Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold138
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: 1735418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 2489 characters in sequence are not A, C, G, or T
File 8 of 11
Found at i:1123958 original size:29 final size:31
Alignment explanation
Indices: 1123916--1123977 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 31
1123906 TTTTATTATT
1123916 TATTATAATTTTAAAAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
*
1123947 TATTA-AA-TTTAATAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
1123976 TA
1 TA
1123978 CTTTCTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 23 0.77
30 2 0.07
31 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:1124058 original size:2 final size:2
Alignment explanation
Indices: 1124051--1124093 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1124041 CATCATCATA
1124051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1124093 A
1 A
1124094 AAAGCATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1124405 original size:226 final size:228
Alignment explanation
Indices: 1124110--1124549 Score: 620
Period size: 227 Copynumber: 1.9 Consensus size: 228
1124100 TAAACTTCAG
* * * *
1124110 AAGTATTAAAAATAAACAAAATAAACATCAATTTAAAATTTTAAGATTAGCAAACATACCCTATT
1 AAGTATTAAAAATAAACAAAAGAAACATCAATTTAAAATTCTAAAATTAACAAACATACCCTATT
* * * **
1124175 TAAATATGTAATTTTATTCATTCA-TTTAAATTAAAATAAATTAAATGTTTAAAAATAAAATTCA
66 TAAATATGTAATTTTATTAATTAATTTTAAATTAAAATAAACTAAATGTAGAAAAATAAAATTCA
* * *
1124239 CAT-ATATTAATCTACTTTAAAATTAAT-AAATTTTTTTATTTAA-ATATGCAATTTATTAATAA
131 CATAATATTAATCTACCTTAAAATTAATAAAATTCTTCTATTTAATATAT--AA-TTATTAATAA
*
1124301 ATTTAAATTTAAGTTAATAAATTATTAATACTTTAA
193 ATTTAAATTTAAATTAATAAATTATTAATACTTTAA
* ** *
1124337 AAGTATTAAAAATAAAC-AAAGAAATATCAATTTAAAATTCTAAAATTAACAAACATGTCTTATT
1 AAGTATTAAAAATAAACAAAAGAAACATCAATTTAAAATTCTAAAATTAACAAACATACCCTATT
* *
1124401 TAAATATGTAATTTTATTAATTAATTTTAAATTTAAATAAACTAAATGTAGAAAAATAGAATTCA
66 TAAATATGTAATTTTATTAATTAATTTTAAATTAAAATAAACTAAATGTAGAAAAATAAAATTCA
* * *
1124466 CGTAATATTAATCTACCTTAAAATTAATAAAATTCTTCTATTTAATATATAATTATTAGTATATT
131 CATAATATTAATCTACCTTAAAATTAATAAAATTCTTCTATTTAATATATAATTATTAATAAATT
1124531 TAAATTTAAATTAATAAAT
196 TAAATTTAAATTAATAAAT
1124550 ATTTAAAAAT
Statistics
Matches: 187, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
226 61 0.33
227 83 0.44
228 25 0.13
229 14 0.07
230 4 0.02
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (228 bp):
AAGTATTAAAAATAAACAAAAGAAACATCAATTTAAAATTCTAAAATTAACAAACATACCCTATT
TAAATATGTAATTTTATTAATTAATTTTAAATTAAAATAAACTAAATGTAGAAAAATAAAATTCA
CATAATATTAATCTACCTTAAAATTAATAAAATTCTTCTATTTAATATATAATTATTAATAAATT
TAAATTTAAATTAATAAATTATTAATACTTTAA
Found at i:1129387 original size:22 final size:22
Alignment explanation
Indices: 1129362--1129430 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
1129352 ATGCTGATTC
1129362 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
* * *
1129384 AAGG--TGCCGAT-GTGCTGA-TTT
1 AAGGCCAG-CGATATTG--GACTTA
1129405 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
1129427 AAGG
1 AAGG
1129431 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
22 16 0.47
23 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCGATATTGGACTTA
Found at i:1129402 original size:43 final size:43
Alignment explanation
Indices: 1129209--1129749 Score: 450
Period size: 43 Copynumber: 12.1 Consensus size: 43
1129199 ATGTTAAAAA
* * *
1129209 TGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGG
* *
1129258 TGCCAATGTGCTGATCCAAGGCCAGCGATATTGGGCTT--A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * *
1129297 TGCCAAGGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAGAACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGG
*
1129345 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
1129388 TGCCGATGTGCTGATTTAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
1129431 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGG
* * *
1129479 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
1129522 TGCTAATGTGCTAATTCAAGGCCAGCGATATTGGACTT--A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * * * *
1129561 TACTAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
* * *
1129610 TGCCACTATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * *
1129653 TGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGG
* ** *
1129702 TGCTAATACGCTGATTCAAGGCTAGCGATATTGGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1129745 TGCCA
1 TGCCA
1129750 CAGAGTTATG
Statistics
Matches: 402, Mismatches: 60, Indels: 66
0.76 0.11 0.12
Matches are distributed among these distances:
39 65 0.16
41 2 0.00
43 159 0.40
44 3 0.01
45 1 0.00
46 1 0.00
47 2 0.00
48 73 0.18
49 96 0.24
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
Found at i:1129477 original size:134 final size:130
Alignment explanation
Indices: 1129209--1129691 Score: 653
Period size: 134 Copynumber: 3.6 Consensus size: 130
1129199 ATGTTAAAAA
* * *
1129209 TGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATT
* *
1129274 CAAGGCCAGCGATATTGGGCTTATGCCAAGGTGCTGATTCAAGGCCAGTGACATTGGTCTT-AAG
60 CAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAG
1129338 AACAAGG
125 -ACAAGG
* *
1129345 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCGATGTGCTGATTTAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
*
1129410 CAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC
66 CAGCGATATTGGACTT--A--TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGAC
1129475 AAGG
127 AAGG
* * * *
1129479 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAAAGGTGCTAATGTGCTAATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* * * *
1129544 CAGCGATATTGGACTTATACTAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATGAAG
66 CAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAG
1129609 G
130 G
* * *
1129610 TGCCACTATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTTAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* * *
1129675 TAGCGACATTGGTCTTA
66 CAGCGATATTGGACTTA
1129692 AAGATAAAGG
Statistics
Matches: 312, Mismatches: 29, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
130 79 0.25
131 76 0.24
132 2 0.01
134 117 0.38
135 4 0.01
136 34 0.11
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (130 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGG
Found at i:1129481 original size:91 final size:87
Alignment explanation
Indices: 1129209--1129749 Score: 406
Period size: 91 Copynumber: 6.1 Consensus size: 87
1129199 ATGTTAAAAA
* * * *
1129209 TGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATC
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATT
*
1129274 CAAGGCCAGCGATATTGGGCTT---A--
60 CAAGGCCAGCGATATTGGACTTAAAAGG
** * * * * *
1129297 TGCCAAGGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAGAACAAGGTGCCAATATGCTGATTC
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTGCTGATTC
1129362 AAGGCCAGCGATATTGGACTT-AAAGG
61 AAGGCCAGCGATATTGGACTTAAAAGG
* *
1129388 TGCCGATGTGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* *
1129453 CAGCGACATTGGTCTTAAAGACAAGG
66 CAGCGATATTGGACTT--A-A-AAGG
* * *
1129479 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAAAGGTGCTAATGTGCTAATTCAAGGC
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1129544 CAGCGATATTGGACTT---A--
66 CAGCGATATTGGACTTAAAAGG
* * * * * * * * * * *
1129561 TACTAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATGAAGGTGCCACTATGTTGATT
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1129626 CAAGGCCAGCGATATTGGACTT-AAAGG
60 CAAGGCCAGCGATATTGGACTTAAAAGG
* * * * * **
1129653 TGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCTAATACGCTGATT
1 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATT
*
1129718 CAAGGCTAGCGATATTGGACTT-AAAGG
60 CAAGGCCAGCGATATTGGACTTAAAAGG
1129745 TGCCA
1 TGCCA
1129750 CAGAGTTATG
Statistics
Matches: 375, Mismatches: 48, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
82 31 0.08
84 1 0.00
86 41 0.11
87 41 0.11
88 66 0.18
89 1 0.00
90 2 0.01
91 110 0.29
92 79 0.21
93 1 0.00
94 1 0.00
98 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (87 bp):
TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCGATATTGGACTTAAAAGG
Found at i:1129594 original size:39 final size:39
Alignment explanation
Indices: 1129524--1129599 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
1129514 CTTAAAGGTG
*
1129524 CTAATGTGCTAATTCAAGGCCAGCGATATTGGACTTATA
1 CTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTATA
* * * *
1129563 CTAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTA
1 CTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTA
1129600 AAGATGAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
CTAATGTGCTAATTCAAGGCCAGCGACATTGGACTTATA
Found at i:1129649 original size:49 final size:48
Alignment explanation
Indices: 1129569--1129743 Score: 189
Period size: 49 Copynumber: 3.7 Consensus size: 48
1129559 TATACTAATG
* * *
1129569 TGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATGAAGGTGCCACTA
1 TGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT-AAGGTGCCAATA
* * * *
1129618 TGTTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAGGTGCCAATA
* * *
1129661 TGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCTAATA
1 TGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT-AAGGTGCCAATA
* *
1129710 CGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 TGCTGATTCAAGGCTAGCGACATTGGACTTAAAG
1129744 GTGCCACAGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
43 35 0.34
45 1 0.01
47 1 0.01
49 65 0.64
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (48 bp):
TGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAGGTGCCAATA
Found at i:1129849 original size:33 final size:32
Alignment explanation
Indices: 1129807--1130061 Score: 223
Period size: 32 Copynumber: 7.9 Consensus size: 32
1129797 TTAAAAGGGA
* * *
1129807 AAAATGTGCCATGGAGTCATGGACTTAAAAAG
1 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAG
* *
1129839 AAAAGGGTGCCACAGAATCGTGGACTTAAAAAG
1 AAAA-GGTGCCACGGAGTCGTGGACTTAAAAAG
* *
1129872 AAAAGGTGTCACGGAGTTGTGGACTTAAAAAG
1 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAG
* * *
1129904 AAAAGGTGCCACGGAGTTGTGGACATAAAAGG
1 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAG
*
1129936 AATAAGGTGCCACGGAGTTGTGGACTT-----G
1 AA-AAGGTGCCACGGAGTCGTGGACTTAAAAAG
* * * *
1129964 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGAA
1 AAAAGGTGCCACGGAGTCGTGGACTTAAAA-AG
* * * *
1129997 AAAATAGTACCACGGAGTTGTGGGCTTTAAAAAG
1 AAAA-GGTGCCACGGAGTCGTGGAC-TTAAAAAG
** *
1130031 AAAAAGGTGCTGCGGAGTTGTGGACTTAAAA
1 -AAAAGGTGCCACGGAGTCGTGGACTTAAAA
1130062 GGGTACCACA
Statistics
Matches: 185, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
27 22 0.12
28 3 0.02
32 59 0.32
33 59 0.32
34 32 0.17
35 10 0.05
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.20
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTCGTGGACTTAAAAAG
Found at i:1129899 original size:32 final size:32
Alignment explanation
Indices: 1129740--1130118 Score: 276
Period size: 34 Copynumber: 11.8 Consensus size: 32
1129730 TATTGGACTT
* * *
1129740 AAAGGTGCCACAGAGTTATGGACTTATAGGAA-A
1 AAAGGTGCCACGGAGTTGTGGACTTA-A-AAAGA
* * * * * *
1129773 AAGGGATGCCATGGAGGTCTGGGCTTAAAAGGGAA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAA-AG-A
* * **
1129808 AAATGTGCCATGGAGTCATGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
1129840 AAAGGGTGCCACAGAATCGTGGACTTAAAAAGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAAGA
*
1129873 AAAGGTGTCACGGAGTTGTGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* *
1129905 AAAGGTGCCACGGAGTTGTGGACATAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
1129937 ATAAGGTGCCACGGAGTTGTGGACTT-----GA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
1129965 AAGGGTGCCACAGAGTTGTGGACTTAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-AGA
* * *
1129998 AAATAGTACCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAA-GGTGCCACGGAGTTGTGGAC-TTAAAAAG-A
**
1130033 AAAGGTGCTGCGGAGTTGTGGACTT-AAAAG-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
* ** *
1130063 ---GGTACCACAAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
*
1130093 AAAGAGTGCCACAGAGTTGTGGACTT
1 AAAG-GTGCCACGGAGTTGTGGACTT
1130119 TGAGAAGAGA
Statistics
Matches: 274, Mismatches: 50, Indels: 43
0.75 0.14 0.12
Matches are distributed among these distances:
27 39 0.14
28 7 0.03
32 65 0.24
33 62 0.23
34 87 0.32
35 14 0.05
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.20
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
Found at i:1129901 original size:65 final size:65
Alignment explanation
Indices: 1129826--1130118 Score: 270
Period size: 61 Copynumber: 4.6 Consensus size: 65
1129816 CATGGAGTCA
* *
1129826 TGGACTTAAAAAGAAAAGGGTGCCACAGAATCGTGGACTTAAAAAGAAAAGGTGTCACGGAGTTG
1 TGGACTTAAAAAGAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGGTGTCACGGAGTTG
* * * *
1129891 TGGACTTAAAAAGAAAA-GGTGCCACGGAGTTGTGGACATAAAAGGAATAAGGTGCCACGGAGTT
1 TGGACTTAAAAAGAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAA-AAGGTGTCACGGAGTT
1129955 G
65 G
**
1129956 TGGACTT-----G-AAAGGGTGCCACAGAGTTGTGGACTT-AAAAGAAAAAATAGTACCACGGAG
1 TGGACTTAAAAAGAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGGT-GT--CACGGAG
1130014 TTG
63 TTG
* * ** * ** **
1130017 TGGGCTTTAAAAAGAAAAAGGTGCTGCGGAGTTGTGGACTT-AAAAG----GGTACCACAAAGTT
1 TGGAC-TTAAAAAGAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGGTGTCACGGAGTT
1130077 G
65 G
* *
1130078 TGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
1 TGGACTTAAAAAG-AAAAGGGTGCCACAGAGTTGTGGACTT
1130119 TGAGAAGAGA
Statistics
Matches: 185, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
58 3 0.02
59 10 0.05
60 28 0.15
61 48 0.26
62 2 0.01
64 26 0.14
65 40 0.22
67 1 0.01
68 27 0.15
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.20
Consensus pattern (65 bp):
TGGACTTAAAAAGAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAGGTGTCACGGAGTTG
Found at i:1130047 original size:95 final size:94
Alignment explanation
Indices: 1129796--1130119 Score: 321
Period size: 95 Copynumber: 3.4 Consensus size: 94
1129786 GAGGTCTGGG
* * * ** * * * *
1129796 CTTAAAAGGGAAAAATGTGCCATGGAGTCATGGAC-TTAAAAAGAAAAGGGTGCCACAGAATCGT
1 CTTAAAA-GAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
* * *
1129860 GGACTTAAAAAGAAAAGGTGTCACGGAGTTGTGGA
65 GGACTT-----GAAAGGGTGCCACAGAGTTGTGGA
* * * * *
1129895 CTTAAAA-AGAAAAGGTGCCACGGAGTTGTGGAC-ATAAAAGGAATAAGGTGCCACGGAGTTGTG
1 CTTAAAAGAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
1129958 GACTTGAAAGGGTGCCACAGAGTTGTGGA
66 GACTTGAAAGGGTGCCACAGAGTTGTGGA
* * **
1129987 CTTAAAAGAAAAAATAGTACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCTGCGGAGTTGT
1 CTTAAAAGAAAAAA-AGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
* * *
1130052 GGACTTAAAAGGGTACCACAAAGTTGTGGA
65 GGACTTGAAAGGGTGCCACAGAGTTGTGGA
* *
1130082 CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTT
1 CTTAAAA-GAAAAAAAGTGCCACGGAGTTGTGGACTTT
1130120 GAGAAGAGAT
Statistics
Matches: 189, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
92 28 0.15
93 5 0.03
94 17 0.09
95 78 0.41
96 6 0.03
97 48 0.25
99 7 0.04
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (94 bp):
CTTAAAAGAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTG
GACTTGAAAGGGTGCCACAGAGTTGTGGA
Found at i:1130203 original size:30 final size:30
Alignment explanation
Indices: 1130092--1130499 Score: 411
Period size: 30 Copynumber: 13.1 Consensus size: 30
1130082 CTTAAAAGGA
* **
1130092 AAAAGAGTGCCACAGAGTTGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCATGGACTTTGAG
* * * *
1130123 AAGAGATTGCCACTGAGTCGTGTACTTTAAAG
1 AAAAGA-TGCCACTGAGTCATGGACTTT-GAG
* *
1130155 AAAAGATGCCACTAAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCATGGACTTTGAG
* *
1130185 AAGAGATGCTACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCATGGACTTTG-AG
* *
1130216 AAAAAAGATGCCACTGAGTCGTGGACTTTGGG
1 --AAAAGATGCCACTGAGTCATGGACTTTGAG
* *
1130248 AAGAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCATGGACTTTG-AG
*
1130279 AAAAAAGATGCCACTGAGTCATGGACTTAGAAG
1 --AAAAGATGCCACTGAGTCATGGACTTTG-AG
* *
1130312 AAAAGGATGCAACTGAGTCATGGACTCTGAAG
1 AAAA-GATGCCACTGAGTCATGGACTTTG-AG
* * *
1130344 AAAAGATGGCACTGAGTCATGGGCTTTGGG
1 AAAAGATGCCACTGAGTCATGGACTTTGAG
*
1130374 ACAAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCATGGACTTTG-AG
*
1130405 AAAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCATGGACTTTGAG
**
1130435 AAGAGAGATTGCCACTGAGTTGTGGACTTTGAG
1 AA-A-AGA-TGCCACTGAGTCATGGACTTTGAG
** * *
1130468 AAGTGATGCCATTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCATGGACTTTGAG
1130498 AA
1 AA
1130500 GAGAGATTTG
Statistics
Matches: 321, Mismatches: 44, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
30 107 0.33
31 97 0.30
32 39 0.12
33 78 0.24
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCATGGACTTTGAG
Found at i:1130243 original size:63 final size:61
Alignment explanation
Indices: 1130092--1130503 Score: 468
Period size: 63 Copynumber: 6.6 Consensus size: 61
1130082 CTTAAAAGGA
* * * * * *
1130092 AAAAGAGTGCCACAGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGTACTTTAAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGGGAAGAGA-TGCCACTGAGTCATGGACTTTGAAG
* * *
1130155 AAAAGATGCCACTAAGTCATGGACTTTGGGAAGAGATGCTACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAG
*
1130216 AAAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAG
* * * * * *
1130279 AAAAAAGATGCCACTGAGTCATGGACTTAGAAGAAAAGGATGCAACTGAGTCATGGACTCTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-GGAAGA-GATGCCACTGAGTCATGGACTTTGAAG
* * *
1130344 AAAAGATGGCACTGAGTCATGGGCTTTGGGACA-AGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGA-AGAGATGCCACTGAGTCATGGACTTTGAAG
* **
1130405 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAGATTGCCACTGAGTTGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-GGA-AGAGA-TGCCACTGAGTCATGGACTTTGAAG
** * *
1130468 AAGTGATGCCATTGAGTCGTGGACTTTGAGAAGAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGA
1130504 GATTTGAAGA
Statistics
Matches: 303, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
61 76 0.25
62 32 0.11
63 147 0.49
64 24 0.08
65 24 0.08
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAG
Found at i:1130272 original size:189 final size:190
Alignment explanation
Indices: 1130077--1130463 Score: 516
Period size: 189 Copynumber: 2.0 Consensus size: 190
1130067 CCACAAAGTT
* ** * * *
1130077 GTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTTG-AGAAGA-GATTGCCACTGAG
1 GTGGACTTAAAAGAAAAAAGA-TGCCACAGAGTCATGGACTTAGAAGAAAAGGA-TGCAACTGAG
* * * *
1130140 TCGTGTACTTTAAAGAAAAGATGCCACTAAGTCATGGACTTTGGGA-AGAGATGCTACTGAGTCA
64 TCATGGACTCTAAAGAAAAGATGCCACTAAGTCATGGACTTTGGGACA-AGATGCCACTGAGTCA
*
1130204 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTG-GGA-AGAGA-TGCCACTGAGTC
128 TGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAGATTGCCACTGAGTC
** *
1130266 GTGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTAGAAGAAAAGGATGCAACTGAGTC
1 GTGGACTTAAAAGAAAAAAGATGCCACAGAGTCATGGACTTAGAAGAAAAGGATGCAACTGAGTC
* * * *
1130331 ATGGACTCTGAAGAAAAGATGGCACTGAGTCATGGGCTTTGGGACAAGATGCCACTGAGTCATGG
66 ATGGACTCTAAAGAAAAGATGCCACTAAGTCATGGACTTTGGGACAAGATGCCACTGAGTCATGG
*
1130396 ACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAGATTGCCACTGAGTT
131 ACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAGATTGCCACTGAGTC
1130456 GTGGACTT
1 GTGGACTT
1130464 TGAGAAGTGA
Statistics
Matches: 173, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
187 28 0.16
188 20 0.12
189 103 0.60
190 22 0.13
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (190 bp):
GTGGACTTAAAAGAAAAAAGATGCCACAGAGTCATGGACTTAGAAGAAAAGGATGCAACTGAGTC
ATGGACTCTAAAGAAAAGATGCCACTAAGTCATGGACTTTGGGACAAGATGCCACTGAGTCATGG
ACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAGATTGCCACTGAGTC
Found at i:1135284 original size:14 final size:14
Alignment explanation
Indices: 1135264--1135299 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
1135254 AATTCATGCA
1135264 TAAAAAAAATAAA-
1 TAAAAAAAATAAAT
1135277 TAAAAAAAATAAAT
1 TAAAAAAAATAAAT
1135291 TAAAAAAAA
1 TAAAAAAAA
1135300 CCTGCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAAAAAAATAAAT
Found at i:1135353 original size:26 final size:26
Alignment explanation
Indices: 1135323--1135451 Score: 222
Period size: 26 Copynumber: 5.0 Consensus size: 26
1135313 AAACTTACAA
*
1135323 CATGGGAAAGGAAATAGAAAATGCAG
1 CATGGGAAAGGAAATAAAAAATGCAG
1135349 CATGGGAAAGGAAATAAAAAATGCAG
1 CATGGGAAAGGAAATAAAAAATGCAG
* *
1135375 CATGGGAAAGGAAATAGAAAATGGAG
1 CATGGGAAAGGAAATAAAAAATGCAG
1135401 CATGGGAAAGGAAATAAAAAATGCAG
1 CATGGGAAAGGAAATAAAAAATGCAG
*
1135427 CATGGGAAAGGAAATAAAAATTGCA
1 CATGGGAAAGGAAATAAAAAATGCA
1135452 ATTGGAGACA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 97 1.00
ACGTcount: A:0.52, C:0.07, G:0.29, T:0.12
Consensus pattern (26 bp):
CATGGGAAAGGAAATAAAAAATGCAG
Found at i:1135817 original size:9 final size:9
Alignment explanation
Indices: 1135803--1135827 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1135793 GCAACAGCAG
1135803 CAGCAACTC
1 CAGCAACTC
1135812 CAGCAACTC
1 CAGCAACTC
1135821 CAGCAAC
1 CAGCAAC
1135828 GACTGCAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.44, G:0.12, T:0.08
Consensus pattern (9 bp):
CAGCAACTC
Found at i:1135864 original size:43 final size:43
Alignment explanation
Indices: 1135812--1135898 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
1135802 GCAGCAACTC
*
1135812 CAGCAACTCCAGCAACGACTGCAGCTCCAGCACGCAACAGCAG
1 CAGCAACTCCAGCAACGACTGCAGCTCCAACACGCAACAGCAG
* *
1135855 CAGCAACTCCAGCAGCGACTGTAGCTCCAACACGCAACAGCAG
1 CAGCAACTCCAGCAACGACTGCAGCTCCAACACGCAACAGCAG
1135898 C
1 C
1135899 TCCAGCGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.32, C:0.39, G:0.21, T:0.08
Consensus pattern (43 bp):
CAGCAACTCCAGCAACGACTGCAGCTCCAACACGCAACAGCAG
Found at i:1135912 original size:43 final size:43
Alignment explanation
Indices: 1135821--1135922 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 43
1135811 CCAGCAACTC
* * * **
1135821 CAGCAACGACTGCAGCTCCAGCACGCAACAGCAGCAGCAACTC
1 CAGCAGCGACTGCAGCTCCAACACGCAACAGCAGCACCAACGA
* * *
1135864 CAGCAGCGACTGTAGCTCCAACACGCAACAGCAGCTCCAGCGA
1 CAGCAGCGACTGCAGCTCCAACACGCAACAGCAGCACCAACGA
* * *
1135907 GAGCAGCAACTCCAGC
1 CAGCAGCGACTGCAGC
1135923 AGGTAGCAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (43 bp):
CAGCAGCGACTGCAGCTCCAACACGCAACAGCAGCACCAACGA
Found at i:1136903 original size:51 final size:51
Alignment explanation
Indices: 1136848--1137284 Score: 336
Period size: 51 Copynumber: 8.5 Consensus size: 51
1136838 CAATTGCTCA
1136848 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * *
1136899 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* * * * ***** * * ** *
1136949 CAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTT
* * *** * * ***
1137001 TACCTCCGAGGGGATAATCCAACCCCAACTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * *
1137056 TAAT-GGGGAATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGG-ATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
* * *
1137107 TAATCGGGGATACTCTAAACCCGGTTTTATTTTTCAAAACACTAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACAC-CAATTTCCTT
1137160 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* **
1137211 TAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATTAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
1137260 CATAATCGGGGATACTCCAACCCCG
1 --TAATCGGGGATACTCCAACCCCG
1137285 TTATTTCCGA
Statistics
Matches: 301, Mismatches: 62, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
49 2 0.01
50 33 0.11
51 155 0.51
52 48 0.16
53 35 0.12
54 8 0.03
55 6 0.02
56 14 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:1136987 original size:28 final size:29
Alignment explanation
Indices: 1136946--1137002 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
1136936 AACACCAATT
*
1136946 TTTCAATCGAGGATACTCCAACCTCGTTA
1 TTTCAATCGAGGATACTCCAACCCCGTTA
*
1136975 TTTC-ATCGGGGATACTCCAACCCCGTTA
1 TTTCAATCGAGGATACTCCAACCCCGTTA
1137003 CCTCCGAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
TTTCAATCGAGGATACTCCAACCCCGTTA
Found at i:1137173 original size:104 final size:102
Alignment explanation
Indices: 1136848--1137284 Score: 336
Period size: 104 Copynumber: 4.2 Consensus size: 102
1136838 CAATTGCTCA
* *
1136848 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTCCTATAATCGGGGATACT
* *
1136913 CC-AACTCCGATTTTATTTCCAAAAACAC-CAATTT--T
66 CCAAAC-CCGATTTTATTT-CTAAAACACTAAATTTCCT
* * * ***** * * ** *
1136948 TCAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGT-TACCTCCGAG
1 T-AATCGGGGATACTCCAACCCCG--GTTTCATTTTCAAAACACCAATTTCC-TATA-AT-C--G
* * * * * * **
1137011 GGGATAATCCAACCCCAACTTTATTTCCAAAATA-TTGATTTCTCT
58 GGGATACTCCAAACCCGATTTTATTTCTAAAACACTAAATTTC-CT
*
1137056 TAAT-GGGGAATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-ATAATCGGGGAT
1 TAATCGGGG-ATACTCCAACCCCGGTTTCATTTTC-AAAACACCAA-TTTCCTATAATCGGGGAT
* * *
1137118 ACTCTAAACCCGGTTTTATTTTTCAAAACACTAAATTTCCTT
63 ACTCCAAACCCGATTTTATTTCT-AAAACACTAAATTTCC-T
* *
1137160 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTCCTATAATCGGGGATACT
* * * * *
1137225 CCAACCCCGATTTTATTTCTAAAACATTAATTTTTCA
66 CCAAACCCGATTTTATTTCTAAAACACTAAATTTCCT
1137262 TAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
1137285 TTATTTCCGA
Statistics
Matches: 255, Mismatches: 58, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
100 1 0.00
101 20 0.08
102 48 0.19
103 38 0.15
104 71 0.28
105 30 0.12
106 25 0.10
107 20 0.08
108 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (102 bp):
TAATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTCCTATAATCGGGGATACT
CCAAACCCGATTTTATTTCTAAAACACTAAATTTCCT
Found at i:1137347 original size:79 final size:79
Alignment explanation
Indices: 1137216--1137434 Score: 375
Period size: 79 Copynumber: 2.8 Consensus size: 79
1137206 TCCTTTAATC
* *
1137216 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1137281 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
* * *
1137295 GGGGATACTCCAACCCTGGTTTTATCTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
1137360 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
1137374 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACAATCAATTTTTCATAATCGGGGATACT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAAC-ATCAATTTTTCATAATCGGGGATACT
1137435 ACCGATTTTA
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 105 0.81
80 25 0.19
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:1141864 original size:28 final size:29
Alignment explanation
Indices: 1141824--1141878 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
1141814 TTTCACAATC
1141824 GGGGATACTCCAACCCC-GTTATTTTCGA
1 GGGGATACTCCAACCCCGGTTATTTTCGA
*
1141852 GGGGATACTCCAACCCCGGTTTTTTTC
1 GGGGATACTCCAACCCCGGTTATTTTC
1141879 TAAAACATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGGTTATTTTCGA
Found at i:1141915 original size:48 final size:52
Alignment explanation
Indices: 1141852--1141970 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 52
1141842 TTATTTTCGA
* *
1141852 GGGGATACTCCAACCCCG-GTT-TTTTTCTAAAACATC-ATTTT-CATAATC
1 GGGGATACTCTAACCCCGAGTTATTTTTCTAAAACACCGATTTTCCATAATC
* * * *
1141900 GGGGATACTCTAACCCCGATTTTATTTTTTTAGAACACCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGA-GTTATTTTTCTAAAACACCGATTTTCCATAATC
*
1141953 GGGGATACTCTAGCCCCG
1 GGGGATACTCTAACCCCG
1141971 TTGTTATCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
48 17 0.29
50 2 0.03
51 12 0.20
52 4 0.07
53 24 0.41
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGAGTTATTTTTCTAAAACACCGATTTTCCATAATC
Found at i:1141915 original size:76 final size:80
Alignment explanation
Indices: 1141754--1141917 Score: 248
Period size: 76 Copynumber: 2.1 Consensus size: 80
1141744 NNNNNNNNNN
*
1141754 CCAA-CCCGTTATTTCCGAGGGGATACTCCACACCCTGGTTTTATCTCTAAAACATCAATTTTTC
1 CCAACCCCGTTATTTCCGAGGGGATACTCCACACCCCGGTTTTATCTCTAAAACATCAATTTTTC
1141818 ACAATCGGGGATACT
66 ACAATCGGGGATACT
* *
1141833 CCAACCCCGTTATTTTCGAGGGGATACTCCA-ACCCCGGTTTT-TTTCTAAAACATC-A-TTTTC
1 CCAACCCCGTTATTTCCGAGGGGATACTCCACACCCCGGTTTTATCTCTAAAACATCAATTTTTC
*
1141894 ATAATCGGGGATACT
66 ACAATCGGGGATACT
*
1141909 CTAACCCCG
1 CCAACCCCG
1141918 ATTTTATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
76 27 0.34
77 1 0.01
78 12 0.15
79 14 0.18
80 25 0.32
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (80 bp):
CCAACCCCGTTATTTCCGAGGGGATACTCCACACCCCGGTTTTATCTCTAAAACATCAATTTTTC
ACAATCGGGGATACT
Found at i:1152085 original size:95 final size:96
Alignment explanation
Indices: 1151857--1152073 Score: 348
Period size: 95 Copynumber: 2.3 Consensus size: 96
1151847 TTCTTCTTCT
* *
1151857 ACTTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACCCTTTTAGTCCCCAAAGAGCAGG
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAGG
* *
1151922 ACGCCTTTCAAAGCCCACACAAGTTGGTGGC
66 ACACCTTTCAAAACCCACACAAGTTGGTGGC
* *
1151953 ACTTTTC-AGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCTCAAAGAGCAGG
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAGG
* *
1152017 ACACCTTTTAAAACCCACACGAGTTGGTGGC
66 ACACCTTTCAAAACCCACACAAGTTGGTGGC
1152048 A-TTTTCTAGTCCTCAAAGAGCAGGAC
1 ACTTTTCTAGTCCTCAAAGAGCAGGAC
1152074 ACCTTTTCCT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
94 5 0.05
95 100 0.90
96 6 0.05
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAGG
ACACCTTTCAAAACCCACACAAGTTGGTGGC
Found at i:1152165 original size:55 final size:55
Alignment explanation
Indices: 1151994--1152526 Score: 647
Period size: 55 Copynumber: 9.4 Consensus size: 55
1151984 CTCCTTTCAC
* * * * *
1151994 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAACCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1152049 -TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
*
1152110 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1152165 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG-CA
** * *
1152221 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
1152276 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
* *
1152338 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG-CA
** * * *
1152393 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1152448 CCTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1152503 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
1152527 TACACTTTAT
Statistics
Matches: 419, Mismatches: 41, Indels: 36
0.84 0.08 0.07
Matches are distributed among these distances:
54 22 0.05
55 177 0.42
56 118 0.28
57 3 0.01
58 1 0.00
59 4 0.01
60 25 0.06
61 40 0.10
62 29 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1152197 original size:26 final size:26
Alignment explanation
Indices: 1152110--1152197 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
1152100 GTTGGTGGCA
*
1152110 CCTTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
1152136 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
1152165 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
1152191 CCTTTCA
1 CCTTTCA
1152198 AAGCCCACAT
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 6 0.14
29 9 0.20
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:1152350 original size:172 final size:165
Alignment explanation
Indices: 1151997--1152526 Score: 765
Period size: 172 Copynumber: 3.1 Consensus size: 165
1151987 CTTTCACCCT
* * * ** * *
1151997 TTTAGTCCTCAAAGAGCAGGACACCTTTTAAAACCCACACGAGTTGGTGG-CATTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCCT
* *
1152061 CAAAGAGCAGGACACCTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
66 CAAAGAGCAGG--A-C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
*
1152126 GAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
125 GAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1152167 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCC
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCC
**
1152232 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGC
65 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGC
*
1152297 AGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
129 AGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACC
1152340 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCCT
* *
1152405 CAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAG
66 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
* *
1152470 GACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTT
131 GACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-C
1152506 TTTAGTCCTCAAAGAGCAGGA
1 TTTAGTCCTCAAAGAGCAGGA
1152527 TACACTTTAT
Statistics
Matches: 330, Mismatches: 20, Indels: 24
0.88 0.05 0.06
Matches are distributed among these distances:
165 22 0.07
166 53 0.16
167 21 0.06
168 3 0.01
169 3 0.01
170 7 0.02
171 63 0.19
172 131 0.40
173 27 0.08
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (165 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCCT
CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
GACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:1152464 original size:227 final size:227
Alignment explanation
Indices: 1151994--1152526 Score: 829
Period size: 227 Copynumber: 2.3 Consensus size: 227
1151984 CTCCTTTCAC
* *
1151994 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAACCCACACGAGTTGGTGGCATTTTCTAGTC
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCATTTTCTAGTC
* *
1152059 CTCAAAGAGCAGGACACCTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
66 CTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
* *
1152124 AAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
131 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGAACCTTTCAGTCCTCAAAGAGCAGGA
*
1152189 CGCCTTTCAAAGCCCACATAAGTTGGTGGTAA
196 CGCCTTTCAAAGCCCACACAAGTTGGTGGTAA
** *
1152221 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA-TTTTCTAGT
*
1152286 CCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTC
65 CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTC
* ** *
1152350 AAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGTAATTTTTTAGTCCTCAAAGAGCAG
130 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG-AACCTTTCAGTCCTCAAAGAGCAG
* * *
1152415 GACGCCTTTTAAAGCCCACACGAGTTGGTGG-CA
194 GACGCCTTTCAAAGCCCACACAAGTTGGTGGTAA
* * *
1152448 CCTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA-TTTTCTAGT
1152512 CCTCAAAGAGCAGGA
65 CCTCAAAGAGCAGGA
1152527 TACACTTTAT
Statistics
Matches: 279, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
226 19 0.07
227 149 0.53
228 111 0.40
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (227 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCATTTTCTAGTC
CTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGAACCTTTCAGTCCTCAAAGAGCAGGA
CGCCTTTCAAAGCCCACACAAGTTGGTGGTAA
Found at i:1153168 original size:6 final size:6
Alignment explanation
Indices: 1153159--1153185 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1153149 TAAAAATTAA
1153159 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
1153186 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:1153229 original size:4 final size:4
Alignment explanation
Indices: 1153220--1153252 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
1153210 TTCATGCATA
1153220 AAAT AAAT AAAT AAAT AAAT AAAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
1153253 TAAAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1153244 original size:13 final size:13
Alignment explanation
Indices: 1153220--1153257 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
1153210 TTCATGCATA
1153220 AAATAAAT-AAAT
1 AAATAAATAAAAT
1153232 AAATAAATAAAAT
1 AAATAAATAAAAT
1153245 AAATAAATTAAAA
1 AAATAAA-TAAAA
1153258 AAAACCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 11 0.46
14 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:1153260 original size:17 final size:16
Alignment explanation
Indices: 1153217--1153260 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
1153207 CAATTCATGC
1153217 ATAAAATAAATAAATAA
1 ATAAAA-AAATAAATAA
1153234 ATAAATAAAATAAATAA
1 ATAAA-AAAATAAATAA
1153251 ATTAAAAAAA
1 A-TAAAAAAA
1153261 ACCTGCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAAAAATAAATAA
Found at i:1153439 original size:26 final size:26
Alignment explanation
Indices: 1153282--1153435 Score: 283
Period size: 26 Copynumber: 6.0 Consensus size: 26
1153272 TGAAAACTTA
1153282 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
1153308 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
1153334 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
1153360 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
1153386 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
1153412 CAGCATGGGAAAGGAAATA-AAAAT
1 CAGCATGGGAAAGGAAATAGAAAAT
1153436 TGCAATTGGA
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 5 0.04
26 120 0.96
ACGTcount: A:0.52, C:0.08, G:0.29, T:0.12
Consensus pattern (26 bp):
CAGCATGGGAAAGGAAATAGAAAATG
Found at i:1153851 original size:43 final size:43
Alignment explanation
Indices: 1153800--1153885 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
1153790 GCAGCAACTC
*
1153800 TAGCAACTCCAGCAACGACTGCAGCTCTAGCACGCAACAGCAG
1 TAGCAACTCCAGCAACGACTGCAGCTCCAGCACGCAACAGCAG
* *
1153843 TAGCAACTCCAGCAGCGACTGTAGCTCCAGCACGCAACAGCAG
1 TAGCAACTCCAGCAACGACTGCAGCTCCAGCACGCAACAGCAG
1153886 CTCCAGCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.12
Consensus pattern (43 bp):
TAGCAACTCCAGCAACGACTGCAGCTCCAGCACGCAACAGCAG
Found at i:1154888 original size:51 final size:51
Alignment explanation
Indices: 1154833--1155269 Score: 343
Period size: 51 Copynumber: 8.5 Consensus size: 51
1154823 CAATTGCTCA
*
1154833 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
* *
1154884 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCCTT
* * * ** * ***** * * ** *
1154934 CAATTGAGGATACTCCAACCTTGTTATTTCATCGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACACCAATTTCCTT
* * * * * ***
1154986 TACCTCCGAGGGGATAATCCAACCCCGACTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCT-T
* * * * *
1155041 TAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAA-TTTCCTT
* * *
1155092 TAATCGGGGATACTCTAAACCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTA-TTTTCAAAACACC-AATTTCCTT
1155145 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
* *
1155196 TAATCGGAGATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCCTT
1155245 CATAATCGGGGATACTCCAACCCCG
1 --TAATCGGGGATACTCCAACCCCG
1155270 TTATTTCCGA
Statistics
Matches: 299, Mismatches: 66, Indels: 42
0.73 0.16 0.10
Matches are distributed among these distances:
49 2 0.01
50 26 0.09
51 161 0.54
52 49 0.16
53 34 0.11
54 10 0.03
55 3 0.01
56 14 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTT
Found at i:1155154 original size:104 final size:102
Alignment explanation
Indices: 1154833--1155269 Score: 298
Period size: 104 Copynumber: 4.2 Consensus size: 102
1154823 CAATTGCTCA
* * * *
1154833 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATACT
1 TAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGAGATACT
*
1154898 CC-AACTCCGATTTTATTTCCAAAAACACC-AATTT--T
66 CCAAAC-CCGATTTTATTT-CTAAAACACCAAATTTCCT
* * ** ***** * * ** *
1154933 TCAATTGAGGATACTCCAACCTTGTTATTTCATCGGGGATACTCCAA-CCCCGT-TACCTCCGAG
1 T-AATCGGGGATACTCCAACCCCG--ATTTCATTTTCAAAACACCAATTTCC-TATA-AT-C--G
* * * * * * ***
1154996 GGGATAATCCAACCCCGACTTTATTTCCAAAATA-TTGATTTCTCT
58 GAGATACTCCAAACCCGATTTTATTTCTAAAACACCAAATTTC-CT
* * * *
1155041 TAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-ATAATCGGGGATA
1 TAATCGGGGATACTCCAACCCCGATTTCATTTTC-AAAACACCAA-TTTCCTATAATCGGAGATA
* * *
1155104 CTCTAAACCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
64 CTCCAAACCCGATTTTATTTCT-AAAACACCAAATTTCC-T
* *
1155145 TAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTTTAATCGGAGATACT
1 TAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGAGATACT
* * * * *
1155210 CCAACCCCGATTTTATTTCTAAAACATCAATTTTTCA
66 CCAAACCCGATTTTATTTCTAAAACACCAAATTTCCT
1155247 TAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
1155270 TTATTTCCGA
Statistics
Matches: 251, Mismatches: 64, Indels: 42
0.70 0.18 0.12
Matches are distributed among these distances:
100 1 0.00
101 18 0.07
102 49 0.20
103 38 0.15
104 72 0.29
105 26 0.10
106 23 0.09
107 22 0.09
108 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (102 bp):
TAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTCCTATAATCGGAGATACT
CCAAACCCGATTTTATTTCTAAAACACCAAATTTCCT
Found at i:1155335 original size:79 final size:79
Alignment explanation
Indices: 1155204--1155427 Score: 394
Period size: 79 Copynumber: 2.8 Consensus size: 79
1155194 TTTAATCGGA
*
1155204 GATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
1155269 GTTATTTCCGAGGG
66 GTTATTTCCGAGGG
* *
1155283 GATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTTATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
*
1155348 GTTATTTTCGAGGG
66 GTTATTTCCGAGGG
* *
1155362 GATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
1155427 G
66 G
1155428 ATTTTACTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 137 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
GTTATTTCCGAGGG
Found at i:1155507 original size:53 final size:50
Alignment explanation
Indices: 1155359--1155506 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 50
1155349 TTATTTTCGA
* *
1155359 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAAACACCAATTTTTCATAATC
* *
1155410 GGGGATACTCTAACCCCGATTTTACTTTTTTAGAACACC-ATTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA--TTTCTAAAACACCAATTTTT-CATAATC
* * *
1155463 GGGGATACTCTAGCCCCGTTGTTATCTCTAAAATACCAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAACACCAATTTTT
1155507 TTCTCGTCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
50 1 0.01
51 30 0.37
52 14 0.17
53 37 0.45
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAACACCAATTTTTCATAATC
Found at i:1161043 original size:33 final size:33
Alignment explanation
Indices: 1161006--1161071 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1160996 AAATTCCCAG
*
1161006 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCAATACAAAGAAT-AATGTATCGATACA
**
1161039 ATGTATCAATACATTGAATAATGTATCGATACA
1 ATGTATCAATACAAAGAATAATGTATCGATACA
1161072 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAATAATGTATCGATACA
Found at i:1167744 original size:15 final size:15
Alignment explanation
Indices: 1167720--1167750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1167710 AATTATCTAC
1167720 ATTATAAAATTATTT
1 ATTATAAAATTATTT
*
1167735 ATTATGAAATTATTT
1 ATTATAAAATTATTT
1167750 A
1 A
1167751 AAATTCAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTATAAAATTATTT
Found at i:1168331 original size:22 final size:22
Alignment explanation
Indices: 1168251--1168377 Score: 100
Period size: 22 Copynumber: 5.9 Consensus size: 22
1168241 ATATTATAAG
* *
1168251 AGTAAAATATTAATAACATAGT
1 AGTAAATTATTAATAACATATT
* * * *
1168273 AATAACTTTTTAACAACATATATT
1 AGTAAATTATTAATAAC--ATATT
* *
1168297 A-AAAATT-TT-ATAATATATT
1 AGTAAATTATTAATAACATATT
* **
1168316 AGTAAATTATTGATAACATACA
1 AGTAAATTATTAATAACATATT
*
1168338 AAT-AATTATTAATAACATATT
1 AGTAAATTATTAATAACATATT
1168359 AGTAAATTATTAATAACAT
1 AGTAAATTATTAATAACAT
1168378 GGTAACGAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
19 6 0.08
20 5 0.06
21 22 0.28
22 38 0.47
23 4 0.05
24 5 0.06
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
AGTAAATTATTAATAACATATT
Found at i:1168335 original size:43 final size:43
Alignment explanation
Indices: 1168254--1168377 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
1168244 TTATAAGAGT
* * * * * *
1168254 AAAA-TATTAATAACATAGTAATAACTTTTTAACAACATATATTA
1 AAAATTATTAATAACATATTAGTAAATTATTAATAACATACA--A
* *
1168298 AAAATT-TT-ATAATATATTAGTAAATTATTGATAACATACAA
1 AAAATTATTAATAACATATTAGTAAATTATTAATAACATACAA
*
1168339 ATAATTATTAATAACATATTAGTAAATTATTAATAACAT
1 AAAATTATTAATAACATATTAGTAAATTATTAATAACAT
1168378 GGTAACGAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 6 0.09
42 2 0.03
43 51 0.77
44 6 0.09
45 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (43 bp):
AAAATTATTAATAACATATTAGTAAATTATTAATAACATACAA
Found at i:1168358 original size:11 final size:11
Alignment explanation
Indices: 1168257--1168377 Score: 56
Period size: 11 Copynumber: 11.2 Consensus size: 11
1168247 TAAGAGTAAA
1168257 ATATTAATAAC
1 ATATTAATAAC
*
1168268 ATAGTAATAAC
1 ATATTAATAAC
* * *
1168279 TTTTTAACAAC
1 ATATTAATAAC
1168290 ATATATTAA-AA-
1 --ATATTAATAAC
* *
1168301 AT-TTTATAAT
1 ATATTAATAAC
*
1168311 ATATTAGTAA-
1 ATATTAATAAC
*
1168321 ATTATTGATAAC
1 A-TATTAATAAC
**
1168333 ATACAAATAA-
1 ATATTAATAAC
*
1168343 TTATTAATAAC
1 ATATTAATAAC
*
1168354 ATATTAGTAA-
1 ATATTAATAAC
1168364 ATTATTAATAAC
1 A-TATTAATAAC
1168376 AT
1 AT
1168378 GGTAACGAAA
Statistics
Matches: 79, Mismatches: 21, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 11 0.14
11 52 0.66
12 4 0.05
13 5 0.06
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (11 bp):
ATATTAATAAC
Found at i:1171311 original size:20 final size:20
Alignment explanation
Indices: 1171286--1171323 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1171276 GTATCGATAC
1171286 ATTGTAACGATACATGATGA
1 ATTGTAACGATACATGATGA
**
1171306 ATTGTATTGATACATGAT
1 ATTGTAACGATACATGAT
1171324 AAAATATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
ATTGTAACGATACATGATGA
Found at i:1171337 original size:20 final size:20
Alignment explanation
Indices: 1171293--1171340 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1171283 TACATTGTAA
* * *
1171293 CGATACATGATGAATTGTAT
1 CGATACATGATAAAATATAT
*
1171313 TGATACATGATAAAATATAT
1 CGATACATGATAAAATATAT
1171333 CGATACAT
1 CGATACAT
1171341 TGAGCCCAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
CGATACATGATAAAATATAT
Found at i:1172921 original size:3 final size:3
Alignment explanation
Indices: 1172913--1172955 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
1172903 TCAACCATCA
* * *
1172913 ATG ATG ATG AAG ATG ATG ATA ATG ATG ATG ATG ATG ACG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1172956 AAAGTTGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:1173513 original size:20 final size:20
Alignment explanation
Indices: 1173488--1173525 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1173478 CTGCCAAGGA
1173488 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1173508 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
1173526 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1173530 original size:13 final size:13
Alignment explanation
Indices: 1173512--1173536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173502 TTATTCAATG
1173512 TATCGATACATTA
1 TATCGATACATTA
1173525 TATCGATACATT
1 TATCGATACATT
1173537 GATCTTTGTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1173534 original size:33 final size:33
Alignment explanation
Indices: 1173492--1173555 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1173482 CAAGGAAATG
1173492 TATCGATACATT-ATTCAATGTATCGATACATTA
1 TATCGATACATTGA-TCAATGTATCGATACATTA
**
1173525 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
1173556 CTGGGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTA
Found at i:1180547 original size:1 final size:1
Alignment explanation
Indices: 1180541--1180592 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
1180531 GTACAAACAC
* * * * * *
1180541 AAAAAAAAAACAACACAAAAAAAAAACAAAAACAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1180593 GTTCAAAGGC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1180555 original size:16 final size:17
Alignment explanation
Indices: 1180533--1180584 Score: 79
Period size: 16 Copynumber: 3.1 Consensus size: 17
1180523 CCTCAAAAGT
1180533 ACAAACACAAAAAAAAA
1 ACAAACACAAAAAAAAA
1180550 AC-AACACAAAAAAAAA
1 ACAAACACAAAAAAAAA
*
1180566 ACAAAAACAAAAACAAAA
1 ACAAACACAAAAA-AAAA
1180584 A
1 A
1180585 AAAAAAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 16 0.50
17 11 0.34
18 5 0.16
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAACACAAAAAAAAA
Found at i:1180560 original size:11 final size:11
Alignment explanation
Indices: 1180533--1180592 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
1180523 CCTCAAAAGT
*
1180533 ACAAACACAAA
1 ACAAAAACAAA
* *
1180544 AAAAAAACAAC
1 ACAAAAACAAA
*
1180555 ACAAAAAAAAA
1 ACAAAAACAAA
1180566 ACAAAAACAAAA
1 ACAAAAAC-AAA
1180578 ACAAAAA-AAA
1 ACAAAAACAAA
1180588 A-AAAA
1 ACAAAA
1180593 GTTCAAAGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
11 23 0.56
12 10 0.24
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAACAAA
Found at i:1180560 original size:13 final size:11
Alignment explanation
Indices: 1180544--1180589 Score: 65
Period size: 12 Copynumber: 3.9 Consensus size: 11
1180534 CAAACACAAA
1180544 AAAAAAACAACAC
1 AAAAAAA-AA-AC
1180557 AAAAAAAAAAC
1 AAAAAAAAAAC
1180568 AAAAACAAAAAC
1 AAAAA-AAAAAC
1180580 AAAAAAAAAA
1 AAAAAAAAAA
1180590 AAAGTTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.38
12 13 0.41
13 7 0.22
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:1180587 original size:16 final size:15
Alignment explanation
Indices: 1180541--1180592 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
1180531 GTACAAACAC
*
1180541 AAAAAAAAAACAACAC
1 AAAAAAAAAACAA-AA
1180557 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
1180572 ACAAAAACAAAA-AAAA
1 A-AAAAA-AAAACAAAA
1180588 AAAAA
1 AAAAA
1180593 GTTCAAAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 6 0.18
16 23 0.70
17 4 0.12
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:1180599 original size:23 final size:23
Alignment explanation
Indices: 1180542--1180592 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1180532 TACAAACACA
*
1180542 AAAAAAAAAC-AACACAAAAA-A
1 AAAAAAAAACAAAAACAAAAACA
1180563 AAAACAAAAACAAAAACAAAAA-A
1 AAAA-AAAAACAAAAACAAAAACA
1180586 AAAAAAA
1 AAAAAAA
1180593 GTTCAAAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 14 0.52
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAACAAAAACAAAAACA
Found at i:1181689 original size:9 final size:8
Alignment explanation
Indices: 1181656--1181693 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
1181646 TTGTGCTATA
*
1181656 ATCATGAC
1 ATCATAAC
1181664 ATCATAAC
1 ATCATAAC
1181672 ATCATAAC
1 ATCATAAC
1181680 ATCGATAAC
1 ATC-ATAAC
1181689 ATCAT
1 ATCAT
1181694 TATTTGCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (8 bp):
ATCATAAC
Found at i:1181837 original size:31 final size:31
Alignment explanation
Indices: 1181791--1181920 Score: 140
Period size: 31 Copynumber: 4.2 Consensus size: 31
1181781 TCTTCAAATC
* *
1181791 TCTTTCCTTCAAAGTCCACGACTCAGTAGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
1181822 TCTTTTCTTTC-AAGTCCACGACTTAGTGGCA
1 TCTTTTC-TTCAAAGTCCACGACTCAGTGGCA
* *
1181853 TCTTTTCTTCAAAGTCTACGACTCAATGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
1181884 TCTCTT-TTCTAAGTCCACAACTCTA-TGGCA
1 TCTTTTCTTCAAAGTCCACGACTC-AGTGGCA
1181914 CTCTTTT
1 -TCTTTT
1181921 TCTTTTTAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
30 22 0.26
31 59 0.70
32 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.37
Consensus pattern (31 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:1181919 original size:62 final size:63
Alignment explanation
Indices: 1181790--1181920 Score: 162
Period size: 62 Copynumber: 2.1 Consensus size: 63
1181780 TTCTTCAAAT
* * * *
1181790 CTCTTTCCTTCAAAGTCCACGACTCAGTAGCATCTTTTCTTTCAAGTCCACGACTTAGTGGCA
1 CTCTTTTCTTCAAAGTCCACGACTCAATAGCATCTTTTCTCTCAAGTCCACAACTTAGTGGCA
* *
1181853 -TCTTTTCTTCAAAGTCTACGACTCAATGGCATCTCTTT-TCT-AAGTCCACAACTCTA-TGGCA
1 CTCTTTTCTTCAAAGTCCACGACTCAATAGCATCT-TTTCTCTCAAGTCCACAACT-TAGTGGCA
1181914 CTCTTTT
1 CTCTTTT
1181921 TCTTTTTAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
61 16 0.27
62 40 0.68
63 3 0.05
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (63 bp):
CTCTTTTCTTCAAAGTCCACGACTCAATAGCATCTTTTCTCTCAAGTCCACAACTTAGTGGCA
Found at i:1181937 original size:34 final size:34
Alignment explanation
Indices: 1181886--1182416 Score: 398
Period size: 27 Copynumber: 16.8 Consensus size: 34
1181876 CAATGGCATC
*
1181886 TCTTTTCTAAGTCCACAACTCTATGGCACTCTTTT
1 TCTTTT-TAAGTCCACAACTCTGTGGCACTCTTTT
* *
1181921 TCTTTTTAAGTTCACAACTCTATGGCAC-CTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1181954 TCCTTTTAAAGCCCACAACTCTGTGGCACTCTATT
1 T-CTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1181989 TCCTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTC-TTTT
1182024 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTC-TTTT
1182059 TCTTTTTAAGTCCACAACTCTGTGGCAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
*
1182088 -C-TTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1182120 TCCTTTTAAGTCCACAACTCCGTGGTAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
1182149 -C-TTTTAAGTCCACAACTCTGTGGCAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
*
1182176 -C-TTTTAAGCCCACAACTCTGTGGCAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* *
1182203 -C-TTTTAAGCCCACAACTCCGTGGCAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1182230 -C-TTTTAAGCCCACAACTCCGTGGCATTCTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* *
1182262 TCCTTTTAAGTCCACAACTCTGTGGGAC-C----
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1182291 -C-TTTTAAGCCCACAACTCCGTGGCATTCTTTT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * * *
1182323 TCCTTTTAAGTCCAAAACTCCGTGGCAC-CTTAT
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* * *
1182356 TCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTC
1 TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
* *
1182389 TCTTTTTAAG-CCTACAAGTCAGTGGCAC
1 TCTTTTTAAGTCC-ACAACTCTGTGGCAC
1182417 CTATTTCAAA
Statistics
Matches: 433, Mismatches: 36, Indels: 55
0.83 0.07 0.10
Matches are distributed among these distances:
27 146 0.34
28 6 0.01
32 2 0.00
33 65 0.15
34 140 0.32
35 74 0.17
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (34 bp):
TCTTTTTAAGTCCACAACTCTGTGGCACTCTTTT
Found at i:1181971 original size:68 final size:67
Alignment explanation
Indices: 1181893--1182416 Score: 410
Period size: 61 Copynumber: 8.3 Consensus size: 67
1181883 ATCTCTTTTC
* * * *
1181893 TAAGTCCACAACTCTATGGCACTCTTTTTCTTTTTAAGTTCACAACTCTATGGCACCTTTTTCCT
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
1181958 TT
66 TT
* * * *
1181960 TAAAGCCCACAACTCTGTGGCACTCTATTTCCTTTAAAGCCCACAACTCTGTGGCACTCTTTTTT
1 T-AAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-C-TTTTT
*
1182025 CTTTT
63 CCTTT
*
1182030 TAAGTCCACAACTCTGTGGCACTCTTTTTTCTTTTTAAGTCCACAACTCTGTGGCA-C-----CC
1 TAAGTCCACAACTCTGTGGCACTC-TTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCC
1182089 TTT
65 TTT
* * *
1182092 TAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGTA-C-----CCT
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
1182151 TT
66 TT
*
1182153 TAAGTCCACAACTCTGTGGCA--C-----CCTTTTAAGCCCACAACTCTGTGGCA-C-----CCT
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
1182205 TT
66 TT
* * * * *
1182207 TAAGCCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCC
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCC
1182265 TTT
65 TTT
* * * *
1182268 TAAGTCCACAACTCTGTGGGA--C-----CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCC
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCC
1182326 TTT
65 TTT
* * * * * * *
1182329 TAAGTCCAAAACTCCGTGGCAC-CTTATTCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCTT
1 TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
1182393 TT
66 TT
* *
1182395 TAAG-CCTACAAGTCAGTGGCAC
1 TAAGTCC-ACAACTCTGTGGCAC
1182417 CTATTTCAAA
Statistics
Matches: 401, Mismatches: 38, Indels: 37
0.84 0.08 0.08
Matches are distributed among these distances:
54 74 0.18
56 1 0.00
59 1 0.00
61 135 0.34
62 28 0.07
65 2 0.00
66 26 0.06
67 26 0.06
68 48 0.12
69 23 0.06
70 37 0.09
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (67 bp):
TAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCT
TT
Found at i:1182267 original size:88 final size:89
Alignment explanation
Indices: 1182121--1182382 Score: 292
Period size: 88 Copynumber: 3.0 Consensus size: 89
1182111 CACTCTTTTT
* * * * *
1182121 CCTTTTAAGTCCACAACTCCGTGGTA-C-CCTTTTAAGTCCACAACTCTGTGGCA-C-----CCT
1 CCTTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGCCCAAAACTCCGTGGCACCTTATTCCT
*
1182178 TTTAAGCCCACAACTCTGTGGCAC
66 TTTAAGTCCACAACTCTGTGGCAC
* * *
1182202 CCTTTTAAGCCCACAACTCCGTGGCA-C-CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCC
1 CCTTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGCCCAAAACTCCGTGGCA-CCTTATTCC
*
1182265 TTTTAAGTCCACAACTCTGTGGGAC
65 TTTTAAGTCCACAACTCTGTGGCAC
*
1182290 CCTTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCTTA
1 CCTTTTAAGCCCACAACTCCGTGGCA-TC----TCCTTTTAAGCCCAAAACTCCGTGGCACCTTA
*
1182355 TTCCTTTTAAGTCCACAACTCCGTGGCA
61 TTCCTTTTAAGTCCACAACTCTGTGGCA
1182383 TCTTTCTCTT
Statistics
Matches: 155, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
81 49 0.32
83 1 0.01
88 51 0.33
90 1 0.01
94 29 0.19
95 24 0.15
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.31
Consensus pattern (89 bp):
CCTTTTAAGCCCACAACTCCGTGGCATCTCCTTTTAAGCCCAAAACTCCGTGGCACCTTATTCCT
TTTAAGTCCACAACTCTGTGGCAC
Found at i:1182267 original size:115 final size:116
Alignment explanation
Indices: 1182062--1182448 Score: 382
Period size: 115 Copynumber: 3.2 Consensus size: 116
1182052 TCTTTTTTCT
*
1182062 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 TTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-C----TCCTTTT
*
1182127 AAGTCCACAACTCCGTGG--TAC----CCTTTTAAGTCCACAACTCTGTGGCACCC
61 AAGTCCACAACTCCGTGGCATTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* *
1182177 TTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA-C-CCTTTTAAGCC
1 TTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTCCTTTTAAGTC
*
1182240 CACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCTGTGGGACCC
66 CACAACTCCGTGGCATTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* *
1182292 TTTTAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCTTATT
1 TTTTAAGCCCACAACTCTGTGGCA--C-----CCTTTTAAGTCCACAACTCCGTGGCACC----T
* * *
1182357 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCTCTTTTTAAG-CCTACAAGTCAGTGGCA-CC
55 CCTTTTAAGTCCACAACTCCGTGGCATTCTTT-TCCTTTTAAGTCC-ACAACTCTGTGGCACCC
* *
1182418 TATTTCAAAAGCCCACAAGTCGGTGGCACCC
1 T-TTT---AAGCCCACAACTCTGTGGCACCC
1182449 CTTTCAAAAG
Statistics
Matches: 231, Mismatches: 15, Indels: 44
0.80 0.05 0.15
Matches are distributed among these distances:
108 23 0.10
110 2 0.01
113 1 0.00
115 100 0.43
117 1 0.00
122 24 0.10
123 3 0.01
126 8 0.03
127 25 0.11
128 26 0.11
130 18 0.08
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (116 bp):
TTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTCCTTTTAAGTC
CACAACTCCGTGGCATTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:1182436 original size:30 final size:30
Alignment explanation
Indices: 1182396--1182549 Score: 156
Period size: 30 Copynumber: 5.3 Consensus size: 30
1182386 TTCTCTTTTT
* **
1182396 AAGCCTACAAGTCAGTGGCACCTATTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
*
1182426 AAGCCCACAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* *
1182456 AAGCCTACAAGTCAATGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
** *
1182485 AAGCCCACAAGTTGGT-GCA-ACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* ** *
1182512 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
1182541 AAGCCCACA
1 AAGCCCACA
1182550 CAAGTTGGTG
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.03
27 21 0.20
28 5 0.05
29 26 0.25
30 51 0.48
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCCTTTCAA
Found at i:1182648 original size:49 final size:49
Alignment explanation
Indices: 1182576--1184753 Score: 1518
Period size: 49 Copynumber: 46.8 Consensus size: 49
1182566 TCTTCTAAAT
* *
1182576 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
1182625 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1182674 CCAATGTCGTTGGCCTTGAATCAGTACATTGGCATCTTAATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1182723 CCAATGTCACTGGTCTTGAATCAGCACATTGGCATCTTCGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1182772 CCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCGTCTTTAAGG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1182821 CCAATGTCCCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1182870 CCAATGTCGCTGGCTTTGAATCAGCACATTGGCATCTTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * *
1182919 CCAATATCGCTGGCCTTGAATCAGCATATT-GCACCCT-GT-TTCTCAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT-TAAGA
* *
1182966 CCAATGTCGGTAGCCTTGAATCAGCACATT-G-A----CA----TAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * **
1183004 CTCAATATCGCTGGCCTTGAATCAACATATTGGCA-CTTTGTCTTTAAGA
1 C-CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1183053 CTAATGTCGTTGGCCTTGAATCAGCACATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
** * * * * *
1183092 CCAACATCGCTGGCCTTGAATCAGCATATTAGCACCTT-GTCTCTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
*
1183140 CCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * *
1183179 CCAATATCGCTAGCCTTGAATTAGCATATTGGCACCTT-GTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1183227 CCAATGTCGCTAGCCTTGAATTAGCACATT-G---C--CA-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * *
1183266 CCAATATCGCTAGACTTGAATTAGCATATTGGCGCCTTTGTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGA
* * *
1183318 CCAATGTCGTTGGCCTTGAATCAACACATTGGCATCTTCATCTGTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1183367 CCAATGTCGATGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * *
1183416 CCAATATCGCTGGCATTGAATCAACATATTGGCACCTT-GTCTTTCAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1183464 CCAATGTCGATAGCCTTGAATCAGCACATTGG------CA----TAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * **
1183502 CTCAATATCGCTGGCCTTAAATCAGCATATTGGCA-CTTTGTCTTTAAGA
1 C-CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1183551 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-----A-----AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * *
1183590 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT-GTCTCTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1183638 CCAATGTCGCTGGCCTTGGATCAGCACATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * *
1183677 CCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTT-GTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1183725 CCAATGTCACTGGCCTTGAATTAGCACATTGG------CA-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * *
1183764 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGA
* * * * *
1183816 CCAATGTCGTTGGCCTTGAATCAACACATTGGCATCTTTAGCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * *
1183865 CCGATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTATGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGA
*
1183917 CCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * *
1183966 CCAATGTCTCTAGCCTTGAATCAGCACACTAGCATCTTTATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
*
1184015 CCAATGTCGCTGGCTTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * *
1184064 CCAATATCGCTGGCATTGAATCAACATATTGGCACCTT-GTCTTTCAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1184112 CCAATGTCGCTGGCCTTGAATCAGTATATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * **
1184151 CCAATATCGCTGGCCTTAAATCAGCATATTGGCA-CTTTGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * *
1184199 CCAATGTCGTTAGCCTTGAATCAGCACATTGG------CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * *
1184238 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTCTGAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* *
1184286 CCAATGTCGCTGGCCTTGAATCAGCACATT---A---GCA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * *
1184325 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT-GTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * *
1184373 CCAATGTTGGTGGCCTTGAATTAGCACATTGG------CA-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * *
1184412 CCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAATA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGA
*
1184464 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * *
1184513 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTATGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TCTTCATCTTTAAGA
* * *
1184565 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTCAGCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * * * * * * *
1184614 CCGATATCGTTGACCTTGAATCAGCATATTGACATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGA
* ** * * *
1184666 CCAATGTCGCTAGCCTTGCCTCAGCACATTGGCAT-TT-TTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
* * * *
1184713 CTAAATGTCGATGGCCATGAATCAGCACATTGTCATTCTTC
1 C-CAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
1184754 GCATCTTCGA
Statistics
Matches: 1672, Mismatches: 305, Indels: 302
0.73 0.13 0.13
Matches are distributed among these distances:
38 2 0.00
39 362 0.22
40 3 0.00
41 3 0.00
42 5 0.00
44 1 0.00
45 1 0.00
46 3 0.00
47 36 0.02
48 389 0.23
49 645 0.39
50 22 0.01
51 10 0.01
52 190 0.11
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
Found at i:1183089 original size:87 final size:87
Alignment explanation
Indices: 1182919--1183352 Score: 584
Period size: 87 Copynumber: 5.0 Consensus size: 87
1182909 ATCTTTAAAA
* * * *
1182919 CCAATATCGCTGGCCTTGAATCAGCATATT-GCACCCTGT-TTCTCAGACCAATGTCGGTAGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-TAAGACCAATGTCGCTGGCCT
*
1182982 TGAATCAGCACATTGACATAAGC
65 TGAATCAGCACATTGGCATAAGC
* * * * *
1183005 TCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACTAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1183070 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1183092 CCAACATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1183157 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1183179 CCAATATCGCTAGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * *
1183244 GAATTAGCACATTGCCACAAGC
66 GAATCAGCACATTGGCATAAGC
* * * * *
1183266 CCAATATCGCTAGACTTGAATTAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTCGCTGG
*
1183331 CCTTGAATCAACACATTGGCAT
62 CCTTGAATCAGCACATTGGCAT
1183353 CTTCATCTGT
Statistics
Matches: 308, Mismatches: 34, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
86 28 0.09
87 237 0.77
88 5 0.02
91 38 0.12
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:1183117 original size:39 final size:39
Alignment explanation
Indices: 1183063--1183298 Score: 148
Period size: 39 Copynumber: 5.6 Consensus size: 39
1183053 CTAATGTCGT
*
1183063 TGGCCTTGAATCAGCACATTGGCATAAGCCCAACATCGC
1 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
* * * *
1183102 TGGCCTTGAATCAGCATATTAGCACCTTGTCTCTAAGACCAATGTCGC
1 TGGCCTTGAATCAGC-----A-CA--TTGGC-ATAAGCCCAATATCGC
1183150 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
* * * * *
1183189 TAGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGC
* * * *
1183237 TAGCCTTGAATTAGCACATTGCCACAAGCCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
* * * *
1183276 TAGACTTGAATTAGCATATTGGC
1 TGGCCTTGAATCAGCACATTGGC
1183299 GCCTTTGTCA
Statistics
Matches: 157, Mismatches: 22, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
39 81 0.52
40 4 0.03
42 2 0.01
43 1 0.01
44 1 0.01
45 2 0.01
47 4 0.03
48 62 0.39
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (39 bp):
TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
Found at i:1183534 original size:39 final size:38
Alignment explanation
Indices: 1183476--1183796 Score: 192
Period size: 39 Copynumber: 7.6 Consensus size: 38
1183466 AATGTCGATA
1183476 GCCTTGAATCAGCACATTGGCATAAGCTCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCATAAGC-CAATATCGCTG
* * * *
1183515 GCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTG
1 GCCTTGAATCAGCACATTGGCA---------TAAG-CCAATATCGCTG
* *
1183563 GCCTTGAATCAGCACATTGGCAAAAGCCCAATATCACTG
1 GCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCTG
* *
1183602 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCA---------TAAG-CCAATATCGCTG
*
1183650 GCCTTGGATCAGCACATTGGCATAAGCCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCTG
* * * *
1183689 GCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTG
1 GCCTTGAATCAGCACATTGGCA---------TAAG-CCAATATCGCTG
* *
1183737 GCCTTGAATTAGCACATTGGCACAAGCCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCTG
*
1183776 GCCTTGAATCAGCATATTGGC
1 GCCTTGAATCAGCACATTGGC
1183797 GCCTTTGTCA
Statistics
Matches: 221, Mismatches: 33, Indels: 56
0.71 0.11 0.18
Matches are distributed among these distances:
39 119 0.54
48 101 0.46
49 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (38 bp):
GCCTTGAATCAGCACATTGGCATAAGCCAATATCGCTG
Found at i:1183567 original size:87 final size:87
Alignment explanation
Indices: 1183416--1184599 Score: 1254
Period size: 87 Copynumber: 13.0 Consensus size: 87
1183406 ATCTTTAAAA
* * * * * *
1183416 CCAATATCGCTGGCATTGAATCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
1183481 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1183503 TCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
1183568 GAATCAGCACATTGGCAAAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1183590 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
1183655 GGATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1183677 CCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1183742 GAATTAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCATAAGC
* *
1183764 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTTG---TCTTTAAGACCAATGTCGCTGG
* *
1183829 CCTTGAATCAACACATTGGCATCTTTAGCTTTAAGT
62 CCTTGAATCAGCACATTGG---C---A----TAAGC
* * * *
1183865 CCGATATCGCTGGCCTTGAATCAGCATATTGGTGC-CTTTGTCATCTTTATGTCCAATGTTGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATT-G-GCACTTTG---TCTTTAAGACCAATGTCGCTG
*
1183929 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGA
61 GCCTTGAATCAGCACATTGG------CA----TAAGC
* * * * * * * *
1183966 CCAATGTCTCTAGCCTTGAATCAGCACACTAGCATCTTTATCTTTAAGACCAATGTCGCTGGCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTTTAAGACCAATGTCGCTGGCCT
*
1184031 TGAATCAGCACATTGGCATCTTCATCTTTAAGA
65 TGAATCAGCACATTGG------CA----TAAGC
* * * *
1184064 CCAATATCGCTGGCATTGAATCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1184129 GAATCAGTATATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1184151 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
1184216 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1184238 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTGAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
1184303 GAATCAGCACATTAGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * * *
1184325 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTTGGTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1184390 GAATTAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCATAAGC
* * * *
1184412 CCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAATACCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTTG---TCTTTAAGACCAATGTCGCTGG
*
1184477 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
62 CCTTGAATCAGCACATTGG------CA----TAAGC
* * * *
1184513 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTATGACCAATGTCGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT--T-GTCTTTAAGACCAATGTCGCTGG
1184578 CCTTGAATCAGCACATTGGCAT
62 CCTTGAATCAGCACATTGGCAT
1184600 CTTCAGCTTT
Statistics
Matches: 946, Mismatches: 112, Indels: 74
0.84 0.10 0.07
Matches are distributed among these distances:
87 540 0.57
88 8 0.01
91 77 0.08
94 1 0.00
95 2 0.00
97 43 0.05
98 80 0.08
99 2 0.00
101 186 0.20
102 1 0.00
103 3 0.00
104 3 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:1183748 original size:498 final size:498
Alignment explanation
Indices: 1182576--1183993 Score: 1946
Period size: 498 Copynumber: 2.8 Consensus size: 498
1182566 TCTTCTAAAT
* ** * *
1182576 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATATTCATCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTCTAAGACCAATGTCGCTGGCCT
* * * * * *
1182641 TGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGTACATTGG
65 TGAATCAGCACATTGG------CA----TAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGG
* * * * *
1182706 CATCTTAATCTTTAAGACCAATGTCACTGGTCTTGAATCAGCACATTGGCATCTTCGTCTTTAAG
120 CACCTT-GTCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATT-G---C--C-AC---AAG
* * * * * * * * **
1182771 ACCAATGTCGCTGGCCTTGAATCAACACATT-G-GCATCT-TCGTCTTTAAGGCCAATGTCCCTG
174 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTG
*
1182833 GCCTTGAATCAACACATTGGCATCTTCATCTTTAAGACCAATGTCGCTGGCTTTGAATCAGCACA
239 GCCTTGAATCAACACATTGGCATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
*
1182898 TTGGCATCTTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCATATT-GCACCCTGT-TTC
304 TTGGCATCTTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-
* *
1182961 TCAGACCAATGTCGGTAGCCTTGAATCAGCACATTGACATAAGCTCAATATCGCTGGCCTTGAAT
368 TCAGACCAATGTCGATAGCCTTGAATCAGCACATTGACATAAGCTCAATATCGCTGGCCTTAAAT
* *
1183026 CAACATATTGGCACTTTGTCTTTAAGACTAATGTCGTTGGCCTTGAATCAGCACATTGGCATAAG
433 CAACATATTGGCACTTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAAAAG
1183091 C
498 C
* *
1183092 CCAACATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
1183157 GAATCAGCACATTGGCATAAGCCCAATATCGCTAGCCTTGAATTAGCATATTGGCACCTTGTCTT
66 GAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
* * * *
1183222 TAAGACCAATGTCGCTAGCCTTGAATTAGCACATTGCCACAAGCCCAATATCGCTAGACTTGAAT
131 TAAGACCAATGTCACTGGCCTTGAATTAGCACATTGCCACAAGCCCAATATCGCTGGCCTTGAAT
*
1183287 TAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
196 CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
* *
1183352 TCTTCATCTGTAAGACCAATGTCGATGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAAC
261 TCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAAC
* *
1183417 CAATATCGCTGGCATTGAATCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTG
326 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTG
* *
1183482 AATCAGCACATTGGCATAAGCTCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTT
391 AATCAGCACATTGACATAAGCTCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTGTCTTT
1183547 AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAAAAGC
456 AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAAAAGC
*
1183590 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
1183655 GGATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
66 GAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
*
1183720 TAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
131 TAAGACCAATGTCACTGGCCTTGAATTAGCACATTGCCACAAGCCCAATATCGCTGGCCTTGAAT
1183785 CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
196 CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
* * * * * * * * *
1183850 TCTTTAGCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAT
261 TCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAA
** * * * * * * **
1183915 GTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCTCTAGC
323 AACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTCAGACCAATGTCGATAGC
1183980 CTTGAATCAGCACA
387 CTTGAATCAGCACA
1183994 CTAGCATCTT
Statistics
Matches: 813, Mismatches: 80, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
494 27 0.03
495 1 0.00
496 4 0.00
497 132 0.16
498 420 0.52
499 3 0.00
500 5 0.01
501 41 0.05
502 34 0.04
503 1 0.00
504 35 0.04
505 35 0.04
509 2 0.00
515 40 0.05
516 33 0.04
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (498 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
TAAGACCAATGTCACTGGCCTTGAATTAGCACATTGCCACAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
TCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAAC
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTG
AATCAGCACATTGACATAAGCTCAATATCGCTGGCCTTAAATCAACATATTGGCACTTTGTCTTT
AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAAAAGC
Found at i:1183896 original size:101 final size:100
Alignment explanation
Indices: 1183760--1184700 Score: 923
Period size: 101 Copynumber: 9.9 Consensus size: 100
1183750 ACATTGGCAC
*
1183760 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
* * *
1183825 TTGGCCTTGAATCAACACATTGGCATCTTTAGCTTT
66 CTGGCCTTGAATCAGCACATTGGCATCTTCA-CTTT
* * ** * * *
1183861 AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTATGTCCAATGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
1183926 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCATCTTCA-CTTT
* * * * * * * *
1183962 AAGACCAATGTCTCTAGCCTTGAATCAGCACACTAGCATC-TT-T-ATCTTTAAGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
*
1184024 CTGGCTTTGAATCAGCACATTGGCATCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCATCTTCA-CTTT
* * * *
1184060 AAGACCAATATCGCTGGCATTGAATCAACATATTGGCACC-TTG---TCTTTCAGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
* *
1184121 CTGGCCTTGAATCAGTATATTGG------CA---T
66 CTGGCCTTGAATCAGCACATTGGCATCTTCACTTT
*
1184147 AAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCA-CTTTG---TCTTTAAGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
* *
1184208 TTAGCCTTGAATCAGCACATTGG------CA---T
66 CTGGCCTTGAATCAGCACATTGGCATCTTCACTTT
*
1184234 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TC--TGAGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
*
1184295 CTGGCCTTGAATCAGCACATT---A---GCA---T
66 CTGGCCTTGAATCAGCACATTGGCATCTTCACTTT
* *
1184321 AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC-TTG---TCTTTAAGACCAATGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
* *
1184382 GTGGCCTTGAATTAGCACATTGG------CAC---
66 CTGGCCTTGAATCAGCACATTGGCATCTTCACTTT
* * * *
1184408 AAGCCCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAATACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
1184473 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCATCTTCA-CTTT
* * * *
1184509 AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTATGACCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
*
1184574 TTGGCCTTGAATCAGCACATTGGCATCTTCAGCTTT
66 CTGGCCTTGAATCAGCACATTGGCATCTTCA-CTTT
* * * * * * ** * *
1184610 AAGTCCGATATCGTTGACCTTGAATCAGCATATTGACATCTTTAACAT-TCCTAAGCCCAATGTC
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TTAAGACCAATGTC
* **
1184674 GCTAGCCTTGCCTCAGCACATTGGCAT
65 GCTGGCCTTGAATCAGCACATTGGCAT
1184701 TTTTCTTCAA
Statistics
Matches: 723, Mismatches: 90, Indels: 54
0.83 0.10 0.06
Matches are distributed among these distances:
85 2 0.00
86 1 0.00
87 263 0.36
88 4 0.01
89 2 0.00
91 39 0.05
97 39 0.05
98 85 0.12
99 1 0.00
100 3 0.00
101 284 0.39
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (100 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCATCTTCACTTT
Found at i:1184036 original size:648 final size:646
Alignment explanation
Indices: 1183306--1184700 Score: 2252
Period size: 648 Copynumber: 2.1 Consensus size: 646
1183296 GGCGCCTTTG
* * * *
1183306 TCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCATCTTCATCTGTAAGACCAA
1 TCATCTTTAAGACCAATGTCGTT-GCCTTGAATCAGCACA-TAGCATCTTTATCTTTAAGACCAA
*
1183371 TGTCGATGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAACCAATATCGCTGGCATTGAA
64 TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAACCAATATCGCTGGCATTGAA
1183436 TCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTGAATCAGCACATTGGCATAA
129 TCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTGAATCAGCACATTGGCATAA
* *
1183501 GCTCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTGGCC
194 GCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTAGCC
1183566 TTGAATCAGCACATTGGCAAAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTC
259 TTGAATCAGCACATTGGCAAAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTC
* *
1183631 TCTAAGACCAATGTCGCTGGCCTTGGATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGA
324 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGA
* *
1183696 ATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCACA
389 ATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCACA
* * *
1183761 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGT
454 AGCCCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGC
* *
1183826 TGGCCTTGAATCAACACATTGGCATCTTTAGCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCA
519 TGGCCTTGAATCAACACATTGGCATCTTCAGCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
** * * *
1183891 TATTGGTGCCTTTGTCATCTTTATGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCT
584 TATTGGCACCTTCGTCATCTTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
1183954 TCATCTTTAAGACCAATGTC-TCTAGCCTTGAATCAGCACACTAGCATCTTTATCTTTAAGACCA
1 TCATCTTTAAGACCAATGTCGT-T-GCCTTGAATCAGCACA-TAGCATCTTTATCTTTAAGACCA
* *
1184018 ATGTCGCTGGCTTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCTGGCATTGA
63 ATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAACCAATATCGCTGGCATTGA
* * * *
1184083 ATCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGCTGGCCTTGAATCAGTATATTGGCATA
128 ATCAACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTGAATCAGCACATTGGCATA
1184148 AGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTAGC
193 AGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTAGC
* *
1184213 CTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
258 CTTGAATCAGCACATTGGCAAAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGT
*
1184278 CTCTGAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTG
323 CTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTG
***
1184343 AATCAACATATTGGCACCTTGTCTTTAAGACCAATGTTGGTGGCCTTGAATTAGCACATTGGCAC
388 AATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCAC
*
1184408 AAGCCCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAATACCAATGTCG
453 AAGCCCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCG
* * *
1184473 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGC
518 CTGGCCTTGAATCAACACATTGGCATCTTCAGCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
*
1184538 ATATTGGCACCTTCGTCATCTTTATGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCT
583 ATATTGGCACCTTCGTCATCTTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * * * * *
1184602 TCAGCTTTAAGTCCGATATCGTTGACCTTGAATCAGCATATTGACATCTTTAACATTCCTAAGCC
1 TCATCTTTAAGACCAATGTCGTTG-CCTTGAATCAGCACATAG-CATCTTTATC-TT--TAAGAC
* **
1184667 CAATGTCGCTAGCCTTGCCTCAGCACATTGGCAT
61 CAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1184701 TTTTCTTCAA
Statistics
Matches: 688, Mismatches: 52, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
647 4 0.01
648 646 0.94
649 3 0.00
651 35 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (646 bp):
TCATCTTTAAGACCAATGTCGTTGCCTTGAATCAGCACATAGCATCTTTATCTTTAAGACCAATG
TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAAACCAATATCGCTGGCATTGAATC
AACATATTGGCACCTTGTCTTTCAGACCAATGTCGATAGCCTTGAATCAGCACATTGGCATAAGC
CCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGTTAGCCTT
GAATCAGCACATTGGCAAAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTC
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAAT
CAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCACAAG
CCCAATATCACAGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAACACATTGGCATCTTCAGCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTCGTCATCTTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
Found at i:1184166 original size:39 final size:39
Alignment explanation
Indices: 1184112--1184444 Score: 216
Period size: 39 Copynumber: 7.8 Consensus size: 39
1184102 GTCTTTCAGA
* *
1184112 CCAATGTCGCTGGCCTTGAATCAGTATATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAGC
* *
1184151 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---------TAAGC
* * * *
1184199 CCAATGTCGTTAGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAGC
* *
1184238 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTGAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---------TAAGC
* * *
1184286 CCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAGC
* *
1184325 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA---------TAAGC
* * * * * *
1184373 CCAATGTTGGTGGCCTTGAATTAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAGC
* *
1184412 CCAATATCACAGGCCTTGAATCAGCATATTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGC
1184445 GCCTTTGTCA
Statistics
Matches: 226, Mismatches: 41, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
39 127 0.56
48 99 0.44
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCATAAGC
Found at i:1184598 original size:52 final size:52
Alignment explanation
Indices: 1184423--1184603 Score: 226
Period size: 52 Copynumber: 3.5 Consensus size: 52
1184413 CAATATCACA
* * *
1184423 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAT-ACCAATGTCGCT
1 GGCCTTGAATCAGCACATTGGCACCTTCGTCATCTTT-ATGACCAATGTCGCT
* * * * *
1184475 GGCCTTGAATCAGCACATTGGCA---TCTTCATCTTTAAGTCCAATATTGCT
1 GGCCTTGAATCAGCACATTGGCACCTTCGTCATCTTTATGACCAATGTCGCT
* *
1184524 GGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTATGACCAATGTCGTT
1 GGCCTTGAATCAGCACATTGGCACCTTCGTCATCTTTATGACCAATGTCGCT
*
1184576 GGCCTTGAATCAGCACATTGGCATCTTC
1 GGCCTTGAATCAGCACATTGGCACCTTC
1184604 AGCTTTAAGT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 40 0.37
52 67 0.62
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
GGCCTTGAATCAGCACATTGGCACCTTCGTCATCTTTATGACCAATGTCGCT
Found at i:1187447 original size:12 final size:12
Alignment explanation
Indices: 1187430--1187459 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1187420 TGAACACTAA
1187430 CACACAAGGACC
1 CACACAAGGACC
1187442 CACACAAGGACC
1 CACACAAGGACC
1187454 CA-ACAA
1 CACACAA
1187460 AGTTTGGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.47, C:0.40, G:0.13, T:0.00
Consensus pattern (12 bp):
CACACAAGGACC
Found at i:1191031 original size:13 final size:13
Alignment explanation
Indices: 1191013--1191063 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
1191003 TGTGTTCTTA
1191013 GTATCGATACATT
1 GTATCGATACATT
*
1191026 GTATCGATATATT
1 GTATCGATACATT
*
1191039 GTATCGATATATT
1 GTATCGATACATT
*
1191052 ATATCGATACAT
1 GTATCGATACAT
1191064 GGGCACTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1192712 original size:18 final size:19
Alignment explanation
Indices: 1192689--1192725 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1192679 ACGATTAATC
*
1192689 ATAGGATTAGTCAT-TTTG
1 ATAGGAGTAGTCATATTTG
1192707 ATAGGAGTAGTCATATTTG
1 ATAGGAGTAGTCATATTTG
1192726 TTTCTTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (19 bp):
ATAGGAGTAGTCATATTTG
Found at i:1195030 original size:22 final size:22
Alignment explanation
Indices: 1194984--1195033 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1194974 AGAATTTGAT
*
1194984 AAAATAAAAAAATTATAATATA
1 AAAATAAAAAAATTATAATAGA
*
1195006 AAAATAAAAATATTAT-ATAAGA
1 AAAATAAAAAAATTATAAT-AGA
1195028 AAAATA
1 AAAATA
1195034 TACAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAAAAAAATTATAATAGA
Found at i:1195560 original size:23 final size:23
Alignment explanation
Indices: 1195516--1195560 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1195506 CTATTATATT
*
1195516 CTTCATTTCCTTTATTTGTTTTA
1 CTTCATTTCCTTTATTTCTTTTA
*
1195539 CTTCATTTTCTTCT-TTTCTTTT
1 CTTCATTTCCTT-TATTTCTTTT
1195561 CTCTCTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (23 bp):
CTTCATTTCCTTTATTTCTTTTA
Found at i:1197820 original size:2 final size:2
Alignment explanation
Indices: 1197813--1197838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1197803 GTCTCAATTC
1197813 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
1197839 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1197843 original size:2 final size:2
Alignment explanation
Indices: 1197838--1197866 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1197828 TCTCTCTCTC
1197838 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1197867 ACTTCCCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1203515 original size:96 final size:98
Alignment explanation
Indices: 1203414--1203600 Score: 222
Period size: 98 Copynumber: 1.9 Consensus size: 98
1203404 AAATTTTTAT
* *
1203414 ATTTTAAAAACAAGT-TTA-TTATAATATTTTAATTTTGTAGGTTTTAAAA-AA-ATTT-ATTTT
1 ATTTT-AAAACAAGTGTTAGTT-CAATA-TTTAATTTTATAGGTTTTAAAATAACATTTAATTTT
*
1203474 GCTAAAAATCAAATATTATTTTTTTAAAATATACTA
63 GCTAAAAATCAAATATTAATTTTTTAAAATATACTA
* * * * *
1203510 ATTTTAAATCTAGTGTTAGTTCAATATTTAATTTTATAGTTTTTAAAATAACTTTTAATTTTGTT
1 ATTTTAAAACAAGTGTTAGTTCAATATTTAATTTTATAGGTTTTAAAATAACATTTAATTTTGCT
* *
1203575 AAAAATCATATGTTAATTTTTTAAAA
66 AAAAATCAAATATTAATTTTTTAAAA
1203601 AATAAAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
95 27 0.36
96 14 0.18
97 5 0.07
98 30 0.39
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (98 bp):
ATTTTAAAACAAGTGTTAGTTCAATATTTAATTTTATAGGTTTTAAAATAACATTTAATTTTGCT
AAAAATCAAATATTAATTTTTTAAAATATACTA
Found at i:1203612 original size:22 final size:22
Alignment explanation
Indices: 1203554--1203621 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
1203544 TATAGTTTTT
**
1203554 AAAATAACTTTTAATTTTGTT-A
1 AAAATAAAATTTAATTTT-TTAA
* *
1203576 AAAATCATATGTTAATTTTTTAA
1 AAAATAAAAT-TTAATTTTTTAA
1203599 AAAATAAAATTTAAAATTTTTTA
1 AAAATAAAATTT--AATTTTTTA
1203622 CATTTTGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 11 0.30
23 17 0.46
24 9 0.24
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (22 bp):
AAAATAAAATTTAATTTTTTAA
Found at i:1203652 original size:42 final size:43
Alignment explanation
Indices: 1203599--1203683 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
1203589 AATTTTTTAA
* *
1203599 AAAATAAAATTTAAAAT-TTTTTACATTTTGAATATCTATTTT
1 AAAATAAAATTTAAAATATTTTTACATTTTGAAAATATATTTT
* ** *
1203641 AAAATATAATTTTCAATATTTTTATATTTTGAAAATATATTTT
1 AAAATAAAATTTAAAATATTTTTACATTTTGAAAATATATTTT
1203684 TCTATGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 14 0.39
43 22 0.61
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (43 bp):
AAAATAAAATTTAAAATATTTTTACATTTTGAAAATATATTTT
Found at i:1203694 original size:30 final size:29
Alignment explanation
Indices: 1203635--1203694 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
1203625 TTTGAATATC
1203635 TATTTTAAAATATAATTTTCAATATTTTTA
1 TATTTTAAAATATAATTTTC-ATATTTTTA
*
1203665 TATTTTGAAAATATATTTTTC-TATGTTTTA
1 TATTTT-AAAATATAATTTTCATAT-TTTTA
1203695 CAAAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 11 0.41
31 13 0.48
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TATTTTAAAATATAATTTTCATATTTTTA
Found at i:1207156 original size:17 final size:17
Alignment explanation
Indices: 1207134--1207191 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
1207124 CTATAGCCTT
1207134 TTTAATTTTTTATAAAA
1 TTTAATTTTTTATAAAA
1207151 TTTAATTAATTATTGATAAAA
1 TTTAATT--TT-TT-ATAAAA
* **
1207172 ATTAATTTTAAATAAAA
1 TTTAATTTTTTATAAAA
1207189 TTT
1 TTT
1207192 TATTAAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 15 0.45
19 4 0.12
20 2 0.06
21 12 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAATTTTTTATAAAA
Found at i:1207159 original size:21 final size:21
Alignment explanation
Indices: 1207135--1207178 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1207125 TATAGCCTTT
* * *
1207135 TTAATTTTTTATAAAATTTAA
1 TTAATTATTGATAAAAATTAA
1207156 TTAATTATTGATAAAAATTAA
1 TTAATTATTGATAAAAATTAA
1207177 TT
1 TT
1207179 TTAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTATTGATAAAAATTAA
Found at i:1212375 original size:35 final size:35
Alignment explanation
Indices: 1212279--1212445 Score: 234
Period size: 35 Copynumber: 4.9 Consensus size: 35
1212269 TGAAAATCAA
1212279 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* ** *
1212314 -GAA-ATAAAAA-AAAAACATGGGATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
*
1212346 GCAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* * *
1212381 GGAATAAAAAAATGAAGGAATAGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
1212416 GGAATA-AAAAATGAAGGCATGGAATGATGG
1 GGAATATAAAAATGAAGGCATGGAATGATGG
1212446 ATAAAAATGA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
32 18 0.16
33 9 0.08
34 32 0.28
35 55 0.48
ACGTcount: A:0.47, C:0.05, G:0.29, T:0.18
Consensus pattern (35 bp):
GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
Found at i:1212389 original size:67 final size:68
Alignment explanation
Indices: 1212281--1212445 Score: 246
Period size: 67 Copynumber: 2.4 Consensus size: 68
1212271 AAAATCAAGG
* *
1212281 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-AA-ACATGGGATGATGGGC
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGA-ATAGAATGATGGGC
1212344 ATGC
65 ATGC
*
1212348 AATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAAAAAAATGAAGGAATAGAATGATGGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-GAA-GAATAGAATGATGGG
*
1212413 CATGG
64 CATGC
1212418 AATA-AAAAATGAAGGCATGGAATGATGG
1 AATATAAAAATGAAGGCATGGAATGATGG
1212446 ATAAAAATGA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
67 44 0.49
69 26 0.29
70 19 0.21
71 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.28, T:0.18
Consensus pattern (68 bp):
AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGAATAGAATGATGGGCA
TGC
Found at i:1213701 original size:51 final size:50
Alignment explanation
Indices: 1213646--1214004 Score: 238
Period size: 51 Copynumber: 6.9 Consensus size: 50
1213636 CAATTGCTAA
1213646 TAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTT-CTT
* * * *
1213697 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTT-TT
1 TAATCGGGGATACTCTAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT
* * * * * ***** * * *** *
1213747 CACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGT
1 --TAATCGGGGATACTCTAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCTT
* * * * * * *** *
1213801 TACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCA
1 TA-AT-C--GGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCT-T
* *
1213856 TAATTGGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACTAATTT-TT
1 TAATCGGGGATACTCTAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT
*
1213905 CATAATCAGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 --TAATCGGGGATACTCTAACCCCGGTTTTA-TTTTCAAAACACC-AATTT-CTT
*
1213960 TAATCGGGGATACTCTAACCCCGGTTTTATTTTAAAAACACCAAT
1 TAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAAT
1214005 CTTTCACAAT
Statistics
Matches: 231, Mismatches: 58, Indels: 38
0.71 0.18 0.12
Matches are distributed among these distances:
50 6 0.03
51 91 0.39
52 53 0.23
53 48 0.21
54 11 0.05
55 7 0.03
56 15 0.06
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
TAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCTT
Found at i:1214140 original size:262 final size:261
Alignment explanation
Indices: 1213645--1214140 Score: 850
Period size: 262 Copynumber: 1.9 Consensus size: 261
1213635 TCAATTGCTA
*
1213645 ATAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATAC
1 ATAATCAGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATAC
* *
1213710 TCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
66 TCCAACCCCGATTTTATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCGTTA
*
1213775 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCA
131 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCA
*
1213840 AAATATTGATTTCTCATAATTGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTT
1213905 C
261 C
1213906 ATAATCAGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGAT
1 ATAATCAGGGATACTCTAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTTTAATCGGGGAT
* * * *
1213971 ACTCTAACCCCGGTTTTATTT-TAAAAACACCAATCTTTCACAATCGAGGATATTCCAACCTCGT
64 ACTCCAACCCCGATTTTATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCGT
* * *
1214035 TATTTCATCGGGGATACTCTAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTT
129 TATTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTC
*
1214100 CAGAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 CAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
1214141 TTATTTTCGA
Statistics
Matches: 220, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
261 29 0.13
262 153 0.70
263 38 0.17
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (261 bp):
ATAATCAGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATAC
TCCAACCCCGATTTTATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCGTTA
TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCAGCTTTATTTCCA
AAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTT
C
Found at i:1214175 original size:79 final size:79
Alignment explanation
Indices: 1214043--1214247 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
1214033 GTTATTTCAT
* * ** * * *
1214043 CGGGGATACTCTAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTTCAGAAT-A
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTA-TTTCACAATCA
** * *
1214107 TTGATTTCTCATAAT
65 TCAATTTCTCACAAC
* * * * * *
1214122 TGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCTAATCCCGATTTTATTTCCCAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCACAATCAT
*
1214187 CAATTTTTCACAAC
66 CAATTTCTCACAAC
* *
1214201 CGGGGATACTCCAACGCCGTTATTTTCAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1214248 TTATTGTCTC
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
78 7 0.07
79 94 0.93
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCACAATCAT
CAATTTCTCACAAC
Found at i:1220441 original size:61 final size:60
Alignment explanation
Indices: 1220347--1220545 Score: 284
Period size: 61 Copynumber: 3.4 Consensus size: 60
1220337 CTTTTAGCCC
*
1220347 TTCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-T
* *
1220402 TTCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCC
1 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CT
1220463 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCATTTTAAAGCCCACACAAGTTGGTGGCACT
1 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACT
*
1220524 TCCTAGTCCTCAAAGAGCAGGA
1 TTC-AGTCCTCAAAGAGCAGGA
1220546 CGTTCTCTCC
Statistics
Matches: 129, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
55 23 0.18
56 3 0.02
57 1 0.01
61 56 0.43
62 46 0.36
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (60 bp):
TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
Found at i:1220669 original size:153 final size:154
Alignment explanation
Indices: 1220431--1221163 Score: 974
Period size: 153 Copynumber: 4.8 Consensus size: 154
1220421 GATGCCTTTT
*
1220431 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATG-CTTTCT-CT
*
1220495 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGTTCTCTCCTTTT
63 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCT-CTTTT
* * *
1220560 -GCCTTTTTGTCCTCAAAGAGCAGGACG
127 CACCCTTTAGTCCTCAAAGAGCAGGACG
* * * *
1220587 CCTTTT-AAGCCCACACAAGTTGGTGGCAGCTTCAGTCCTCAAAAAGTAGGACGCTTTCTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTT
* *
1220651 TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCTCTCTCTTTTCGCC
66 TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACC
* *
1220716 TTTTTGTCCTCAAAGAGCAGGACG
131 CTTTAGTCCTCAAAGAGCAGGACG
* *
1220740 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGC-TT-TCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTT
*
1220803 TCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCAC
65 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCAC
*
1220868 CCTTTAGTCCTCAAAGAGCAGGACACCTT
130 CCTTTAGTCCTCAAAGAGCAGG--A-C-G
*
1220897 CTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGA--C--TC-C-
1 C-C-TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTCTCT
**
1220956 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATACTCT-T-TTCTC
63 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTT-T-
* *
1221019 TCACCCTTTAGTCCTCAAAGAGCAAGATG
126 TCACCCTTTAGTCCTCAAAGAGCAGGACG
* *
1221048 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCT-TTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTT
* * *
1221112 GCAAATCCCACACTAGTTGGTGGCATCTTCC-AGTCCTCAAAGAGCAGGACGC
66 -TAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGC
1221164 CTTTTCTTTT
Statistics
Matches: 519, Mismatches: 36, Indels: 46
0.86 0.06 0.08
Matches are distributed among these distances:
148 20 0.04
149 27 0.05
150 2 0.00
151 1 0.00
152 7 0.01
153 188 0.36
154 87 0.17
155 128 0.25
156 9 0.02
157 2 0.00
158 1 0.00
159 47 0.09
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (154 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTT
TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCACC
CTTTAGTCCTCAAAGAGCAGGACG
Found at i:1220708 original size:61 final size:59
Alignment explanation
Indices: 1220589--1220711 Score: 194
Period size: 61 Copynumber: 2.1 Consensus size: 59
1220579 GCAGGACGCC
*
1220589 TTTTAAGCCCACACAAGTTGGTGGCAGCTTCAGTCCTCAAAAAGTAGGACGCTTTCTCT
1 TTTTAAGCCCACACAAGTTGGTGGCAGCTTCAGTCCTCAAAAAGTAGGACGCTCTCTCT
*
1220648 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGTAGGACGCTCTCTCT
1 TTTT-AAGCCCACACAAGTTGGTGGCAGCTT-C-AGTCCTCAAAAAGTAGGACGCTCTCTCT
1220709 TTT
1 TTT
1220712 CGCCTTTTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
59 7 0.12
60 23 0.39
61 29 0.49
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (59 bp):
TTTTAAGCCCACACAAGTTGGTGGCAGCTTCAGTCCTCAAAAAGTAGGACGCTCTCTCT
Found at i:1220823 original size:59 final size:59
Alignment explanation
Indices: 1220721--1220866 Score: 203
Period size: 59 Copynumber: 2.5 Consensus size: 59
1220711 TCGCCTTTTT
*
1220721 GTCCTCAAAGAGCAGGACGC---CTTTT-AAAGCCCACACAAATTGGTGGCACTT-TTCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAATTGGTGGCACTTCCT-A
* *
1220776 GTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAATTGGTGGCACTTCCTA
1220835 GTCCTCAAAGAGCAGGACGCTCTCTCTTTTCA
1 GTCCTCAAAGAGCAGGACGCT-T-TCTTTTCA
1220867 CCCTTTAGTC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
55 19 0.24
58 5 0.06
59 46 0.57
60 2 0.03
61 8 0.10
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAATTGGTGGCACTTCCTA
Found at i:1220962 original size:55 final size:55
Alignment explanation
Indices: 1220901--1221006 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
1220891 CACCTTCTCT
*
1220901 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAAAGCAGGACTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAAAGCAGGACTCC
*
1220956 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGA
1221007 TACTCTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 4 0.08
55 44 0.92
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGACTCC
Found at i:1221060 original size:308 final size:304
Alignment explanation
Indices: 1220431--1221163 Score: 1018
Period size: 308 Copynumber: 2.4 Consensus size: 304
1220421 GATGCCTTTT
1220431 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCAT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATG-C-TTT-CAT
*
1220496 TTT-AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGTTCTCTCCTTTT
62 TTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTT
* * * *
1220560 GCCTTTTTGTCCTCAAAGAGCAGGACGCCTTTTAAGCCCACACAAGTTGGTGGCAGCTTCAGTCC
127 ACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
*
1220625 TCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
192 TCAAAAAGCAGGAC-C-TTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
* * * * * *
1220690 AGAGTAGGACGCTCTCTCTTTTCGCCTTTTTGTCCTCAAAGAGCAGGACG
255 AGAGCAGGACACTCTCTCTTTTCACCCTTTAGTCCTCAAAGAGCAAGACG
* *
1220740 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTC-TTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTCATTTT
1220804 CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCT-CTTTTCAC
65 CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTT-AC
*
1220868 CCTTTAGTCCTCAAAGAGCAGGACACCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
129 CCTTTAGTCCTCAAAGAGCAGG--A-C-GC-C-TTTT-AAGCCCACACAAGTTGGTGGCACC-TT
1220933 CAGTCCTCAAAAAGCAGGA-C-TC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
186 CAGTCCTCAAAAAGCAGGACCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
* *
1220994 TCAAAGAGCAGGATACTCT-T-TTCTCTCACCCTTTAGTCCTCAAAGAGCAAGATG
251 TCAAAGAGCAGGACACTCTCTCTT-T-TCACCCTTTAGTCCTCAAAGAGCAAGACG
* * *
1221048 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCATTTT-
* *
1221113 CAAATCCCACACTAGTTGGTGGCATCTTCC-AGTCCTCAAAGAGCAGGACGC
65 CAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGC
1221164 CTTTTCTTTT
Statistics
Matches: 385, Mismatches: 23, Indels: 32
0.88 0.05 0.07
Matches are distributed among these distances:
305 9 0.02
306 78 0.20
307 33 0.09
308 112 0.29
309 96 0.25
310 8 0.02
311 1 0.00
312 5 0.01
313 23 0.06
314 20 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (304 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCATTTTC
AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTTACCC
TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AAAGCAGGACCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
GGACACTCTCTCTTTTCACCCTTTAGTCCTCAAAGAGCAAGACG
Found at i:1221091 original size:54 final size:54
Alignment explanation
Indices: 1221023--1221221 Score: 184
Period size: 61 Copynumber: 3.4 Consensus size: 54
1221013 TTTCTCTCAC
* *
1221023 CCTTTAGTCCTCAAAGAGCAAGATGCC-TTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACAT-AGTTGGTGGCA
*
1221077 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGATGC---C-TTTT-CAAAGCCCACA-TAGTTGGTGGCA
* * * *
1221137 TCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAAGACCACACGAGTTGGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGATGCCTTTTC-----AAAGCCCACA-TAGTTGGTGGCA
*
1221198 CTTTTCAGTCCTCAAAGAGCAGGA
1 C-CTTCAGTCCTCAAAGAGCAGGA
1221222 CACACTTCTT
Statistics
Matches: 121, Mismatches: 10, Indels: 21
0.80 0.07 0.14
Matches are distributed among these distances:
54 24 0.20
56 1 0.01
57 5 0.04
58 1 0.01
59 3 0.02
60 24 0.20
61 61 0.50
62 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (54 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACATAGTTGGTGGCA
Found at i:1221158 original size:61 final size:59
Alignment explanation
Indices: 1221050--1221222 Score: 208
Period size: 61 Copynumber: 2.8 Consensus size: 59
1221040 GCAAGATGCC
*
1221050 TTTCAAAGCCCACA-TAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG-C-TTTCTT
1 TTTCAAAGCCCACACT-AGTTGGTGGCA-CTTCAGTCCTCAAAGAGCAGGACGCCTTTTC-T
*
1221109 TTTGCAAATCCCACACTAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 TTT-CAAAGCCCACACTAGTTGGTGGCA-CTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCT
* * *
1221171 TTTAAAAGACCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1 TTTCAAAGCCCACACTAGTTGGTGGCAC--TTCAGTCCTCAAAGAGCAGGAC
1221223 ACACTTCTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
59 3 0.03
60 25 0.25
61 61 0.61
62 7 0.07
63 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
TTTCAAAGCCCACACTAGTTGGTGGCACTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:1221249 original size:40 final size:41
Alignment explanation
Indices: 1221205--1221311 Score: 171
Period size: 40 Copynumber: 2.6 Consensus size: 41
1221195 GCACTTTTCA
*
1221205 GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTC-TCTTTT
1 GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTCTTCCTTT
1221245 GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTC--TTCCTTT
*
1221288 GTCCTCAAAGAGCAGGACGCACTT
1 GTCCTCAAAGAGCAGGACACACTT
1221312 TATTTTCCTT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
40 34 0.55
43 28 0.45
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTCTTCCTTT
Found at i:1222170 original size:67 final size:69
Alignment explanation
Indices: 1222088--1222252 Score: 246
Period size: 67 Copynumber: 2.4 Consensus size: 69
1222078 AAAATCCAGG
* *
1222088 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-AA-ACATGGGATGATGGGC
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGACATAGAATGATGGGC
1222151 ATGC
66 ATGC
* *
1222155 AATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAAAAAAATGAAGGCATAGAATGATGGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAA-GAAGACATAGAATGATGGG
*
1222220 CATGG
65 CATGC
*
1222225 AATA-AAAAATGAAGGCATGGAATTATGG
1 AATATAAAAATGAAGGCATGGAATGATGG
1222253 ATAAAAATGA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
67 44 0.49
69 25 0.28
70 20 0.22
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (69 bp):
AATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAAAAAAGAAGACATAGAATGATGGGC
ATGC
Found at i:1222182 original size:35 final size:35
Alignment explanation
Indices: 1222086--1222252 Score: 234
Period size: 35 Copynumber: 4.9 Consensus size: 35
1222076 TGAAAATCCA
1222086 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* ** *
1222121 -GAA-ATAAAAA-AAAAACATGGGATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
*
1222153 GCAATATAAAAATGAAGGCATGGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
* *
1222188 GGAATAAAAAAATGAAGGCATAGAATGATGGGCAT
1 GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
*
1222223 GGAATA-AAAAATGAAGGCATGGAATTATGG
1 GGAATATAAAAATGAAGGCATGGAATGATGG
1222253 ATAAAAATGA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
32 18 0.16
33 9 0.08
34 32 0.28
35 56 0.49
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.19
Consensus pattern (35 bp):
GGAATATAAAAATGAAGGCATGGAATGATGGGCAT
Found at i:1223239 original size:51 final size:51
Alignment explanation
Indices: 1223183--1223541 Score: 268
Period size: 51 Copynumber: 6.9 Consensus size: 51
1223173 CAATTGCTCA
1223183 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * *
1223234 TAATCGGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
* * * * * ** *
1223284 CACAATCGAGGATACTCCAACCTC-G--TTATTTCATCGAGGATACTCCAA-CCCCGT
1 --TAATCGGGGATACTCCAACCCCGGTTTTATTT--TC-A--AAACACCAATTTCCTT
* * * * *** *
1223338 TACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCA
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * * *
1223393 TAATTGGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
*
1223444 TAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
*
1223497 TAATCGGGGATACTCCAACCCCGGTTTTATTTTAAAAACACCAAT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT
1223542 CTTTCACAAT
Statistics
Matches: 238, Mismatches: 45, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
49 5 0.02
50 5 0.02
51 93 0.39
52 59 0.25
53 43 0.18
54 7 0.03
55 2 0.01
56 16 0.07
57 2 0.01
59 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:1223316 original size:31 final size:28
Alignment explanation
Indices: 1223288--1223364 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1223278 ATTTTTCACA
*
1223288 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
**
1223316 ATCGAGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
1223344 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
1223365 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
28 41 0.93
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1223567 original size:51 final size:49
Alignment explanation
Indices: 1223347--1223567 Score: 201
Period size: 51 Copynumber: 4.3 Consensus size: 49
1223337 TTACCTCCGA
* * * *** * *
1223347 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATT
1 GGGGATACTCCAACCCCGGTTTTATTT-TAAAACACCAATTT-TCACAATC
* * *
1223398 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTT-TAAAACACCAATTTT-CACAATC
* *
1223449 GGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTC-CTTTAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTT-AAAACACCAATTTTCAC---AATC
1223502 GGGGATACTCCAACCCCGGTTTTATTTTAAAAACACCAATCTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTT-AAAACACCAAT-TTTCACAATC
* *
1223553 GAGGATATTCCAACC
1 GGGGATACTCCAACC
1223568 TCGTTATTTC
Statistics
Matches: 147, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
50 1 0.01
51 85 0.58
52 29 0.20
53 31 0.21
54 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (49 bp):
GGGGATACTCCAACCCCGGTTTTATTTTAAAACACCAATTTTCACAATC
Found at i:1223646 original size:262 final size:261
Alignment explanation
Indices: 1223181--1223677 Score: 870
Period size: 262 Copynumber: 1.9 Consensus size: 261
1223171 CTCAATTGCT
1223181 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATA
1 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATA
* *
1223246 CTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
66 CTCCAACCCCGATTTCATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCGTT
*
1223311 ATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCC
131 ATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCC
*
1223376 AAAATATTGATTTCTCATAATTGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTT
196 AAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
1223441 C
261 C
*
1223442 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
1 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTTTAATCGGGGA
* * * *
1223507 TACTCCAACCCCGGTTTTATTT-TAAAAACACCAATCTTTCACAATCGAGGATATTCCAACCTCG
64 TACTCCAACCCCGATTTCATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCG
*
1223571 TTATTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTT
129 TTATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTT
*
1223636 CCAGAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
1223678 TTATTTCCGA
Statistics
Matches: 223, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
261 30 0.13
262 155 0.70
263 38 0.17
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (261 bp):
CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGGGGATA
CTCCAACCCCGATTTCATTTCCAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCGTT
ATTTCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCC
AAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
C
Found at i:1223664 original size:79 final size:79
Alignment explanation
Indices: 1223578--1223784 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 79
1223568 TCGTTATTTC
* ** * *
1223578 ATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAGAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-CAAT
** *
1223643 -ATTGATTTCTCATA
65 CATCAATTTCTCACA
* * * *
1223657 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCCGATTTTATTTCCCAATC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCCAATC
*
1223722 ATCAATTTTTCACA
66 ATCAATTTCTCACA
* * *
1223736 ATCGGGGATACTCCAACCCCGTTATTTTCAAGAGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
1223785 TTATTGTCTC
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
78 3 0.03
79 105 0.97
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCCAATC
ATCAATTTCTCACA
Found at i:1229933 original size:62 final size:62
Alignment explanation
Indices: 1229865--1229993 Score: 240
Period size: 62 Copynumber: 2.1 Consensus size: 62
1229855 CTTGGCAATA
*
1229865 TAAAAAAAAGGGGGCATGAAATAGCTACGTGTTGAATTCCCTACATGCAATACTGCCACGTTG
1 TAAAAAAAA-AGGGCATGAAATAGCTACGTGTTGAATTCCCTACATGCAATACTGCCACGTTG
1229928 TAAAAAAAAAGGGCATGAAATAGCTACGTGTTGAATTCCCTACATGCAATACTGCCACGTTG
1 TAAAAAAAAAGGGCATGAAATAGCTACGTGTTGAATTCCCTACATGCAATACTGCCACGTTG
1229990 TAAA
1 TAAA
1229994 CTATTAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 56 0.86
63 9 0.14
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (62 bp):
TAAAAAAAAAGGGCATGAAATAGCTACGTGTTGAATTCCCTACATGCAATACTGCCACGTTG
Found at i:1232164 original size:228 final size:228
Alignment explanation
Indices: 1231767--1232222 Score: 896
Period size: 228 Copynumber: 2.0 Consensus size: 228
1231757 TATTGTTAAT
1231767 ACGTTAGTTTTAGATTTAGTGCTTAAAATTCCTGAACGCGAATTCCTGAGAGGGGAATGAGACGT
1 ACGTTAGTTTTAGATTTAGTGCTTAAAATTCCTGAACGCGAATTCCTGAGAGGGGAATGAGACGT
1231832 ATTTTCTAGGCTTTTTTTTTTTGGGTGATCATTTACTGTCAATAGATTGGTGGCAGGTTGAAGTG
66 ATTTTCTAGGCTTTTTTTTTTTGGGTGATCATTTACTGTCAATAGATTGGTGGCAGGTTGAAGTG
1231897 AGTCTGATGCCCTTGGAGTCAGCAGACAAGTGTGCCAAGGCAATAGTTGACAGCGCATGCCGTGG
131 AGTCTGATGCCCTTGGAGTCAGCAGACAAGTGTGCCAAGGCAATAGTTGACAGCGCATGCCGTGG
1231962 GAAGAAATACTTGACGTTGCCATCCTGGTACAA
196 GAAGAAATACTTGACGTTGCCATCCTGGTACAA
1231995 ACGTTAGTTTTAGATTTAGTGCTTAAAATTCCTGAACGCGAATT-CTGAGAGGGGAATGAGACGT
1 ACGTTAGTTTTAGATTTAGTGCTTAAAATTCCTGAACGCGAATTCCTGAGAGGGGAATGAGACGT
1232059 ATTTTCTAGGCTTTTTTTTTTTTGGGTGATCATTTACTGTCAATAGATTGGTGGCAGGTTGAAGT
66 ATTTTCTAGGC-TTTTTTTTTTTGGGTGATCATTTACTGTCAATAGATTGGTGGCAGGTTGAAGT
1232124 GAGTCTGATGCCCTTGGAGTCAGCAGACAAGTGTGCCAAGGCAATAGTTGACAGCGCATGCCGTG
130 GAGTCTGATGCCCTTGGAGTCAGCAGACAAGTGTGCCAAGGCAATAGTTGACAGCGCATGCCGTG
1232189 GGAAGAAATACTTGACGTTGCCATCCTGGTACAA
195 GGAAGAAATACTTGACGTTGCCATCCTGGTACAA
1232223 GTCGACATTA
Statistics
Matches: 227, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
227 31 0.14
228 196 0.86
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (228 bp):
ACGTTAGTTTTAGATTTAGTGCTTAAAATTCCTGAACGCGAATTCCTGAGAGGGGAATGAGACGT
ATTTTCTAGGCTTTTTTTTTTTGGGTGATCATTTACTGTCAATAGATTGGTGGCAGGTTGAAGTG
AGTCTGATGCCCTTGGAGTCAGCAGACAAGTGTGCCAAGGCAATAGTTGACAGCGCATGCCGTGG
GAAGAAATACTTGACGTTGCCATCCTGGTACAA
Found at i:1233203 original size:22 final size:22
Alignment explanation
Indices: 1233178--1233224 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1233168 AAAATGTTGC
1233178 AATAAAAGTTTATTTCAAATCA
1 AATAAAAGTTTATTTCAAATCA
** *
1233200 AATAAATTTTTATTTCAAATGA
1 AATAAAAGTTTATTTCAAATCA
1233222 AAT
1 AAT
1233225 GTTAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAAAAGTTTATTTCAAATCA
Found at i:1233608 original size:29 final size:29
Alignment explanation
Indices: 1233575--1233633 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1233565 TTTAACTTTT
*
1233575 TAATTTTACATTAAAGATCATATCATTAA
1 TAATTTTACATTAAAAATCATATCATTAA
1233604 TAATTTTACATTAAAAATCATATCATTAA
1 TAATTTTACATTAAAAATCATATCATTAA
1233633 T
1 T
1233634 GTCTAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (29 bp):
TAATTTTACATTAAAAATCATATCATTAA
Found at i:1235130 original size:135 final size:135
Alignment explanation
Indices: 1234906--1235310 Score: 729
Period size: 135 Copynumber: 3.0 Consensus size: 135
1234896 GCAAGTTATT
* * *
1234906 AGAAAAATAAAAACAATAAAAGAAGAAATAGAATACCAAAAATTTATCGAAGTTCGGCCAACTTA
1 AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGGCCAACTTA
*
1234971 TGCCTACGTCTTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAGGGATACAAGAGAGG
66 TGCCTACGTCCTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAGGGATACAAGAGAGG
1235036 GATGC
131 GATGC
*
1235041 AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGACCAACTTA
1 AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGGCCAACTTA
**
1235106 TGCCTACGTCCTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAAAGATACAAGAGAGG
66 TGCCTACGTCCTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAGGGATACAAGAGAGG
1235171 GATGC
131 GATGC
1235176 AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGGCCAACTTA
1 AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGGCCAACTTA
* *
1235241 TGCCTACGTCCTCGGACACCACCAAATCTATTATAAGAAAAAATTGAAGAGGGTTACAAGAGAGG
66 TGCCTACGTCCTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAGGGATACAAGAGAGG
1235306 GATGC
131 GATGC
1235311 TTGAGAAGGA
Statistics
Matches: 258, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 258 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (135 bp):
AGAAAAATAAAGACAATAAAAGAAGAAACAGAATACCAAAAATTTAACGAAGTTCGGCCAACTTA
TGCCTACGTCCTCGGACACCACCAAATCTATTATGAGAAAAAATTGAAGAGGGATACAAGAGAGG
GATGC
Found at i:1235408 original size:23 final size:25
Alignment explanation
Indices: 1235374--1235419 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1235364 AATAAAAATT
1235374 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
1235398 AGCCA-CAATTTTTGACAAACAA
1 AGCCACCAATTTTTGACAAACAA
1235420 AAAGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:1235442 original size:27 final size:27
Alignment explanation
Indices: 1235376--1235479 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
1235366 TAAAAATTAG
* *
1235376 CCACCAATTTTGACAAACAACAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
*
1235400 CCACAATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * * *
1235427 CCACCATTTTTTACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
1235454 CCACCATTTTTGACAAACACAAAAGG
1 CCACCATTTTTGACAAACA-AAAAGG
1235480 TGGTTTTTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 20 0.31
25 1 0.02
27 39 0.61
28 4 0.06
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:1237267 original size:18 final size:19
Alignment explanation
Indices: 1237230--1237268 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1237220 TCTCCTTAGC
*
1237230 CTAGTAACTGCAAGTGGTT
1 CTAGTAACTCCAAGTGGTT
*
1237249 CTAGTATCTCCAA-TGGTT
1 CTAGTAACTCCAAGTGGTT
1237267 CT
1 CT
1237269 TGGGTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (19 bp):
CTAGTAACTCCAAGTGGTT
Done.