Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 106 of 132
Found at i:32264514 original size:6 final size:6
Alignment explanation
Indices: 32264478--32264550 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
32264468 GACTTTGATT
* * * *
32264478 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32264522 TCTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32264551 AATAATATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 14 0.26
6 34 0.63
7 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:32264515 original size:17 final size:16
Alignment explanation
Indices: 32264490--32264550 Score: 77
Period size: 17 Copynumber: 3.7 Consensus size: 16
32264480 TAAGTTTAAA
*
32264490 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
32264507 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
*
32264523 CTTAAATTTAAATTTAA
1 -TTAAATTTAAATTTAT
32264540 TTAAATTTAAA
1 TTAAATTTAAA
32264551 AATAATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
16 16 0.41
17 23 0.59
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:32264541 original size:11 final size:11
Alignment explanation
Indices: 32264478--32264549 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
32264468 GACTTTGATT
32264478 TTTAAGTTTAAA
1 TTTAA-TTTAAA
32264490 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
32264501 TTTTATTTAGA
1 TTTAATTTAAA
**
32264512 TTTAAATTTATC
1 TTT-AATTTAAA
*
32264524 TTAAATTTAAA
1 TTTAATTTAAA
32264535 TTTAA-TTAAA
1 TTTAATTTAAA
32264545 TTTAA
1 TTTAA
32264550 AAATAATATT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
10 10 0.21
11 28 0.58
12 10 0.21
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:32266456 original size:30 final size:30
Alignment explanation
Indices: 32266421--32266760 Score: 309
Period size: 30 Copynumber: 11.4 Consensus size: 30
32266411 CCCTAAATTG
* *
32266421 TCTAAAAATTATATTTTGATCCTAAAACTT
1 TCTAAAAATTATATTTTGACCCCAAAACTT
*
32266451 TCTAAAAATTACATTTTGACCCCAAAACTTT
1 TCTAAAAATTATATTTTGACCCCAAAAC-TT
32266482 TCT-AAAATTATATTTTGACCCCAAAACTT
1 TCTAAAAATTATATTTTGACCCCAAAACTT
*
32266511 TCTAAAAATTACATTTTGACCCCAAAACTT
1 TCTAAAAATTATATTTTGACCCCAAAACTT
* * *
32266541 T-TCCAAAATTATATTTTGAACCCTAAACTT
1 TCT-AAAAATTATATTTTGACCCCAAAACTT
* **
32266571 TCTAAAAATTACATTTTGACCCCTTAACTT
1 TCTAAAAATTATATTTTGACCCCAAAACTT
* * *
32266601 T-TCCAAAATTATATTTTAACCCCAAAAATT
1 TCT-AAAAATTATATTTTGACCCCAAAACTT
* ** *
32266631 T-TCCAAAATTATATTTAAACCCTAAAACTT
1 TCT-AAAAATTATATTTTGACCCCAAAACTT
* * * * *
32266661 TTTAGAAATTACATTTTAACCCTAAAACTT
1 TCTAAAAATTATATTTTGACCCCAAAACTT
* *
32266691 T-TCCAAAATCATATTTTGA-CCCAAAA-TT
1 TCT-AAAAATTATATTTTGACCCCAAAACTT
* * * *
32266719 TCCAAAAAAATTGTATTTTTACCCCGAAACTT
1 T-C-TAAAAATTATATTTTGACCCCAAAACTT
32266751 TC-AAAAATTA
1 TCTAAAAATTA
32266761 CCATTTTACC
Statistics
Matches: 259, Mismatches: 39, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.01
29 21 0.08
30 218 0.84
31 14 0.05
32 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (30 bp):
TCTAAAAATTATATTTTGACCCCAAAACTT
Found at i:32266515 original size:60 final size:60
Alignment explanation
Indices: 32266425--32266772 Score: 361
Period size: 60 Copynumber: 5.8 Consensus size: 60
32266415 AAATTGTCTA
* * *
32266425 AAAATTATATTTTGATCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCT
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
32266485 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* * **
32266545 AAAATTATATTTTGAACCCTAAACTTTCTAAAAATTACATTTTGACCCCTTAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* * * * ** * *
32266605 AAAATTATATTTTAACCCCAAAAATTT-TCCAAAATTATATTTAAACCCTAAAACTTTT-T
1 AAAATTATATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTGACCCCAAAACTTTTCC
* * * * * *
32266664 AGAAATTACATTTTAACCCTAAAACTTT-TCCAAAATCATATTTTGA-CCCAAAA--TTTCC
1 A-AAATTATATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
32266722 AAAAAAATTGTATTTTTACCCCGAAACTTTC-AAAAATTACCATTTT-ACCCC
1 ---AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTA-CATTTTGACCCC
32266773 CCCAAACTTC
Statistics
Matches: 244, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
57 3 0.01
59 15 0.06
60 225 0.92
61 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:32266579 original size:90 final size:89
Alignment explanation
Indices: 32266424--32266772 Score: 343
Period size: 90 Copynumber: 3.9 Consensus size: 89
32266414 TAAATTGTCT
* * * * * *
32266424 AAAAATTATATTTTGATCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCT-AAA
1 AAAAATTATATTTTGACCCCAAAACTTTC-CAAAATTATATTTTGAACCCTAAAC-TTTCTAAAA
*
32266488 ATTATATTTTGACCCCAAAAC-TTTC
64 ATTACATTTTGACCCCAAAACTTTTC
*
32266513 TAAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGAACCCTAAACTTTCTAAAA
1 -AAAAATTATATTTTGACCCCAAAAC-TTTCCAAAATTATATTTTGAACCCTAAACTTTCTAAAA
**
32266578 ATTACATTTTGACCCCTTAACTTTTC
64 ATTACATTTTGACCCCAAAACTTTTC
* * * * * *
32266604 CAAAATTATATTTTAACCCCAAAAATTTTCCAAAATTATA-TTTAAACCCTAAAACTTTTTAGAA
1 AAAAATTATATTTTGACCCC-AAAACTTTCCAAAATTATATTTTGAACCCT-AAACTTTCTAAAA
* *
32266668 ATTACATTTTAACCCTAAAACTTTTC
64 ATTACATTTTGACCCCAAAACTTTTC
* * * * * *
32266694 CAAAATCATATTTTGA-CCCAAAA-TTTCCAAAAAAATTGTATTTTTACCCCGAAACTTTC-AAA
1 AAAAATTATATTTTGACCCCAAAACTTTCC---AAAATTATATTTTGAACCCTAAACTTTCTAAA
32266756 AATTACCATTTT-ACCCC
63 AATTA-CATTTTGACCCC
32266773 CCCAAACTTC
Statistics
Matches: 219, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
87 5 0.02
88 4 0.02
89 28 0.13
90 163 0.74
91 19 0.09
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (89 bp):
AAAAATTATATTTTGACCCCAAAACTTTCCAAAATTATATTTTGAACCCTAAACTTTCTAAAAAT
TACATTTTGACCCCAAAACTTTTC
Found at i:32266795 original size:30 final size:28
Alignment explanation
Indices: 32266761--32266855 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 28
32266751 TCAAAAATTA
32266761 CCATTTTACCCCCCCAAACTTCCCTAAATC
1 CCATTTTA--CCCCCAAACTTCCCTAAATC
* * ** *
32266791 CCATTTTAAACCCC-AATTTTACTAAAATTA
1 CCATTTT-ACCCCCAAACTTCCCT-AAA-TC
*
32266821 CCATTTTACCCTCAAACTTCCCTAAATC
1 CCATTTTACCCCCAAACTTCCCTAAATC
32266849 CCATTTT
1 CCATTTT
32266856 TAACCCTGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
28 14 0.28
29 14 0.28
30 21 0.42
31 1 0.02
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (28 bp):
CCATTTTACCCCCAAACTTCCCTAAATC
Found at i:32266862 original size:30 final size:30
Alignment explanation
Indices: 32266775--32266862 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
32266765 TTTACCCCCC
*
32266775 CAAACTTCCCTAAATCCCATTTTAAACCC-
1 CAAACTTCCCTAAATCCCATTTTTAACCCT
* ** *
32266804 C-AATTTTACTAAAATTACCA-TTTT-ACCCT
1 CAAACTTCCCT-AAA-TCCCATTTTTAACCCT
32266833 CAAACTTCCCTAAATCCCATTTTTAACCCT
1 CAAACTTCCCTAAATCCCATTTTTAACCCT
32266863 GATTTCACCA
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
28 14 0.32
29 15 0.34
30 15 0.34
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (30 bp):
CAAACTTCCCTAAATCCCATTTTTAACCCT
Found at i:32266892 original size:59 final size:58
Alignment explanation
Indices: 32266754--32266892 Score: 188
Period size: 58 Copynumber: 2.3 Consensus size: 58
32266744 GAAACTTTCA
* * *
32266754 AAAATTACCATTTTACCCCCCCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTTACT
1 AAAATTACCATTTTA--CCCTCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
* **
32266814 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
*
32266872 AAAATCTACCATTTTGCCCTC
1 AAAAT-TACCATTTTACCCTC
32266893 GGGTATCCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
58 42 0.59
59 14 0.20
60 15 0.21
ACGTcount: A:0.32, C:0.34, G:0.01, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
Found at i:32278817 original size:68 final size:68
Alignment explanation
Indices: 32278706--32279245 Score: 911
Period size: 68 Copynumber: 7.9 Consensus size: 68
32278696 ATCATTTCCA
* *
32278706 ATCCGCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32278771 GTC
66 GTC
* * *
32278774 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32278839 GTC
66 GTC
* *
32278842 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTATTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32278907 GTC
66 GTC
* *
32278910 ATCCCCATGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32278975 GTC
66 GTC
*
32278978 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32279043 GTC
66 GTC
*
32279046 ATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
32279111 TGTC
65 CGTC
* *
32279115 ATCCTCTTGAAATTGAAGTAGAGTGGATAA-ATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32279179 GTC
66 GTC
* * *
32279182 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32279246 GATCATTTCC
Statistics
Matches: 449, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
67 64 0.14
68 321 0.71
69 64 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:32278908 original size:136 final size:136
Alignment explanation
Indices: 32278630--32279245 Score: 957
Period size: 136 Copynumber: 4.5 Consensus size: 136
32278620 ATCATTTCCA
* * *
32278630 ATCCACTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCT-TCTCTGAAATTGAAGTAGGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTT-TATCTCTGAAATTGAAGTAAGAGCAA
* * *
32278694 AGATCATTTCCAATCCGCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGA
65 CG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGA
32278759 AGTAAGAGCAACGTC
122 AGTAAGAGCAACGTC
* * *
32278774 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
* *
32278839 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTATTTATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGC
32278904 AACGTC
131 AACGTC
* *
32278910 ATCCCCATGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
32278975 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGC
32279040 AACGTC
131 AACGTC
*
32279046 ATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* *
32279111 TGTCATCCTCTTGAAATTGAAGTAGAGTGGATAA-ATGTCTTTATCTCTGAAATTGAAGTAAGAG
65 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAG
32279175 CAACGTC
130 CAACGTC
* * *
32279182 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32279246 GATCATTTCC
Statistics
Matches: 447, Mismatches: 23, Indels: 13
0.93 0.05 0.03
Matches are distributed among these distances:
135 38 0.09
136 270 0.60
137 73 0.16
140 1 0.00
141 1 0.00
143 3 0.01
144 61 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (136 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGC
AACGTC
Found at i:32278993 original size:204 final size:204
Alignment explanation
Indices: 32278630--32279245 Score: 957
Period size: 204 Copynumber: 3.0 Consensus size: 204
32278620 ATCATTTCCA
* *
32278630 ATCCACTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCT-TCTCTGAAATTGAAGTAGGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTT-TATCTCTGAAATTGAAGTAAGAGCAA
*
32278694 AGATCATTTCCAATCCGCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGA
65 AG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
* *
32278759 AGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAAT
122 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAAT
32278824 TGAAGTAAGAGCAACGTC
187 TGAAGTAAGAGCAACGTC
* *
32278842 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTATTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
* *
32278907 GTCATCCCCATGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
*
32278972 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAG
131 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAG
32279037 AGCAACGTC
196 AGCAACGTC
* *
32279046 ATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTTTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * *
32279111 TGTCATCCTCTTGAAATTGAAGTAGAGTGGATAA-ATGTCTTTATCTCTGAAATTGAAGTAAGAG
65 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
* * * *
32279175 CAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAA
130 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
32279240 GAGCAA
195 GAGCAA
32279246 GATCATTTCC
Statistics
Matches: 380, Mismatches: 22, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
204 243 0.64
205 71 0.19
208 1 0.00
209 1 0.00
211 4 0.01
212 60 0.16
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (204 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAG
AGCAACGTC
Found at i:32279675 original size:28 final size:27
Alignment explanation
Indices: 32279638--32279737 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
32279628 GACTTTGATT
32279638 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAA-TTTAAATTAATTTTAAATTTTA
* *
32279666 TTTAGATTTAAATTTATCTTAAA-TTTA
1 TTTA-ATTTAAATTAATTTTAAATTTTA
* * *
32279693 TCTTAAATTTAAATTTACTTTAAATTTAAA
1 T-TT-AATTTAAATTAATTTTAAATTT-TA
*
32279723 TTTAATTTAATTTAA
1 TTTAATTTAAATTAA
32279738 AAATAATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
27 5 0.08
28 47 0.78
29 6 0.10
30 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTAATTTAAATTAATTTTAAATTTTA
Found at i:32279691 original size:17 final size:17
Alignment explanation
Indices: 32279684--32279738 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
32279674 TAAATTTATC
32279684 TTAAATTTATCTTAAAT
1 TTAAATTTATCTTAAAT
32279701 TTAAATTTA-CTTTAAAT
1 TTAAATTTATC-TTAAAT
32279718 TTAAATTTAAT-TT-AAT
1 TTAAATTT-ATCTTAAAT
32279734 TTAAA
1 TTAAA
32279739 AATAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.26
17 25 0.71
18 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTTATCTTAAAT
Found at i:32281639 original size:30 final size:30
Alignment explanation
Indices: 32281604--32281916 Score: 220
Period size: 30 Copynumber: 10.5 Consensus size: 30
32281594 AAATTATCCA
* *
32281604 AAAATTACATTTTAACCCTAAAAGTTTCTA
1 AAAATTACATTTTAACCCTAAAACTTTCTC
32281634 AAAATTACATTTTAACCCTAAAACTTT-TC
1 AAAATTACATTTTAACCCTAAAACTTTCTC
* *
32281663 TAAAATTATATTTTAACGCCT--AACTTTCTA
1 -AAAATTACATTTTAAC-CCTAAAACTTTCTC
* * *
32281693 AAAATTACATTTTGACCCCAAAAATTT-TCC
1 AAAATTACATTTTAACCCTAAAACTTTCT-C
*
32281723 AAAATTATATTTTAACCCCT-AAACTTT-TCC
1 AAAATTACATTTTAA-CCCTAAAACTTTCT-C
* * *
32281753 AAAATTATATTTAAACCCCAAAACTTT-TCC
1 AAAATTACATTTTAACCCTAAAACTTTCT-C
* * *
32281783 AAAGTTACATTTTGACCCTAAAACTTTTTC
1 AAAATTACATTTTAACCCTAAAACTTTCTC
*
32281813 AAAATTACATTTTGA-CCTCAAAACTTT-TCC
1 AAAATTACATTTTAACCCT-AAAACTTTCT-C
* * * *
32281843 AAAATCATATTTTGACCC-CAAA-TTTC-C
1 AAAATTACATTTTAACCCTAAAACTTTCTC
* ** *
32281870 AAAAAAATTACATTTTTACCCCGAAACTTTC-A
1 ---AAAATTACATTTTAACCCTAAAACTTTCTC
32281902 AAAATTACCATTTTA
1 AAAATTA-CATTTTA
32281917 CCCCCTCAAA
Statistics
Matches: 234, Mismatches: 30, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.00
28 5 0.02
29 39 0.17
30 173 0.74
31 12 0.05
32 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTAAAACTTTCTC
Found at i:32281781 original size:60 final size:59
Alignment explanation
Indices: 32281604--32281952 Score: 296
Period size: 60 Copynumber: 5.8 Consensus size: 59
32281594 AAATTATCCA
* * * * *
32281604 AAAATTACATTTTAA-CCCTAAAAGTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTATATTTTAACCCCT-AAACTTTC-CAAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
32281664 AAAATTATATTTTAACGCCT-AACTTTCTAAAAATTACATTTTGACCCCAAAAATTTTCC
1 AAAATTATATTTTAACCCCTAAACTTTC-CAAAATTACATTTTAACCCCAAAACTTTTCC
* *
32281723 AAAATTATATTTTAACCCCTAAACTTTTCCAAAATTATATTTAAACCCCAAAACTTTTCC
1 AAAATTATATTTTAACCCCTAAAC-TTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
* * * * * *
32281783 AAAGTTACATTTTGA-CCCTAAAACTTTTTCAAAATTACATTTTGACCTCAAAACTTTTCC
1 AAAATTATATTTTAACCCCT-AAAC-TTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
* * * * *
32281843 AAAATCATATTTTGACCCC-AAA-TTTCCAAAAAAATTACATTTTTACCCCGAAAC-TTTCA
1 AAAATTATATTTTAACCCCTAAACTTTCC---AAAATTACATTTTAACCCCAAAACTTTTCC
* * * * **
32281902 AAAATTACCATTTTACCCCCTCAAACTTCCCTAAATCCCATTTTAAACCCC
1 AAAATTA-TATTTTAACCCCT-AAACTTTCCAAAATTACATTTT-AACCCC
32281953 GATTTCACTA
Statistics
Matches: 238, Mismatches: 38, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
57 4 0.02
59 70 0.29
60 142 0.60
61 15 0.06
62 3 0.01
63 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (59 bp):
AAAATTATATTTTAACCCCTAAACTTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:32281818 original size:90 final size:90
Alignment explanation
Indices: 32281603--32281929 Score: 317
Period size: 90 Copynumber: 3.6 Consensus size: 90
32281593 TAAATTATCC
* * * * *
32281603 AAAAATTACATTTTAACCCTAAAAGTTTCTAAAAATTACATTTTAA-CCCTAAAACTTTTCTAAA
1 AAAAATTACATTTTGACCCTAAAAATTTTTCAAAATTACATTTTAACCCCT-AAACTTTTCCAAA
* *
32281667 ATTATATTTTAACGCC-TAACTTTCT
65 ATTATATTTTAACCCCAAAACTTTCT
* * *
32281692 AAAAATTACATTTTGACCCCAAAAATTTTCCAAAATTATATTTTAACCCCTAAACTTTTCCAAAA
1 AAAAATTACATTTTGACCCTAAAAATTTTTCAAAATTACATTTTAACCCCTAAACTTTTCCAAAA
*
32281757 TTATATTTAAACCCCAAAACTTT-T
66 TTATATTTTAACCCCAAAACTTTCT
* * * * * *
32281781 CCAAAGTTACATTTTGACCCTAAAACTTTTTCAAAATTACATTTTGACCTCAAAACTTTTCCAAA
1 -AAAAATTACATTTTGACCCTAAAAATTTTTCAAAATTACATTTTAACCCCTAAACTTTTCCAAA
* * *
32281846 ATCATATTTTGACCCC-AAA-TTTCCAA
65 ATTATATTTTAACCCCAAAACTTT-C-T
* ** * *
32281872 AAAAATTACATTTTTACCC-CGAAA-CTTTCAAAAATTACCATTTTACCCCCTCAAACTT
1 AAAAATTACATTTTGACCCTAAAAATTTTTC-AAAATTA-CATTTTAACCCCT-AAACTT
32281930 CCCTAAATCC
Statistics
Matches: 194, Mismatches: 35, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
88 7 0.04
89 78 0.40
90 103 0.53
91 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.36
Consensus pattern (90 bp):
AAAAATTACATTTTGACCCTAAAAATTTTTCAAAATTACATTTTAACCCCTAAACTTTTCCAAAA
TTATATTTTAACCCCAAAACTTTCT
Found at i:32281943 original size:30 final size:28
Alignment explanation
Indices: 32281909--32282003 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 28
32281899 TCAAAAATTA
32281909 CCATTTTACCCCCTCAAACTTCCCTAAATC
1 CCATTTTA--CCCTCAAACTTCCCTAAATC
* * * *
32281939 CCATTTTAAACCC-C-GATTTCACTAAAATTA
1 CCATTTT--ACCCTCAAACTTCCCT-AAA-TC
*
32281969 CCATTTTACCCTTAAACTTCCCTAAATC
1 CCATTTTACCCTCAAACTTCCCTAAATC
32281997 CCATTTT
1 CCATTTT
32282004 TAACCCCGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
28 18 0.36
29 7 0.14
30 24 0.48
32 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.01, T:0.35
Consensus pattern (28 bp):
CCATTTTACCCTCAAACTTCCCTAAATC
Found at i:32281994 original size:58 final size:59
Alignment explanation
Indices: 32281902--32282039 Score: 215
Period size: 58 Copynumber: 2.3 Consensus size: 59
32281892 GAAACTTTCA
*
32281902 AAAATTACCATTTTACCCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTA-CCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* *
32281962 AAAATTACCATTTTA-CCCTTAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
32282020 AAAATATACCATTTTGCCCC
1 AAAAT-TACCATTTTACCCC
32282040 CGGTATCCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
58 45 0.62
59 9 0.12
60 18 0.25
ACGTcount: A:0.32, C:0.33, G:0.02, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:32289367 original size:140 final size:140
Alignment explanation
Indices: 32289115--32289396 Score: 564
Period size: 140 Copynumber: 2.0 Consensus size: 140
32289105 AATATACATT
32289115 AATTCATTTAGACGTATTTCGACCTGTTTCGATCAATATTAATAAGTATAAAATTATAATTTTTA
1 AATTCATTTAGACGTATTTCGACCTGTTTCGATCAATATTAATAAGTATAAAATTATAATTTTTA
32289180 AATTTATTTTAATAACTTTTTATTTGTTACATTTGCATTAAAAAATAAAAAAAATGTTATTAAAT
66 AATTTATTTTAATAACTTTTTATTTGTTACATTTGCATTAAAAAATAAAAAAAATGTTATTAAAT
32289245 CAAATTATTG
131 CAAATTATTG
32289255 AATTCATTTAGACGTATTTCGACCTGTTTCGATCAATATTAATAAGTATAAAATTATAATTTTTA
1 AATTCATTTAGACGTATTTCGACCTGTTTCGATCAATATTAATAAGTATAAAATTATAATTTTTA
32289320 AATTTATTTTAATAACTTTTTATTTGTTACATTTGCATTAAAAAATAAAAAAAATGTTATTAAAT
66 AATTTATTTTAATAACTTTTTATTTGTTACATTTGCATTAAAAAATAAAAAAAATGTTATTAAAT
32289385 CAAATTATTG
131 CAAATTATTG
32289395 AA
1 AA
32289397 CATAATTAGC
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (140 bp):
AATTCATTTAGACGTATTTCGACCTGTTTCGATCAATATTAATAAGTATAAAATTATAATTTTTA
AATTTATTTTAATAACTTTTTATTTGTTACATTTGCATTAAAAAATAAAAAAAATGTTATTAAAT
CAAATTATTG
Found at i:32293473 original size:30 final size:31
Alignment explanation
Indices: 32293437--32293503 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
32293427 GTCACATTTA
* *
32293437 ACAAAACAGCCACTCAACTT-T-GAAAATGTG
1 ACAAAACAGCCACTAAAATTATCGAAAA-GTG
*
32293467 ACAAAACAGTCACTAAAATTATCGAAAAGTG
1 ACAAAACAGCCACTAAAATTATCGAAAAGTG
32293498 ACAAAA
1 ACAAAA
32293504 TAGTCCTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.53
31 10 0.31
32 5 0.16
ACGTcount: A:0.51, C:0.19, G:0.12, T:0.18
Consensus pattern (31 bp):
ACAAAACAGCCACTAAAATTATCGAAAAGTG
Found at i:32294470 original size:31 final size:30
Alignment explanation
Indices: 32294427--32294500 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
32294417 ACAACAAGAG
* * *
32294427 GACTATTTTGTTA-CTTTTCGATAACTTTAAT
1 GACTGTTTTGTTATATTTTC-A-AACTTGAAT
* *
32294458 GACTGTTTTGTTATATTTTCAAAGTTGAGT
1 GACTGTTTTGTTATATTTTCAAACTTGAAT
32294488 GACTGTTTTGTTA
1 GACTGTTTTGTTA
32294501 AATGTAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.51
31 13 0.35
32 5 0.14
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.51
Consensus pattern (30 bp):
GACTGTTTTGTTATATTTTCAAACTTGAAT
Found at i:32295798 original size:2 final size:2
Alignment explanation
Indices: 32295793--32295849 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
32295783 ACACACACAC
32295793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
32295835 AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT A
32295850 GTTTAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32304066 original size:37 final size:37
Alignment explanation
Indices: 32303999--32304285 Score: 342
Period size: 37 Copynumber: 7.8 Consensus size: 37
32303989 GTTTTTGGAT
** * * * *
32303999 CACCGGCATAAAGCCTGCTAGGCACATAGCCCGAATA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * *
32304036 CACCTGCACGAAGTCTACTAGGCACATAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
32304073 CATCAGCACGAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
32304110 CACTGGCACGAAGCCTACTAGGCATACAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * *
32304147 CACCGACACTAAGCCTACTAGGCACACAGCTTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
*
32304184 CACCGGCACTAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * *
32304221 CATCGGCACAAAGCCTTCTAGGCACACAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* ** *
32304258 CA-TGGACATAAAGCCTACTAAGCACACA
1 CACCGG-CACGAAGCCTACTAGGCACACA
32304286 ACTTGTGTCG
Statistics
Matches: 220, Mismatches: 29, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
36 2 0.01
37 218 0.99
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.13
Consensus pattern (37 bp):
CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
Found at i:32305563 original size:30 final size:29
Alignment explanation
Indices: 32305516--32305773 Score: 182
Period size: 29 Copynumber: 8.8 Consensus size: 29
32305506 TTGGACTTAC
*
32305516 GGGGCAAAATGGTAATTTTTGGTGAAATT
1 GGGGTAAAATGGTAATTTTTGGTGAAATT
*
32305545 GGGGTCAAAAATGG-AA-TTTTGG-AAAATT
1 GGGGT--AAAATGGTAATTTTTGGTGAAATT
* *
32305573 CGGGGGTAAAATGGTCATTTTTGGTGAAATC
1 --GGGGTAAAATGGTAATTTTTGGTGAAATT
* *
32305604 GAGGTTAAAAATGG-AA-TTTTGG-GAAGTT
1 G-GGGT-AAAATGGTAATTTTTGGTGAAATT
* *
32305632 CAAGGGTAAAATGGTAATTTTTGGTGAAATC
1 --GGGGTAAAATGGTAATTTTTGGTGAAATT
*
32305663 GGGGTTAAAAATGG-AA-TTTTGG-GAAGTTT
1 GGGG-T-AAAATGGTAATTTTTGGTGAA-ATT
*
32305692 GGGGGTAAAATGGTAATTTTTGGTGAAATC
1 -GGGGTAAAATGGTAATTTTTGGTGAAATT
32305722 GGGGTTAAAATGG-AA-TTTT-G-GAAAGTTT
1 GGGG-TAAAATGGTAATTTTTGGTGAAA--TT
32305750 AGGGGTAAAATAGGTAATTTTTGG
1 -GGGGTAAAAT-GGTAATTTTTGG
32305774 AAGTTTTGGG
Statistics
Matches: 181, Mismatches: 19, Indels: 55
0.71 0.07 0.22
Matches are distributed among these distances:
26 4 0.02
27 1 0.01
28 44 0.24
29 48 0.27
30 47 0.26
31 36 0.20
32 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATT
Found at i:32305594 original size:59 final size:59
Alignment explanation
Indices: 32305516--32305773 Score: 383
Period size: 59 Copynumber: 4.4 Consensus size: 59
32305506 TTGGACTTAC
* * * * *
32305516 GGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAATTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * *
32305575 GGGGTAAAATGGTCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * **
32305634 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
32305693 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
32305751 GGGGTAAAATAGGTAATTTTTGG
1 GGGGTAAAAT-GGTAATTTTTGG
32305774 AAGTTTTGGG
Statistics
Matches: 182, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
58 31 0.17
59 151 0.83
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:32305754 original size:29 final size:29
Alignment explanation
Indices: 32305606--32305799 Score: 111
Period size: 30 Copynumber: 6.6 Consensus size: 29
32305596 GTGAAATCGA
* * *
32305606 GGTTAAAAATGGAATTTTGGGAAGTTCAAG
1 GGTT-AAAATGGAATTTTGGAAAGTTTAGG
*
32305636 GG-TAAAATGGTAATTTTTGGTGAAA---TCGG
1 GGTTAAAATGG-AA-TTTT-G-GAAAGTTTAGG
*
32305665 GGTTAAAAATGGAATTTTGGGAAGTTT-GG
1 GGTT-AAAATGGAATTTTGGAAAGTTTAGG
* *
32305694 GGGTAAAATGGTAATTTTTGGTGAAA---TCGG
1 GGTTAAAATGG-AA-TTTT-G-GAAAGTTTAGG
32305724 GGTTAAAATGGAATTTTGGAAAGTTTAGG
1 GGTTAAAATGGAATTTTGGAAAGTTTAGG
*
32305753 GG-TAAAATAGGTAATTTTTGG-AAGTTTTGG
1 GGTTAAAAT-GG-AA-TTTTGGAAAGTTTAGG
* *
32305783 GGTCAAAATGTAATTTT
1 GGTTAAAATGGAATTTT
32305800 CTAAAATTTT
Statistics
Matches: 131, Mismatches: 12, Indels: 44
0.70 0.06 0.24
Matches are distributed among these distances:
26 4 0.03
27 4 0.03
28 29 0.22
29 29 0.22
30 39 0.30
31 20 0.15
32 6 0.05
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.35
Consensus pattern (29 bp):
GGTTAAAATGGAATTTTGGAAAGTTTAGG
Found at i:32305778 original size:30 final size:29
Alignment explanation
Indices: 32305611--32305799 Score: 135
Period size: 29 Copynumber: 6.5 Consensus size: 29
32305601 ATCGAGGTTA
* * *
32305611 AAAATGG-AATTTTGGGAAGTTCAAGGGT
1 AAAATGGTAATTTTTGGAAGTTTAGGGGT
* *
32305639 AAAATGGTAATTTTTGGTGAA--ATCGGGGTT
1 AAAATGGTAATTTTT-G-GAAGTTTAGGGG-T
* *
32305669 AAAAATGG-AATTTTGGGAAGTTTGGGGGT
1 -AAAATGGTAATTTTTGGAAGTTTAGGGGT
* *
32305698 AAAATGGTAATTTTTGGTGAA--ATCGGGGTT
1 AAAATGGTAATTTTT-G-GAAGTTTAGGGG-T
32305728 AAAATGG-AA-TTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGG-AAGTTTAGGGGT
*
32305756 AAAATAGGTAATTTTTGGAAGTTTTGGGGT
1 AAAAT-GGTAATTTTTGGAAGTTTAGGGGT
32305786 CAAAAT-GTAATTTT
1 -AAAATGGTAATTTT
32305800 CTAAAATTTT
Statistics
Matches: 129, Mismatches: 14, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
26 1 0.01
27 3 0.02
28 27 0.21
29 39 0.30
30 35 0.27
31 24 0.19
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTTAGGGGT
Found at i:32305821 original size:118 final size:117
Alignment explanation
Indices: 32305521--32305808 Score: 384
Period size: 118 Copynumber: 2.4 Consensus size: 117
32305511 CTTACGGGGC
*
32305521 AAAATGGTAATTTTTGGTGAAATTGGGGTCAAAAATGGAATTTTGGAAAATTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATTGGGGTC-AAAATGGAATTTTGGAAAATTTGGGGGTAAAATG
* *
32305586 GTCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCAAGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGT
* * * *
32305639 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATTGGGG-TCAAAATGGAATTTTGGAAAATTTGGGGGTAAAATG
* * *
32305704 GTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGT
* * **
32305756 AAAATAGGTAATTTTT-G-GAAGTTTTGGGGTCAAAATGTAATTTTCTAAAATTT
1 AAAAT-GGTAATTTTTGGTGAA--ATTGGGGTCAAAATGGAATTTTGGAAAATTT
32305809 TAGGGTCAAA
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
116 3 0.02
117 49 0.33
118 95 0.64
119 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGTGAAATTGGGGTCAAAATGGAATTTTGGAAAATTTGGGGGTAAAATGG
TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAAGGGT
Found at i:32306984 original size:13 final size:13
Alignment explanation
Indices: 32306959--32307038 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
32306949 TTCTTTTGCT
*
32306959 TATTTATTTATTAT
1 TATTTA-TTATTAA
32306973 TATTTATTATTAA
1 TATTTATTATTAA
** *
32306986 TGGTCATTATTAA
1 TATTTATTATTAA
* * *
32306999 TAATTATTAATAC
1 TATTTATTATTAA
* * *
32307012 CATTCATTATTAG
1 TATTTATTATTAA
32307025 TATTTATTATTAA
1 TATTTATTATTAA
32307038 T
1 T
32307039 GCTATTAAAA
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
13 43 0.88
14 6 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:32307005 original size:26 final size:25
Alignment explanation
Indices: 32306966--32307039 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
32306956 GCTTATTTAT
*
32306966 TTATTATTATTTATTATTAATGGTCA
1 TTATTAATATTTATTATTAAT-GTCA
* *
32306992 TTATTAATAATTATTAATACCAT-TCA
1 TTATTAATATTTATTATTA--ATGTCA
*
32307018 TTATTAGTATTTATTATTAATG
1 TTATTAATATTTATTATTAATG
32307040 CTATTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
26 35 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTAATATTTATTATTAATGTCA
Found at i:32307789 original size:12 final size:13
Alignment explanation
Indices: 32307766--32307821 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
32307756 ACTTTGGACT
32307766 TTTTTAATTTAAA
1 TTTTTAATTTAAA
32307779 TTTTTAA-TTAAA
1 TTTTTAATTTAAA
*
32307791 TTTAAATTTATTTCAAA
1 TTT---TTAATTT-AAA
32307808 TATTTTAATTTAAA
1 T-TTTTAATTTAAA
32307822 ATGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.23
13 7 0.20
14 3 0.09
15 9 0.26
16 2 0.06
17 4 0.11
18 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTAATTTAAA
Found at i:32308561 original size:200 final size:200
Alignment explanation
Indices: 32308194--32308641 Score: 763
Period size: 200 Copynumber: 2.2 Consensus size: 200
32308184 TTCATTGACC
* * * ** ** *
32308194 TGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGCAACATTTGTTTTAATTCGCTTCTCTGG
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCAATTCGCTTCTCTGG
*
32308259 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTTTGGATCTTCTCAGGAAGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGGATCTTCTCAGGAAGCTAACCATTTTATT
*
32308324 GCTTCGACCTGCTTCTCAATGTCTCATCAGAAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
131 GCTTCGACCTACTTCTCAATGTCTCATCAGAAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
32308389 TGAGT
196 TGAGT
* *
32308394 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTCGATTCGCTTCTCTGG
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCAATTCGCTTCTCTGG
32308459 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGGATCTTCTCAGGAAGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGGATCTTCTCAGGAAGCTAACCATTTTATT
* *
32308524 GCTTCGACCTACTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
131 GCTTCGACCTACTTCTCAATGTCTCATCAGAAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
32308589 TGAGT
196 TGAGT
32308594 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGC-TGTTT
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTT
32308642 ATGTATAATC
Statistics
Matches: 233, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
199 5 0.02
200 228 0.98
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (200 bp):
TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCAATTCGCTTCTCTGG
ATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGGATCTTCTCAGGAAGCTAACCATTTTATT
GCTTCGACCTACTTCTCAATGTCTCATCAGAAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
TGAGT
Found at i:32308799 original size:79 final size:77
Alignment explanation
Indices: 32308682--32308835 Score: 177
Period size: 79 Copynumber: 2.0 Consensus size: 77
32308672 AGTAGGGTTG
* * * * *
32308682 ATTGATGGTGATCAGCCCTAACTTGGGGTAAAGGATCAAATGACTGT-AATCTGCCCCTGGCTCG
1 ATTGATGATGATCAGCCCCAACTTGGGGTAAAGAATCAAACGACT-TCAATCTGCCCCTCGCTCG
*
32308746 GGGTAAGAGATTT
65 GGGCAAGAGATTT
* * *
32308759 ATTGATGATGATCTGTCCCCAAGCTTGGGGT-AAGAAATCAAACGGCTTCAATCTGCCCCTCGTT
1 ATTGATGATGATCAG-CCCCAA-CTTGGGGTAAAG-AATCAAACGACTTCAATCTGCCCCTCGCT
32308823 CGGGGCAAGAGAT
63 CGGGGCAAGAGAT
32308836 CAGAATCTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 13 0.20
78 9 0.14
79 42 0.66
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ATTGATGATGATCAGCCCCAACTTGGGGTAAAGAATCAAACGACTTCAATCTGCCCCTCGCTCGG
GGCAAGAGATTT
Found at i:32309038 original size:76 final size:76
Alignment explanation
Indices: 32308956--32309544 Score: 848
Period size: 76 Copynumber: 7.8 Consensus size: 76
32308946 CCATTTTAGT
* *
32308956 GAGATAAATG-CTTGCTATCCAACTTTACTTCAATTTCAAGATGATAGGAAATGATCTTGCTCTT
1 GAGATAAA-GACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
32309020 ACTTCAATTTCA
65 ACTTCAATTTCA
* ** * * *
32309032 GAGATAAAGACTTGTTATCCAACTCAACTTCAATTTCAAGAAGATGGGAAACGATCTTGCTCTTA
1 GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
32309097 CTTCAATTTCA
66 CTTCAATTTCA
* *
32309108 GAGATAAAGACTTGATATCCAGCTTTATTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
1 GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
*
32309173 CTTCAAATTCA
66 CTTCAATTTCA
* *
32309184 GAGACAAAGACTTGATATCCAACTTTACTTTAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
1 GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
32309249 CTTCAATTTCA
66 CTTCAATTTCA
* * *
32309260 GAGACAAAGACCTGATATCCAA-TTCTACTTCAATTTCTAGAGGATAGGAAATGATCTTGCTCTT
1 GAGATAAAGACTTGATATCCAACTT-TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
32309324 ACTTCAATTTCA
65 ACTTCAATTTCA
* * * *
32309336 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAAAGGATAGGAAAAT-ATCTTGCTCTT
1 GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGG-AAATGATCTTGCTCTT
32309399 ACTTCAATTTCA
65 ACTTCAATTTCA
* * * * * *
32309411 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTGCAATAGGATAGGAAAAGATCTTGCTCTTA
1 GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
32309475 CTTCAATTTCA
66 CTTCAATTTCA
* *
32309486 GAGATTAAGACTT-AGTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTG
1 GAGATAAAGACTTGA-TATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTG
32309545 GTGCGGTCTG
Statistics
Matches: 468, Mismatches: 38, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
74 3 0.01
75 132 0.28
76 333 0.71
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (76 bp):
GAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTA
CTTCAATTTCA
Found at i:32327315 original size:75 final size:76
Alignment explanation
Indices: 32327157--32327820 Score: 969
Period size: 76 Copynumber: 8.8 Consensus size: 76
32327147 CAGACCGCAC
* * * *
32327157 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGAT-ACTAAGTCTTAATATCTGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AAGTCTTTATCTCTGAAA
32327221 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* * * *
32327233 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATTTCTAAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327297 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
32327308 CAAGATCTTTTTCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
32327372 TGAAGTAGGAG
66 TGAAGTAAGAG
* *
32327383 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327447 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
32327458 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAATTGGATATCAGGTCTTTGTCTTTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327523 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
32327534 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTGTCTCTGAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327599 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
32327610 CAAGATCATTTCCTATCCTCTTGAAATTTAAATAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327675 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
32327686 CAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAATAAGTCTTTATCTTTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32327751 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
32327762 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAG-CATTTATCTC
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTC-TTTATCTC
32327821 ACTAAAAGGG
Statistics
Matches: 543, Mismatches: 42, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
75 211 0.39
76 332 0.61
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:32327376 original size:37 final size:37
Alignment explanation
Indices: 32327254--32327453 Score: 171
Period size: 37 Copynumber: 5.4 Consensus size: 37
32327244 CCTATCCTCT
*
32327254 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATTTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
* * * * * *
32327291 TAAAATTGAAGTA-AGAGCA-AGA-TCTTTTTCTATCCTC
1 TGAAATTGAAGTAGAGTGGATA-ACACGTCTT-TAT-CTC
32327328 TTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
* * * *
32327366 TGAAATTGAAGTAG-GAGCA-AGA-TC-TTTTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATA-ACACGTCTT--TAT-CTC
32327403 TTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
32327441 TGAAATTGAAGTA
1 TGAAATTGAAGTA
32327454 AGAGCAAGAT
Statistics
Matches: 126, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
34 3 0.02
35 7 0.06
36 15 0.12
37 44 0.35
38 32 0.25
39 15 0.12
40 7 0.06
41 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
Found at i:32328483 original size:200 final size:200
Alignment explanation
Indices: 32328135--32328583 Score: 702
Period size: 200 Copynumber: 2.2 Consensus size: 200
32328125 GATTATACAT
* *
32328135 AAAC-AGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTTAACGCTCAATGT
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAATGT
* * *
32328199 GAGCAAATCTTCGAACTCGGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGT
66 GAGCAAATCTTCGAACCCGGCTTCCTAATGAGACACTGAGAAGCAGGTCAAAGCAATAAAATGGT
* * *
32328264 TAGCTTCCTGAGGAGATCCAGAGAAATGAACCAGATTCATCTTCTTGAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGAGAAGATCCAGAGAAATGAACCAAATTCATCTTCTTGAGGAGATCCAGAGAAGCA
*
32328329 AATCG
196 AATCA
32328334 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAATGT
1 AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAATGT
32328399 GAGCAAATCTTCGAACCCGGCTTCCTAATGAGACACTGAGAAGCAGGTCAAAGCAATAAAATGGT
66 GAGCAAATCTTCGAACCCGGCTTCCTAATGAGACACTGAGAAGCAGGTCAAAGCAATAAAATGGT
* * *
32328464 TAGCTTCCTGAGAAGATCCAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCA
131 TAGCTTCCTGAGAAGATCCAGAGAAATGAACCAAATTCATCTTCTTGAGGAGATCCAGAGAAGCA
*
32328529 AATTA
196 AATCA
** * * * * *
32328534 AAACAAATGATTGCGGTCATCTTCCTAATGAGACACAGTGAAGAAGACCA
1 AAACAAGCGA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCA
32328584 GGTCAATGAA
Statistics
Matches: 228, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 4 0.02
200 190 0.83
201 34 0.15
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (200 bp):
AAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAATGT
GAGCAAATCTTCGAACCCGGCTTCCTAATGAGACACTGAGAAGCAGGTCAAAGCAATAAAATGGT
TAGCTTCCTGAGAAGATCCAGAGAAATGAACCAAATTCATCTTCTTGAGGAGATCCAGAGAAGCA
AATCA
Found at i:32329001 original size:12 final size:13
Alignment explanation
Indices: 32328956--32329011 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
32328946 TTAAATTCAT
32328956 TTTAAATTAAAATA
1 TTTAAATTAAAA-A
*
32328970 TTTGAAATAAATTTAAA
1 TTT-AAATTAA---AAA
32328987 TTT-AATTAAAAA
1 TTTAAATTAAAAA
32328999 TTTAAATTAAAAA
1 TTTAAATTAAAAA
32329012 AGTCCAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
12 6 0.17
13 9 0.26
14 3 0.09
15 11 0.31
17 4 0.11
18 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
TTTAAATTAAAAA
Found at i:32329397 original size:29 final size:28
Alignment explanation
Indices: 32329365--32329450 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
32329355 TGGGCTTGCG
32329365 GGGGCAAAATGGTAATTTTTGGTGAAATA
1 GGGGCAAAATGGTAA-TTTTGGTGAAATA
* *
32329394 GGGGTTGAAAATGG-AATTTTGG-AAAATTTA
1 GGGG--CAAAATGGTAATTTTGGTGAAA--TA
*
32329424 GGGGTAAAATGGTAATTTTGGTGAAAT
1 GGGGCAAAATGGTAATTTTGGTGAAAT
32329451 CGAGGTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
28 11 0.23
29 18 0.38
30 11 0.23
31 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.31, T:0.33
Consensus pattern (28 bp):
GGGGCAAAATGGTAATTTTGGTGAAATA
Found at i:32329433 original size:59 final size:58
Alignment explanation
Indices: 32329364--32329620 Score: 322
Period size: 59 Copynumber: 4.4 Consensus size: 58
32329354 TTGGGCTTGC
* * *
32329364 GGGGGCAAAATGGTAATTTTTGGTGAAATAGGGGTTGAAAATGGAATTTTGGAAAATTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAATGGAATTTTGG-AAATTT
* * * *
32329423 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAATGGAATTTTGGAAA-TTT
* * *
32329481 GGGGCTAAAATGGTCATTTTTGGTGAAATTAG-GGTTAAAAATGGAATTTTAGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAA-TAGAGGTTAAAAATGGAATTTT-GGAAATTT
** * *
32329540 GGGGGTAAAATGGCCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAATGGAATTTT-GGAAATTT
32329599 GGGGGT-AAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
32329621 AAGTTTTGGG
Statistics
Matches: 173, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
57 3 0.02
58 62 0.36
59 103 0.60
60 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAATGGAATTTTGGAAATTT
Found at i:32329548 original size:117 final size:118
Alignment explanation
Indices: 32329365--32329620 Score: 369
Period size: 117 Copynumber: 2.2 Consensus size: 118
32329355 TGGGCTTGCG
*
32329365 GGGGC-AAAATGGTAATTTTTGGTGAAATAGGGGTTGAAAATGGAATTTTGGAAAATTTAGGGGT
1 GGGGCTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAAATGGAATTTTGGAAAATTTAGGGGT
*
32329429 AAAATGG-TAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC
66 AAAATGGCCAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC
* * *
32329481 GGGGCTAAAATGGTCATTTTTGGTGAAATTA-GGGTTAAAAATGGAATTTTAGG-AAGTTTGGGG
1 GGGGCTAAAATGGTAATTTTTGGTGAAA-TAGGGGTTAAAAATGGAATTTT-GGAAAATTTAGGG
* * * *
32329544 GTAAAATGGCCATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTT
64 GTAAAATGGCCAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC
*
32329599 GGGGGT-AAATGGTAATTTTTGG
1 GGGGCTAAAATGGTAATTTTTGG
32329621 AAGTTTTGGG
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
116 5 0.04
117 71 0.57
118 49 0.39
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (118 bp):
GGGGCTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAAATGGAATTTTGGAAAATTTAGGGGT
AAAATGGCCAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC
Found at i:32329607 original size:29 final size:29
Alignment explanation
Indices: 32329401--32329638 Score: 114
Period size: 29 Copynumber: 8.2 Consensus size: 29
32329391 ATAGGGGTTG
* * *
32329401 AAAATGG-AATTTTGGAAAATTTAGGGGT
1 AAAATGGCAATTTTGGGAAGTTTGGGGGT
* * * * *
32329429 AAAATGGTAATTTTGGTGAA-ATCGAGGTT
1 AAAATGGCAATTTTGG-GAAGTTTGGGGGT
* * * *
32329458 AAAAATGG-AATTTTAGAAAGTTCGGGGCT
1 -AAAATGGCAATTTTGGGAAGTTTGGGGGT
* * * *
32329487 AAAATGGTCATTTTTGGTGAA-ATTAGGGTT
1 AAAATGG-CAATTTTGG-GAAGTTTGGGGGT
*
32329517 AAAAATGG-AATTTTAGGAAGTTTGGGGGT
1 -AAAATGGCAATTTTGGGAAGTTTGGGGGT
* * * * *
32329546 AAAATGGCCATTTTTGGTGAA-ATCGAGGTT
1 AAAATGG-CAATTTTGG-GAAGTTTGGGGGT
32329576 AAAAATGG-AATTTTGGGAAGTTTGGGGGT
1 -AAAATGGCAATTTTGGGAAGTTTGGGGGT
* * *
32329605 -AAATGGTAATTTTTGGAAGTTTTGGGGT
1 AAAATGGCAATTTTGGGAAGTTTGGGGGT
32329633 CAAAAT
1 -AAAAT
32329639 ATAATTTTCT
Statistics
Matches: 157, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
27 6 0.04
28 48 0.31
29 49 0.31
30 35 0.22
31 19 0.12
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
AAAATGGCAATTTTGGGAAGTTTGGGGGT
Found at i:32329643 original size:29 final size:29
Alignment explanation
Indices: 32329577--32329679 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
32329567 ATCGAGGTTA
* * *
32329577 AAAATGGAATTTTGGGAAGTTTGGGGGT-
1 AAAATGTAATTTTTGGAAGTTTTGGGGTC
32329605 -AAATGGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAT-GTAATTTTTGGAAGTTTTGGGGTC
* * * *
32329634 AAAATATAATTTTCT-AAAATTTTAGGGTC
1 AAAATGTAATTTT-TGGAAGTTTTGGGGTC
*
32329663 AAAATGCAATTTTTGGA
1 AAAATGTAATTTTTGGA
32329680 CTGTTTGGGG
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.07
28 21 0.35
29 30 0.50
30 5 0.08
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:32330786 original size:13 final size:13
Alignment explanation
Indices: 32330761--32330840 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
32330751 TTCTTTTGCT
*
32330761 TATTTATTTATTAT
1 TATTTA-TTATTAA
32330775 TATTTATTATTAA
1 TATTTATTATTAA
** *
32330788 TGGTCATTATTAA
1 TATTTATTATTAA
* * *
32330801 TAATTATTAATAC
1 TATTTATTATTAA
* * *
32330814 CATTCATTATTAG
1 TATTTATTATTAA
32330827 TATTTATTATTAA
1 TATTTATTATTAA
32330840 T
1 T
32330841 GCTATTAAAA
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
13 43 0.88
14 6 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:32330807 original size:26 final size:25
Alignment explanation
Indices: 32330768--32330841 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
32330758 GCTTATTTAT
*
32330768 TTATTATTATTTATTATTAATGGTCA
1 TTATTAATATTTATTATTAAT-GTCA
* *
32330794 TTATTAATAATTATTAATACCAT-TCA
1 TTATTAATATTTATTATTA--ATGTCA
*
32330820 TTATTAGTATTTATTATTAATG
1 TTATTAATATTTATTATTAATG
32330842 CTATTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
26 35 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTAATATTTATTATTAATGTCA
Found at i:32331596 original size:12 final size:13
Alignment explanation
Indices: 32331573--32331628 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
32331563 ACTTTGAACT
32331573 TTTTTAATTTAAA
1 TTTTTAATTTAAA
32331586 TTTTTAA-TTAAA
1 TTTTTAATTTAAA
*
32331598 TTTAAATTTATTTCAAA
1 TTT---TTAATTT-AAA
32331615 TATTTTAATTTAAA
1 T-TTTTAATTTAAA
32331629 ATGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.23
13 7 0.20
14 3 0.09
15 9 0.26
16 2 0.06
17 4 0.11
18 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTAATTTAAA
Found at i:32331762 original size:37 final size:37
Alignment explanation
Indices: 32331706--32331783 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
32331696 TTCAACAACT
* *
32331706 TGAAAACACCAGCAAAAAGCCTACTAGGCACACAGCC
1 TGAAAACACCAGCAAAAAGCCTACTAGACACAAAGCC
** *
32331743 TGAAAACACTGGCACAAAGCCTACTAGACACAAAGCC
1 TGAAAACACCAGCAAAAAGCCTACTAGACACAAAGCC
32331780 TGAA
1 TGAA
32331784 TTTTAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (37 bp):
TGAAAACACCAGCAAAAAGCCTACTAGACACAAAGCC
Found at i:32336507 original size:2 final size:2
Alignment explanation
Indices: 32336500--32336534 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32336490 TGTACACCTT
32336500 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32336535 CACGAGGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32336743 original size:22 final size:22
Alignment explanation
Indices: 32336715--32336761 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
32336705 TTTTCTCCCT
32336715 ACCAAATGCTTTAAAGTTTTAA
1 ACCAAATGCTTTAAAGTTTTAA
32336737 ACCAAATGCTTTAAAGTTTTAA
1 ACCAAATGCTTTAAAGTTTTAA
32336759 ACC
1 ACC
32336762 CTTTTGTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (22 bp):
ACCAAATGCTTTAAAGTTTTAA
Found at i:32342287 original size:20 final size:18
Alignment explanation
Indices: 32342260--32342310 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
32342250 ACAGATATCA
32342260 TTATTTTTCTTTTTCAGTT
1 TTATTTTTCTTTTT-AGTT
* *
32342279 TTGATTTTTCTATTTGGTT
1 TT-ATTTTTCTTTTTAGTT
32342298 TTATCTTTTCTTT
1 TTAT-TTTTCTTT
32342311 ATTGGGCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.07
19 14 0.52
20 11 0.41
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.73
Consensus pattern (18 bp):
TTATTTTTCTTTTTAGTT
Found at i:32343170 original size:9 final size:9
Alignment explanation
Indices: 32343152--32343234 Score: 73
Period size: 9 Copynumber: 8.8 Consensus size: 9
32343142 GTTAGTAAAT
32343152 AATT-TTAA
1 AATTATTAA
32343160 AATTATTAA
1 AATTATTAA
32343169 AATTATGTTTTAA
1 AATTA----TTAA
*
32343182 AA-AATATAA
1 AATTAT-TAA
32343191 AATTATTAA
1 AATTATTAA
32343200 AATTATTTTAA
1 AATTA--TTAA
32343211 AATTA-TAA
1 AATTATTAA
32343219 AATTATTAA
1 AATTATTAA
32343228 AATTATT
1 AATTATT
32343235 TTTAAAATTA
Statistics
Matches: 63, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
8 13 0.21
9 32 0.51
10 2 0.03
11 9 0.14
12 1 0.02
13 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (9 bp):
AATTATTAA
Found at i:32343217 original size:28 final size:29
Alignment explanation
Indices: 32343152--32343247 Score: 149
Period size: 28 Copynumber: 3.3 Consensus size: 29
32343142 GTTAGTAAAT
*
32343152 AATTTTAAAATTATTAAAATTATGTTTTAAA
1 AATTATAAAATTATTAAAATTAT-TTTT-AA
*
32343183 AAATATAAAATTATTAAAATTA-TTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
32343211 AATTATAAAATTATTAAAATTATTTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
32343240 AATTATAA
1 AATTATAA
32343248 TCATCATCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
31 20 0.33
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTATAAAATTATTAAAATTATTTTTAA
Found at i:32343227 original size:17 final size:18
Alignment explanation
Indices: 32343188--32343233 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 18
32343178 TTAAAAAATA
32343188 TAAAATTATTAAAATTATTT
1 TAAAATTA-TAAAATTA-TT
32343208 TAAAATTATAAAATTA-T
1 TAAAATTATAAAATTATT
32343225 TAAAATTAT
1 TAAAATTAT
32343234 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.38
19 8 0.31
20 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTATAAAATTATT
Found at i:32348076 original size:31 final size:30
Alignment explanation
Indices: 32348001--32348078 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
32347991 TTGAGAAACT
* * *
32348001 CTTATTTAAACACTTTTGAAAAGGTATGCC
1 CTTATTTGAGCACTTTTGAAAAGGTATGAC
* *
32348031 CTTATTTGATCACTTTTGAAAAGGTTTGAC
1 CTTATTTGAGCACTTTTGAAAAGGTATGAC
32348061 CTTCATTTGAGCACTTTT
1 CTT-ATTTGAGCACTTTT
32348079 ATAAAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 29 0.69
31 13 0.31
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (30 bp):
CTTATTTGAGCACTTTTGAAAAGGTATGAC
Found at i:32350435 original size:14 final size:15
Alignment explanation
Indices: 32350416--32350448 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32350406 AGAGTTCAGG
32350416 TTTAA-GGTTTAAGA
1 TTTAAGGGTTTAAGA
*
32350430 TTTAAGGGTTTAGGA
1 TTTAAGGGTTTAAGA
32350445 TTTA
1 TTTA
32350449 GGATTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (15 bp):
TTTAAGGGTTTAAGA
Found at i:32353459 original size:18 final size:18
Alignment explanation
Indices: 32353436--32353471 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32353426 TTTTCATACT
32353436 CTTCATCATCTTCTTCTC
1 CTTCATCATCTTCTTCTC
*
32353454 CTTCATCTTCTTCTTCTC
1 CTTCATCATCTTCTTCTC
32353472 AGTATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.39, G:0.00, T:0.53
Consensus pattern (18 bp):
CTTCATCATCTTCTTCTC
Found at i:32358366 original size:194 final size:194
Alignment explanation
Indices: 32358037--32358428 Score: 649
Period size: 194 Copynumber: 2.0 Consensus size: 194
32358027 TTTTAATTGA
* * * *
32358037 TATTATTAACAATAATTATGAAACGGATAATAGCCTATTCAGAGGTACGACTCATCTACTCTCTA
1 TATTATTAACAACAATTATGAAACGGATAATAACCCATTCAGAGGTACGACTCATCCACTCTCTA
* * * *
32358102 TTTATAAAGGGTTCGTAAGTTAGAGTCTGATATATTTCAAGGGAACAAAATAAAGTTGTGGATCA
66 CTTATAAAGGGTTCGCAAGTTAGAGTCTGACATATTCCAAGGGAACAAAATAAAGTTGTGGATCA
*
32358167 CTTGGTGAAGATGGCTACTGGAGATTTAAATACGATTTGCACTTTTCAACGAGTGTTCGAGCAT
131 CTTGGTGAAGATGGCTACTGGAGATTTAAATACGATTTACACTTTTCAACGAGTGTTCGAGCAT
* *
32358231 TATTATTAACAACAATTATGAAACGGATAATAACCCATTTAGAGGTATGACTCATCCACTCTCTA
1 TATTATTAACAACAATTATGAAACGGATAATAACCCATTCAGAGGTACGACTCATCCACTCTCTA
* * *
32358296 CTTATAAAGGGTTCGCAAGTTAGATTTTGACATATTCCAAGGGAACAAAATAAGGTTGTGGATCA
66 CTTATAAAGGGTTCGCAAGTTAGAGTCTGACATATTCCAAGGGAACAAAATAAAGTTGTGGATCA
*
32358361 CTTGGTGAAGATGGCTACTGGAGATTTAAATACGATTTACACTTTTCAATGAGTGTTCGAGCAT
131 CTTGGTGAAGATGGCTACTGGAGATTTAAATACGATTTACACTTTTCAACGAGTGTTCGAGCAT
32358425 TATT
1 TATT
32358429 GTTGGTTGAT
Statistics
Matches: 183, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
194 183 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (194 bp):
TATTATTAACAACAATTATGAAACGGATAATAACCCATTCAGAGGTACGACTCATCCACTCTCTA
CTTATAAAGGGTTCGCAAGTTAGAGTCTGACATATTCCAAGGGAACAAAATAAAGTTGTGGATCA
CTTGGTGAAGATGGCTACTGGAGATTTAAATACGATTTACACTTTTCAACGAGTGTTCGAGCAT
Found at i:32367905 original size:30 final size:30
Alignment explanation
Indices: 32367866--32367926 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
32367856 TACATAACCA
32367866 ATTCCTTTTAAATTTGAATTCCTAAAATCC
1 ATTCCTTTTAAATTTGAATTCCTAAAATCC
*
32367896 ATTCTTTTTAAATTTGAATTCCTAAAATCC
1 ATTCCTTTTAAATTTGAATTCCTAAAATCC
32367926 A
1 A
32367927 GTAGATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.44
Consensus pattern (30 bp):
ATTCCTTTTAAATTTGAATTCCTAAAATCC
Found at i:32376258 original size:16 final size:18
Alignment explanation
Indices: 32376223--32376270 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
32376213 AAAGTGAAAG
32376223 TGAAAGTGAAATTAGAAT
1 TGAAAGTGAAATTAGAAT
*
32376241 TGAAAGTGATA-T-GAAT
1 TGAAAGTGAAATTAGAAT
*
32376257 TGTAAATTGAAATT
1 TG-AAAGTGAAATT
32376271 CCCTATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (18 bp):
TGAAAGTGAAATTAGAAT
Found at i:32376398 original size:40 final size:39
Alignment explanation
Indices: 32376351--32376449 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 39
32376341 TCGACCTTGA
** *
32376351 GTCGATGAGACACTGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGTGTCACCACTTTACTTCGGATAG
* *
32376390 ATTCGATGAGGA-ACTGG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGA-GACACTGGTGTCACCACTTTACTTCGGATAG
*
32376428 GCCGATGAGACACTGGTGTCAC
1 GTCGATGAGACACTGGTGTCAC
32376450 TTTATTGCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
36 2 0.04
37 11 0.23
38 17 0.35
39 4 0.08
40 12 0.25
41 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGTGTCACCACTTTACTTCGGATAG
Found at i:32381307 original size:21 final size:19
Alignment explanation
Indices: 32381285--32381338 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
32381275 TCAAAAGATA
32381285 TATTAATTAATAATAATAT
1 TATTAATTAATAATAATAT
*
32381304 TA-TAATAAATAATAATAT
1 TATTAATTAATAATAATAT
*
32381322 T-TT-ATTATTAATAATAT
1 TATTAATTAATAATAATAT
32381339 AAAATATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 12 0.39
18 17 0.55
19 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTAATTAATAATAATAT
Found at i:32382952 original size:2 final size:2
Alignment explanation
Indices: 32382945--32382969 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32382935 TACATAGGCT
32382945 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32382970 TGTGTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32388402 original size:18 final size:17
Alignment explanation
Indices: 32388381--32388433 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
32388371 TATCAAAAGA
*
32388381 TATATTAATTAATATTAT
1 TATATTAA-TAATAATAT
*
32388399 TATAATAAATAATAATAT
1 TAT-ATTAATAATAATAT
*
32388417 TTTATTAATAATAATAT
1 TATATTAATAATAATAT
32388434 AAAATATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 13 0.43
18 13 0.43
19 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATTAATAATAATAT
Found at i:32388416 original size:21 final size:20
Alignment explanation
Indices: 32388390--32388432 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
32388380 ATATATTAAT
32388390 TAATATTATTA-TAATAAATAA
1 TAATATT-TTATTAAT-AATAA
32388411 TAATATTTTATTAATAATAA
1 TAATATTTTATTAATAATAA
32388431 TA
1 TA
32388433 TAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATTTTATTAATAATAA
Found at i:32388439 original size:24 final size:23
Alignment explanation
Indices: 32388395--32388440 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
32388385 TTAATTAATA
32388395 TTATTATAATAAATAATAATATT
1 TTATTATAATAAATAATAATATT
32388418 TTATTAATAATAATATAA-AATAT
1 TTATT-ATAATAA-ATAATAATAT
32388441 AAGTAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTATTATAATAAATAATAATATT
Found at i:32389671 original size:27 final size:27
Alignment explanation
Indices: 32389633--32389687 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
32389623 TTTTATTATT
32389633 GGTAGCCCCAATTCCCAGAGGGTCGTG
1 GGTAGCCCCAATTCCCAGAGGGTCGTG
* **
32389660 GGTAGTCCCAATTCCTTGAGGGTCGTG
1 GGTAGCCCCAATTCCCAGAGGGTCGTG
32389687 G
1 G
32389688 ACTACTCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (27 bp):
GGTAGCCCCAATTCCCAGAGGGTCGTG
Found at i:32390721 original size:6 final size:6
Alignment explanation
Indices: 32390710--32390778 Score: 84
Period size: 6 Copynumber: 11.5 Consensus size: 6
32390700 TGAGCAAAAT
* * *
32390710 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGAAAG TGAAAG
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG
* * *
32390758 TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGA
32390779 TATGAATTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:32390741 original size:30 final size:30
Alignment explanation
Indices: 32390707--32390778 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
32390697 TTGTGAGCAA
32390707 AATTGAAAGTGAAAGTGAAAGTGAAATTGG
1 AATTGAAAGTGAAAGTGAAAGTGAAATTGG
32390737 AATTGAAAGTGAAAGTGAAAGTGAAATTGG
1 AATTGAAAGTGAAAGTGAAAGTGAAATTGG
32390767 AATTGAAAGTGA
1 AATTGAAAGTGA
32390779 TATGAATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (30 bp):
AATTGAAAGTGAAAGTGAAAGTGAAATTGG
Found at i:32390743 original size:24 final size:24
Alignment explanation
Indices: 32390706--32390778 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
32390696 TTTGTGAGCA
*
32390706 AAATTGAAAGTGAAAGTGAAAGTG
1 AAATTGAAATTGAAAGTGAAAGTG
*
32390730 AAATTGGAATTGAAAGTGAAAGTG
1 AAATTGAAATTGAAAGTGAAAGTG
* * *
32390754 AAAGTGAAATTGGAATTGAAAGTG
1 AAATTGAAATTGAAAGTGAAAGTG
32390778 A
1 A
32390779 TATGAATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (24 bp):
AAATTGAAATTGAAAGTGAAAGTG
Found at i:32397312 original size:21 final size:21
Alignment explanation
Indices: 32397287--32397331 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
32397277 ATTAATTCTT
32397287 CTTCATTAATATTGGTTTTAG
1 CTTCATTAATATTGGTTTTAG
32397308 CTTCATTAATATTGGTTTTAG
1 CTTCATTAATATTGGTTTTAG
32397329 CTT
1 CTT
32397332 TTAGAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.53
Consensus pattern (21 bp):
CTTCATTAATATTGGTTTTAG
Found at i:32410252 original size:16 final size:18
Alignment explanation
Indices: 32410231--32410267 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32410221 TTTTATGTAT
32410231 TATAAAT-T-ACATAATA
1 TATAAATATAACATAATA
*
32410247 TATAAATATAATATAATA
1 TATAAATATAACATAATA
32410265 TAT
1 TAT
32410268 TACAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:32410921 original size:11 final size:11
Alignment explanation
Indices: 32410905--32410932 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32410895 TTAATATGAA
32410905 TTATTTAAACT
1 TTATTTAAACT
32410916 TTATTTAAACT
1 TTATTTAAACT
32410927 TTATTT
1 TTATTT
32410933 CCATTGCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTAAACT
Found at i:32418302 original size:34 final size:32
Alignment explanation
Indices: 32418232--32418318 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 32
32418222 TTTTCCATTA
32418232 AAATATTAAAAATTATAAAAAACAAAAAATAGT
1 AAATATTAAAAA-TATAAAAAACAAAAAATAGT
* * *
32418265 AAATAGTAAAAATATAAAAAGCATAAAAAATATT
1 AAATATTAAAAATATAAAAA--ACAAAAAATAGT
*
32418299 AAATATTAAAAATATGAAAA
1 AAATATTAAAAATATAAAAA
32418319 TTGTTATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
32 8 0.17
33 11 0.23
34 28 0.60
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (32 bp):
AAATATTAAAAATATAAAAAACAAAAAATAGT
Found at i:32418398 original size:11 final size:10
Alignment explanation
Indices: 32418362--32418403 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
32418352 AAATACTATC
32418362 AAAAA-TATA
1 AAAAATTATA
32418371 AAAAATT-TA
1 AAAAATTATA
*
32418380 ATAAATTATAA
1 AAAAATTAT-A
32418391 AAAAATTATA
1 AAAAATTATA
32418401 AAA
1 AAA
32418404 TTAATAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 13 0.46
10 6 0.21
11 9 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:32418404 original size:19 final size:19
Alignment explanation
Indices: 32418331--32418411 Score: 60
Period size: 19 Copynumber: 4.2 Consensus size: 19
32418321 GTTATAAACT
*
32418331 TAAAAACATTATAAAA--A
1 TAAAAAAATTATAAAATTA
* * *
32418348 TAACAAATACTATCAAAAATA
1 TAA-AAAAATTAT-AAAATTA
*
32418369 TAAAAAATTTA-ATAAATTA
1 TAAAAAAATTATA-AAATTA
32418388 TAAAAAAATTATAAAATTAA
1 TAAAAAAATTATAAAATT-A
32418408 TAAA
1 TAAA
32418412 GCATATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.06
18 8 0.16
19 24 0.48
20 11 0.22
21 4 0.08
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAAATTATAAAATTA
Found at i:32419117 original size:18 final size:17
Alignment explanation
Indices: 32419090--32419145 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 17
32419080 ATTTTTTAAG
*
32419090 AATTCTAATATTTTTTT
1 AATTTTAATATTTTTTT
*
32419107 AATTTTAAATATGTTTTT
1 AATTTT-AATATTTTTTT
*
32419125 AATTTT-ATATTTTTAT
1 AATTTTAATATTTTTTT
32419141 AATTT
1 AATTT
32419146 ATTAGAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.38
17 5 0.15
18 16 0.47
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
AATTTTAATATTTTTTT
Found at i:32419130 original size:7 final size:8
Alignment explanation
Indices: 32419101--32419210 Score: 60
Period size: 9 Copynumber: 12.6 Consensus size: 8
32419091 ATTCTAATAT
*
32419101 TTTTTTAA
1 TTTTATAA
*
32419109 TTTTAAATA
1 TTTTATA-A
*
32419118 TGTTTTTAA
1 T-TTTATAA
*
32419127 TTTTATAT
1 TTTTATAA
32419135 TTTTATAA
1 TTTTATAA
*
32419143 TTTATTAGAA
1 -TT-TTATAA
*
32419153 TTTTCATAT
1 TTTT-ATAA
32419162 TTTTATAA
1 TTTTATAA
32419170 -TTTATAA
1 TTTTATAA
32419177 GTTCTTATAA
1 -TT-TTATAA
*
32419187 TTCTAATAA
1 TT-TTATAA
32419196 GTTTATATAA
1 -TTT-TATAA
32419206 TTTTA
1 TTTTA
32419211 ATTTTTCTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
7 7 0.09
8 24 0.30
9 27 0.34
10 21 0.27
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (8 bp):
TTTTATAA
Found at i:32419197 original size:19 final size:17
Alignment explanation
Indices: 32419162--32419208 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
32419152 ATTTTCATAT
32419162 TTTTATAATTT-ATAAG
1 TTTTATAATTTAATAAG
32419178 TTCTTATAATTCTAATAAG
1 TT-TTATAATT-TAATAAG
32419197 TTTATATAATTT
1 TTT-TATAATTT
32419209 TAATTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.07
17 8 0.30
18 3 0.11
19 14 0.52
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTTATAATTTAATAAG
Found at i:32419495 original size:20 final size:20
Alignment explanation
Indices: 32419472--32419510 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32419462 ATCTAACATG
32419472 ATCAAATTTAAAACATATTA
1 ATCAAATTTAAAACATATTA
* *
32419492 ATCAAATTTCAAATATATT
1 ATCAAATTTAAAACATATT
32419511 TATATCCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
ATCAAATTTAAAACATATTA
Found at i:32424442 original size:35 final size:35
Alignment explanation
Indices: 32424374--32424468 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 35
32424364 ACCTTGAATT
* * *
32424374 TTGAACTTCAAATCTCAAATCTCAAACCTTAAACCA
1 TTGAACCTCAAACCTCAAATCTCAAACCATAAA-CA
* *
32424410 -TGAACCTCAAACCTCAAATCTTAAATCATAAACA
1 TTGAACCTCAAACCTCAAATCTCAAACCATAAACA
*
32424444 TTGAATCC-CAAACCTCGAA-CTCAAA
1 TTGAA-CCTCAAACCTCAAATCTCAAA
32424469 GTTTATGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 7 0.14
35 41 0.82
36 2 0.04
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (35 bp):
TTGAACCTCAAACCTCAAATCTCAAACCATAAACA
Found at i:32424506 original size:27 final size:27
Alignment explanation
Indices: 32424468--32424526 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
32424458 TCGAACTCAA
*
32424468 AGTTTATGATTTAGGG-TTCATGGTTTG
1 AGTTTAGGATTTAGGGTTTCAT-GTTTG
*
32424495 AGTTTAGGATTTAGGGTTTGATGTTTG
1 AGTTTAGGATTTAGGGTTTCATGTTTG
32424522 AGTTT
1 AGTTT
32424527 GAGGTTCGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.49
Consensus pattern (27 bp):
AGTTTAGGATTTAGGGTTTCATGTTTG
Found at i:32427864 original size:20 final size:20
Alignment explanation
Indices: 32427841--32427879 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32427831 AGCATACTTG
32427841 TATCGGTAAAACTGAAGTTT
1 TATCGGTAAAACTGAAGTTT
* *
32427861 TATCGGTAGAAGTGAAGTT
1 TATCGGTAAAACTGAAGTT
32427880 CTACCAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGGTAAAACTGAAGTTT
Found at i:32429374 original size:28 final size:28
Alignment explanation
Indices: 32429342--32429400 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
32429332 TTAGATTAAT
*
32429342 TAAATCAAAATCTA-AGTATATAAGTATA
1 TAAATCAAAATCTATA-TATATAAATATA
32429370 TAAATCAAAATCTATATATATAAATATA
1 TAAATCAAAATCTATATATATAAATATA
32429398 TAA
1 TAA
32429401 GTTGAATCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (28 bp):
TAAATCAAAATCTATATATATAAATATA
Found at i:32430790 original size:15 final size:15
Alignment explanation
Indices: 32430770--32430864 Score: 59
Period size: 15 Copynumber: 6.3 Consensus size: 15
32430760 AAGGGGTCTG
*
32430770 CATATAGGGTTCGCA
1 CATATAGGATTCGCA
32430785 CATATAAGG-TTCGCA
1 CATAT-AGGATTCGCA
* * * *
32430800 TATATAGCATTTGTA
1 CATATAGGATTCGCA
* *
32430815 TGAT-TAGGGTTCGCA
1 -CATATAGGATTCGCA
* **
32430830 CATATATGATTTACA
1 CATATAGGATTCGCA
*
32430845 TATATAGGATTCGCA
1 CATATAGGATTCGCA
32430860 CATAT
1 CATAT
32430865 TAATTCACAT
Statistics
Matches: 57, Mismatches: 19, Indels: 8
0.68 0.23 0.10
Matches are distributed among these distances:
14 4 0.07
15 48 0.84
16 5 0.09
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (15 bp):
CATATAGGATTCGCA
Found at i:32430989 original size:23 final size:23
Alignment explanation
Indices: 32430946--32430992 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
32430936 CACATACTAA
* *
32430946 GGGTTCACATATATTCTCTAAGG
1 GGGTTCACATACATTCACTAAGG
32430969 GGGTTCACATACATGT-ACTAAGG
1 GGGTTCACATACAT-TCACTAAGG
32430992 G
1 G
32430993 TTATCTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (23 bp):
GGGTTCACATACATTCACTAAGG
Found at i:32431102 original size:34 final size:34
Alignment explanation
Indices: 32431063--32431198 Score: 193
Period size: 34 Copynumber: 4.0 Consensus size: 34
32431053 CTAATAGTTC
*
32431063 ACTATGTCATACTATATAACATGAGGGTTCACAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
* * * *
32431097 ACTATGTCATACCATATAACATAATGATTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
*
32431131 ACTATGTCATACT-TATAACACGAGGGTTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
* *
32431164 AATATGTCATACTATATAACATGAGTGTTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
32431198 A
1 A
32431199 ATAGTTCTCC
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 28 0.32
34 60 0.68
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (34 bp):
ACTATGTCATACTATATAACATGAGGGTTCGCAT
Found at i:32431172 original size:67 final size:68
Alignment explanation
Indices: 32431063--32431198 Score: 204
Period size: 67 Copynumber: 2.0 Consensus size: 68
32431053 CTAATAGTTC
* *
32431063 ACTATGTCATACTATATAACATGAGGGTTCACATACTATGTCATACCATATAACAT-AATGATTC
1 ACTATGTCATACTATATAACACGAGGGTTCACATAATATGTCATACCATATAACATGAATG-TTC
32431127 GCAT
65 GCAT
* * *
32431131 ACTATGTCATACT-TATAACACGAGGGTTCGCATAATATGTCATACTATATAACATGAGTGTTCG
1 ACTATGTCATACTATATAACACGAGGGTTCACATAATATGTCATACCATATAACATGAATGTTCG
32431195 CAT
66 CAT
32431198 A
1 A
32431199 ATAGTTCTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
67 46 0.74
68 16 0.26
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (68 bp):
ACTATGTCATACTATATAACACGAGGGTTCACATAATATGTCATACCATATAACATGAATGTTCG
CAT
Found at i:32441315 original size:51 final size:50
Alignment explanation
Indices: 32441195--32441377 Score: 206
Period size: 51 Copynumber: 3.5 Consensus size: 50
32441185 TTTAATACCG
** * *
32441195 ACGATGACATATAGTCATCGGACCTCTTATTCCGTATAGGAATTCATATACTC
1 ACGATGACACCTAGTCATCGGACCT-TTAATCCGTAT-GG-ATTCATTTACTC
* * *
32441248 ACGATAACA-CTGAGTCATTGGACCTTTAATCCATCATGGATTCATTTACTC
1 ACGATGACACCT-AGTCATCGGACCTTTAATCCGT-ATGGATTCATTTACTC
*
32441299 ACGATGACACCTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTC
1 ACGATGACACCTAGTCATCGGACCTTTAATCCGT-ATGGATTCATTTACTC
* *
32441350 ACGATGACACTTAGTCATTGGATCCTTT
1 ACGATGACACCTAGTCATCGGA-CCTTT
32441378 CGTTTATAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
51 74 0.65
52 17 0.15
53 22 0.19
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
ACGATGACACCTAGTCATCGGACCTTTAATCCGTATGGATTCATTTACTC
Found at i:32447669 original size:21 final size:21
Alignment explanation
Indices: 32447645--32447685 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32447635 ATCGGTACCT
*
32447645 GTATTAGTTCTACCGATACAA
1 GTATAAGTTCTACCGATACAA
* *
32447666 GTATAAGTTTTATCGATACA
1 GTATAAGTTCTACCGATACA
32447686 TGTCATGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
GTATAAGTTCTACCGATACAA
Found at i:32448529 original size:51 final size:51
Alignment explanation
Indices: 32448404--32448642 Score: 284
Period size: 51 Copynumber: 4.6 Consensus size: 51
32448394 TTTCATTTAA
* ** * *
32448404 TACTCACAATGACATATAGTCATCGGACCTCTTATTCCAT-ATAGGAATTCATA
1 TACTCACGATGACACCTAGTCATCGGACCT-TTAATCCATCAT-GG-ATTCATT
* * *
32448457 TACTCATGATAACA-CTGAGTCATTGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACCT-AGTCATCGGACCTTTAATCCATCATGGATTCATT
*
32448508 TACTCACAATGACACCTAGTCATCGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACCTAGTCATCGGACCTTTAATCCATCATGGATTCATT
* * * **
32448559 TACTCACGATGACACCTAGTTATCGGACCTTTAATCCGTAAAAGATTCATT
1 TACTCACGATGACACCTAGTCATCGGACCTTTAATCCATCATGGATTCATT
*
32448610 TACTCACGATGACACTTAGTCATCGGATCCTTT
1 TACTCACGATGACACCTAGTCATCGGA-CCTTT
32448643 CGTTAATAGC
Statistics
Matches: 163, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
51 120 0.74
52 18 0.11
53 25 0.15
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACCTAGTCATCGGACCTTTAATCCATCATGGATTCATT
Found at i:32450809 original size:3 final size:3
Alignment explanation
Indices: 32450801--32450839 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32450791 ACCACTAACT
32450801 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32450840 AACGTTTAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32460655 original size:19 final size:19
Alignment explanation
Indices: 32460593--32460662 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
32460583 TGGTTGCTAT
*
32460593 TTTTTGCTGTTTTTGTGTTG
1 TTTTTACTG-TTTTGTGTTG
* **
32460613 TTTTTTACTATTTTGATACT-
1 -TTTTTACTGTTTTG-TGTTG
32460633 TTTTTACTGTTTTGTGTTG
1 TTTTTACTGTTTTGTGTTG
*
32460652 TTTTTGCTGTT
1 TTTTTACTGTT
32460663 ATTTTTGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 2 0.05
19 23 0.59
20 5 0.13
21 9 0.23
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (19 bp):
TTTTTACTGTTTTGTGTTG
Found at i:32460669 original size:23 final size:22
Alignment explanation
Indices: 32460642--32460755 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 22
32460632 TTTTTTACTG
32460642 TTTTGTGTTGTTTTTGCTGTTAT
1 TTTTGTGTTG-TTTTGCTGTTAT
**
32460665 TTTTGTTGTAT-TTTTATTG-T-T
1 TTTTG-TGT-TGTTTTGCTGTTAT
** *
32460686 TTTAATGTTGTTTTGCTGATAT
1 TTTTGTGTTGTTTTGCTGTTAT
* *
32460708 TTTTGCTGCTGTTTTGATTGTTA-
1 TTTTG-TGTTGTTTTG-CTGTTAT
* *
32460731 TTTT-TGTTGTTTGGATGTTAT
1 TTTTGTGTTGTTTTGCTGTTAT
32460752 TTTT
1 TTTT
32460756 ATGCGATTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.01
20 14 0.20
21 17 0.25
22 5 0.07
23 24 0.35
24 7 0.10
25 1 0.01
ACGTcount: A:0.10, C:0.04, G:0.19, T:0.68
Consensus pattern (22 bp):
TTTTGTGTTGTTTTGCTGTTAT
Found at i:32460728 original size:44 final size:43
Alignment explanation
Indices: 32460647--32460742 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 43
32460637 TACTGTTTTG
* * *
32460647 TGTTGTTTTTGCTGTTATTTTTGTTGTATTTTTATTGTT-TTTAA
1 TGTTG-TTTTGCTGATATTTTTGCTGTATTTTGATTGTTATTT-A
* *
32460691 TGTTGTTTTGCTGATATTTTTGCTGCTGTTTTGATTGTTATTTT
1 TGTTGTTTTGCTGATATTTTTGCTG-TATTTTGATTGTTATTTA
32460735 TGTTGTTT
1 TGTTGTTT
32460743 GGATGTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 18 0.40
44 24 0.53
45 3 0.07
ACGTcount: A:0.09, C:0.04, G:0.19, T:0.68
Consensus pattern (43 bp):
TGTTGTTTTGCTGATATTTTTGCTGTATTTTGATTGTTATTTA
Found at i:32460753 original size:44 final size:43
Alignment explanation
Indices: 32460659--32460755 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 43
32460649 TTGTTTTTGC
* * * *
32460659 TGTTATTTTTGTTGTATTTTTATTGTTTTTAATGTTGTTTTGC
1 TGTTATTTTTGCTGTATTTTGATTGTTTTTAATGTTGTTTGGA
* * *
32460702 TGATATTTTTGCTGCTGTTTTGATTGTTATTT-TTGTTGTTTGGA
1 TGTTATTTTTGCTG-TATTTTGATTGTT-TTTAATGTTGTTTGGA
32460746 TGTTATTTTT
1 TGTTATTTTT
32460756 ATGCGATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 12 0.27
44 29 0.66
45 3 0.07
ACGTcount: A:0.11, C:0.03, G:0.19, T:0.67
Consensus pattern (43 bp):
TGTTATTTTTGCTGTATTTTGATTGTTTTTAATGTTGTTTGGA
Found at i:32463716 original size:24 final size:24
Alignment explanation
Indices: 32463679--32463839 Score: 191
Period size: 24 Copynumber: 6.7 Consensus size: 24
32463669 TGGATTATAA
* *
32463679 GGGCTTGTAAGAGCTAATCATTCT
1 GGGCTCGTAGGAGCTAATCATTCT
32463703 GGGCTCGTAGGAGCTAATCATTCT
1 GGGCTCGTAGGAGCTAATCATTCT
32463727 GGGCTCGTAGGAGCTAATCATTCT
1 GGGCTCGTAGGAGCTAATCATTCT
*
32463751 GGGCTCGT-GAGAGTTAATCATTCT
1 GGGCTCGTAG-GAGCTAATCATTCT
* * * * *
32463775 AGGCTTGTAAGAGCTAACCGTTCT
1 GGGCTCGTAGGAGCTAATCATTCT
* * *
32463799 GGGCTCGTAAGAGGTAACCATTCT
1 GGGCTCGTAGGAGCTAATCATTCT
32463823 GGGCTCGTATGG-GCTAA
1 GGGCTCGTA-GGAGCTAA
32463840 ATATTGTCTG
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 117 0.98
25 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (24 bp):
GGGCTCGTAGGAGCTAATCATTCT
Found at i:32465619 original size:14 final size:15
Alignment explanation
Indices: 32465591--32465632 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
32465581 CATAATGGAG
*
32465591 AATATT-TTTAATTT
1 AATATTATTTATTTT
32465605 AAT-TTATTTATTTT
1 AATATTATTTATTTT
32465619 AATATTATATTATT
1 AATATTAT-TTATT
32465633 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.08
14 13 0.54
15 4 0.17
16 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
AATATTATTTATTTT
Found at i:32468463 original size:24 final size:24
Alignment explanation
Indices: 32468436--32468561 Score: 99
Period size: 24 Copynumber: 5.2 Consensus size: 24
32468426 TAGCCTGGCT
*
32468436 TTTGGTGCGACAAGCACACCTGCA
1 TTTGGTGCCACAAGCACACCTGCA
* * * * **
32468460 TTTGGAGCCTCAAGCACTCCAGGT
1 TTTGGTGCCACAAGCACACCTGCA
* *
32468484 TTTGGTACCACAAGCACCCCTGCA
1 TTTGGTGCCACAAGCACACCTGCA
*** * * *
32468508 TTTGGTGCCTTGAGTACACCTTCT
1 TTTGGTGCCACAAGCACACCTGCA
* *
32468532 TTTGGTGGCACAAGCACCCCTGCA
1 TTTGGTGCCACAAGCACACCTGCA
32468556 TTTGGT
1 TTTGGT
32468562 TCAACTGGAA
Statistics
Matches: 72, Mismatches: 30, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (24 bp):
TTTGGTGCCACAAGCACACCTGCA
Found at i:32468712 original size:21 final size:22
Alignment explanation
Indices: 32468683--32468743 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
32468673 ACTTCCACAA
32468683 CTCCTGCTTTTGGAGCTTCAAG
1 CTCCTGCTTTTGGAGCTTCAAG
* * *
32468705 -TTCTGCTTTTGGGGGTTCAAG
1 CTCCTGCTTTTGGAGCTTCAAG
32468726 CACTCCTGCTTTTGGAGC
1 --CTCCTGCTTTTGGAGC
32468744 ATCTTCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 18 0.60
24 12 0.40
ACGTcount: A:0.11, C:0.25, G:0.26, T:0.38
Consensus pattern (22 bp):
CTCCTGCTTTTGGAGCTTCAAG
Found at i:32478784 original size:66 final size:65
Alignment explanation
Indices: 32478704--32478831 Score: 193
Period size: 66 Copynumber: 2.0 Consensus size: 65
32478694 TACCAAAATA
*
32478704 ATATATAATTTATTAAGAAACCAAAAATAATACTATAAATATATATGTAAAAAAATATTTAAATG
1 ATATATAATTTATTAAGAAACCAAAAATAAGACTATAAATATATATGT-AAAAAATATTTAAATG
32478769 C
65 C
** * * *
32478770 ATATATAATTTATTAAGAAATTAAAAATTAGATTATAAATATATATGTGAAAAATATTTAAA
1 ATATATAATTTATTAAGAAACCAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAA
32478832 AACATCGATG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 13 0.23
66 43 0.77
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (65 bp):
ATATATAATTTATTAAGAAACCAAAAATAAGACTATAAATATATATGTAAAAAATATTTAAATGC
Found at i:32480667 original size:22 final size:22
Alignment explanation
Indices: 32480622--32480679 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
32480612 CGAATTGGGC
* *
32480622 TTAGGGTTTGGGTGATTTATTT
1 TTAGGGTTTGGGTGATTAACTT
32480644 TTAGGGTTTGGGT-ATTAAGCTT
1 TTAGGGTTTGGGTGATTAA-CTT
*
32480666 TTATGGTTTTGGGT
1 TTA-GGGTTTGGGT
32480680 TTACACATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.52
Consensus pattern (22 bp):
TTAGGGTTTGGGTGATTAACTT
Found at i:32483894 original size:3 final size:3
Alignment explanation
Indices: 32483886--32483954 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
32483876 ACTATGTTGC
32483886 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
32483934 ATA ACA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
32483955 TTATTATTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:32483959 original size:3 final size:3
Alignment explanation
Indices: 32483953--32483996 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
32483943 ACAATAATAA
* * * *
32483953 TAT TAT TAT TAT TGT TAT TGT TAT TGT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
32483997 GTAGTAGTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:32485008 original size:21 final size:21
Alignment explanation
Indices: 32484983--32485049 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
32484973 AGTTATCTCA
32484983 AATAATATAAAATATTATATT
1 AATAATATAAAATATTATATT
* * *
32485004 AATAATATTAAAAGTAATAAATA
1 AATAATA-TAAAA-TATTATATT
32485027 AATAAT-TAAAA-ATTAATATT
1 AATAATATAAAATATT-ATATT
32485047 AAT
1 AAT
32485050 TTTCATCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 12 0.32
22 5 0.14
23 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
AATAATATAAAATATTATATT
Found at i:32489977 original size:60 final size:55
Alignment explanation
Indices: 32489911--32490042 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 55
32489901 GGGGTTTTTC
* *
32489911 TAAACCCTAAACCTTAAAGTTATAACCCTTAAAAATCATAAAACCTTAAACTCATTATTT
1 TAAACCCTAAACCTTAAA---A-AACCCTTAAAAAT-ATAAAACCTTAAACTCATCACTT
*
32489971 TAAACCCTAAA-C-T-AAAAACCCTTAAAAATTTAAAACCTTAAACTCATCACTT
1 TAAACCCTAAACCTTAAAAAACCCTTAAAAATATAAAACCTTAAACTCATCACTT
* *
32490023 TAAATCTTAAATCCTTAAAA
1 TAAACCCTAAA-CCTTAAAA
32490043 CGTAGCCTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
52 29 0.46
53 13 0.21
54 2 0.03
55 1 0.02
56 3 0.05
57 2 0.03
58 1 0.02
59 1 0.02
60 11 0.17
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (55 bp):
TAAACCCTAAACCTTAAAAAACCCTTAAAAATATAAAACCTTAAACTCATCACTT
Found at i:32493021 original size:32 final size:32
Alignment explanation
Indices: 32492985--32493049 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
32492975 TAAACTAACT
* * *
32492985 TTTTTTAATATTAATAAATATCACTACAAATA
1 TTTTTTAATAATAAAAAATATCACTAAAAATA
* *
32493017 TTTTTTGATAATAAAAAATATCATTAAAAATA
1 TTTTTTAATAATAAAAAATATCACTAAAAATA
32493049 T
1 T
32493050 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (32 bp):
TTTTTTAATAATAAAAAATATCACTAAAAATA
Found at i:32494469 original size:6 final size:6
Alignment explanation
Indices: 32494458--32494515 Score: 107
Period size: 6 Copynumber: 9.5 Consensus size: 6
32494448 ATGCTTTGTT
32494458 ATTTGG ATTTGG ATTTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG
1 ATTTGG ATTTGG A-TTTGG ATTTGG ATTTGG ATTTGG ATTTGG ATTTGG
32494507 ATTTGG ATT
1 ATTTGG ATT
32494516 AAGATTAGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 45 0.88
7 6 0.12
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (6 bp):
ATTTGG
Found at i:32505815 original size:35 final size:35
Alignment explanation
Indices: 32505741--32505823 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
32505731 TTAGTTGGAT
* * * *
32505741 AAATGGTCTATTGGCTCTACGGAGCGGCATCATGG
1 AAATGGTCTACTGGCTCTACGGAGCGACACCATGA
* * *
32505776 AAATGATCTACTGGCTCTACTGAGCGACACCATTA
1 AAATGGTCTACTGGCTCTACGGAGCGACACCATGA
32505811 AAATGGTCTACTG
1 AAATGGTCTACTG
32505824 ACTCCTCGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (35 bp):
AAATGGTCTACTGGCTCTACGGAGCGACACCATGA
Found at i:32506382 original size:58 final size:58
Alignment explanation
Indices: 32506309--32506428 Score: 152
Period size: 58 Copynumber: 2.1 Consensus size: 58
32506299 TTGTTCTGTA
* * * * *
32506309 AAGTCCGTCAGGGACTAACAAATGAAGAGGATGAT-CATTAGGACTACCTAGGGTTGGG
1 AAGTCCGCCAAGGACTAAAAAATGAAGAGAATG-TCCATTAGGACTACCTAGGATTGGG
* * *
32506367 AAGTCCGCCAAGGACTAAAAAATGAAGAGAATGTCCGTTAGGACTATCTAGTATTGGG
1 AAGTCCGCCAAGGACTAAAAAATGAAGAGAATGTCCATTAGGACTACCTAGGATTGGG
32506425 AAGT
1 AAGT
32506429 TCGCTAAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (58 bp):
AAGTCCGCCAAGGACTAAAAAATGAAGAGAATGTCCATTAGGACTACCTAGGATTGGG
Found at i:32506441 original size:58 final size:58
Alignment explanation
Indices: 32506321--32506441 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
32506311 GTCCGTCAGG
* * * *
32506321 GACTAACAAATGAAGAGGATGATCATTAGGACTACCTAGGGTTGGGAAGTCCGCCAAG
1 GACTAAAAAATGAAGAGAATGATCATTAGGACTACCTAGGATTGGGAAGTCCGCCAAA
* * * * *
32506379 GACTAAAAAATGAAGAGAATG-TCCGTTAGGACTATCTAGTATTGGGAAGTTCGCTAAA
1 GACTAAAAAATGAAGAGAATGAT-CATTAGGACTACCTAGGATTGGGAAGTCCGCCAAA
32506437 GACTA
1 GACTA
32506442 TCTTATAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22
Consensus pattern (58 bp):
GACTAAAAAATGAAGAGAATGATCATTAGGACTACCTAGGATTGGGAAGTCCGCCAAA
Found at i:32506559 original size:30 final size:28
Alignment explanation
Indices: 32506514--32506591 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
32506504 TGTTGCTGGG
* *
32506514 AAGTCCATTCCGACTATCTGATTAG-GGGA
1 AAGTCTATTCGGACTATCTGA--AGAGGGA
32506543 AATGTCTATTCGGACTATCTTGAAGAGGGA
1 AA-GTCTATTCGGACTATC-TGAAGAGGGA
* *
32506573 AAGTCTAGTGGGACTATCT
1 AAGTCTATTCGGACTATCT
32506592 TACATAAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 18 0.43
30 20 0.48
31 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (28 bp):
AAGTCTATTCGGACTATCTGAAGAGGGA
Found at i:32510567 original size:30 final size:28
Alignment explanation
Indices: 32510533--32510596 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
32510523 ATTAATAAAA
*
32510533 ATAAAATTACATTTTGATTTTTTTAAAATT
1 ATAAAATTACA-TTT-AATTTTTTAAAATT
**
32510563 ATAAAAATTTGATTTAATTTTTTAAAATT
1 AT-AAAATTACATTTAATTTTTTAAAATT
32510592 ATAAA
1 ATAAA
32510597 GATATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 15 0.50
30 5 0.17
31 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
ATAAAATTACATTTAATTTTTTAAAATT
Found at i:32511736 original size:221 final size:213
Alignment explanation
Indices: 32511460--32511873 Score: 558
Period size: 221 Copynumber: 1.9 Consensus size: 213
32511450 AGTAGAATAT
* * * *
32511460 ATATATATTAGAACTCGATAATTTGTATATTTGTGTTGTGTTCATATATTTTTTATGTTATTATC
1 ATATATATTAGAACTCGATAATTTGTATATTTATGTTATGTTCATATACTTTTTATATTATTATC
* * *
32511525 GTGTTTAAGATATTTTAAATCCGTATAAAACTTTATATGTAATTGTTCTGTATGAAAGAATGAAT
66 GTGTTTAAAATATTTTAAATCCATATAAAACTTTATATGT-A-TG-TATGTAT----GAATGAAT
* *
32511590 GAAAGAGAGAAAAATTGGAGAAAATCGAGTGCTAGAAAAGAAGGCCAAGATGGTGGTGAGTCGAT
124 GAAAGAGA-AAAAAGTAGAGAAAATCGAGTGCTAGAAAAGAAGGCCAAGATGGTGGTGAGTCGAT
32511655 AATAGTGTGTATATATATATACATAC
188 AATAGTGTGTATATATATATACATAC
*
32511681 ATATCTATTAGAACTCGATAATTTGTATATTTATGTTATGTTCATATACTTTTTATATTATTATC
1 ATATATATTAGAACTCGATAATTTGTATATTTATGTTATGTTCATATACTTTTTATATTATTATC
** * * *
32511746 GTGTTTAAAATATTTTAAATTTATATAAAACTTTATATGTATGTATGTATGTATGTATGAAAGGG
66 GTGTTTAAAATATTTTAAATCCATATAAAACTTTATATGTATGTATGTATGAATGAATGAAAGAG
* * * * * * *
32511811 AAAAAAGTAGAGAAAATCGGGTGCTAGAGATGAATGCCAAGGTGGTGGTGAGTTGATGATAGT
131 AAAAAAGTAGAGAAAATCGAGTGCTAGAAAAGAAGGCCAAGATGGTGGTGAGTCGATAATAGT
32511874 ATAAAAATAA
Statistics
Matches: 171, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
213 53 0.31
214 13 0.08
218 6 0.04
219 2 0.01
220 1 0.01
221 96 0.56
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (213 bp):
ATATATATTAGAACTCGATAATTTGTATATTTATGTTATGTTCATATACTTTTTATATTATTATC
GTGTTTAAAATATTTTAAATCCATATAAAACTTTATATGTATGTATGTATGAATGAATGAAAGAG
AAAAAAGTAGAGAAAATCGAGTGCTAGAAAAGAAGGCCAAGATGGTGGTGAGTCGATAATAGTGT
GTATATATATATACATAC
Found at i:32512262 original size:13 final size:13
Alignment explanation
Indices: 32512244--32512270 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32512234 AATATAATAA
32512244 AATATTTAAAAAT
1 AATATTTAAAAAT
32512257 AATATTTAAAAAT
1 AATATTTAAAAAT
32512270 A
1 A
32512271 GGAAATACAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATTTAAAAAT
Found at i:32514850 original size:52 final size:52
Alignment explanation
Indices: 32514663--32514849 Score: 302
Period size: 52 Copynumber: 3.6 Consensus size: 52
32514653 TTCTCATTTG
* * *
32514663 ATACTCACGATGACACATAGTCATCGAACCTCATAATCGGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
32514715 ATGCTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
32514767 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
32514819 ATACTCACGATGACACATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
32514850 TTTGCATTTA
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:32515409 original size:16 final size:17
Alignment explanation
Indices: 32515390--32515430 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
32515380 TCTCAATACC
32515390 ATTTTATT-TCAATTTA
1 ATTTTATTCTCAATTTA
32515406 ATTTTATTCCTCAATTTA
1 ATTTTATT-CTCAATTTA
32515424 ATATTTA
1 AT-TTTA
32515431 CTAAGCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
18 10 0.45
19 4 0.18
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTCTCAATTTA
Found at i:32521535 original size:2 final size:2
Alignment explanation
Indices: 32521528--32521565 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32521518 CTAAGTCAAT
32521528 TA TA TA TA TA 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 TA TA TA TA TA
32521566 CCAAATTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32531110 original size:23 final size:22
Alignment explanation
Indices: 32531077--32531131 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
32531067 AAATTTTAAT
*
32531077 TTTAATTTTTAAAAAAATATAAAA
1 TTTAATTTAT-AAAAAA-ATAAAA
* *
32531101 TTATAATTTATTAAAAACTAAAA
1 TT-TAATTTATAAAAAAATAAAA
32531124 TTTAATTT
1 TTTAATTT
32531132 CGAGTCTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 7 0.26
24 7 0.26
25 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAATTTATAAAAAAATAAAA
Found at i:32536689 original size:43 final size:45
Alignment explanation
Indices: 32536613--32536706 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 45
32536603 TTGAATTTAA
32536613 TTTAA-TGCTTTTATTTTTTATTTTGAAGCAAATAAAATT-ATATT
1 TTTAATTGCTTTTATTTTTTATTTTGAAGCAAATAAAATTAAT-TT
* *
32536657 TTTAATTG-TTTTA-TTTTTATTTTGAAGTAAATAAGATTAATTT
1 TTTAATTGCTTTTATTTTTTATTTTGAAGCAAATAAAATTAATTT
32536700 TTTAATT
1 TTTAATT
32536707 TAGACTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
43 32 0.70
44 12 0.26
45 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (45 bp):
TTTAATTGCTTTTATTTTTTATTTTGAAGCAAATAAAATTAATTT
Done.