Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 12 of 259
Found at i:3441607 original size:40 final size:40
Alignment explanation
Indices: 3441520--3441619 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
3441510 GAGATTTTGT
* * *
3441520 TCAGTTCTTATGAGCTTCTG-TTGGCGTGTTTCGGGTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
* * *
3441559 CCAACTCTTATGAGCTTCTGTTTGGCGTATTTCTGCTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
*
3441599 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
3441620 CTAGTGTGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 17 0.33
40 34 0.67
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGCTGGA
Found at i:3445369 original size:19 final size:19
Alignment explanation
Indices: 3445326--3445371 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3445316 ACCAAATTAG
*
3445326 TTAAAAAATAAATTGTATT
1 TTAAAAAATAAACTGTATT
** *
3445345 AAAAAAAATAAACTGTTTT
1 TTAAAAAATAAACTGTATT
3445364 TTAAAAAA
1 TTAAAAAA
3445372 AGAGAGGAGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
TTAAAAAATAAACTGTATT
Found at i:3447548 original size:90 final size:90
Alignment explanation
Indices: 3447395--3447577 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
3447385 ATTTCTGATA
3447395 GAGGGAAATGATTAATTGCCGCAATTAGGCGTTTCGGTGTGTCATGAAGATCCGTTTACTGCATC
1 GAGGGAAATGATTAATTGCCGCAATTAGGCGTTTCGGTGTGTCATGAAGATCCGTTTACTGCATC
3447460 CATCACATTGTGACTAACTTCCATT
66 CATCACATTGTGACTAACTTCCATT
3447485 GAGGGAAATGATTAATTGCCGCAATTAGGCGTTTCGGTGTGTCATGAAGATCCGTTTACTGCATC
1 GAGGGAAATGATTAATTGCCGCAATTAGGCGTTTCGGTGTGTCATGAAGATCCGTTTACTGCATC
3447550 CATCACATTGTGACTAACTTCCATT
66 CATCACATTGTGACTAACTTCCATT
3447575 GAG
1 GAG
3447578 ATTATAAAAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (90 bp):
GAGGGAAATGATTAATTGCCGCAATTAGGCGTTTCGGTGTGTCATGAAGATCCGTTTACTGCATC
CATCACATTGTGACTAACTTCCATT
Found at i:3447914 original size:42 final size:42
Alignment explanation
Indices: 3447855--3447936 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
3447845 GAATGAAGAA
*
3447855 TTTACTCTAGTCTCTATAATAAAGCAATTTAACATTTACTTT
1 TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACTTT
*
3447897 TTTACTTTAATCTCTATAATAAAGCAATTTAACATTTACT
1 TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACT
3447937 GTTACTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (42 bp):
TTTACTCTAATCTCTATAATAAAGCAATTTAACATTTACTTT
Found at i:3447957 original size:42 final size:41
Alignment explanation
Indices: 3447869--3447959 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 41
3447859 CTCTAGTCTC
* * *
3447869 TATAATAAAGCAATTTAACATTTACTTTTTTACTTTAATCTC
1 TATAATAAAGCAATTTAACATTTAC-TTGTTACTTTAATATA
3447911 TATAATAAAGCAATTTAACATTTAC-TGTTACTTATATATATA
1 TATAATAAAGCAATTTAACATTTACTTGTTACTT-TA-ATATA
3447953 TATAATA
1 TATAATA
3447960 GTATAATGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 7 0.16
41 2 0.05
42 35 0.80
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (41 bp):
TATAATAAAGCAATTTAACATTTACTTGTTACTTTAATATA
Found at i:3448130 original size:8 final size:8
Alignment explanation
Indices: 3448086--3448142 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
3448076 TTTTTTATTC
*
3448086 TTTTATAA
1 TTTTAAAA
3448094 TTTATAATAA
1 TTT-TAA-AA
3448104 TTTTAAAA
1 TTTTAAAA
3448112 ---TAAATA
1 TTTTAAA-A
3448118 TTTTAAAA
1 TTTTAAAA
3448126 TTTTAAAA
1 TTTTAAAA
3448134 TTTTAAAA
1 TTTTAAAA
3448142 T
1 T
3448143 AATTAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
5 4 0.10
6 1 0.02
8 23 0.55
9 9 0.21
10 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:3448138 original size:30 final size:32
Alignment explanation
Indices: 3448086--3448144 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
3448076 TTTTTTATTC
*
3448086 TTTTATAATTTATAATAATTTTAAAATAAATA
1 TTTTAAAATTTATAATAATTTTAAAATAAATA
3448118 TTTTAAAATTT-TAA-AATTTTAAAATAA
1 TTTTAAAATTTATAATAATTTTAAAATAA
3448145 TTAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.50
31 3 0.12
32 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTTAAAATTTATAATAATTTTAAAATAAATA
Found at i:3450152 original size:11 final size:11
Alignment explanation
Indices: 3450136--3450161 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3450126 GCTGGCCTTT
3450136 TTTTGTATTTA
1 TTTTGTATTTA
3450147 TTTTGTATTTA
1 TTTTGTATTTA
3450158 TTTT
1 TTTT
3450162 TTGGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTGTATTTA
Found at i:3450390 original size:41 final size:41
Alignment explanation
Indices: 3450352--3450594 Score: 258
Period size: 41 Copynumber: 5.9 Consensus size: 41
3450342 CCGAAAAAAA
3450352 GAGAAATAACGGCGTTTTT-TACCCAAACGCCACTAAAAACT-
1 GAGAAATAACGGCGTTTTTGT--CCAAACGCCACTAAAAACTG
** * * * *
3450393 GATCAATAGCAGCGTTTTTATCTAAAACGCCACTAAAAACT-
1 GAGAAATAACGGCGTTTTTGTC-CAAACGCCACTAAAAACTG
* ** *
3450434 AATCAATAACGGCGTTTTTGTCTAAGACGCCACTAAAAACTG
1 GAGAAATAACGGCGTTTTTGTCCAA-ACGCCACTAAAAACTG
* * * * *
3450476 GAGGAATAGCAGCATTTTTATCCAAACGCCACTAAAAACTG
1 GAGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAAACTG
*
3450517 GAGAAATAACGGTGTTTTTGTCCAAACGCCACTAAAAACTG
1 GAGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAAACTG
* * *
3450558 GAGAAATAGCGGCATTTTTGTCCAAACACCACTAAAA
1 GAGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAA
3450595 TTGATCAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
40 3 0.02
41 149 0.88
42 18 0.11
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GAGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAAACTG
Found at i:3450446 original size:82 final size:81
Alignment explanation
Indices: 3450353--3450594 Score: 290
Period size: 82 Copynumber: 2.9 Consensus size: 81
3450343 CGAAAAAAAG
* *
3450353 AGAAATAACGGCGTTTTT-TACCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTATCTA
1 AGAAATAACGGCGTTTTTGT--CCAAACGCCACTAAAAACTGAGCAATAGCAGCATTTTTATC-A
3450417 AAACGCCACTAAAAACT-A
63 AAACGCCACTAAAAACTGA
** * * *
3450435 ATCAATAACGGCGTTTTTGTCTAAGACGCCACTAAAAACTGGAGGAATAGCAGCATTTTTATCCA
1 AGAAATAACGGCGTTTTTGTCCAA-ACGCCACTAAAAACT-GAGCAATAGCAGCATTTTTATCAA
*
3450500 AACGCCACTAAAAACTGG
64 AACGCCACTAAAAACTGA
* * * * *
3450518 AGAAATAACGGTGTTTTTGTCCAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGTCCAA
1 AGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAAACT-GAGCAATAGCAGCATTTTTATCAAA
*
3450583 ACACCACTAAAA
65 ACGCCACTAAAA
3450595 TTGATCAATA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
81 3 0.02
82 97 0.69
83 40 0.29
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (81 bp):
AGAAATAACGGCGTTTTTGTCCAAACGCCACTAAAAACTGAGCAATAGCAGCATTTTTATCAAAA
CGCCACTAAAAACTGA
Found at i:3450590 original size:123 final size:123
Alignment explanation
Indices: 3450367--3450594 Score: 289
Period size: 123 Copynumber: 1.9 Consensus size: 123
3450357 ATAACGGCGT
** *
3450367 TTTTTACCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTATCTAAAACGCCACTAAAAA
1 TTTTTACCCAAACGCCACTAAAAACTGAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAAA
** * * *
3450432 CTAATCAATAACGGCGTTTTTGTCTAAGACGCCACTAAAAACTGGAGGAATAGCAGCA
66 CTAAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAAACTGGAGGAATAGCAGCA
* * * * *
3450490 TTTTTATCCAAACGCCACTAAAAACTGGAGAAATAACGGTGTTTTTGTC-CAAACGCCACTAAAA
1 TTTTTACCCAAACGCCACTAAAAACT-GAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAA
* *
3450554 ACTGGAGAAATAGCGGCATTTTTGTCCAA-ACACCACTAAAA
65 ACT-AAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAA
3450595 TTGATCAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
123 53 0.60
124 35 0.40
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (123 bp):
TTTTTACCCAAACGCCACTAAAAACTGAGAAATAACAGCGTTTTTATCTAAAACGCCACTAAAAA
CTAAGAAATAACGGCATTTTTGTCCAAGACACCACTAAAAACTGGAGGAATAGCAGCA
Found at i:3450783 original size:11 final size:11
Alignment explanation
Indices: 3450735--3450776 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
3450725 ATCTGATTTA
3450735 ATTTTCATATT
1 ATTTTCATATT
*
3450746 ATTTTCTTATT
1 ATTTTCATATT
3450757 ATTTTCATATT
1 ATTTTCATATT
3450768 ATTTTCATA
1 ATTTTCATA
3450777 ATTTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTCATATT
Found at i:3450783 original size:22 final size:22
Alignment explanation
Indices: 3450735--3450784 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3450725 ATCTGATTTA
*
3450735 ATTTTCATATTATTTTCTTATT
1 ATTTTCATATTATTTTCTAATT
3450757 ATTTTCATATTATTTTCATAATT
1 ATTTTCATATTATTTTC-TAATT
*
3450780 TTTTT
1 ATTTT
3450785 TGAATTCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTCATATTATTTTCTAATT
Found at i:3452404 original size:41 final size:40
Alignment explanation
Indices: 3452307--3452420 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 40
3452297 GTCTCCAAGG
*
3452307 GAATTAGCGGCGCTTTTTAAAAAACGCTGCTAAAAATCGA
1 GAATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAATCGA
3452347 GAATTAGCGGCGCTTTTGT-AAAAACGCCGC-AAAAGATCGA
1 GAATTAGCGGCGCTTTT-TAAAAAACGCCGCTAAAA-ATCGA
** * *
3452387 GTTTTAGCGGTGCCTTTTTCAAAAACGCCGCTAA
1 GAATTAGCGGCG-CTTTTTAAAAAACGCCGCTAA
3452421 TTCTCGATCT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
39 4 0.06
40 42 0.65
41 17 0.26
42 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (40 bp):
GAATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAATCGA
Found at i:3463056 original size:31 final size:29
Alignment explanation
Indices: 3463021--3463123 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 29
3463011 TAATTACATT
3463021 AATATTAAATTAATAAAATATTATCAAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
* ** * * *
3463052 AATATTCAATTAAATTTAATATCTCATATC
1 AATATTAAATT-AATAAAATATATCAGATA
3463082 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
3463113 AATATTAAATT
1 AATATTAAATT
3463124 TATTAAAACA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 7 0.12
30 16 0.28
31 27 0.47
32 7 0.12
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (29 bp):
AATATTAAATTAATAAAATATATCAGATA
Found at i:3464935 original size:64 final size:64
Alignment explanation
Indices: 3464834--3464962 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
3464824 GTCATTCATG
* * *
3464834 TTACATCTAGTTATGGGCATTTGATTCATTTCGATCATAGCATCTTAATTATTTGACATAAGCA
1 TTACATCTAGTTATGGGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
*
3464898 TTACATCTAGTTA-GGAGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGGCATAAGCA
1 TTACATCTAGTTATGG-GCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
3464962 T
1 T
3464963 GATACAGGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 2 0.03
64 58 0.97
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (64 bp):
TTACATCTAGTTATGGGCATTTGATTCATTGCAATCATAGCATCCTAATTATTTGACATAAGCA
Found at i:3465416 original size:177 final size:177
Alignment explanation
Indices: 3465115--3465508 Score: 610
Period size: 177 Copynumber: 2.2 Consensus size: 177
3465105 GAAGACAACA
* *
3465115 AGCCTTAACCCCCTAAGCAGTA-GGTAACAGACTGCAAATTACAGATCTTATCACCATGTATCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
* * ** * *
3465179 CTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
66 CTATAGAACAGATAAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCC
*
3465244 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACG
131 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
* * * *
3465291 AGCTTTAACCCCCTAAGCAGTAGGGTTACAGGCTGTAAATTACAGATCTTATCTCCATGTATCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
* * *
3465356 CTATAGAACAGATAAAAAATGGAGAGTCTTATCTCCATGTCTCATCTATGGAGTAGATTTTAGCC
66 CTATAGAACAGATAAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCC
*
3465421 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGTTTGAAAATACG
131 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
* *
3465468 AGCCTTAACCCCTTAAGCAGTAGGGTGACAGGCTGAAAATT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
3465509 GCAAATTTTA
Statistics
Matches: 197, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
176 21 0.11
177 176 0.89
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (177 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCATGTATCGG
CTATAGAACAGATAAAAAATGGAGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCC
ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACG
Found at i:3467014 original size:24 final size:24
Alignment explanation
Indices: 3466982--3467032 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3466972 TTTAACATAC
3466982 TTTACTGATTTTGCATTATTCTAG
1 TTTACTGATTTTGCATTATTCTAG
3467006 TTTACTGATTTTGCATTATTCTAG
1 TTTACTGATTTTGCATTATTCTAG
3467030 TTT
1 TTT
3467033 GTTATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.57
Consensus pattern (24 bp):
TTTACTGATTTTGCATTATTCTAG
Found at i:3467084 original size:16 final size:16
Alignment explanation
Indices: 3467060--3467099 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3467050 TTCATATATA
3467060 TTTAAAATTGT-TTTAT
1 TTTAAAATT-TATTTAT
*
3467076 TTTATAATTTATTTAT
1 TTTAAAATTTATTTAT
3467092 TTTAAAAT
1 TTTAAAAT
3467100 CCTCTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTAAAATTTATTTAT
Found at i:3468088 original size:126 final size:126
Alignment explanation
Indices: 3467843--3468153 Score: 426
Period size: 126 Copynumber: 2.5 Consensus size: 126
3467833 CACATAAGGA
*
3467843 AATATTTCGTGTTTGAAAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTTTCAT
1 AATATTTCGTGTTTGAGAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTTCAT
** * *
3467908 TCAACTAAAATATGGAATATCCTTGTGAAATTTCGTCCATGTTTTCTTAAATTAAAACGAGGC
64 TCAACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
* * *
3467971 AATATTTTGTGTTTGAGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCGATTTTTTCATTC
1 AATATTTCGTGTTTGAGAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTC
* * *
3468036 GACTAAAATACAGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
* * * * * * *
3468097 AGTATTTCATATTTG-GAAATTCGAAAAATCGTGCCCAATCGTGCAGGGTTTCGATTT
1 AATATTTCGTGTTTGAG-AATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
3468154 ATCGTTTGGC
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
125 1 0.01
126 110 0.68
128 50 0.31
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (126 bp):
AATATTTCGTGTTTGAGAATTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTC
AACTAAAATACAGAATATCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGC
Found at i:3470609 original size:12 final size:12
Alignment explanation
Indices: 3470577--3470611 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3470567 AAAAAAAATA
3470577 ATATAATAAATTT
1 ATATAA-AAATTT
3470590 AT-TAAAAATTT
1 ATATAAAAATTT
3470601 ATATAAAAATT
1 ATATAAAAATT
3470612 AAATATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAAAATTT
Found at i:3477029 original size:13 final size:13
Alignment explanation
Indices: 3477011--3477036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3477001 TTATATTCGC
3477011 TTTGAAGATTTGG
1 TTTGAAGATTTGG
3477024 TTTGAAGATTTGG
1 TTTGAAGATTTGG
3477037 AGACATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
TTTGAAGATTTGG
Found at i:3488941 original size:49 final size:49
Alignment explanation
Indices: 3488867--3489055 Score: 252
Period size: 49 Copynumber: 3.8 Consensus size: 49
3488857 GTAGCCGAAG
*
3488867 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * * *
3488916 TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* * * *
3488967 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGGCCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* *
3489016 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
3489056 CGTGACCTCA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 78 0.66
50 2 0.02
51 39 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:3488987 original size:100 final size:100
Alignment explanation
Indices: 3488873--3489060 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
3488863 GAAGTTATCT
*
3488873 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
3488938 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
3488973 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGGCCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
3489038 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
3489061 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:3494036 original size:40 final size:40
Alignment explanation
Indices: 3493939--3494037 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
3493929 GAGCTTCTGT
*
3493939 TCAGCTCTTATGAGTTT-TG-TTGGCATGTTTCGAGTGGA
1 TCAGCTCTTATGAGTTTCTGTTTGGCATATTTCGAGTGGA
* *
3493977 CCAGCTCTTAT-AGGATTCTGTTTGGCATATTTCG-GTTGGA
1 TCAGCTCTTATGA-GTTTCTGTTTGGCATATTTCGAG-TGGA
3494017 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGTTTCTGT
3494038 ATGGTGTCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.02
38 13 0.25
39 3 0.06
40 33 0.65
41 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.42
Consensus pattern (40 bp):
TCAGCTCTTATGAGTTTCTGTTTGGCATATTTCGAGTGGA
Found at i:3504812 original size:9 final size:9
Alignment explanation
Indices: 3504798--3504991 Score: 69
Period size: 9 Copynumber: 20.6 Consensus size: 9
3504788 CTGCCTTTAT
3504798 TAAAAATTA
1 TAAAAATTA
*
3504807 TAAAAA-AA
1 TAAAAATTA
*
3504815 TAAAATTTA
1 TAAAAATTA
*
3504824 TAAAATTTA
1 TAAAAATTA
*
3504833 TAAATATTA
1 TAAAAATTA
**
3504842 TTAAATTTTAA
1 -TAAAAATT-A
3504853 TAAAAGAATT-
1 T-AAA-AATTA
* *
3504863 CAAATATTA
1 TAAAAATTA
*
3504872 -AAAATTTA
1 TAAAAATTA
3504880 CTAAAAATTA
1 -TAAAAATTA
3504890 -AAAAATATA
1 TAAAAAT-TA
3504899 TAAAAATCGTA
1 TAAAAAT--TA
*
3504910 -AAAAAATA
1 TAAAAATTA
*
3504918 TAAAAACTTG
1 TAAAAA-TTA
*
3504928 TAAAATTTTTA
1 TAAAA--ATTA
3504939 TAAAAA-TA
1 TAAAAATTA
3504947 GTAAAAAATTA
1 -T-AAAAATTA
*
3504958 TAAAAAAAATA
1 T--AAAAATTA
*
3504969 TAGAAA-TA
1 TAAAAATTA
3504977 TAAAAAATTA
1 T-AAAAATTA
3504987 TAAAA
1 TAAAA
3504992 TTTTCTAAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 42
0.68 0.11 0.20
Matches are distributed among these distances:
8 28 0.20
9 46 0.33
10 41 0.29
11 24 0.17
12 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:3504903 original size:10 final size:10
Alignment explanation
Indices: 3504864--3505022 Score: 70
Period size: 10 Copynumber: 16.2 Consensus size: 10
3504854 AAAAGAATTC
3504864 AAATAT-TAA
1 AAATATATAA
*
3504873 AAATTTACTAA
1 AAATATA-TAA
3504884 AAAT-TA-AA
1 AAATATATAA
3504892 AAATATATAA
1 AAATATATAA
*
3504902 AAATCGTA-AA
1 AAAT-ATATAA
3504912 AAA-ATATAA
1 AAATATATAA
*
3504921 AAACT-TGTAA
1 AAA-TATATAA
* *
3504931 AATTTTTATAA
1 AA-ATATATAA
3504942 AAATAGTA-AA
1 AAATA-TATAA
3504952 AAAT-TATAAA
1 AAATATAT-AA
* *
3504962 AAAAATATAG
1 AAATATATAA
3504972 AAATATA-AA
1 AAATATATAA
3504981 AAAT-TATAA
1 AAATATATAA
* * *
3504990 AATTTTCT-A
1 AAATATATAA
3504999 AAATCATAATAA
1 AAAT-AT-ATAA
*
3505011 AATTATATAA
1 AAATATATAA
3505021 AA
1 AA
3505023 TGTAAATATT
Statistics
Matches: 113, Mismatches: 18, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
8 12 0.11
9 26 0.23
10 48 0.42
11 23 0.20
12 4 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:3504912 original size:19 final size:19
Alignment explanation
Indices: 3504864--3504963 Score: 71
Period size: 19 Copynumber: 5.2 Consensus size: 19
3504854 AAAAGAATTC
* *
3504864 AAATATTAAAAATTTACTAA
1 AAATAGTAAAAATATA-TAA
3504884 AAAT--TAAAAAATATATAA
1 AAATAGT-AAAAATATATAA
* *
3504902 AAATCGTAAAAAAATATAA
1 AAATAGTAAAAATATATAA
* * *
3504921 AAACTTGTAAAATTTTTATAA
1 AAA-TAGTAAAA-ATATATAA
3504942 AAATAGTAAAAA-ATTATAA
1 AAATAGTAAAAATA-TATAA
3504961 AAA
1 AAA
3504964 AAATATAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
18 8 0.12
19 30 0.46
20 19 0.29
21 8 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATAGTAAAAATATATAA
Found at i:3504915 original size:21 final size:21
Alignment explanation
Indices: 3504889--3504965 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 21
3504879 ACTAAAAATT
*
3504889 AAAAAATATATAAAAATCGTA
1 AAAAAATATATAAAAATAGTA
* *
3504910 AAAAAATATA-AAAACTTGT-
1 AAAAAATATATAAAAATAGTA
** *
3504929 AAAATTTTTATAAAAATAGTA
1 AAAAAATATATAAAAATAGTA
* *
3504950 AAAAATTATAAAAAAA
1 AAAAAATATATAAAAA
3504966 ATATAGAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 7 0.16
20 14 0.32
21 23 0.52
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAAAATATATAAAAATAGTA
Found at i:3504932 original size:40 final size:40
Alignment explanation
Indices: 3504888--3504963 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
3504878 TACTAAAAAT
*
3504888 TAAAAAATATATAAAAATCGTAAAAAAATATAAAAACTTG
1 TAAAAAATATATAAAAATAGTAAAAAAATATAAAAACTTG
** * *
3504928 TAAAATTTTTATAAAAATAGTAAAAAATTATAAAAA
1 TAAAAAATATATAAAAATAGTAAAAAAATATAAAAA
3504964 AAATATAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (40 bp):
TAAAAAATATATAAAAATAGTAAAAAAATATAAAAACTTG
Found at i:3504962 original size:59 final size:56
Alignment explanation
Indices: 3504870--3505028 Score: 151
Period size: 58 Copynumber: 2.7 Consensus size: 56
3504860 ATTCAAATAT
* * *
3504870 TAAAAATTTACTAAAAAT-TAAAAAATATATAAAAATCGTAAAAAAATATAAAAACTTG
1 TAAAATTTTA-TAAAAATATAAAAAAT-TATAAAAAT-GTAAAAAAATATAAAAAATTA
** * *
3504928 TAAAATTTTTATAAAAATAGTAAAAAATTATAAAAAAAATATAGAAATATAAAAAATTA
1 TAAAA-TTTTATAAAAATA-TAAAAAATTAT-AAAAATGTAAAAAAATATAAAAAATTA
*
3504987 TAAAATTTTCT-AAAATCATAATAAAATTATATAAAATGTAAA
1 TAAAATTTTATAAAAAT-ATAA-AAAATTATA-AAAATGTAAA
3505029 TATTTTGTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
57 9 0.11
58 33 0.40
59 28 0.34
60 13 0.16
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (56 bp):
TAAAATTTTATAAAAATATAAAAAATTATAAAAATGTAAAAAAATATAAAAAATTA
Found at i:3505052 original size:39 final size:39
Alignment explanation
Indices: 3504960--3505054 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 39
3504950 AAAAATTATA
*
3504960 AAAAAAATATAGAAA-TATAAAAAATTATAAAATTTTCT
1 AAAAAAATATAAAAATTATAAAAAATTATAAAATTTTCT
** * * *
3504998 AAAATCATA-ATAAAATTATATAAAATGTA-AATATTTTGT
1 AAAAAAATATA-AAAATTATAAAAAAT-TATAAAATTTTCT
3505037 AAAAAAATATAAAAATTA
1 AAAAAAATATAAAAATTA
3505055 GTGTACCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.02
38 10 0.22
39 31 0.69
40 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (39 bp):
AAAAAAATATAAAAATTATAAAAAATTATAAAATTTTCT
Found at i:3505268 original size:19 final size:17
Alignment explanation
Indices: 3505246--3505295 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
3505236 TTTTTAAAAT
3505246 TTTTATTAAAATTTAATTA
1 TTTT-TTAAAATTT-ATTA
3505265 TTTTTCTAAAATTTATTA
1 TTTTT-TAAAATTTATTA
*
3505283 TTTTTTATAATTT
1 TTTTTTAAAATTT
3505296 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.24
18 10 0.34
19 12 0.41
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAATTTATTA
Found at i:3505284 original size:18 final size:19
Alignment explanation
Indices: 3505252--3505287 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3505242 AAATTTTTAT
3505252 TAAAATTTAATTATTTTTC
1 TAAAATTTAATTATTTTTC
3505271 TAAAATTT-ATTATTTTT
1 TAAAATTTAATTATTTTT
3505288 TATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAAATTTAATTATTTTTC
Found at i:3505473 original size:88 final size:89
Alignment explanation
Indices: 3505321--3505543 Score: 229
Period size: 88 Copynumber: 2.5 Consensus size: 89
3505311 AGAGCAAGCG
* ** * * * *
3505321 CTTAATTGC-TTTTTTGAAAAAAATTGAGGGTCTTTGTGATGCATTTTGAAAGTTCAAATACTCA
1 CTTAATTACTTTTTTTGAAAAAGTTTGAAGGTCTTTTTTATCCATTTTGAAAGTTCAAATACTCA
* **
3505385 ATTGAGTG-GGAAAAAATCAGGGA
66 ATTAAGTGAAAAAAAAATCAGGGA
* * *
3505408 CTTAATTACTTTTTTTGAAGAAGTTTGAAGGTCTTTTTTATCCATTTTGAAAGTTCAAGTGCTCA
1 CTTAATTACTTTTTTTGAAAAAGTTTGAAGGTCTTTTTTATCCATTTTGAAAGTTCAAATACTCA
* *
3505473 ATTAAGTGTAAAAAAAAATGAGGGG
66 ATTAAGTG-AAAAAAAAATCAGGGA
* * *
3505498 CTTGATTACTTTTTTTAAAAAAAGTTT-AAGGAC-TTTTTATACCATT
1 CTTAATTACTTTTTTT-GAAAAAGTTTGAAGGTCTTTTTTAT-CCATT
3505544 AATCCATCTT
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
87 8 0.07
88 53 0.47
89 7 0.06
90 36 0.32
91 8 0.07
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (89 bp):
CTTAATTACTTTTTTTGAAAAAGTTTGAAGGTCTTTTTTATCCATTTTGAAAGTTCAAATACTCA
ATTAAGTGAAAAAAAAATCAGGGA
Found at i:3507841 original size:31 final size:31
Alignment explanation
Indices: 3507806--3507875 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
3507796 AATATGGTGA
* *
3507806 GTGGTTATTTGTAGGACTTAGA-AGGATGTGG
1 GTGGTTAATTATAGGACTTA-ATAGGATGTGG
* *
3507837 GTGGTTAATTATGGGACTTAATGGGATGTGG
1 GTGGTTAATTATAGGACTTAATAGGATGTGG
3507868 GTGGTTAA
1 GTGGTTAA
3507876 GAAATTATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.23, C:0.03, G:0.39, T:0.36
Consensus pattern (31 bp):
GTGGTTAATTATAGGACTTAATAGGATGTGG
Found at i:3518621 original size:27 final size:27
Alignment explanation
Indices: 3518591--3518689 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
3518581 GTGTCTATGC
3518591 CACAAATATCTGATCTGGTGGCTCTGT
1 CACAAATATCTGATCTGGTGGCTCTGT
* * *
3518618 CACATATATCTGTTCTGGTGGCTCTGC
1 CACAAATATCTGATCTGGTGGCTCTGT
* * **
3518645 CACGATTATCTGTATCTGGTGATTCTGT
1 CACAAATATCTG-ATCTGGTGGCTCTGT
* *
3518673 CAC-ATTATCTGTTCTGG
1 CACAAATATCTGATCTGG
3518690 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.08
27 41 0.68
28 14 0.23
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CACAAATATCTGATCTGGTGGCTCTGT
Found at i:3518682 original size:54 final size:54
Alignment explanation
Indices: 3518578--3518689 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
3518568 AGGAAGCGTC
* *
3518578 CTGGTGTCTATGCCACAAATATCTGATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGTCACATATATCTGTT
* * * *
3518632 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGATTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGTCACATATATCTGTT
3518686 CTGG
1 CTGG
3518690 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGTCACATATATCTGTT
Found at i:3534197 original size:42 final size:42
Alignment explanation
Indices: 3534138--3534217 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
3534128 ACTTTACGTC
3534138 TAATAAACCTAAATTAAATTATAATTAA-ATTTAAATGTCAAT
1 TAATAAACCTAAATTAAATTATAA-TAATATTTAAATGTCAAT
* *
3534180 TAATAAATCTAAATTAAATTATAATAATATTTAGATGT
1 TAATAAACCTAAATTAAATTATAATAATATTTAAATGT
3534218 GAATACAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (42 bp):
TAATAAACCTAAATTAAATTATAATAATATTTAAATGTCAAT
Found at i:3535594 original size:20 final size:20
Alignment explanation
Indices: 3535523--3535602 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 20
3535513 TATTTTCATA
*
3535523 TTTTAAACATAAAAAATATAATT
1 TTTTAAAAATAAAAAA-AT-A-T
*
3535546 TTTTAAAAAAATAAAAAAA-CT
1 TTTT--AAAAATAAAAAAATAT
* *
3535567 CTTCAAAAATAAAAAAATAT
1 TTTTAAAAATAAAAAAATAT
3535587 TTTTAAAAATATAAAA
1 TTTTAAAAATA-AAAA
3535603 GATCCCAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
19 13 0.28
20 10 0.22
21 7 0.15
23 4 0.09
24 1 0.02
25 11 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTTAAAAATAAAAAAATAT
Found at i:3536329 original size:22 final size:20
Alignment explanation
Indices: 3536299--3536338 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3536289 TTCCGAAAAA
3536299 TCTTCCTCCCTTCTTACCATAT
1 TCTTCCT-CCTTCTT-CCATAT
*
3536321 TCTTTCTCCTTCTTCCAT
1 TCTTCCTCCTTCTTCCAT
3536339 TCTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (20 bp):
TCTTCCTCCTTCTTCCATAT
Found at i:3538721 original size:30 final size:30
Alignment explanation
Indices: 3538673--3538730 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
3538663 CTTCATAAAT
* *
3538673 ATATATACGTACTAAAAGTATACATAATAATA
1 ATATATACATAC-AAAAGTACAC-TAATAATA
3538705 ATATATACATAC-AAAGTACACTAATA
1 ATATATACATACAAAAGTACACTAATA
3538731 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 8 0.33
32 11 0.46
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (30 bp):
ATATATACATACAAAAGTACACTAATAATA
Found at i:3538777 original size:16 final size:16
Alignment explanation
Indices: 3538753--3538783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3538743 AATAGTAAAC
*
3538753 ATAATATTAATATTAA
1 ATAAAATTAATATTAA
3538769 ATAAAATTAATATTA
1 ATAAAATTAATATTA
3538784 CAAATTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTAATATTAA
Found at i:3545674 original size:22 final size:22
Alignment explanation
Indices: 3545644--3545685 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3545634 TTCGGCAGCA
3545644 AATAACAATCGGTTCTTGAATG
1 AATAACAATCGGTTCTTGAATG
*
3545666 AATAGCAATCGGTTCTTGAA
1 AATAACAATCGGTTCTTGAA
3545686 GGAGATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (22 bp):
AATAACAATCGGTTCTTGAATG
Found at i:3547569 original size:15 final size:15
Alignment explanation
Indices: 3547549--3547593 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
3547539 CATTTGATTA
3547549 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3547564 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3547579 AAGTTAATGTATAGT
1 AAGTTAATGTATAGT
3547594 TTTGAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
AAGTTAATGTATAGT
Found at i:3551382 original size:48 final size:48
Alignment explanation
Indices: 3551303--3551399 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
3551293 TTATGCTATG
* * *
3551303 CATTTCTAAACTTGGTCTTCCACTGTATACACTCTTACCACTATTTAT
1 CATTACTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
* * * *
3551351 CATTACTAAACTCGGTGTTCCATTGTCTACACTCTTATCACTAATTAT
1 CATTACTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
3551399 C
1 C
3551400 CCTTCTTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.07, T:0.40
Consensus pattern (48 bp):
CATTACTAAACTCGGTCTTCCACTGTATACACTCTTACCACTAATTAT
Found at i:3552687 original size:20 final size:20
Alignment explanation
Indices: 3552662--3552708 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
3552652 TCAAGTTCTA
3552662 TATCTCATTTCATCATTTCC
1 TATCTCATTTCATCATTTCC
3552682 TATCTCATTTCATCATTTCC
1 TATCTCATTTCATCATTTCC
3552702 T-TCTCAT
1 TATCTCAT
3552709 AATTCAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (20 bp):
TATCTCATTTCATCATTTCC
Found at i:3556162 original size:30 final size:30
Alignment explanation
Indices: 3556103--3556190 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
3556093 CCAGACAGAT
* * * *
3556103 AACCTTGATATAGTTTCAACTTGTTTGAGC
1 AACCTTGATATAATGTCAGCTTGTGTGAGC
** *
3556133 AATTTTGTTATAATGTCAGCTTGTGTGAGC
1 AACCTTGATATAATGTCAGCTTGTGTGAGC
*
3556163 AACCTTGATATACTGTCAGCTTGTGTGA
1 AACCTTGATATAATGTCAGCTTGTGTGA
3556191 ACATCATATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (30 bp):
AACCTTGATATAATGTCAGCTTGTGTGAGC
Found at i:3563141 original size:23 final size:23
Alignment explanation
Indices: 3563113--3563158 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3563103 GGTAAACTAT
3563113 AAAAATAATCACTTTTCTTTGCC
1 AAAAATAATCACTTTTCTTTGCC
3563136 AAAAATAATCACTTTTCTTTGCC
1 AAAAATAATCACTTTTCTTTGCC
3563159 TCAGATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAATAATCACTTTTCTTTGCC
Found at i:3571064 original size:20 final size:20
Alignment explanation
Indices: 3571041--3571115 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
3571031 GTATGTTTCC
3571041 ATTAACTTATGTTAATTAAG
1 ATTAACTTATGTTAATTAAG
3571061 ATTATGAC-TA-GTTAATTAAG
1 ATTA--ACTTATGTTAATTAAG
* * *
3571081 ATTTAGTT-TAATTAATTAAG
1 ATTAACTTAT-GTTAATTAAG
3571101 ATTAA-TTAATGTTAA
1 ATTAACTT-ATGTTAA
3571116 ACAAAGTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 34 0.79
21 3 0.07
22 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTAACTTATGTTAATTAAG
Found at i:3575744 original size:50 final size:50
Alignment explanation
Indices: 3575617--3575744 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 50
3575607 ATGAACAAAT
* *
3575617 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAA-TTAATGATGCAAACTTAACTAACATGA
* * *
3575668 GAGTTACATAATGCATGTCATAATTAATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
*
3575718 GAGTTACATAATGCATGACTTTATTAA
1 GAGTTACATAATGCATGACTTAATTAA
3575745 ATGCAGAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 49 0.71
51 20 0.29
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTAATGATGCAAACTTAACTAACATGA
Found at i:3579897 original size:226 final size:226
Alignment explanation
Indices: 3579503--3579948 Score: 822
Period size: 226 Copynumber: 2.0 Consensus size: 226
3579493 GCACACTATA
*
3579503 AACACTCATACACAAATTTATTAATGAACATGCAGCTTAAATTACCTTATTTAAAATGAAAATAA
1 AACACTCATACACAAATTTATTAATGAACATGCAGCTTAAATCACCTTATTTAAAATGAAAATAA
3579568 ACACACTTTAATTTATGTAGTAAAAAGTAATAGCCAAATTAAATAACATACTTATATAAACAAAC
66 ACACACTTTAATTTATGTAGTAAAAAGTAATAGCCAAATTAAATAACATACTTATATAAACAAAC
*
3579633 TCAAACATATTTAACAACTAAGATGCTTAAATGCATGGTTAAATGTAAATTAAATCAACAAACGA
131 TCAAACATATTTAACAACTAAGATGCTTAAATGCATGGTTAAATGTAAACTAAATCAACAAACGA
*
3579698 GTTACTT-AATGCATGACTTCATTTATTAATG
196 GTTA-TTGAATGCATGACTTAATTTATTAATG
* *
3579729 AACACTCATACATAAATTTATTAATGAACATGCAGTTTAAATCACCTTATTTAAAATGAAAATAA
1 AACACTCATACACAAATTTATTAATGAACATGCAGCTTAAATCACCTTATTTAAAATGAAAATAA
3579794 ACACACTTTAATTTATGTAGTAAAAAGTAATAGCCAAATTAAATAACATACTTATATAAACAAAC
66 ACACACTTTAATTTATGTAGTAAAAAGTAATAGCCAAATTAAATAACATACTTATATAAACAAAC
*
3579859 TCAAACATATTTAACAACTAAGATGCTTAAATGCATGGTTAAATGTAAACTAAATGAACAAACGA
131 TCAAACATATTTAACAACTAAGATGCTTAAATGCATGGTTAAATGTAAACTAAATCAACAAACGA
3579924 GTTATTGAATGCATGACTTAATTTA
196 GTTATTGAATGCATGACTTAATTTA
3579949 ATGATGCAAA
Statistics
Matches: 213, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
225 2 0.01
226 211 0.99
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (226 bp):
AACACTCATACACAAATTTATTAATGAACATGCAGCTTAAATCACCTTATTTAAAATGAAAATAA
ACACACTTTAATTTATGTAGTAAAAAGTAATAGCCAAATTAAATAACATACTTATATAAACAAAC
TCAAACATATTTAACAACTAAGATGCTTAAATGCATGGTTAAATGTAAACTAAATCAACAAACGA
GTTATTGAATGCATGACTTAATTTATTAATG
Found at i:3579978 original size:51 final size:51
Alignment explanation
Indices: 3579931--3580052 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 51
3579921 CGAGTTATTG
*
3579931 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGGGAGTTACAT
1 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
* * * *
3579982 AACGCATGTCATAATTT-ATGATGCAAACTTAACTTACATGAGAGTTACAT
1 AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
*
3580032 AATGCATGACTTTATTTAATG
1 AATGCATGACTTAATTTAATG
3580053 CAAAACACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.72
51 17 0.28
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (51 bp):
AATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAGAGTTACAT
Found at i:3580119 original size:39 final size:39
Alignment explanation
Indices: 3580060--3580136 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
3580050 ATGCAAAACA
* *
3580060 CATATTAATGTTGTTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
3580099 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
3580137 ACAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.32
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:3580484 original size:24 final size:24
Alignment explanation
Indices: 3580452--3580501 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3580442 AACCACCTCA
3580452 TATATGTTGTTGAGAAGGAACACT
1 TATATGTTGTTGAGAAGGAACACT
3580476 TATATGTTGTTGAGAAGGAACACT
1 TATATGTTGTTGAGAAGGAACACT
3580500 TA
1 TA
3580502 CCTTACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (24 bp):
TATATGTTGTTGAGAAGGAACACT
Found at i:3580557 original size:60 final size:60
Alignment explanation
Indices: 3580488--3580616 Score: 249
Period size: 60 Copynumber: 2.1 Consensus size: 60
3580478 TATGTTGTTG
*
3580488 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATGGACTTA
1 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
3580548 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
1 AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
3580608 AGAAGGAAC
1 AGAAGGAAC
3580617 TCACGAGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (60 bp):
AGAAGGAACACTTACCTTACACAATTCATACAAGAGTAGAATTTACAACACATAGACTTA
Found at i:3580599 original size:29 final size:29
Alignment explanation
Indices: 3580506--3580599 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 29
3580496 CACTTACCTT
3580506 ACACAATTCATACAAGAGTAGAATTTACA
1 ACACAATTCATACAAGAGTAGAATTTACA
** * * * *
3580535 ACAC-ATGGACT-TAAGAAGGA-ACACTTACCTT
1 ACACAATTCA-TACAAG-AGTAGA-ATTTA-C-A
3580566 ACACAATTCATACAAGAGTAGAATTTACA
1 ACACAATTCATACAAGAGTAGAATTTACA
3580595 ACACA
1 ACACA
3580600 TAGACTTAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 16
0.62 0.16 0.22
Matches are distributed among these distances:
28 7 0.16
29 17 0.38
30 2 0.04
31 12 0.27
32 7 0.16
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (29 bp):
ACACAATTCATACAAGAGTAGAATTTACA
Found at i:3581361 original size:17 final size:17
Alignment explanation
Indices: 3581341--3581380 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
3581331 CTGGAGTTTG
3581341 CCAAATGGAAAATCCCA
1 CCAAATGGAAAATCCCA
**
3581358 CCAAATGGCGAATCCCA
1 CCAAATGGAAAATCCCA
3581375 CCAAAT
1 CCAAAT
3581381 ATGCCACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.12
Consensus pattern (17 bp):
CCAAATGGAAAATCCCA
Found at i:3587675 original size:37 final size:38
Alignment explanation
Indices: 3587616--3587695 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 38
3587606 GCAAATGATT
3587616 TTAAAATTATTAAAGTTATTTTTT-AAATATAAAATTA
1 TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
* *
3587653 TTAAAATTATTATA-TTATTTTTTTGAAATATAAACTTA
1 TTAAAATTATTAAAGTTA-TTTTTTGAAATATAAAATTA
3587691 TTAAA
1 TTAAA
3587696 TAGATCATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
36 3 0.08
37 19 0.49
38 17 0.44
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
TTAAAATTATTAAAGTTATTTTTTGAAATATAAAATTA
Found at i:3588058 original size:28 final size:28
Alignment explanation
Indices: 3588000--3588066 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
3587990 GGTTATCGAA
*
3588000 TTTGGGGATTTTGTGTAAGGGTTTTGAT
1 TTTGGGGATTTTGTGTAAGGATTTTGAT
*
3588028 TTTGGGGATTTT-T-TTAGGATTTCTGAT
1 TTTGGGGATTTTGTGTAAGGATTT-TGAT
* *
3588055 TTTTGAGATTTT
1 TTTGGGGATTTT
3588067 AGGGATTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.15, C:0.01, G:0.28, T:0.55
Consensus pattern (28 bp):
TTTGGGGATTTTGTGTAAGGATTTTGAT
Found at i:3590546 original size:52 final size:52
Alignment explanation
Indices: 3590469--3590572 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
3590459 AATTTAGAAA
3590469 AAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTGG
1 AAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTGG
*
3590521 AAAAAATAGAGTTTTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTGG
1 AAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTGG
3590573 CGCTAGGGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.32
Consensus pattern (52 bp):
AAAAAATAGAGTTGTTTTTTATGGTGGTGCACAATGATGGTGGCCACAGTGG
Found at i:3592661 original size:924 final size:919
Alignment explanation
Indices: 3590650--3592977 Score: 2570
Period size: 924 Copynumber: 2.5 Consensus size: 919
3590640 TAATTGGTAG
* * * **
3590650 GGGAGTGGTGGATGAGAGGTGGAAAAATAATGCAATAGTTGGTGGTAGATGGCTAAAGTAAATTG
1 GGGAGTGGTGGAGGAGAGG-GGAAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCA
* * * * * *
3590715 AAAATGGAGAGAAAA-AGGGAGGAGCTAAGGA-AGGGACAACAATAGGG-GAAAAGGGTAAGTAA
65 AAAATGGAGAGAAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAA
* * * * *
3590777 TAGTGAAACTAAAGATGTTACTCACTTGTCTAGGTGTAATGAATCAGCATACATGGTAAAGTTGA
130 AAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGA
* *
3590842 --AAAAAATGTATGTTGAAGGGACAATGGAGCAGAAAGGGGATCATGTTTGTAAACATATAGTAT
195 TGAAAAAA-GTATGTTG-AGGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTAT
* * * * *
3590905 GTTAACTTATTAAGATAGGAAAGAAATCCTCCCATGCAAGACAACAAATGGACAGA-AAAGGGGG
258 GTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGAC-GACAAA-GGGG
**
3590969 ATATTGACTGTTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGTG-TGAAGACTTGAACC
321 ATATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGTGTTG-AGACTTGAACC
* * * * *
3591033 TATGACCTTAAGGAAACAAATTAAGCTCTTAAACATTAGACTGACT--C-ACTTGTTCACAGACT
385 TA-GGCCTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCACTACTTGTTCACAAACT
* * *
3591095 ACAACATTTATTTTAAAAACATGGTGTGACTTTTGCTAAGGTTTGACGGAAAATTGCACAACATA
449 ACAACA-TTATTTTAAAAACATGGTGTGACCTTTGCTAAGGTTTAACGCAAAATTGCACAACATA
* *
3591160 GAAAATAGTGTGAGGGAAGAGATACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATC
513 GAAAATAATGTGAGAGAAGAGATACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATC
*
3591225 ACTAAAAAAATTCAGGAGTGGCCACACTCGGTTCATTAACCTAATTTCTACTAAGCTAGGTTTTA
578 ACTAAAAAAATTCAGGAGTGACCACACTCGGTTCATTAACCTAATTTCTACTAAGCTAGGTTTTA
* ** **** * *
3591290 GAAAAGAAAAAGATCACCAATGCCTTTGGACGCACGGTGGCGGTCCTACGAGAAGTGGATGGGTG
643 GAAAAGAAAAAGATCACCAAAGCCGGTGGACGCACGACAACAGTCCTACGAGAAGCGGATGGGTG
*
3591355 AGGAGTGTAGAAGGCACTTGAGACACTTGAGGCACTAGAGGAAAGAAGGAGAAAATAGAAAGGGA
708 AGGAGTGTAGAAGGCACTT-AGACA--T-A-GCACTAGAGGAAAGAAGGAGAAAATAGAAAGAGA
* * *
3591420 AAAAGAAATGGAGAAGAAGAAGATAAAAAACAGAGTTATTTTCGATGGGGGTGCACAATGATGGT
768 AAAAGAAAT-GACAAGAAGAAGAGAAAAAACAGAATTATTTTCGATGGGGGTGCACAATGATGGT
* ** * ** * * *** *
3591485 GGCCATGATGGTGCTAGGGCAGCAGTTGAGGATTACAAAAGAAATAAATGTCGAAAAAGGGGATA
832 GGCCATGATGGTGCTAAGGCAGCAGCGGAGCAACACAAAAGAAAGAAACGAAAAAAAAGGGGAGA
* * *
3591550 TTCAATGATGGTTCAATTGGAAA
897 TTCAATAATAGTTCAACTGGAAA
* *
3591573 GGGAGTGGTAGAGGAGAAGGGGAAAAATAATGCAATAGGTGGTGGTAT-ATGGCTAAAGTAAATG
1 GGGAGTGGTGGAGGAG-AGGGGAAAAATAATGCAATAGGTGGTGGT-TGATGGCTAAAGTAAATC
* *
3591637 AAAAATGGAGAGAAGACA-GAAGGAGCCAAGGCGGGGGACGACAATAGGGA-AAAAGAGTAAGGA
64 AAAAATGGAGAGAAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGA
* * *
3591700 AAAGTTAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAACACACATGGAAAAGATG
129 AAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATG
* * * * *
3591765 ATGAAAAAAGTATGTTGAGGGTATAATGGAGCAAAAAAGGAATCATGTTTGTAAAAATGTGGTAT
194 ATGAAAAAAGTATGTTGAGGG-ACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTAT
* * * * *
3591830 GTTGACTTGTTAAGAAATGAAAGAAATCCTCCTATACAAGGCAAAAAATGGACGACAAAAGGGTT
258 GTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGAT
3591895 ATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGG-TGAGTGTTGAGACTTGAACCTA
323 ATTGACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGAT-AGTGTTGAGACTTGAACCTA
* * * * *
3591959 GGCTTTTAATGAAACTAACTAAGCTTTTAACCATTAGACTAACTCACTTACTTGGTCACAAACTA
387 GGC-CTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCAC-TACTTGTTCACAAACTA
** * * *
3592024 CAGTATATATTTTAAAAACATGGTGTGACCTTTGCTATGGTTTAATGCAAAATTGC-C-TCGTAT
450 CAACAT-TATTTTAAAAACATGGTGTGACCTTTGCTAAGGTTTAACGCAAAATTGCACAAC--AT
*
3592087 AGAAAATAATGTGAGAGAAGAGATTCAAACACA-GATCATCAAGGACAT-CTCCACCACTACTTG
512 AGAAAATAATGTGAGAGAAGAGATACAAACACATG-TCATCAAGGACATCCT-CACCACTACTTG
* * * * * *
3592150 ATCACTAAAAAAAATT-GGGTGTGACCACTCTTGGTTCATTAATCC-AATTTCTACTAAGTTAGT
575 ATCACT-AAAAAAATTCAGGAGTGACCACACTCGGTTCATTAA-CCTAATTTCTACTAAGCTAGG
* * ** * * * **
3592213 TTTTGGAAAAAGAAAATGATCATGAAAGCCGGTGGAGGCACGACAATAGTTC-A-GCTTAA-CGG
638 TTTTAG-AAAAGAAAAAGATCACCAAAGCCGGTGGACGCACGACAACAGTCCTACG-AGAAGCGG
*** * *
3592275 A-GGAG-GAGG-G-G-AGAAGGGGGTT-G-CA-A-CACTAGAGGAAAGAATGAGAGAAT-GAAGA
701 ATGG-GTGAGGAGTGTAGAAGGCACTTAGACATAGCACTAGAGGAAAGAAGGAGAAAATAGAA-A
* * * ** *
3592330 GAGAAAAAGAAAT-ACAA-AAGAAGAGAGAAAAAGAGAATTCTTTTTGATGGTTGTGCACAATGG
764 GAGAAAAAGAAATGACAAGAAGAAGAGA-AAAAACAGAATTATTTTCGATGGGGGTGCACAATGA
* * * * * * * *
3592393 TGGTGGCCATAATGTTGAACAGTGACACTAAGGCGGCGGCGGAGCAACACAGAGGAGAGGAGCGA
828 TGGTGGCC---ATGATG----GTG---CTAAGGCAGCAGCGGAGCAACACAAAAGAAAGAAACGA
*** * * *
3592458 AAAAAAAGGGGAGATTTGGTAATAGTTCAGCTGGCAT
883 AAAAAAAGGGGAGATTCAATAATAGTTCAACTGGAAA
* * * ** * *
3592495 GGGAATGGTGGAGGAGAGGACGAAAAATAGTGCAGCAGGTGATGGTTGATGGCTAAAGTAAAACA
1 GGGAGTGGTGGAGGAGAGG-GGAAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCA
*
3592560 AAAATGGAGCA-AAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAGAAGAGTAAGGA
65 AAAATGGAG-AGAAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGA
* * * * *
3592624 AAAGTGAAAAAAAATATGTTACTTACTTTTCTAGGTGTAATGAATTAGCACAAATGGTAAAGATG
129 AAAGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATG
* *
3592689 ATGAAAAAGGTATGCTGATGGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTAT
194 ATGAAAAAAGTATGTTGA-GGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTAT
* * * *
3592754 GTTGACTTGTTAATAAATGAAAGAAATGCTCCCATGCAAGGCAACAAGTGGACGACAAAGGGGCG
258 GTTGACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGG-A
*
3592819 TATTGACCATTCAAATTT-GCAAGAAAAATAAATAAAAATATGGATAGTGTGGAGACTTGAACCT
322 TATTGACCATTCAAATTTGGC-AGAAAAATAAATAAAAATATGGATAGTGTTGAGACTTGAACCT
*
3592883 AGGACCTTAAGGAAACTAATTAAGCTCTTAACCATTAGGCTAACTCACCTACTTGTTCACAAACT
386 AGG-CCTTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCA-CTACTTGTTCACAAACT
3592948 ACAACACTTATTTTAAAAACATGGTGTGAC
449 ACAACA-TTATTTTAAAAACATGGTGTGAC
3592978 ATTTACTACT
Statistics
Matches: 1180, Mismatches: 175, Indels: 98
0.81 0.12 0.07
Matches are distributed among these distances:
911 8 0.01
912 40 0.03
913 3 0.00
914 35 0.03
915 5 0.00
916 1 0.00
919 3 0.00
920 2 0.00
921 5 0.00
922 111 0.09
923 122 0.10
924 369 0.31
925 237 0.20
926 18 0.02
927 10 0.01
928 169 0.14
929 42 0.04
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (919 bp):
GGGAGTGGTGGAGGAGAGGGGAAAAATAATGCAATAGGTGGTGGTTGATGGCTAAAGTAAATCAA
AAATGGAGAGAAAACAGGAAGGAGCCAAGGAGGGGGACGACAATAGGGAGAAAAGAGTAAGGAAA
AGTGAAACAAAAGATGTTACTTACTTGTCTAGGTGTAATGAATCAGCACACATGGTAAAGATGAT
GAAAAAAGTATGTTGAGGGACAATGGAGCAAAAAGGGGATCATGTTTGTAAACATATGGTATGTT
GACTTGTTAAGAAATGAAAGAAATCCTCCCATGCAAGGCAACAAATGGACGACAAAGGGGATATT
GACCATTCAAATTTGGCAGAAAAATAAATAAAAATATGGATAGTGTTGAGACTTGAACCTAGGCC
TTAAGGAAACTAATTAAGCTCTTAACCATTAGACTAACTCACTACTTGTTCACAAACTACAACAT
TATTTTAAAAACATGGTGTGACCTTTGCTAAGGTTTAACGCAAAATTGCACAACATAGAAAATAA
TGTGAGAGAAGAGATACAAACACATGTCATCAAGGACATCCTCACCACTACTTGATCACTAAAAA
AATTCAGGAGTGACCACACTCGGTTCATTAACCTAATTTCTACTAAGCTAGGTTTTAGAAAAGAA
AAAGATCACCAAAGCCGGTGGACGCACGACAACAGTCCTACGAGAAGCGGATGGGTGAGGAGTGT
AGAAGGCACTTAGACATAGCACTAGAGGAAAGAAGGAGAAAATAGAAAGAGAAAAAGAAATGACA
AGAAGAAGAGAAAAAACAGAATTATTTTCGATGGGGGTGCACAATGATGGTGGCCATGATGGTGC
TAAGGCAGCAGCGGAGCAACACAAAAGAAAGAAACGAAAAAAAAGGGGAGATTCAATAATAGTTC
AACTGGAAA
Found at i:3602541 original size:19 final size:19
Alignment explanation
Indices: 3602517--3602553 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3602507 TGCATGCATA
*
3602517 AATCGGTAACATGTAACCT
1 AATCGGTAACATATAACCT
*
3602536 AATCGGTAGCATATAACC
1 AATCGGTAACATATAACC
3602554 CTGAATCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (19 bp):
AATCGGTAACATATAACCT
Found at i:3604205 original size:22 final size:22
Alignment explanation
Indices: 3604174--3604216 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3604164 AGTGATTTAT
3604174 GTTAGAAATAAAAAAATAAAAG
1 GTTAGAAATAAAAAAATAAAAG
* **
3604196 GTTAGTAATAAAGTAATAAAA
1 GTTAGAAATAAAAAAATAAAA
3604217 AGGGAGGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (22 bp):
GTTAGAAATAAAAAAATAAAAG
Found at i:3605899 original size:47 final size:47
Alignment explanation
Indices: 3605847--3606444 Score: 962
Period size: 47 Copynumber: 12.6 Consensus size: 47
3605837 GATAATTGTG
* * *
3605847 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3605894 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3605941 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3605990 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3606039 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3606086 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3606135 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
3606182 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3606229 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3606278 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3606325 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
3606372 ATTTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3606419 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
3606445 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 25, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
47 334 0.64
49 186 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3605954 original size:96 final size:96
Alignment explanation
Indices: 3605847--3606444 Score: 955
Period size: 96 Copynumber: 6.3 Consensus size: 96
3605837 GATAATTGTG
*
3605847 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
3605910 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
3605941 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
3606006 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
3606039 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
3606102 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
3606135 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
3606198 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
*
3606229 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
3606294 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
3606325 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATTTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
3606388 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
3606419 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
3606445 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 20, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
94 142 0.30
95 3 0.01
96 285 0.60
98 46 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:3605996 original size:143 final size:143
Alignment explanation
Indices: 3605847--3606444 Score: 1002
Period size: 143 Copynumber: 4.2 Consensus size: 143
3605837 GATAATTGTG
* * *
3605847 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
3605912 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
3605977 GCCGATGTGATGA
131 GCCGATGTGATGA
3605990 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
3606055 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
3606120 TGGCCGATGTGATGA
129 TGGCCGATGTGATGA
3606135 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
3606200 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
3606265 GCCGATGTGATGA
131 GCCGATGTGATGA
*
3606278 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
3606343 GTGATGAGGCCTAATGGCCGATGTGATGAATTTGAAAGTG--TATATATGTGACAGGGCCGAGTG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
* * *
3606406 GCCAACGTGATGG
131 GCCGATGTGATGA
*
3606419 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
3606445 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
141 53 0.12
143 238 0.55
145 141 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:3608729 original size:40 final size:40
Alignment explanation
Indices: 3608668--3609031 Score: 498
Period size: 40 Copynumber: 9.1 Consensus size: 40
3608658 AGGTCTCGAC
*
3608668 GATG-ATCCGGGCTAAGTCCCGAAGTGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
3608707 GATGTACCCGGGCTAAGTCCCGAAGAACATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
**
3608747 GATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
3608787 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
3608827 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
3608867 GATGTATCCAGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
3608907 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
3608947 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
3608987 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
3609027 GATGT
1 GATGT
3609032 GTATTCGGGC
Statistics
Matches: 290, Mismatches: 32, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 283 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:3610362 original size:21 final size:22
Alignment explanation
Indices: 3610332--3610373 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3610322 AGTGATTTAT
3610332 GTTAGAAATAAA-AAATAAAAG
1 GTTAGAAATAAAGAAATAAAAG
* *
3610353 GTTAGTAATAAAGTAATAAAA
1 GTTAGAAATAAAGAAATAAAA
3610374 AGGGAGGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (22 bp):
GTTAGAAATAAAGAAATAAAAG
Found at i:3612064 original size:49 final size:49
Alignment explanation
Indices: 3612004--3612125 Score: 198
Period size: 47 Copynumber: 2.6 Consensus size: 49
3611994 GATAATTGTG
* *
3612004 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
3612051 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
3612098 ATGTGAAAGTGTATATATATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
3612126 TGAAAGTGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
47 50 0.72
48 2 0.03
49 17 0.25
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:3612139 original size:27 final size:25
Alignment explanation
Indices: 3612089--3612150 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 25
3612079 CGAATGGCCG
3612089 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAT-AA-GTGAAAGTGTATATAT
3612116 ATGTGATAAGTGAAAGTGTATATAT
1 ATGTGATAAGTGAAAGTGTATATAT
3612141 ATGTGATAAG
1 ATGTGATAAG
3612151 GCCTAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 26 0.74
26 2 0.06
27 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (25 bp):
ATGTGATAAGTGAAAGTGTATATAT
Found at i:3612150 original size:74 final size:72
Alignment explanation
Indices: 3612043--3612199 Score: 269
Period size: 74 Copynumber: 2.1 Consensus size: 72
3612033 TAATGGCCGG
3612043 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGAT-AA-GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGT
3612108 GTATATATA
64 GTATATATA
*
3612117 TGTGATAAGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATAAGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGT
3612182 GTATATATA
64 GTATATATA
3612191 TGTGATAAG
1 TGTGATAAG
3612200 GCCTAATGGC
Statistics
Matches: 80, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
72 9 0.11
73 2 0.03
74 69 0.86
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (72 bp):
TGTGATAAGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATA
Found at i:3612180 original size:49 final size:49
Alignment explanation
Indices: 3612116--3612532 Score: 660
Period size: 47 Copynumber: 8.8 Consensus size: 49
3612106 GTGTATATAT
3612116 ATGTGAT-AA-GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
3612163 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
3612212 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
3612261 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCAAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
3612308 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
3612357 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
3612404 ATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * *
3612451 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
3612498 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
3612533 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 15, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
47 191 0.55
48 3 0.01
49 155 0.44
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:3612216 original size:96 final size:96
Alignment explanation
Indices: 3612116--3612532 Score: 684
Period size: 96 Copynumber: 4.4 Consensus size: 96
3612106 GTGTATATAT
3612116 ATGTGAT-AA-GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
3612179 AGTGTATATATATGTGATAAGGCCTAATGGCCG
66 AGTG--TATATATGTGATAAGGCCTAATGGCCG
3612212 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
3612277 AGTGTATATATGTGATAAGGCCAAATGGCCG
66 AGTGTATATATGTGATAAGGCCTAATGGCCG
3612308 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
3612373 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCTAATGGCCG
*
3612404 ATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * *
3612467 AGTGTATATATGTGACAGGGCCGAGTGGCCA
66 AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
3612498 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
3612533 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
94 94 0.31
95 1 0.00
96 149 0.49
97 2 0.01
98 58 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:3621329 original size:29 final size:30
Alignment explanation
Indices: 3621288--3621346 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3621278 GAATTGGATC
3621288 AAATCAAAATTTCATATATAAAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
* *
3621318 AAATC-AAATTTCATGTATACAATTGCACA
1 AAATCAAAATTTCATATATAAAATTGCACA
3621347 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTGCACA
Found at i:3628569 original size:55 final size:57
Alignment explanation
Indices: 3628473--3628582 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 57
3628463 AATCTGTTTG
* *
3628473 TATTTCAAATTTTTTTTACTTTGGTTTTCTGTTTTGATGTACTTCTAATATATAGGA
1 TATTTCAAATTTTCTTTACTTTGGTTTTCTGTTTTGATGTACTCCTAATATATAGGA
* * *
3628530 TATTTCAAA-TTTCTTTGCTCTT-GTTTT-TGTTTTGCTGTACTCCTGATATATAG
1 TATTTCAAATTTTCTTTACT-TTGGTTTTCTGTTTTGATGTACTCCTAATATATAG
3628583 AAGTTAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 23 0.49
56 13 0.28
57 11 0.23
ACGTcount: A:0.20, C:0.12, G:0.13, T:0.55
Consensus pattern (57 bp):
TATTTCAAATTTTCTTTACTTTGGTTTTCTGTTTTGATGTACTCCTAATATATAGGA
Found at i:3631347 original size:16 final size:17
Alignment explanation
Indices: 3631321--3631354 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
3631311 TGAGGAGGTA
3631321 TATATGGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
3631338 TATA-GGTTGTTTGAAT
1 TATATGGTTGTTTGAAT
3631354 T
1 T
3631355 CTCTCACTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (17 bp):
TATATGGTTGTTTGAAT
Found at i:3640410 original size:23 final size:23
Alignment explanation
Indices: 3640382--3640428 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3640372 TAGTGTTAGC
3640382 AGTTGTGGTCGAATTAGAGGCTT
1 AGTTGTGGTCGAATTAGAGGCTT
3640405 AGTTGTGGTCGAATTAGAGGCTT
1 AGTTGTGGTCGAATTAGAGGCTT
3640428 A
1 A
3640429 TATCTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (23 bp):
AGTTGTGGTCGAATTAGAGGCTT
Found at i:3641222 original size:24 final size:24
Alignment explanation
Indices: 3641195--3641249 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
3641185 TATAATTGAT
3641195 ATTGCATTTGACTT-TGTATATGAA
1 ATTGCATTTGA-TTCTGTATATGAA
3641219 ATTGCATTTGATTCTGTATATGAA
1 ATTGCATTTGATTCTGTATATGAA
3641243 ATTGCAT
1 ATTGCAT
3641250 CTATATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTGCATTTGATTCTGTATATGAA
Found at i:3642443 original size:21 final size:22
Alignment explanation
Indices: 3642405--3642446 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3642395 TTGTTAGGAT
3642405 TTAAATAATATAATTTTATAAA
1 TTAAATAATATAATTTTATAAA
*
3642427 TTAAATAA-ATTATTTTATAA
1 TTAAATAATATAATTTTATAA
3642447 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATAATATAATTTTATAAA
Found at i:3643949 original size:2 final size:2
Alignment explanation
Indices: 3643942--3643968 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3643932 TTAAAACCAA
3643942 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3643969 ACTGGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3644600 original size:2 final size:2
Alignment explanation
Indices: 3644593--3644620 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3644583 AGTTCTAACT
3644593 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3644621 AATGGGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3650373 original size:23 final size:25
Alignment explanation
Indices: 3650347--3650393 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
3650337 TATCATTCAT
*
3650347 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
3650370 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
3650394 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:3650715 original size:46 final size:46
Alignment explanation
Indices: 3650655--3650776 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
3650645 TTTGACGTGA
* * * *
3650655 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
3650701 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
3650747 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
3650777 ACACAGGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:3650796 original size:38 final size:38
Alignment explanation
Indices: 3650745--3650817 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
3650735 TTCATGTCAC
3650745 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
3650783 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
3650818 TTTCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:3658933 original size:27 final size:27
Alignment explanation
Indices: 3658873--3658933 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
3658863 GGGGATCCTT
*
3658873 GGTAGGTTGTGAACTAGTGGTTTGCCA
1 GGTAGGTTGTGAACTAGTGGTTTGCAA
* *
3658900 GGCAGGTTTTGAACT-G-GGTGTTCGCAA
1 GGTAGGTTGTGAACTAGTGGT-TT-GCAA
3658927 GGTAGGT
1 GGTAGGT
3658934 CATGAGCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.11
26 3 0.11
27 22 0.79
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.31
Consensus pattern (27 bp):
GGTAGGTTGTGAACTAGTGGTTTGCAA
Found at i:3669186 original size:39 final size:39
Alignment explanation
Indices: 3669115--3669189 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
3669105 GATGTTTTTA
* *
3669115 AGTATTGTGACATATGCTTAAATGTCATGTGATTATATG
1 AGTATTGTGACATATGCTTAAATATCAGGTGATTATATG
* ** *
3669154 AGTATTGTGATATATGCTTGTATATTAGGTGATTAT
1 AGTATTGTGACATATGCTTAAATATCAGGTGATTAT
3669190 GTGTAATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.44
Consensus pattern (39 bp):
AGTATTGTGACATATGCTTAAATATCAGGTGATTATATG
Found at i:3673489 original size:13 final size:13
Alignment explanation
Indices: 3673471--3673509 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
3673461 ATAATTTAAT
3673471 TTAATTAATTATG
1 TTAATTAATTATG
*
3673484 TTAATTAATTAAG
1 TTAATTAATTATG
3673497 TTAATTTAATTAT
1 TTAA-TTAATTAT
3673510 TTTTTCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (13 bp):
TTAATTAATTATG
Found at i:3675116 original size:30 final size:30
Alignment explanation
Indices: 3675059--3675148 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
3675049 CGAAAAAGAT
*
3675059 AGCAAAACAAAATCCAAGTCC-AAAGTTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
3675088 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
3675118 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
1 AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
3675148 A
1 A
3675149 ACCATACAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 20 0.34
30 39 0.66
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.13
Consensus pattern (30 bp):
AGCAAAACAAAGTCCAAGTCCAAAAGTTAA
Found at i:3675904 original size:18 final size:18
Alignment explanation
Indices: 3675877--3675911 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3675867 TTTAGAATCC
3675877 TAGGCCCACATGCCCGTA
1 TAGGCCCACATGCCCGTA
*
3675895 TAGGCTCACATGCCCGT
1 TAGGCCCACATGCCCGT
3675912 TTGGGCCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (18 bp):
TAGGCCCACATGCCCGTA
Found at i:3676661 original size:6 final size:6
Alignment explanation
Indices: 3676650--3676683 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
3676640 GACAATAATA
* *
3676650 AAAAAT AAAAAT AAAGAT AGAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
3676684 TTCATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:3676665 original size:25 final size:24
Alignment explanation
Indices: 3676637--3676683 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
3676627 GAGAAAAAGA
3676637 AAAGACA-ATAATAAAAAATAAAAAT
1 AAAGACAGA-AAT-AAAAATAAAAAT
*
3676662 AAAGATAGAAATAAAAATAAAA
1 AAAGACAGAAATAAAAATAAAA
3676684 TTCATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 9 0.45
26 1 0.05
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAGACAGAAATAAAAATAAAAAT
Found at i:3676846 original size:19 final size:19
Alignment explanation
Indices: 3676822--3676858 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3676812 ATAGGACCTC
3676822 CAGCCAATCCAAACTCTTT
1 CAGCCAATCCAAACTCTTT
3676841 CAGCCAATCCAAACTCTT
1 CAGCCAATCCAAACTCTT
3676859 ACCACTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.24
Consensus pattern (19 bp):
CAGCCAATCCAAACTCTTT
Found at i:3683570 original size:13 final size:13
Alignment explanation
Indices: 3683552--3683576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3683542 CTCGGTAGGG
3683552 ACACGCCTGTGTA
1 ACACGCCTGTGTA
3683565 ACACGCCTGTGT
1 ACACGCCTGTGT
3683577 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
ACACGCCTGTGTA
Found at i:3688242 original size:16 final size:16
Alignment explanation
Indices: 3688221--3688413 Score: 56
Period size: 20 Copynumber: 11.1 Consensus size: 16
3688211 TTAATCACTT
3688221 TAATATTAAATTAATA
1 TAATATTAAATTAATA
3688237 TAATATTTATTAAGTTAA-A
1 TAATA-TTA--AA-TTAATA
*
3688256 TATAGATTAAATTTAATA
1 TA-ATATTAAA-TTAATA
3688274 TTAAATATT--ATTAATA
1 -T-AATATTAAATTAATA
* * * *
3688290 GAATGTTTATATATAAGA
1 TAAT-ATTAAAT-TAATA
* *
3688308 TAAATGTTAAATTTAATT
1 T-AATATTAAA-TTAATA
3688326 TAATATTAAGA-TAATCA
1 TAATATTAA-ATTAAT-A
3688343 CTTTAATATTAAATTAATA
1 ---TAATATTAAATTAATA
* *
3688362 AAATATT--ATTAAGA
1 TAATATTAAATTAATA
3688376 TAAGTATTAAATTAAATA
1 TAA-TATTAAATT-AATA
*
3688394 TTAAACTATTAAAATAATA
1 -T-AA-TATTAAATTAATA
3688413 T
1 T
3688414 TATTTTTGGA
Statistics
Matches: 132, Mismatches: 19, Indels: 50
0.66 0.09 0.25
Matches are distributed among these distances:
14 11 0.08
15 6 0.05
16 21 0.16
17 22 0.17
18 18 0.14
19 24 0.18
20 30 0.23
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:3688547 original size:21 final size:22
Alignment explanation
Indices: 3688511--3688552 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
3688501 CAATCGCCGC
3688511 CAGCCACCGGGGCACCACCGTTG
1 CAGCCACC-GGGCACCACCGTTG
3688534 CAGCCACC-GGCACCACCGT
1 CAGCCACCGGGCACCACCGT
3688553 GTCCAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.19, C:0.48, G:0.26, T:0.07
Consensus pattern (22 bp):
CAGCCACCGGGCACCACCGTTG
Found at i:3689169 original size:3 final size:3
Alignment explanation
Indices: 3689161--3689256 Score: 192
Period size: 3 Copynumber: 32.0 Consensus size: 3
3689151 TGAATGGCTT
3689161 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3689209 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3689257 AAGGTGCTTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3692108 original size:12 final size:12
Alignment explanation
Indices: 3692072--3692114 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
3692062 CAATAAAAAA
3692072 TATTATTTTTATT
1 TATTA-TTTTATT
* *
3692085 TAATA-CTTATT
1 TATTATTTTATT
3692096 TATTATTTTATT
1 TATTATTTTATT
3692108 TATTATT
1 TATTATT
3692115 CAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:3696480 original size:436 final size:424
Alignment explanation
Indices: 3695661--3696496 Score: 1091
Period size: 436 Copynumber: 1.9 Consensus size: 424
3695651 TAGTTGATAA
* * * * * *
3695661 AATCTTATATATACTTAAAATTTTGATTGATTTGATGTCATCTATAATCGAGTTTTAACTCAGTT
1 AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
* * * *
3695726 ATAAAGTTACAAAAAATCTCTTATTTGTACAAAGCAATAGGTATTATTTTAAGGGTAATTTTAGT
66 ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCAGT
* * *
3695791 TTTTCATATAAAATTTAGAACAAATAATTTTACCTAAACGGGAGTTGAACCCAAAACATTATAAT
131 TTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAACCCAAAACATTATAAT
* * **
3695856 TTCAACAAAAGTAATATAATAACCACCAACTCAATAATGTTAACTAATACTATTATAGTGCTTTT
196 TTCAACAAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTATTATAGCACTTTT
* ** * **
3695921 GTCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCGTGTATCTAAAAATTGAAA
261 ATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAA
3695986 ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
326 ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
3696051 TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
391 TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
* * *
3696085 AATCTAATATCTAGTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAATTCAGTT
1 AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
* * * *
3696150 ATAAACTTACCAAAAGTCTCTTATTTATACAAAGCAATAGATATTATTTTGAGGGTAATTTCACT
66 ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCA-G
* * * *
3696215 TTTTTTATATAAAATTTAGAATAAATACTTTTA-ATTAACGGGAATTAAATCCAAAAAGTTACGA
130 TTTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAA-CC---------C-A
* * * * * *
3696279 TAAACTTTATGATTTCAACTAAAGCAATATAATAGCTACCAACTCAACAATGTTAACTAATATTA
184 -AAACATTATAATTTCAACAAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTA
* * * *
3696344 TTATAGCACTTTTATCTTTTTATACTTTTATATATTTTTTAAATAAAAAATTAAATACCACGTAT
248 TTATAGCACTTTTATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTAT
* * * *
3696409 CCAAAAATCAAAAACATGTTTAATAAATTTTATATACAAGTTTTTTATCAGTCCACTTA-TGATT
313 CCAAAAATCAAAAACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTG-TT
*
3696473 TTTGTTGAATAAATTTTAAAAGAA
377 ATTGTTGAATAAATTTTAAAAGAA
3696497 AATGTTTTAT
Statistics
Matches: 349, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
424 124 0.36
425 32 0.09
434 1 0.00
435 3 0.01
436 189 0.54
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.39
Consensus pattern (424 bp):
AATCTAATATATACTTAAAATTTTGATTGAGTTGATGACATCCATAATCAAGTTCTAACTCAGTT
ATAAACTTACAAAAAATCTCTTATTTATACAAAGCAATAGATATTATTTTAAGGGTAATTTCAGT
TTTTCATATAAAATTTAGAACAAATAATTTTACATAAACGGGAATTAAACCCAAAACATTATAAT
TTCAACAAAAGCAATATAATAACCACCAACTCAACAATGTTAACTAATACTATTATAGCACTTTT
ATCTTTTTATACTTTTATATAATCTTTAAATAAAAAATCAAACACCACGTATCCAAAAATCAAAA
ACATGTTTAATAAATTTTATATACAAGCTTTTTACCACTCCACCTATTGTTATTGTTGAATAAAT
TTTAAAAGAATTTTTTTTTTCTACCCAATGACAT
Found at i:3698220 original size:77 final size:77
Alignment explanation
Indices: 3698093--3698246 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
3698083 AGGATCACTT
* * * *
3698093 GTTGTAAGTGTTTGAAGATAGTGGATACTTTTCACTGAGCTAGACTCAGCAAACGTAGAAAAATT
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
3698158 GAACAACATAAA
66 GAACAACATAAA
* *
3698170 GTTGTAAGTGTTTGAAGGTAGTGGATACGTCTCACTAAGCTAGCCTCAGCAAACGTAGAAAAACT
1 GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
3698235 GAACAACATAAA
66 GAACAACATAAA
3698247 CAAACTTTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (77 bp):
GTTGTAAGTGTTTGAAGATAGTGGATACGTCTCACTAAGCTAGACTCAGCAAACGTAGAAAAACT
GAACAACATAAA
Found at i:3700321 original size:13 final size:13
Alignment explanation
Indices: 3700287--3700328 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
3700277 CAACAAAAGT
*
3700287 ATATAAAACTAAA
1 ATATAAAAGTAAA
*
3700300 A-AGAAAAGTAAA
1 ATATAAAAGTAAA
3700312 ATATAAAAGTAAA
1 ATATAAAAGTAAA
3700325 ATAT
1 ATAT
3700329 TTTCTACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (13 bp):
ATATAAAAGTAAA
Found at i:3703952 original size:33 final size:31
Alignment explanation
Indices: 3703867--3703955 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
3703857 TCCATAGAAT
* * * *
3703867 AGATACTCCGCTGGGATAGTAAACACAGAAT
1 AGATAGTCTGCTGGGATAGTAAACACAAAAA
* *
3703898 AGATAGTCTGTTAGGATAGTAAACACAAAAA
1 AGATAGTCTGCTGGGATAGTAAACACAAAAA
*
3703929 AGTAATAGTCTGCTGGGACAGTAAACA
1 AG--ATAGTCTGCTGGGATAGTAAACA
3703956 TAAATAGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 27 0.57
33 20 0.43
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (31 bp):
AGATAGTCTGCTGGGATAGTAAACACAAAAA
Found at i:3705469 original size:27 final size:27
Alignment explanation
Indices: 3705439--3705698 Score: 286
Period size: 27 Copynumber: 9.6 Consensus size: 27
3705429 TTAGTTTACC
3705439 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
3705466 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3705493 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
3705520 AAATTACCGAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3705547 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * *
3705574 AAATTACTAAAATAACTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
3705601 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
3705628 AAATTACAAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
3705655 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
3705682 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
3705699 TCGACCTATA
Statistics
Matches: 196, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:3705504 original size:54 final size:54
Alignment explanation
Indices: 3705439--3705699 Score: 351
Period size: 54 Copynumber: 4.8 Consensus size: 54
3705429 TTAGTTTACC
* *
3705439 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
* ** *
3705493 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
* * *
3705547 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATAACTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
* * * ** * *
3705601 AAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
* * *
3705655 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
3705700 CGACCTATAA
Statistics
Matches: 180, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
Found at i:3705711 original size:81 final size:81
Alignment explanation
Indices: 3705439--3705806 Score: 253
Period size: 81 Copynumber: 4.5 Consensus size: 81
3705429 TTAGTTTACC
* * * * * * ** * *
3705439 AAATTACCAAAATACCC-CTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCGAAATACCCTC-GATTTATAAAATTACAAAAATACCCCTAATTTGTAAAATTACCAA
*
3705503 AATACCCCTGGTTTGTA
65 AATACCCCTGATTTGTA
* * * * *
3705520 AAATTACCGAAATACCCTTTG-TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAA
1 AAATTACCGAAATACCC-TCGATTTATAAAATTACAAAAATACCCCTAATTTGTAAAATTACCAA
*** *
3705584 AATAACTTTTG-TTTATA
65 AAT-ACCCCTGATTTGTA
* * * *
3705601 AAATTACCAAAATACCC-CTAGTTTGTAAAATTACAAAAATACCCCTAATTTGTGAAATTACCAA
1 AAATTACCGAAATACCCTCGA-TTTATAAAATTACAAAAATACCCCTAATTTGTAAAATTACCAA
*
3705665 AATACCCCTGATTTGTG
65 AATACCCCTGATTTGTA
* ** *** * *
3705682 AAATTACTGAAATACCCTCGACCTATAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCGAAATACCCTCGATTTATAAAATTACAAAAATACCCCT-AATTTGTAAAATTACCAA
* * **
3705746 AGTACCCTTGATTTACA
65 AATACCCCTGATTTGTA
* ** * **
3705763 GAATTACC-ATTTTACCCTCGATTTACAAAATTACCGAAATACCC
1 AAATTACCGA-AATACCCTCGATTTATAAAATTACAAAAATACCC
3705807 TTGTAGGGTA
Statistics
Matches: 222, Mismatches: 55, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
80 9 0.04
81 204 0.92
82 9 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCGATTTATAAAATTACAAAAATACCCCTAATTTGTAAAATTACCAAA
ATACCCCTGATTTGTA
Found at i:3705713 original size:54 final size:53
Alignment explanation
Indices: 3705439--3705771 Score: 321
Period size: 54 Copynumber: 6.2 Consensus size: 53
3705429 TTAGTTTACC
* *
3705439 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTT-GTTTATA
* * ** *
3705493 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC-TTGTTTATA
**
3705547 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATAACTTTTGTTTATA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAAT-ACCCTTGTTTATA
* ** * *
3705601 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACAAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATA-CCCTTGTTTATA
* * * **
3705655 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTG-TTTATA
*** * * * *
3705709 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTTG-TTTATA
*
3705763 GAATTACCA
1 AAATTACCA
3705772 TTTTACCCTC
Statistics
Matches: 228, Mismatches: 44, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
53 9 0.04
54 214 0.94
55 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGTTTATA
Found at i:3705807 original size:27 final size:27
Alignment explanation
Indices: 3705439--3705807 Score: 214
Period size: 27 Copynumber: 13.7 Consensus size: 27
3705429 TTAGTTTACC
* *
3705439 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * * *
3705466 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
3705493 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
3705520 AAATTACCGAAATACCCTTTG-TTTACA
1 AAATTACCAAAATACCC-TCGATTTATA
* *
3705547 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* ** *
3705574 AAATTACTAAAATAACTTTTG-TTTATA
1 AAATTACCAAAAT-ACCCTCGATTTATA
* *
3705601 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * *
3705628 AAATTACAAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
* *
3705655 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
** **
3705682 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTATA
*** * *
3705709 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
3705736 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
3705763 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
3705790 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
3705808 TGTAGGGTAG
Statistics
Matches: 269, Mismatches: 61, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.01
27 262 0.97
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:3705827 original size:27 final size:27
Alignment explanation
Indices: 3705791--3705983 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
3705781 CGATTTACAA
3705791 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
3705818 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
3705845 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
3705872 AATTACCGAAATA-CCTCTATAGGGTGG
1 AATTACCGAAATACCCT-TGTAGGGTAG
3705899 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
3705926 AATTACTAAAATACCCCTGTAGGATGG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
3705953 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
3705979 AATTA
1 AATTA
3705984 TCATTTTGCC
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 15 0.11
27 121 0.87
28 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:3706464 original size:22 final size:22
Alignment explanation
Indices: 3706412--3706476 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
3706402 TTAAAGCCTT
* *
3706412 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
3706434 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
3706456 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
3706477 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:3706665 original size:27 final size:27
Alignment explanation
Indices: 3706635--3706736 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
3706625 ATTCTGTTAA
* *
3706635 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
3706662 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
3706689 GTGGCTCTGCCACAATATCTGTATT-TG
1 GTGGCTCTGCCACAATATCTGT-TTCTG
* *
3706716 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
3706737 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.12
27 50 0.75
28 9 0.13
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:3706906 original size:19 final size:19
Alignment explanation
Indices: 3706884--3706941 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
3706874 TTCTGATTTT
3706884 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
3706903 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
3706915 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
3706934 TGATTCTG
1 TGATTCTG
3706942 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:3706911 original size:6 final size:6
Alignment explanation
Indices: 3706873--3706998 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
3706863 TTGCATTCAC
* * *
3706873 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
3706923 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
3706973 ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
3706999 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.06
6 71 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:3706989 original size:37 final size:31
Alignment explanation
Indices: 3706873--3706981 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
3706863 TTGCATTCAC
3706873 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
3706905 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
3706936 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
3706967 ATTCTGATTCTGATT
1 ATTCTGATTTTGATT
3706982 TTGATTCTAG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:3708953 original size:13 final size:13
Alignment explanation
Indices: 3708935--3708961 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3708925 AATAAATTCT
3708935 AACTCCATGGTAG
1 AACTCCATGGTAG
3708948 AACTCCATGGTAG
1 AACTCCATGGTAG
3708961 A
1 A
3708962 TTTAGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
AACTCCATGGTAG
Found at i:3711465 original size:29 final size:29
Alignment explanation
Indices: 3711424--3711485 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
3711414 TTTAATGTTT
3711424 AAGT-AAAGAAAATAGTTTAATAAAATGA
1 AAGTAAAAGAAAATAGTTTAATAAAATGA
3711452 AAGTAAAAGAAAATAGTTTAATAAAATGA
1 AAGTAAAAGAAAATAGTTTAATAAAATGA
3711481 AAGTA
1 AAGTA
3711486 GAGATAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGTAAAAGAAAATAGTTTAATAAAATGA
Found at i:3711494 original size:29 final size:28
Alignment explanation
Indices: 3711424--3711494 Score: 115
Period size: 29 Copynumber: 2.5 Consensus size: 28
3711414 TTTAATGTTT
3711424 AAGTAAAGAAAATAGTTTAATAAAATGA
1 AAGTAAAGAAAATAGTTTAATAAAATGA
3711452 AAGTAAAAGAAAATAGTTTAATAAAATGA
1 AAGT-AAAGAAAATAGTTTAATAAAATGA
*
3711481 AAGTAGAGATAAAT
1 AAGTAAAGA-AAAT
3711495 GTGAATTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 8 0.20
29 32 0.80
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (28 bp):
AAGTAAAGAAAATAGTTTAATAAAATGA
Found at i:3716816 original size:18 final size:18
Alignment explanation
Indices: 3716793--3716830 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3716783 TATATGAACT
*
3716793 ATTTTATAAA-TAATTTAA
1 ATTTTA-AAACTAAATTAA
3716811 ATTTTAAAACTAAATTAA
1 ATTTTAAAACTAAATTAA
3716829 AT
1 AT
3716831 CAGAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAAAACTAAATTAA
Found at i:3718912 original size:13 final size:13
Alignment explanation
Indices: 3718894--3718921 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3718884 AGAAAATACG
3718894 AGAGCATATATAA
1 AGAGCATATATAA
3718907 AGAGCATATATAA
1 AGAGCATATATAA
3718920 AG
1 AG
3718922 GGATGGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (13 bp):
AGAGCATATATAA
Found at i:3719553 original size:18 final size:20
Alignment explanation
Indices: 3719524--3719563 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3719514 TTGAATAATA
*
3719524 ATAAAAATATTT-TTATTTT
1 ATAAAAATATTTATCATTTT
3719543 ATAAAAA-ATTTATCATTTT
1 ATAAAAATATTTATCATTTT
3719562 AT
1 AT
3719564 TATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAAAATATTTATCATTTT
Found at i:3720064 original size:3 final size:3
Alignment explanation
Indices: 3720056--3720094 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3720046 TCTAATTACA
3720056 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3720095 TGATGCAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.