Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 398 of 427
Found at i:115401523 original size:17 final size:17
Alignment explanation
Indices: 115401503--115401542 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
115401493 AAAGTATATG
*
115401503 AATATTAATTATATTAA
1 AATATTAATTAAATTAA
*
115401520 AATATTATTTAAATTAA
1 AATATTAATTAAATTAA
*
115401537 ATTATT
1 AATATT
115401543 TTTATTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTAATTAAATTAA
Found at i:115402394 original size:20 final size:21
Alignment explanation
Indices: 115402369--115402417 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
115402359 CATATCTTTA
115402369 TAAATTTT-AAAGAATTAAAT
1 TAAATTTTCAAAGAATTAAAT
**
115402389 TAAATTTTCATCGAATTAAAT
1 TAAATTTTCAAAGAATTAAAT
115402410 TAAATTTT
1 TAAATTTT
115402418 TATTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
TAAATTTTCAAAGAATTAAAT
Found at i:115408156 original size:16 final size:16
Alignment explanation
Indices: 115408135--115408170 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
115408125 TTGGAAAAAT
115408135 TACTATTTTCCCCCTA
1 TACTATTTTCCCCCTA
115408151 TACTATTTTCCCCCTA
1 TACTATTTTCCCCCTA
115408167 TACT
1 TACT
115408171 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (16 bp):
TACTATTTTCCCCCTA
Found at i:115415261 original size:2 final size:2
Alignment explanation
Indices: 115415254--115415282 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115415244 TTGCTTTGTT
115415254 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
115415283 TTTCTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:115415322 original size:16 final size:17
Alignment explanation
Indices: 115415291--115415323 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
115415281 CTTTTCTATT
*
115415291 ATTTTCCCCTTAATTGA
1 ATTTGCCCCTTAATTGA
115415308 ATTTGCCCC-TAATTGA
1 ATTTGCCCCTTAATTGA
115415324 GGACTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTTGCCCCTTAATTGA
Found at i:115424542 original size:123 final size:123
Alignment explanation
Indices: 115424312--115424557 Score: 307
Period size: 123 Copynumber: 2.0 Consensus size: 123
115424302 AAATTTCATA
* * *
115424312 TATAAAATTATATTTGGTTTTGGTTGAGTTGATGTCTGATTGATTCATGACACCAACTCAATCAG
1 TATAAAATTATAATTGGTTTTGGTTGAGTTGATGTCCGATTGA-TCATGACACCAACTCAATAAG
* * * *
115424377 GGTTAAATAATAATATAAATATACAATTGATAGATATAATAAAGTGTGCATGATAAAAT
65 GATTAAATAATAATATAAATATACAATTGATAGATATAATAAAATATGCATAATAAAAT
* * * * *
115424436 TATAAAATTTTAATTGGTTTTGGTTGAGTTGGTGTCCGATTGA-CTTGACACTAACTCAACTAAT
1 TATAAAATTATAATTGGTTTTGGTTGAGTTGATGTCCGATTGATCATGACACCAACTCAA-TAAG
** * *
115424500 GATTAAATAATAATATTGATATATAATTGATGGA-AGTAATAAAATATGCATAATAAAA
65 GATTAAATAATAATATAAATATACAATTGATAGATA-TAATAAAATATGCATAATAAAA
115424558 CTAAAATATA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
122 15 0.14
123 50 0.48
124 39 0.38
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.37
Consensus pattern (123 bp):
TATAAAATTATAATTGGTTTTGGTTGAGTTGATGTCCGATTGATCATGACACCAACTCAATAAGG
ATTAAATAATAATATAAATATACAATTGATAGATATAATAAAATATGCATAATAAAAT
Found at i:115427050 original size:23 final size:24
Alignment explanation
Indices: 115427022--115427066 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
115427012 ATGATGAATA
115427022 AAATAAT-AAAACTTTAATATTTT
1 AAATAATCAAAACTTTAATATTTT
**
115427045 AAATAATCAAATTTTTAATATT
1 AAATAATCAAAACTTTAATATT
115427067 GAAAAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATAATCAAAACTTTAATATTTT
Found at i:115435535 original size:89 final size:89
Alignment explanation
Indices: 115435384--115435563 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
115435374 TATCTGGCTA
*
115435384 AATGCATCTAAATGTTAGTCTTTGTTTCTTAATTTGCCCTCAATCTATCTTTGGAACCTTGATTC
1 AATGCATCTAAATGTTAGTCTTTGTTTCTTAATTTGCCCCCAATCTATCTTTGGAACCTTGATTC
115435449 ATTTGTTGCAATACGACTTGGTTC
66 ATTTGTTGCAATACGACTTGGTTC
*
115435473 AATGCTTCTAAATGTTAGTCTTTGTTTCTTAATTTGCCCCCAATCTATCTTTGGAACCTTGATTC
1 AATGCATCTAAATGTTAGTCTTTGTTTCTTAATTTGCCCCCAATCTATCTTTGGAACCTTGATTC
115435538 ATTTGTTGCAATACGACTTGGTTC
66 ATTTGTTGCAATACGACTTGGTTC
115435562 AA
1 AA
115435564 CAGCTATTTC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (89 bp):
AATGCATCTAAATGTTAGTCTTTGTTTCTTAATTTGCCCCCAATCTATCTTTGGAACCTTGATTC
ATTTGTTGCAATACGACTTGGTTC
Found at i:115435886 original size:15 final size:15
Alignment explanation
Indices: 115435868--115435897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115435858 TTTATTTAGG
*
115435868 ATTTATTTGATGTTT
1 ATTTACTTGATGTTT
115435883 ATTTACTTGATGTTT
1 ATTTACTTGATGTTT
115435898 TGGCCTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (15 bp):
ATTTACTTGATGTTT
Found at i:115441872 original size:1 final size:1
Alignment explanation
Indices: 115441866--115441902 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
115441856 TTTCTTCTTC
* *
115441866 TTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
115441903 AATGGTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:115441882 original size:16 final size:16
Alignment explanation
Indices: 115441863--115441896 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
115441853 CCTTTTCTTC
115441863 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
115441879 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
115441895 TT
1 TT
115441897 TGTTTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:115441892 original size:17 final size:17
Alignment explanation
Indices: 115441866--115441902 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
115441856 TTTCTTCTTC
115441866 TTTTTTTTTTTTTTTCT
1 TTTTTTTTTTTTTTTCT
*
115441883 TTTTTTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTCT
115441900 TTT
1 TTT
115441903 AATGGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTCT
Found at i:115441896 original size:19 final size:19
Alignment explanation
Indices: 115441855--115441897 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
115441845 ATTGTTTTCC
*
115441855 TTTTCTTCTTCTTTTTTTT
1 TTTTTTTCTTCTTTTTTTT
115441874 TTTTTTTCTT-TTTTTTTT
1 TTTTTTTCTTCTTTTTTTT
115441892 TTTTTT
1 TTTTTT
115441898 GTTTTAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (19 bp):
TTTTTTTCTTCTTTTTTTT
Found at i:115441897 original size:22 final size:22
Alignment explanation
Indices: 115441855--115441902 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
115441845 ATTGTTTTCC
*
115441855 TTTTCTTCTTCTTTTTTTTTTT
1 TTTTCTTCTTCTTTTTTTTTTG
* *
115441877 TTTTCTTTTTTTTTTTTTTTTG
1 TTTTCTTCTTCTTTTTTTTTTG
115441899 TTTT
1 TTTT
115441903 AATGGTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.08, G:0.02, T:0.90
Consensus pattern (22 bp):
TTTTCTTCTTCTTTTTTTTTTG
Found at i:115449491 original size:36 final size:30
Alignment explanation
Indices: 115449418--115449480 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
115449408 GCTCCTATAA
115449418 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
115449448 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
115449478 TTG
1 TTG
115449481 TAGCAGGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (30 bp):
TTGGTGAATACAATATCAATATTCTAAATT
Found at i:115453243 original size:11 final size:11
Alignment explanation
Indices: 115453202--115453249 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
115453192 ATTAGATAAA
115453202 TATTATTTTAT
1 TATTATTTTAT
* *
115453213 TAATACTTTAAT
1 TATTA-TTTTAT
*
115453225 AATATATTTTAT
1 TAT-TATTTTAT
115453237 TATTATTTTAT
1 TATTATTTTAT
115453248 TA
1 TA
115453250 GTATATAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 14 0.48
12 13 0.45
13 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:115455434 original size:38 final size:40
Alignment explanation
Indices: 115455384--115455599 Score: 204
Period size: 46 Copynumber: 5.0 Consensus size: 40
115455374 CTGATATGAA
115455384 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
115455423 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
115455466 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATACGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC--AT----G
*
115455514 ATGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CATG
** * *
115455558 AAAATAATAAGACCATGGTTGAAAGATACCATGACAA-CATG
1 -ATGT-GTAAGACCATGGTTGAAAGATACCATGGCAACCATG
115455599 A
1 A
115455600 CAGAAAATGA
Statistics
Matches: 151, Mismatches: 8, Indels: 35
0.78 0.04 0.18
Matches are distributed among these distances:
38 36 0.24
40 1 0.01
41 4 0.03
43 2 0.01
44 3 0.02
45 2 0.01
46 99 0.66
48 3 0.02
50 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:115455490 original size:46 final size:47
Alignment explanation
Indices: 115455423--115455639 Score: 280
Period size: 46 Copynumber: 4.7 Consensus size: 47
115455413 TGGCAACCTG
*
115455423 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * *
115455469 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATACG-AGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* *
115455515 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
** * *
115455562 T-AATAAGACCATGGTTGAAAGATACCATGACAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * * *
115455607 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
115455640 TCACGTCAAA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.04
46 143 0.94
47 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (47 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
Found at i:115455619 original size:138 final size:130
Alignment explanation
Indices: 115455374--115455639 Score: 336
Period size: 138 Copynumber: 2.0 Consensus size: 130
115455364 AGTGTGCTCT
* * *
115455374 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATACGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGTGTATAAGACCATGGT
* * * * * *
115455439 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGACAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
115455504 CTGATACGAGATGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACATGAAAATAATAAG
1 CTGATACGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG---TG----T-ATAAG
115455569 ACCATGGTTGAAAGATACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGACAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
115455633 TATGGCA
122 CATGGCA
115455640 TCACGTCAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
130 45 0.39
133 2 0.02
137 2 0.02
138 66 0.57
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATACGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGTGTATAAGACCATGGT
TGAAAGATACCATGACAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:115455945 original size:23 final size:25
Alignment explanation
Indices: 115455900--115455946 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
115455890 AATAAATATA
*
115455900 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
115455925 CATAAAATAT-T-GACATAATGAA
1 CATAAAATATATGGAAATAATGAA
115455947 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:115456646 original size:16 final size:16
Alignment explanation
Indices: 115456627--115456658 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
115456617 TTTTCAATAG
115456627 TACAATCAATCAAATT
1 TACAATCAATCAAATT
115456643 TACAATCAATCAAATT
1 TACAATCAATCAAATT
115456659 CATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
TACAATCAATCAAATT
Found at i:115456874 original size:23 final size:23
Alignment explanation
Indices: 115456787--115456875 Score: 89
Period size: 21 Copynumber: 4.1 Consensus size: 23
115456777 TACCTGATCA
115456787 ATATACGACACATAAA-TGCCTG
1 ATATACGACACATAAAGTGCCTG
* *
115456809 A-A-ACGACACATGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
** *
115456830 --ATACGACACACGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
*
115456851 ATATACGACACATAAAGTGTCTG
1 ATATACGACACATAAAGTGCCTG
115456874 AT
1 AT
115456876 CGGCAAGGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.20
21 25 0.45
22 1 0.02
23 19 0.34
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:115458148 original size:14 final size:17
Alignment explanation
Indices: 115458129--115458166 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
115458119 ATTTATTTCT
115458129 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
115458143 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
115458160 TAATATA
1 TAATATA
115458167 CTTTATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:115462689 original size:16 final size:16
Alignment explanation
Indices: 115462651--115462685 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
115462641 TTAATTTATT
*
115462651 ATAATTATATTATAAG
1 ATAATTATATGATAAG
115462667 ATAATTATATGATAA-
1 ATAATTATATGATAAG
115462682 ATAA
1 ATAA
115462686 ATTAAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
ATAATTATATGATAAG
Found at i:115462836 original size:23 final size:23
Alignment explanation
Indices: 115462784--115462840 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
115462774 ATTATTTAAG
115462784 TAAAT-AATTAATATTATTATTA
1 TAAATAAATTAATATTATTATTA
* * *
115462806 TTATTAAATTGATATTA-TATTA
1 TAAATAAATTAATATTATTATTA
115462828 TGAAATAAATTAA
1 T-AAATAAATTAA
115462841 ATAAAGACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAATAAATTAATATTATTATTA
Found at i:115466106 original size:15 final size:16
Alignment explanation
Indices: 115466077--115466106 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115466067 CAAACATGCT
115466077 TTAACACATTATCAAA
1 TTAACACATTATCAAA
115466093 TTAACACA-TATCAA
1 TTAACACATTATCAA
115466107 TAAGGCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:115467052 original size:41 final size:41
Alignment explanation
Indices: 115467015--115467102 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
115467005 TACCAGGCTT
* * *
115467015 AAAGCTTAATGTAACACACTGGCATAAAGCCTGCCAGGCAC
1 AAAGCCTAATATAACACACCGGCATAAAGCCTGCCAGGCAC
* * **
115467056 AAAGCCTGATATAATACACCGGCATAAAGCCTGGTAGGCAC
1 AAAGCCTAATATAACACACCGGCATAAAGCCTGCCAGGCAC
*
115467097 AGAGCC
1 AAAGCC
115467103 CGAATATCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (41 bp):
AAAGCCTAATATAACACACCGGCATAAAGCCTGCCAGGCAC
Found at i:115467125 original size:38 final size:38
Alignment explanation
Indices: 115467035--115467263 Score: 224
Period size: 38 Copynumber: 5.9 Consensus size: 38
115467025 GTAACACACT
* * * *
115467035 GGCATAAAGCCTGCCAGGCACAAAGCCTGATATAATACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGA-AT-AT-CACC
* *
115467076 GGCATAAAGCCTGGTAGGCACAGAGCCCGAATATCACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATATCACC
* * * *
115467114 GGCACAGAGCCTACTAGGCACTGAGCTCGAATATCACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATATCACC
** * *
115467152 GATACAAAGTCTGCTAGGCACAAAGCCCGAATATCACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATATCACC
* * *
115467190 GGCACAAAACCTGCTAGGCATAGAGCCTGATATAATACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGA-AT-AT-CACC
* * *
115467231 GGCACGAAGCTTGCCAGGCACAGAGCCCGAATA
1 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
115467264 ATGTTACGTT
Statistics
Matches: 154, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
38 89 0.58
39 5 0.03
40 6 0.04
41 54 0.35
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACAGAGCCCGAATATCACC
Found at i:115472379 original size:25 final size:25
Alignment explanation
Indices: 115472345--115472395 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
115472335 TTCCTTATAA
**
115472345 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
115472370 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
115472395 A
1 A
115472396 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:115472394 original size:12 final size:12
Alignment explanation
Indices: 115472348--115472395 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
115472338 CTTATAAACT
115472348 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
115472360 TTCTATTAGGACT
1 TTAAATTAGGA-A
115472373 TTAAATTAGGAA
1 TTAAATTAGGAA
*
115472385 TTAGATTAGGA
1 TTAAATTAGGA
115472396 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:115477034 original size:25 final size:25
Alignment explanation
Indices: 115477000--115477050 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
115476990 TTCCTTATAA
**
115477000 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
115477025 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
115477050 A
1 A
115477051 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:115477049 original size:12 final size:12
Alignment explanation
Indices: 115477003--115477050 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
115476993 CTTATAAACT
115477003 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
115477015 TTCTATTAGGACT
1 TTAAATTAGGA-A
115477028 TTAAATTAGGAA
1 TTAAATTAGGAA
*
115477040 TTAGATTAGGA
1 TTAAATTAGGA
115477051 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:115483811 original size:10 final size:10
Alignment explanation
Indices: 115483798--115483824 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
115483788 ATTTATTTTT
115483798 ATTTTTTATA
1 ATTTTTTATA
115483808 ATTTTTTATA
1 ATTTTTTATA
115483818 ATTTTTT
1 ATTTTTT
115483825 TCATCAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:115484023 original size:87 final size:86
Alignment explanation
Indices: 115483922--115484276 Score: 289
Period size: 88 Copynumber: 4.1 Consensus size: 86
115483912 GCAAAAGGTT
** * * **
115483922 TTTTTAATGTATTTTGACAA-TTAAGCACTCAATTGAGTGTTAAAAAAAGTGAAGGCTTAATTGT
1 TTTTTAATACATTTTGA-AAGTTAAGTACCCAATTGAGTGTTAAAAAAAGTG-AGGCTTAATTAC
*
115483986 TTTTTTTGAAAAAATTTGAGGTC
64 TTTTTTTGAAAAAATTTGAGGCC
* * *
115484009 TTTTTAATGCATTTTGAAAGTTTAAGTGCCCAGTTGAGTGTATAAAAAAGCAG-G-GGCTTAA--
1 TTTTTAATACATTTTGAAAG-TTAAGTACCCAATTGAGTGT-TAAAAAA--AGTGAGGCTTAATT
*
115484070 ATTTTTTTTGAAAAAATTTGAGGGCC
62 ACTTTTTTTGAAAAAATTTGA-GGCC
* * **
115484096 TTTTT-ATACATTTTGAAAGTTAAGTACCCAATTAAATGGAAAAATAAAAGCATGA-GCTTAATT
1 TTTTTAATACATTTTGAAAGTTAAGTACCCAATTGAGT-GTTAAA-AAAAG--TGAGGCTTAATT
*
115484159 ACTTTTTTTG-AAAAATCTTAAGGGCC
62 ACTTTTTTTGAAAAAAT-TTGA-GGCC
* ** * * *
115484185 TTTTTGATACATTTTGAAAGTTTAAGTATTCAATTGAGTG-TAAAAAAAATCTACGCTTAATTAC
1 TTTTTAATACATTTTGAAAG-TTAAGTACCCAATTGAGTGTTAAAAAAAGT-GAGGCTTAATTAC
* *
115484249 ATTTTTTGAAAAAA-TTGAGGAC
64 TTTTTTTGAAAAAATTTGAGGCC
115484271 TTTTTA
1 TTTTTA
115484277 TGCCCTTAAA
Statistics
Matches: 221, Mismatches: 27, Indels: 41
0.76 0.09 0.14
Matches are distributed among these distances:
84 2 0.01
85 17 0.08
86 48 0.22
87 35 0.16
88 50 0.23
89 37 0.17
90 16 0.07
91 16 0.07
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (86 bp):
TTTTTAATACATTTTGAAAGTTAAGTACCCAATTGAGTGTTAAAAAAAGTGAGGCTTAATTACTT
TTTTTGAAAAAATTTGAGGCC
Found at i:115484114 original size:86 final size:90
Alignment explanation
Indices: 115483976--115484212 Score: 272
Period size: 86 Copynumber: 2.7 Consensus size: 90
115483966 AAAAGTGAAG
* * * *
115483976 GCTTAATTGTTTTTTTTGAAAAAATTTGA-GGTCTTTTTAATGCATTTTGAAAGTTTAAGTGCCC
1 GCTTAA-TATTTTTTTTGAAAAAATTTGAGGGCCTTTTTAATACATTTTGAAAGTTTAAGTACCC
* * * * * *
115484040 AGTTGAGT-GTATAA-AAAAGCAGGG
65 AATTAAATGGAAAAATAAAAGCAGGA
115484064 GCTTAA-ATTTTTTTTGAAAAAATTTGAGGGCCTTTTT-ATACATTTTGAAAG-TTAAGTACCCA
1 GCTTAATATTTTTTTTGAAAAAATTTGAGGGCCTTTTTAATACATTTTGAAAGTTTAAGTACCCA
*
115484126 ATTAAATGGAAAAATAAAAGCATGA
66 ATTAAATGGAAAAATAAAAGCAGGA
* * *
115484151 GCTTAATTACTTTTTTTG-AAAAATCTTAAGGGCCTTTTTGATACATTTTGAAAGTTTAAGTA
1 GCTTAA-TATTTTTTTTGAAAAAAT-TTGAGGGCCTTTTTAATACATTTTGAAAGTTTAAGTA
115484213 TTCAATTGAG
Statistics
Matches: 128, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
85 14 0.11
86 37 0.29
87 22 0.17
88 12 0.09
89 22 0.17
90 14 0.11
91 7 0.05
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (90 bp):
GCTTAATATTTTTTTTGAAAAAATTTGAGGGCCTTTTTAATACATTTTGAAAGTTTAAGTACCCA
ATTAAATGGAAAAATAAAAGCAGGA
Found at i:115484709 original size:133 final size:132
Alignment explanation
Indices: 115484354--115484710 Score: 405
Period size: 133 Copynumber: 2.7 Consensus size: 132
115484344 GTACTCTTTA
* * ***
115484354 ACACATTTGAAATTTAGTTATTCTATTTTTATTTTTA-GAATTTTAATCCTTTTATTTTATTGTT
1 ACACATTTGAAATTTAGTCATTTTATTTTTATTTTTAGGAA-TTTAATCCTTTTATTTT-TTAAA
* * * * * * * * *
115484418 TTTAAAATTTAAACATAATTTA-TAACTTTGATTAAATTTTTCTGCTAAATTTGTTTGTTTGACA
64 TTTCAAATTTAAATATAA-GTAGTAACTCTGACTAAATTTTTCTACTAAATTCGTTAGTTTAACA
115484482 TATTC
128 TATTC
* ** * * * *
115484487 ACACATTTGAAATTTAATCATTTTATTTTTGCTTTTAGAAAATTAATCCTTTTATTTTTCAAACT
1 ACACATTTGAAATTTAGTCATTTTATTTTTATTTTTAGGAATTTAATCCTTTTATTTTTTAAATT
* *
115484552 TCAGAATTTAAATAT-AGTTGGTAACTCTGGCTAAATTTTTCTACTAAATTCGTTAGTTTAACAT
66 TCA-AATTTAAATATAAG-TAGTAACTCTGACTAAATTTTTCTACTAAATTCGTTAGTTTAACAT
*
115484616 CTTC
129 ATTC
* *
115484620 ACACCTTTGAAATTTAGTCATTTTATTTTTATTTTTAGGAATTTAATCTTTTTATTTTTTAAATT
1 ACACATTTGAAATTTAGTCATTTTATTTTTATTTTTAGGAATTTAATCCTTTTATTTTTTAAATT
115484685 TCAAATTTTAAATATAAGTAGTAACT
66 TCAAA-TTTAAATATAAGTAGTAACT
115484711 TTTTCTGCTA
Statistics
Matches: 184, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
132 8 0.04
133 172 0.93
134 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (132 bp):
ACACATTTGAAATTTAGTCATTTTATTTTTATTTTTAGGAATTTAATCCTTTTATTTTTTAAATT
TCAAATTTAAATATAAGTAGTAACTCTGACTAAATTTTTCTACTAAATTCGTTAGTTTAACATAT
TC
Found at i:115485375 original size:32 final size:32
Alignment explanation
Indices: 115485330--115485394 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
115485320 ATTAATCAAT
* * * * *
115485330 ATGAGTTATTAAATTATATTAATTAATTTATA
1 ATGAGTAACTAAATTAAAGTAATCAATTTATA
115485362 ATGAGTAACTAAATTAAAGTAATCAATTTATA
1 ATGAGTAACTAAATTAAAGTAATCAATTTATA
115485394 A
1 A
115485395 GTTTATGGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.42
Consensus pattern (32 bp):
ATGAGTAACTAAATTAAAGTAATCAATTTATA
Found at i:115485581 original size:16 final size:17
Alignment explanation
Indices: 115485534--115485583 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
115485524 ACGAAAAATT
*
115485534 TAATCATTTTATTCAA-A
1 TAAT-ATTTTATTTAATA
*
115485551 TAATATTTTAATTAATA
1 TAATATTTTATTTAATA
115485568 TAAT-TTTTATTTAATA
1 TAATATTTTATTTAATA
115485584 AATGATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATATTTTATTTAATA
Found at i:115488163 original size:24 final size:23
Alignment explanation
Indices: 115488136--115488188 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
115488126 TATGTATTTG
115488136 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
115488160 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
115488181 TTATTAAA
1 TTATTAAA
115488189 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:115488310 original size:3 final size:3
Alignment explanation
Indices: 115488302--115488356 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
115488292 ATGAATTAAA
*
115488302 TAT TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
115488346 TAA TAT TAT TA
1 TAT TAT TAT TA
115488357 ACTAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:115488322 original size:16 final size:16
Alignment explanation
Indices: 115488301--115488356 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
115488291 TATGAATTAA
115488301 ATATTATTATTATATT
1 ATATTATTATTATATT
*
115488317 ATATTATTATTATAAT
1 ATATTATTATTATATT
* *
115488333 GTATTATTATTAT-TA
1 ATATTATTATTATATT
115488348 ATATTATTA
1 ATATTATTA
115488357 ACTAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 8 0.23
16 27 0.77
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATATTATTATTATATT
Found at i:115488409 original size:17 final size:17
Alignment explanation
Indices: 115488389--115488421 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
115488379 GTAAAATAGC
115488389 AAAAGAAACAAAAGGAG
1 AAAAGAAACAAAAGGAG
115488406 AAAAGAAACAAAAGGA
1 AAAAGAAACAAAAGGA
115488422 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.06, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAAACAAAAGGAG
Found at i:115491341 original size:38 final size:40
Alignment explanation
Indices: 115491290--115491459 Score: 166
Period size: 46 Copynumber: 4.0 Consensus size: 40
115491280 CTGATATGAA
*
115491290 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACC-T-
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
115491328 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
115491374 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CATG
* ** *
115491418 AAAAGAATAAGACCATCGTTGAAAGATACCATGGCAA-CATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
115491459 A
1 A
115491460 CAGAAAATGA
Statistics
Matches: 113, Mismatches: 5, Indels: 27
0.78 0.03 0.19
Matches are distributed among these distances:
38 36 0.32
39 1 0.01
41 4 0.04
43 1 0.01
44 1 0.01
46 69 0.61
50 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:115491395 original size:46 final size:46
Alignment explanation
Indices: 115491332--115491499 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 46
115491322 CAACCTATGT
* * * *
115491332 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
115491378 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
115491424 ATAAGACCATCGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
115491470 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
115491500 TCACGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 107 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:115493150 original size:44 final size:44
Alignment explanation
Indices: 115493067--115493158 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
115493057 TGTTCAGGGA
** *
115493067 TACTTCGACCTTGAGTCGATGAGGCAGTATAAGTATCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACCATAAGTATCGTACTGC
* ** *
115493111 TACTTCGA-CTTCGAGTTGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTCGACCTT-GAGTCGATGAGGCACCATAAGTATCGTACTGC
115493155 TACT
1 TACT
115493159 GTTACTTCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACCATAAGTATCGTACTGC
Found at i:115499674 original size:26 final size:26
Alignment explanation
Indices: 115499612--115499720 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
115499602 TGATACAAAT
115499612 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
115499637 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
115499663 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
115499689 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
115499715 TGATAA
1 TGATAA
115499721 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:115501229 original size:26 final size:26
Alignment explanation
Indices: 115501200--115501252 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
115501190 TTTACAGTTT
115501200 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
115501226 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
115501252 T
1 T
115501253 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:115501746 original size:137 final size:137
Alignment explanation
Indices: 115501500--115501786 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
115501490 GAGTAGTCTC
115501500 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
115501565 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
115501630 ACTGTTA
131 ACTGTTA
*
115501637 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
115501702 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
115501767 ACTGTTA
131 ACTGTTA
**
115501774 CCTGAATGGGCTT
1 CCCAAATGGGCTT
115501787 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:115505627 original size:25 final size:26
Alignment explanation
Indices: 115505533--115505641 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
115505523 TGATACAAAT
115505533 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
115505559 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
115505585 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
115505611 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
115505636 TGATAA
1 TGATAA
115505642 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 24 0.30
26 56 0.70
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:115507149 original size:26 final size:26
Alignment explanation
Indices: 115507120--115507172 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
115507110 TTTACAGTTT
115507120 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
115507146 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
115507172 T
1 T
115507173 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:115507665 original size:137 final size:137
Alignment explanation
Indices: 115507419--115507705 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
115507409 GAGTAGTCTC
115507419 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
115507484 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
115507549 ACTGTTA
131 ACTGTTA
* *
115507556 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
115507621 TGTTATCTGAATAAGGGGTTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
115507686 ACTGTTA
131 ACTGTTA
**
115507693 CCTGAATGGGCTT
1 CCCAAATGGGCTT
115507706 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:115509771 original size:15 final size:16
Alignment explanation
Indices: 115509751--115509783 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
115509741 ATATATTTTT
115509751 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
115509766 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
115509783 T
1 T
115509784 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:115509868 original size:22 final size:22
Alignment explanation
Indices: 115509829--115509887 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
115509819 GTTTTAAGAA
*
115509829 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
115509850 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
115509872 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
115509888 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:115509904 original size:26 final size:24
Alignment explanation
Indices: 115509858--115509917 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
115509848 ATTTGTTTTA
*
115509858 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
115509882 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
115509908 TTTTTTATTT
1 ATATTTATTT
115509918 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:115515104 original size:13 final size:13
Alignment explanation
Indices: 115515088--115515112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115515078 CCACCGTGCT
115515088 CGGTGGCCGGCGA
1 CGGTGGCCGGCGA
115515101 CGGTGGCCGGCG
1 CGGTGGCCGGCG
115515113 GCGGCTGATG
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:0.04, C:0.32, G:0.56, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGA
Found at i:115515856 original size:24 final size:24
Alignment explanation
Indices: 115515819--115515881 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
115515809 TCATGTACAC
*
115515819 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
115515843 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
115515867 ATTATTGTATTTATT
1 ATTATTGTATTTATT
115515882 ATTGGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:115516098 original size:2 final size:2
Alignment explanation
Indices: 115516091--115516149 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
115516081 GTGTATGTAT
*
115516091 TA TA TA TA T- TA TA TA TA TA T- TA TA T- TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
115516130 T- TA TA TT TT TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
115516150 TTTTAATATC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
1 4 0.09
2 43 0.91
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (2 bp):
TA
Found at i:115516102 original size:9 final size:9
Alignment explanation
Indices: 115516088--115516135 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
115516078 AATGTGTATG
115516088 TATTATATA
1 TATTATATA
115516097 TATTATATA
1 TATTATATA
115516106 TA-TAT-TA
1 TATTATATA
115516113 TATTATATA
1 TATTATATA
115516122 TA-TAT-T-
1 TATTATATA
115516128 TATTATAT
1 TATTATAT
115516136 TTTTATGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.06
7 8 0.23
8 10 0.29
9 15 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATATA
Found at i:115516107 original size:11 final size:11
Alignment explanation
Indices: 115516091--115516149 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
115516081 GTGTATGTAT
115516091 TATATATATTA
1 TATATATATTA
115516102 TATATATATTA
1 TATATATATTA
115516113 TAT-TATA-TA
1 TATATATATTA
*
115516122 TATATTTATTA
1 TATATATATTA
* *
115516133 TATTTTTATGTA
1 TATATATAT-TA
115516145 TATAT
1 TATAT
115516150 TTTTAATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
9 5 0.12
10 7 0.17
11 24 0.57
12 6 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TATATATATTA
Found at i:115516134 original size:25 final size:24
Alignment explanation
Indices: 115516088--115516189 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 24
115516078 AATGTGTATG
* *
115516088 TATTATATATATTATATATATATTA
1 TATTATATATA-TATTTTTATATTA
115516113 TATTATATATATATTTATTATATT-
1 TATTATATATATATTT-TTATATTA
* *
115516137 T-TTATGTATATATTTTTAATATCA
1 TATTATATATATATTTTT-ATATTA
* *
115516161 CATTAT-TCATATATTTTTTTA-TA
1 TATTATAT-ATATATTTTTATATTA
115516184 TATTAT
1 TATTAT
115516190 CCCATGTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.03
23 23 0.36
24 8 0.12
25 31 0.48
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (24 bp):
TATTATATATATATTTTTATATTA
Found at i:115516136 original size:9 final size:9
Alignment explanation
Indices: 115516088--115516141 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
115516078 AATGTGTATG
*
115516088 TATTATATA
1 TATTATATT
115516097 TATTATATAT
1 TATTATAT-T
115516107 ATATTATATT
1 -TATTATATT
115516117 ATATATATATT
1 -TAT-TATATT
115516128 TATTATATT
1 TATTATATT
115516137 T-TTAT
1 TATTAT
115516142 GTATATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
8 4 0.10
9 15 0.37
10 8 0.20
11 14 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTATATT
Found at i:115516158 original size:23 final size:23
Alignment explanation
Indices: 115516091--115516151 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 23
115516081 GTGTATGTAT
115516091 TATATATATTATATATATATTATATTA
1 TATATATATT-TAT-TATATT-T-TTA
115516118 TATATATATTTATTATATTTTTA
1 TATATATATTTATTATATTTTTA
*
115516141 TGTATATATTT
1 TATATATATTT
115516152 TTAATATCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 6 0.18
26 3 0.09
27 10 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATATATTTATTATATTTTTA
Found at i:115516334 original size:3 final size:3
Alignment explanation
Indices: 115516326--115516384 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
115516316 TTTATTCATA
* *
115516326 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
115516373 TAT TAT CAT TAT
1 TAT TAT TAT TAT
115516385 CATTTTCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 40 0.87
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:115521867 original size:5 final size:5
Alignment explanation
Indices: 115521857--115521893 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
115521847 AATAATTAAG
115521857 TATAT TATAT TATAT TATAT TATAT TATA- TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
115521894 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:115521877 original size:15 final size:14
Alignment explanation
Indices: 115521857--115521902 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 14
115521847 AATAATTAAG
115521857 TATATTATATTATA
1 TATATTATATTATA
115521871 TTATATTATATTATA
1 -TATATTATATTATA
115521886 TATA-T-TATTATA
1 TATATTATATTATA
115521898 TATAT
1 TATAT
115521903 AAAAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.37
13 1 0.03
14 4 0.13
15 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTATATTATA
Found at i:115523604 original size:53 final size:48
Alignment explanation
Indices: 115523494--115523666 Score: 274
Period size: 48 Copynumber: 3.5 Consensus size: 48
115523484 TAGTCCGAGC
115523494 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
* *
115523542 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGGGATTTTTTGT
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGA----TT-A
*
115523595 TTTGTTAATAGGGTAAATAATTGAAATAAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
115523643 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
115523667 TGTTTGTAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
48 68 0.59
49 2 0.02
52 2 0.02
53 43 0.37
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.40
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:115527369 original size:41 final size:43
Alignment explanation
Indices: 115527311--115527431 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 43
115527301 GCTAAATTAC
* *
115527311 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-AA-A-AT
1 AGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAGACAT
* *
115527352 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGT
1 AGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAGAC-AT
* * *
115527397 AAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGAT
1 AGATCTTGTCTCCCTGAAGTTGCAGTG-AGCAGAT
115527432 TCAAGCCACC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
41 32 0.48
42 2 0.03
43 1 0.02
44 1 0.02
45 30 0.45
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGAGCAGATCGAAGACAT
Found at i:115529276 original size:18 final size:18
Alignment explanation
Indices: 115529226--115529276 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
115529216 TTTCTTTACG
* *
115529226 TTATTATTATATCGTATCA
1 TTATTATT-TTTCATATCA
*
115529245 TT-TTTTTTTATCATATCA
1 TTATTATTTT-TCATATCA
115529263 TTATTATTTTTCAT
1 TTATTATTTTTCAT
115529277 GTGCACATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 17 0.65
19 8 0.31
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATTATTTTTCATATCA
Found at i:115529320 original size:24 final size:24
Alignment explanation
Indices: 115529283--115529345 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
115529273 TCATGTGCAC
*
115529283 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
115529307 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
115529331 ATTATTGTATTTATT
1 ATTATTGTATTTATT
115529346 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:115529360 original size:24 final size:24
Alignment explanation
Indices: 115529304--115529360 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
115529294 TATTTTCATG
* *
115529304 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
115529328 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
115529352 ATTAGTATT
1 ATTATTATT
115529361 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:115529576 original size:23 final size:23
Alignment explanation
Indices: 115529550--115529624 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 23
115529540 AATGTGTATG
115529550 TATTATATATATTTTTA-ATACTA
1 TATTATATATATTTTTAGATA-TA
115529573 TATTATATATATTATATTAGATATA
1 TATTATATATATT-T-TTAGATATA
115529598 TATT-TATTATATTTTTATG-TATA
1 TATTATA-TATATTTTTA-GATATA
115529621 TATT
1 TATT
115529625 TTTAATATCA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
23 24 0.51
24 5 0.11
25 15 0.32
26 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (23 bp):
TATTATATATATTTTTAGATATA
Found at i:115529598 original size:16 final size:15
Alignment explanation
Indices: 115529577--115529606 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
115529567 ATACTATATT
115529577 ATATATATTATATTAG
1 ATATATATT-TATTAG
115529593 ATATATATTTATTA
1 ATATATATTTATTA
115529607 TATTTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATATATTTATTAG
Found at i:115529801 original size:19 final size:20
Alignment explanation
Indices: 115529777--115529814 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
115529767 ACGTATGTAT
*
115529777 ATATATT-TTTTCTTTATTC
1 ATATATTATTTTCATTATTC
115529796 ATATATTATTTTCATTATT
1 ATATATTATTTTCATTATT
115529815 TTCTACGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATATTATTTTCATTATTC
Found at i:115529833 original size:3 final size:3
Alignment explanation
Indices: 115529825--115529863 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
115529815 TTCTACGTTA
*
115529825 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
115529864 CATTTTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:115531318 original size:24 final size:25
Alignment explanation
Indices: 115531283--115531330 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
115531273 TTAAAAAAGT
*
115531283 AAGATTTTCA-TTTTTTCAGACAAA
1 AAGATTTCCATTTTTTTCAGACAAA
115531307 AAGATTTCCATTTTTTTCAGACAA
1 AAGATTTCCATTTTTTTCAGACAA
115531331 CTACATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (25 bp):
AAGATTTCCATTTTTTTCAGACAAA
Found at i:115532003 original size:77 final size:77
Alignment explanation
Indices: 115531919--115532151 Score: 466
Period size: 77 Copynumber: 3.0 Consensus size: 77
115531909 TTTATTATTA
115531919 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
1 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
115531984 ATCATCATGGTT
66 ATCATCATGGTT
115531996 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
1 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
115532061 ATCATCATGGTT
66 ATCATCATGGTT
115532073 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
1 CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
115532138 ATCATCATGGTT
66 ATCATCATGGTT
115532150 CA
1 CA
115532152 TGTACTACTT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 156 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (77 bp):
CACCAAAAAGTTCCCACTAAATTAAAGACTTAATACTTTTTTGGCCCCTGTGCCATTGCTAAATT
ATCATCATGGTT
Found at i:115532487 original size:43 final size:43
Alignment explanation
Indices: 115532439--115532520 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
115532429 TAAAAATGCG
115532439 TTTGTTTAGAATTAAAGG-TTTCCGAAAATTCCATAATTTGAGT
1 TTTGTTTAGAATTAAAGGTTTTCC-AAAATTCCATAATTTGAGT
* * *
115532482 TTTGTTTATAATTAAAGGTTTTTCAAAATTTCATAATTT
1 TTTGTTTAGAATTAAAGGTTTTCCAAAATTCCATAATTT
115532521 TATAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (43 bp):
TTTGTTTAGAATTAAAGGTTTTCCAAAATTCCATAATTTGAGT
Found at i:115535313 original size:2 final size:2
Alignment explanation
Indices: 115535306--115535345 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
115535296 GAGTTTTCAA
*
115535306 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115535346 GGTTTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115544416 original size:157 final size:157
Alignment explanation
Indices: 115544130--115544443 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
115544120 ATAGCTTGAT
115544130 CTATGGTTTTTGCAAAGCTGGAAGGATGGGTGATGCCAATGATGTTTTGTCGCAGTTTAAACAAG
1 CTATGGTTTTTGCAAAGCTGGAAGGATGGGTGATGCCAATGATGTTTTGTCGCAGTTTAAACAAG
115544195 CCGGTTTCCTCCCTGACATCAAATGCTATAATGCTCTTGTCAATGGGTTATGTAAGAAGAACATG
66 CCGGTTTCCTCCCTGACATCAAATGCTATAATGCTCTTGTCAATGGGTTATGTAAGAAGAACATG
115544260 GTAGATAAAGCTTATGAAATCATCAAG
131 GTAGATAAAGCTTATGAAATCATCAAG
115544287 CTATGGTTTTTGCAAAGCTGGAAGGATGGGTGATGCCAATGATGTTTTGTCGCAGTTTAAACAAG
1 CTATGGTTTTTGCAAAGCTGGAAGGATGGGTGATGCCAATGATGTTTTGTCGCAGTTTAAACAAG
115544352 CCGGTTTCCTCCCTGACATCAAATGCTATAATGCTCTTGTCAATGGGTTATGTAAGAAGAACATG
66 CCGGTTTCCTCCCTGACATCAAATGCTATAATGCTCTTGTCAATGGGTTATGTAAGAAGAACATG
115544417 GTAGATAAAGCTTATGAAATCATCAAG
131 GTAGATAAAGCTTATGAAATCATCAAG
115544444 GAAATGAAGT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (157 bp):
CTATGGTTTTTGCAAAGCTGGAAGGATGGGTGATGCCAATGATGTTTTGTCGCAGTTTAAACAAG
CCGGTTTCCTCCCTGACATCAAATGCTATAATGCTCTTGTCAATGGGTTATGTAAGAAGAACATG
GTAGATAAAGCTTATGAAATCATCAAG
Found at i:115554224 original size:22 final size:21
Alignment explanation
Indices: 115554160--115554229 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
115554150 TGTTTTTTAA
*
115554160 ATTTTATATAAAAAATAAAATT
1 ATTTTATA-AAAAAATAATATT
* * *
115554182 ATTTT-CAAAATAATATTTATT
1 ATTTTATAAAAAAATA-ATATT
115554203 ATTTTATAAAAAAATAAGTATT
1 ATTTTATAAAAAAATAA-TATT
*
115554225 TTTTT
1 ATTTT
115554230 TTGTATTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
20 7 0.19
21 9 0.24
22 21 0.57
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
ATTTTATAAAAAAATAATATT
Found at i:115561515 original size:46 final size:46
Alignment explanation
Indices: 115561286--115561515 Score: 361
Period size: 46 Copynumber: 5.0 Consensus size: 46
115561276 TTTCTGTCAT
** * * *
115561286 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** *
115561332 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
115561378 GTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
115561424 GTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
115561470 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
115561516 AGAGCACACT
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:115563564 original size:17 final size:16
Alignment explanation
Indices: 115563542--115563581 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
115563532 AATTTTTCCC
*
115563542 TTTTTCCTTCTTTCCTT
1 TTTTTCCTTCCTT-CTT
115563559 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
115563575 TCTTTCC
1 TTTTTCC
115563582 CCTTCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:115566557 original size:41 final size:41
Alignment explanation
Indices: 115566506--115566597 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
115566496 CTCATCAGAT
*
115566506 AATTCGAAGTAGTAAATTGACACTCAATGTCTCATCGAATA
1 AATTCGAAGTAGTAAATTGACACCCAATGTCTCATCGAATA
* * * *
115566547 AATTTGAAGTAGTAATTTGACACCCAGTGTCTCATCGATTA
1 AATTCGAAGTAGTAAATTGACACCCAATGTCTCATCGAATA
*
115566588 AA-CCGAAGTA
1 AATTCGAAGTA
115566598 AATTGGCTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 6 0.14
41 38 0.86
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (41 bp):
AATTCGAAGTAGTAAATTGACACCCAATGTCTCATCGAATA
Found at i:115567594 original size:19 final size:20
Alignment explanation
Indices: 115567555--115567594 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
115567545 TAAACATATT
*
115567555 TTTATTAATATATACATATG
1 TTTATTAATATATACACATG
*
115567575 TTTATTAA-ATTTACACATG
1 TTTATTAATATATACACATG
115567594 T
1 T
115567595 AATCACTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATTAATATATACACATG
Found at i:115569183 original size:48 final size:48
Alignment explanation
Indices: 115569125--115569221 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
115569115 GGTTGGAATG
115569125 AAAAAGATGATAGAAATAGGTTTTATTTTCTTTATAATTTCCTTTTAT
1 AAAAAGATGATAGAAATAGGTTTTATTTTCTTTATAATTTCCTTTTAT
115569173 AAAAAGATGATAGAAATAGGTTTTATTTTCTTTATAATTTCCTTTTAT
1 AAAAAGATGATAGAAATAGGTTTTATTTTCTTTATAATTTCCTTTTAT
115569221 A
1 A
115569222 CTTTGATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.47
Consensus pattern (48 bp):
AAAAAGATGATAGAAATAGGTTTTATTTTCTTTATAATTTCCTTTTAT
Found at i:115569459 original size:11 final size:11
Alignment explanation
Indices: 115569443--115569475 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
115569433 AAATTAAAGG
115569443 ATCAAACTTTA
1 ATCAAACTTTA
115569454 ATCAAACTTTA
1 ATCAAACTTTA
*
115569465 ATTAAACTTTA
1 ATCAAACTTTA
115569476 TACTAATCCA
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:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (11 bp):
ATCAAACTTTA
Found at i:115579698 original size:16 final size:16
Alignment explanation
Indices: 115579677--115579710 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
115579667 CCGATATCCA
* *
115579677 ATTATCATATTTGCAC
1 ATTATCAAATTTACAC
115579693 ATTATCAAATTTACAC
1 ATTATCAAATTTACAC
115579709 AT
1 AT
115579711 ATATTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCAAATTTACAC
Found at i:115582856 original size:42 final size:43
Alignment explanation
Indices: 115582762--115582856 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
115582752 TATTTCTTTA
* * * *
115582762 TTTCT-TTCCTTCTTTCTTTCTGACGTTTGCTCTCTATTAGTC
1 TTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTATAACTC
*
115582804 TTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAACT-
1 TTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTATAACTC
115582845 TTTCTATTCTTT
1 TTTCTATTCTTT
115582857 ACTTATTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 6 0.13
42 40 0.87
ACGTcount: A:0.08, C:0.25, G:0.07, T:0.59
Consensus pattern (43 bp):
TTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTATAACTC
Found at i:115584161 original size:31 final size:30
Alignment explanation
Indices: 115584106--115584164 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
115584096 GTAAATACTC
***
115584106 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
115584136 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAA-AGTGTAAATAT
115584165 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:115584416 original size:11 final size:11
Alignment explanation
Indices: 115584402--115584446 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
115584392 AGATAAATAT
115584402 TATTTTATTAA
1 TATTTTATTAA
*
115584413 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
115584426 TATTTTATTAT
1 TATTTTATTAA
115584437 TATTTTATTA
1 TATTTTATTA
115584447 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:115586865 original size:16 final size:17
Alignment explanation
Indices: 115586834--115586866 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115586824 CATAAGTATA
115586834 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
115586851 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
115586867 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:115587426 original size:46 final size:47
Alignment explanation
Indices: 115587147--115587425 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 47
115587137 TTATCTTTGA
* * * * * * *
115587147 CATGATGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* ** ***
115587193 CATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
**
115587240 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
115587286 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
115587332 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
115587378 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
115587424 CA
1 CA
115587426 GAGAGCACAC
Statistics
Matches: 213, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 4 0.02
46 165 0.77
47 44 0.21
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:115589567 original size:30 final size:33
Alignment explanation
Indices: 115589527--115589595 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
115589517 TGTCATTATT
115589527 TAATATATTT-ATCAAATAAA-ATC-TTATAATA
1 TAATATATTTAAT-AAATAAATATCTTTATAATA
*
115589558 TAAT-TATTTAATTAATAAATATCTTTTATAATA
1 TAATATATTTAATAAATAAATATC-TTTATAATA
115589591 TAATA
1 TAATA
115589596 AATATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 11 0.34
31 9 0.28
33 12 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATATTTAATAAATAAATATCTTTATAATA
Found at i:115589601 original size:21 final size:20
Alignment explanation
Indices: 115589562--115589611 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
115589552 ATAATATAAT
115589562 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
115589581 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
115589602 TATTTAATAT
1 TATTTAATAT
115589612 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:115590149 original size:46 final size:46
Alignment explanation
Indices: 115590082--115590343 Score: 330
Period size: 46 Copynumber: 5.7 Consensus size: 46
115590072 AGTTATTACA
* **
115590082 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAAT
**
115590128 AAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAAT
* * ***
115590174 AAAACCATGGTTG-AAGATACCATGGTAGTGTGACATGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAAT
* ** *
115590219 AAAACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAAT
*
115590265 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAAT
* * * *
115590311 AAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
115590344 TCAAAGATAA
Statistics
Matches: 190, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 40 0.21
46 150 0.79
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAAT
Found at i:115590241 original size:91 final size:92
Alignment explanation
Indices: 115590085--115590343 Score: 333
Period size: 91 Copynumber: 2.8 Consensus size: 92
115590075 TATTACAAAG
* *
115590085 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACC
* *
115590150 ATGGCAACATGACGGGAAATGAATAAA
66 ATGGCAACATGACAGGAAAAGAATAAA
* *** * *
115590177 ACCATGGTTG-AAGATACCATGGTAGTGTGACATGAAATGAATAAAACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACC
** * *
115590241 ATGGCAATGTGACATGAAAAGAATAAG
66 ATGGCAACATGACAGGAAAAGAATAAA
* *
115590268 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
* *
115590332 TATGGCATCATG
65 CATGGCAACATG
115590344 TCAAAGATAA
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
91 78 0.56
92 61 0.44
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACC
ATGGCAACATGACAGGAAAAGAATAAA
Found at i:115590357 original size:137 final size:136
Alignment explanation
Indices: 115590085--115590338 Score: 346
Period size: 137 Copynumber: 1.9 Consensus size: 136
115590075 TATTACAAAG
* * **
115590085 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
* * * * * *
115590150 ATGGCAACATGACGGGAAATGAATAAAACCATGGTTGAAGATACCATGGTAGTGTGACATGAAAT
66 ATGGCAACATGACAGAAAATGAATAAAACCATAGTTGAAGACACCATGGCAGTATGACA-GAAAT
*
115590215 GAATAAA
130 AAATAAA
**
115590222 ACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
* * *
115590287 ATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
66 ATGGCAACATGACAGAAAATGAATAAAACCATAGTTG-AAGACACCATGGCA
115590339 TCATGTCAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 91 0.89
138 11 0.11
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (136 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
ATGGCAACATGACAGAAAATGAATAAAACCATAGTTGAAGACACCATGGCAGTATGACAGAAATA
AATAAA
Found at i:115590645 original size:16 final size:17
Alignment explanation
Indices: 115590624--115590656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115590614 ATGATGGAGC
115590624 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
115590640 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
115590657 TACTTATGAA
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:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:115595605 original size:40 final size:37
Alignment explanation
Indices: 115595539--115595673 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 37
115595529 CATGGAAAAG
115595539 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
115595574 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * ** * *
115595614 TAAGAAACGTAGGTATGACATTTC--CTATATTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
115595649 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
115595674 ATGAGGAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
35 47 0.58
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:115600377 original size:46 final size:46
Alignment explanation
Indices: 115600327--115600502 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115600317 TGGTTGAGCA
115600327 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115600373 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115600418 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115600466 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115600503 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115600483 original size:93 final size:93
Alignment explanation
Indices: 115600324--115600495 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115600314 GGATGGTTGA
* *
115600324 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115600389 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115600417 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115600482 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115600496 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115607947 original size:46 final size:46
Alignment explanation
Indices: 115607897--115608072 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115607887 TGGTTGAGCA
115607897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115607943 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115607988 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115608036 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115608073 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115608053 original size:93 final size:93
Alignment explanation
Indices: 115607894--115608065 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115607884 GGATGGTTGA
* *
115607894 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115607959 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115607987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115608052 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115608066 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115610091 original size:17 final size:19
Alignment explanation
Indices: 115610053--115610095 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
115610043 ATTATAAAAA
*
115610053 TAATATTACTTTAATGATT
1 TAATATTACATTAATGATT
115610072 TAATATTACATT-AT-ATT
1 TAATATTACATTAATGATT
115610089 TAATATT
1 TAATATT
115610096 TATGTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATATTACATTAATGATT
Found at i:115615608 original size:39 final size:39
Alignment explanation
Indices: 115615533--115615613 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
115615523 TTATATATGA
* *
115615533 AATTTAATTTTGTGTAATTTATATATAAAATTTTGATTT
1 AATTTAATTTTGTGTAAATTATATATAAAATTTTGATAT
115615572 AATTTAATTTT-TGTAAATTAT-TA-ACATAATTATTGATAT
1 AATTTAATTTTGTGTAAATTATATATA-A-AATT-TTGATAT
115615611 AAT
1 AAT
115615614 ATTATGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 1 0.03
37 3 0.08
38 13 0.35
39 20 0.54
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (39 bp):
AATTTAATTTTGTGTAAATTATATATAAAATTTTGATAT
Found at i:115616454 original size:3 final size:3
Alignment explanation
Indices: 115616446--115616474 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
115616436 TCAAAATAGG
115616446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
115616475 AATTACTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:115619340 original size:50 final size:50
Alignment explanation
Indices: 115619258--115619352 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 50
115619248 AAAATGACAT
* * *
115619258 TATATTTTATAAATTTATTTTAATGTTTTAAATAAAATAAATAACTAATTA
1 TATATTTTATAAATTCATTTTAATATTTTAAAT-AAATAAAAAACTAATTA
* *
115619309 TATATTTTGTAAATTCA-TTTATTATTTTAAATAAATAAAAAACT
1 TATATTTTATAAATTCATTTTAATATTTTAAATAAATAAAAAACT
115619353 TAAAAAGACG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 11 0.28
50 13 0.33
51 15 0.38
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (50 bp):
TATATTTTATAAATTCATTTTAATATTTTAAATAAATAAAAAACTAATTA
Found at i:115626945 original size:71 final size:71
Alignment explanation
Indices: 115626861--115627010 Score: 264
Period size: 71 Copynumber: 2.1 Consensus size: 71
115626851 CAAATTAGTC
* * *
115626861 CTTAGAATAGCTAGATCAAGTTATAACATTAAAAAAAATGTAAAAATCATTAAAAATGGGACAAA
1 CTTACAATAGCTAGATCAAGTTACAACATTAAAAAAAACGTAAAAATCATTAAAAATGGGACAAA
115626926 GACGGA
66 GACGGA
115626932 CTTACAATAGCTAGATCAAGTTACAACATTAAAAAAAACGTAAAAATCATTAAAAATGGGACAAA
1 CTTACAATAGCTAGATCAAGTTACAACATTAAAAAAAACGTAAAAATCATTAAAAATGGGACAAA
*
115626997 TACGGA
66 GACGGA
115627003 CTTACAAT
1 CTTACAAT
115627011 TGTGCTTGGA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (71 bp):
CTTACAATAGCTAGATCAAGTTACAACATTAAAAAAAACGTAAAAATCATTAAAAATGGGACAAA
GACGGA
Found at i:115628858 original size:20 final size:21
Alignment explanation
Indices: 115628835--115628881 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
115628825 TATTTAAGAA
*
115628835 ATAATAATTATAAT-TAAAAT
1 ATAATAATAATAATATAAAAT
*
115628855 ATAAT-ATAATAATATAAAGT
1 ATAATAATAATAATATAAAAT
115628875 ATAATAA
1 ATAATAA
115628882 ATAAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAATAATAATAATATAAAAT
Found at i:115628880 original size:25 final size:24
Alignment explanation
Indices: 115628835--115628884 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
115628825 TATTTAAGAA
*
115628835 ATAATAATTATAATTAAAATATAAT
1 ATAATAATTATAAGTAAAATA-AAT
*
115628860 ATAATAA-TATAAAGTATAATAAAT
1 ATAATAATTAT-AAGTAAAATAAAT
115628884 A
1 A
115628885 AAAGAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATAATTATAAGTAAAATAAAT
Found at i:115628896 original size:12 final size:14
Alignment explanation
Indices: 115628859--115628899 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
115628849 TAAAATATAA
115628859 TATAATAATATAAAG
1 TATAATAATA-AAAG
115628874 TATAATAAATAAAAG
1 TATAAT-AATAAAAG
115628889 -A-AATAATAAAA
1 TATAATAATAAAA
115628900 TAAAGACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 1 0.04
15 10 0.40
16 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
TATAATAATAAAAG
Found at i:115628904 original size:16 final size:16
Alignment explanation
Indices: 115628860--115628905 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
115628850 AAAATATAAT
* *
115628860 ATAATAATATAAAG-T
1 ATAATAAAATAAAGAA
115628875 ATAAT-AAATAAAAGAA
1 ATAATAAAAT-AAAGAA
115628891 ATAATAAAATAAAGA
1 ATAATAAAATAAAGA
115628906 CAAGTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 10 0.38
17 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (16 bp):
ATAATAAAATAAAGAA
Found at i:115630096 original size:6 final size:6
Alignment explanation
Indices: 115630085--115630122 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
115630075 TTTGTACCTG
* *
115630085 ACTGTT ACTGTT ACTGCT ACTGTT ATTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
115630123 GCTGTATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:115634456 original size:3 final size:3
Alignment explanation
Indices: 115634450--115634486 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
115634440 TAAATTATTA
115634450 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
115634487 AGGCTGTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:115637386 original size:69 final size:69
Alignment explanation
Indices: 115637303--115637441 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
115637293 AATATTTTAT
115637303 TGTGCAAATAGGGTAAAAATGAATATTATTGTACTAAAAAATCATACTAGATTTAATTCTCAGGA
1 TGTGCAAATAGGGTAAAAATGAATATTATTGTACTAAAAAATCATACTAGATTTAATTCTCAGGA
115637368 AAGA
66 AAGA
* *
115637372 TGTGCGAATAGGGTAAAAATGAATATTATTGTACTAAAAAATCATATTAGATTTAATTCTCAGGA
1 TGTGCAAATAGGGTAAAAATGAATATTATTGTACTAAAAAATCATACTAGATTTAATTCTCAGGA
115637437 AAGA
66 AAGA
115637441 T
1 T
115637442 TGGAGGGATC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.32
Consensus pattern (69 bp):
TGTGCAAATAGGGTAAAAATGAATATTATTGTACTAAAAAATCATACTAGATTTAATTCTCAGGA
AAGA
Found at i:115642166 original size:12 final size:12
Alignment explanation
Indices: 115642145--115642177 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
115642135 CAATTGATTT
*
115642145 AAGTTGTTGTAG
1 AAGTTTTTGTAG
115642157 AAGTTTTTGTAG
1 AAGTTTTTGTAG
115642169 AAGTTTTTG
1 AAGTTTTTG
115642178 GGTTTGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (12 bp):
AAGTTTTTGTAG
Found at i:115648431 original size:25 final size:27
Alignment explanation
Indices: 115648394--115648447 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
115648384 TCAAACATGC
115648394 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
115648420 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
115648446 AT
1 AT
115648448 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:115648455 original size:26 final size:27
Alignment explanation
Indices: 115648411--115648486 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
115648401 TCAATTTAAC
* * *
115648411 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
115648437 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
115648465 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
115648487 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:115649928 original size:26 final size:26
Alignment explanation
Indices: 115649899--115650032 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
115649889 TGAAATTTCA
115649899 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACTTAACCCATT
* *
115649925 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACTTAACCCATT
115649951 ATCATGGAACATTTA-TCTAACCCATT
1 ATCATGGAACATTTACT-TAACCCATT
115649977 ATCATGGAACATTTA-TCTAACCCATT
1 ATCATGGAACATTTACT-TAACCCATT
*
115650003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACTTAACCCATT
115650029 ATCA
1 ATCA
115650033 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACTTAACCCATT
Found at i:115654073 original size:7 final size:7
Alignment explanation
Indices: 115654055--115654096 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
115654045 TTTTACATAG
115654055 TTTAAA-
1 TTTAAAT
115654061 TTTAAAT
1 TTTAAAT
115654068 TTTAAAT
1 TTTAAAT
115654075 TTTAAAT
1 TTTAAAT
115654082 TTTAAAT
1 TTTAAAT
115654089 TTTAAAT
1 TTTAAAT
115654096 T
1 T
115654097 CAAGTATGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTAAAT
Done.