
22 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (20 bp):
TAAGGATTTACTAAAATTTT
Found at i:11698000 original size:40 final size:40
Alignment explanation
Indices: 11697946--11698039 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
11697936 ATTCCTAAGG
* *
11697946 ATTTACTAAAATTTTTAAGGATTTACCAAAATATTTGACA
1 ATTTACTAAAATTTTTAAAGATTTACCAAAATATTTAACA
* * *
11697986 GTTTACTAATATTTTTAAAGATTTACCAACATATTTAACA
1 ATTTACTAAAATTTTTAAAGATTTACCAAAATATTTAACA
11698026 ATTTAAC-AAAATTT
1 ATTT-ACTAAAATTT
11698040 CTATAAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (40 bp):
ATTTACTAAAATTTTTAAAGATTTACCAAAATATTTAACA
Found at i:11698022 original size:20 final size:20
Alignment explanation
Indices: 11697945--11698037 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
11697935 TATTCCTAAG
* * *
11697945 GATTTACTAAAATTTTTAAG
1 GATTTACCAAAATATTTAAA
*
11697965 GATTTACCAAAATATTTGACA
1 GATTTACCAAAATATTT-AAA
* * *
11697986 G-TTTACTAATATTTTTAAA
1 GATTTACCAAAATATTTAAA
*
11698005 GATTTACCAACATATTTAACA
1 GATTTACCAAAATATTTAA-A
*
11698026 -ATTTAACAAAAT
1 GATTTACCAAAAT
11698038 TTCTATAAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.05
20 51 0.89
21 3 0.05
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (20 bp):
GATTTACCAAAATATTTAAA
Found at i:11698060 original size:21 final size:20
Alignment explanation
Indices: 11698027--11698070 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
11698017 TATTTAACAA
*
11698027 TTTAACAAAATTTCTATAAAT
1 TTTAACAAAATTTCCA-AAAT
* *
11698048 TTTACCAATATTTCCAAAAT
1 TTTAACAAAATTTCCAAAAT
11698068 TTT
1 TTT
11698071 TAACTCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAACAAAATTTCCAAAAT
Found at i:11705032 original size:21 final size:21
Alignment explanation
Indices: 11705006--11705046 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11704996 ATCTGCTCAA
* *
11705006 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11705027 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11705047 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11708100 original size:22 final size:21
Alignment explanation
Indices: 11708050--11708093 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11708040 ACTTTAATTC
11708050 AACCAATACCATTTTCATGCAT
1 AACCAATACCATTTTCAT-CAT
*
11708072 GACCAATACCATTTTCAT-AT
1 AACCAATACCATTTTCATCAT
11708092 AA
1 AA
11708094 GCACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
22 17 0.85
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
AACCAATACCATTTTCATCAT
Found at i:11708598 original size:43 final size:42
Alignment explanation
Indices: 11708462--11708690 Score: 244
Period size: 43 Copynumber: 5.4 Consensus size: 42
11708452 ATGCCGCTAT
* * *
11708462 AGAACATGATCTTTAGCGGCGCTTTTCTCACAGACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCT-CTAA
* * * * * *
11708505 AGAACATGACCTTTAGCAGCG-TCTTCCCAAAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAA-CCCTCTAA
*
11708547 AGAACATGACATTTAGCGGCGCTTTTCTCACAAACACCTCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAAC-CCTCTAA
* * * *
11708590 AGAACATGATCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAA-CCCTCTAA
* * **
11708633 AGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCT-CTAA
11708676 AGAACATGACCTTTA
1 AGAACATGACCTTTA
11708691 AAAAAATTAT
Statistics
Matches: 151, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 31 0.21
43 120 0.79
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCTCTAA
Found at i:11708658 original size:86 final size:85
Alignment explanation
Indices: 11708448--11708690 Score: 353
Period size: 86 Copynumber: 2.8 Consensus size: 85
11708438 CGTTTATGAA
* * *
11708448 AAAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCTCACAGACGCTGCTAAAGAACATG
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
11708513 ACCTTTAGCAGCGTCTTCCC
66 ACCTTTAGCAGCGTCTTCCC
* *
11708533 AAAAATGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTCTCACAAACACCT-CTAAAGAACAT
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAAC-GCTGCTAAAGAACAT
* * *
11708597 GATCTTTAGCGGCGCTTTTCCC
65 GACCTTTAGCAGCG-TCTTCCC
* * * *
11708619 ACAAATGCCGCTAAAGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTTGCTAAAGAACATG
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
11708684 ACCTTTA
66 ACCTTTA
11708691 AAAAAATTAT
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
85 69 0.49
86 71 0.51
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (85 bp):
AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
ACCTTTAGCAGCGTCTTCCC
Found at i:11726682 original size:49 final size:49
Alignment explanation
Indices: 11726610--11726880 Score: 252
Period size: 49 Copynumber: 5.6 Consensus size: 49
11726600 ACATGTAAGT
*
11726610 TGATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * * *
11726659 TGATGTCATATCCCAGACGGGTCTTACACTGGCTCTCATCTATCG-GTG-
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GC
* *
11726707 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGC
1 T-GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
** * * * * *
11726757 TGATGTTATGTCCCAGATAGGTTTTACACTGTCTTGCATATCTCGAGGC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
11726806 TGATG-CATGTCCCAGACATGCCTTACACTGGCTCTT-ATA-AT--ATGGC
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGA-GGC
* * *
11726852 CGATG-CATGTCCCAAACATGTCTTACACT
1 TGATGCCATGTCCCAGACAGGTCTTACACT
11726881 AGCACACATA
Statistics
Matches: 182, Mismatches: 34, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 29 0.16
47 1 0.01
48 27 0.15
49 122 0.67
50 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:11726811 original size:98 final size:97
Alignment explanation
Indices: 11726582--11726835 Score: 282
Period size: 98 Copynumber: 2.6 Consensus size: 97
11726572 TTCCAAGCAT
* * * ** * *
11726582 GGTCTTACACTGGCTCACACATGTAAGT-TGATGCCATGTCCCAAACAGGTCTTACACTGACTTT
1 GGTCTTACACTGGCTCTCATATATCGGTGTGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
*
11726646 CATATATCGAGGCTGATGTCATATCCCAGACG
66 CATATATCGAGGCTGATGTCATATCCCAGACA
*
11726678 GGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTT
1 GGTCTTACACTGGCTCTCATATATCGGTGT-GATGCCATGTCCCAGACAGGTCTTACACTGACTT
* * * *
11726743 CCATATATTGAGGCTGATGTTATGTCCCAGATA
65 CCATATATCGAGGCTGATGTCATATCCCAGACA
* * * * *
11726776 GGTTTTACACTGTCT-TGCATATCTCGAG-GCTGATG-CATGTCCCAGACATGCCTTACACTG
1 GGTCTTACACTGGCTCT-CATATATCG-GTG-TGATGCCATGTCCCAGACAGGTCTTACACTG
11726836 GCTCTTATAA
Statistics
Matches: 134, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
96 22 0.16
97 25 0.19
98 85 0.63
99 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (97 bp):
GGTCTTACACTGGCTCTCATATATCGGTGTGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
CATATATCGAGGCTGATGTCATATCCCAGACA
Found at i:11727570 original size:20 final size:18
Alignment explanation
Indices: 11727533--11727583 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
11727523 CTATAGCAAC
11727533 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
11727550 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
11727570 TTACAACTTTACAA
1 TCACAA-TTTACAA
11727584 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:11731002 original size:16 final size:16
Alignment explanation
Indices: 11730981--11731011 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11730971 TACACTCAAT
11730981 ATGTACATTGCCCTCA
1 ATGTACATTGCCCTCA
11730997 ATGTACATTGCCCTC
1 ATGTACATTGCCCTC
11731012 GAAGTGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGTACATTGCCCTCA
Found at i:11737362 original size:20 final size:20
Alignment explanation
Indices: 11737324--11737362 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11737314 TTTAATTAAT
*
11737324 ATAAATAAACCAGTTAAATA
1 ATAAATAAACCAGTAAAATA
11737344 ATAAATAAA-CAGATAAAAT
1 ATAAATAAACCAG-TAAAAT
11737363 GTTTTTGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAATAAACCAGTAAAATA
Done.