Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 109 of 135
Found at i:33102544 original size:119 final size:119
Alignment explanation
Indices: 33102332--33102646 Score: 414
Period size: 119 Copynumber: 2.7 Consensus size: 119
33102322 TGGATACCCG
* *
33102332 GGGGCAAAATGGTAATTTT-GGTGTAA-TCG-GGATTAAAAATGGAATTTTAAAAGATTCGGGGG
1 GGGGTAAAATGGTAATTTTCGGTGAAATTCGAGG-TTAAAAATGGAATTTTAAAAGATTCGGGGG
*
33102394 TAAAATGGTAATTTTCAGTGAAATCGAGGTTAAAAACGGAATTTT-AGAAGCTTC-
65 TAAAATGGTAATTTTCAGTGAAATCGAGGTTAAAAACGGAATTTTAAG-AGATTCA
33102448 GAGGGTAAAATGGTAATTTTCGGTG-AATTCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGG
1 G-GGGTAAAATGGTAATTTTCGGTGAAATTCGAGGTTAAAAATGGAATTTTAAAAGATTC-GGGG
** * *
33102512 GTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAGAGATTCA
64 GTAAAATGGTAATTTTCAGTGAAATCGAGGTTAAAAACGGAATTTTAAGAGATTCA
* **
33102568 GGGGTAAAATGGTAATTTTCGGTGAAATT-GAGGTTAAAAATGTAATTTTGGAAAAG-TTTTGGG
1 GGGGTAAAATGGTAATTTTCGGTGAAATTCGAGGTTAAAAATGGAATTTT--AAAAGATTCGGGG
33102631 GTCAAAAT-GTAATTTT
64 GT-AAAATGGTAATTTT
33102647 GGTAAAGTTT
Statistics
Matches: 179, Mismatches: 9, Indels: 19
0.86 0.04 0.09
Matches are distributed among these distances:
116 1 0.01
117 19 0.11
118 32 0.18
119 108 0.60
120 14 0.08
121 5 0.03
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (119 bp):
GGGGTAAAATGGTAATTTTCGGTGAAATTCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
AAAATGGTAATTTTCAGTGAAATCGAGGTTAAAAACGGAATTTTAAGAGATTCA
Found at i:33102638 original size:30 final size:30
Alignment explanation
Indices: 33102604--33102709 Score: 162
Period size: 30 Copynumber: 3.5 Consensus size: 30
33102594 ATTGAGGTTA
33102604 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
33102634 AAAATGTAATTTTGGTAAAG-TTTCGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
33102663 AAAATGTAATTTTGGGAAAA-TTTTGGGGTC
1 AAAATGTAATTTT-GGAAAAGTTTTGGGGTC
33102693 AAAATGTAATTTCTGGA
1 AAAATGTAATTT-TGGA
33102710 CAATTTAGGA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
29 21 0.30
30 47 0.68
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:33103021 original size:162 final size:161
Alignment explanation
Indices: 33102810--33103114 Score: 443
Period size: 162 Copynumber: 1.9 Consensus size: 161
33102800 ATCTTGAAAA
* * *
33102810 AATTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAGATTAAAA
1 AATTTTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAA
* *
33102875 ATAAAAAGGACTAAATACAAAAATAATCCAAAAAGATGACACGTGGCAACCTCTGGTGCAGTCAA
66 ATAAAAAGGACTAAATACAAAAATAATCCAAAAAG-TGACACGTGGCAACCTATGGTACAGTCAA
33102940 ACAGTCAAAGGACTGGTTTATAAACCTTGAAG
130 ACAGTCAAAGGACTGGTTTATAAACCTTGAAG
* * * *
33102972 AATTATTGGGCCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAATAAA
1 AATT-TTGGACCAATTTCGTAATTAAATA-AAAGTCGATTTAAGAATTAAATTAAAACAAATAAA
* * * **
33103035 AAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAGTGACACGTGGCAGTCTATGGTACAGTCA
64 AAATAAAAAGGACTAAATACAAAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCA
33103100 AACAGTCAAAGGACT
129 AACAGTCAAAGGACT
33103115 AAATTATAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
161 39 0.31
162 58 0.46
163 30 0.24
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (161 bp):
AATTTTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAA
ATAAAAAGGACTAAATACAAAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAA
CAGTCAAAGGACTGGTTTATAAACCTTGAAG
Found at i:33103181 original size:162 final size:162
Alignment explanation
Indices: 33102853--33103198 Score: 360
Period size: 162 Copynumber: 2.1 Consensus size: 162
33102843 CGATTTAAGA
* *
33102853 ATTAAATTAAAACAGATTAAAAATAAAAAGGACTAAATACAAAAATAATCCAAAAAGATGACACG
1 ATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAAAAATAATCCAAAAAGATGACACG
* * *** **
33102918 TGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTGGTTTATAAACCTTGAAGAATTATTGGGC
66 TGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAGAATTACAGGGC
* * * * * ****
33102983 CAATTTCGTAATTAAAATAAAGTTGATTTGGG
131 AAAATTCGCAAATAAAATAAAGGTGAAAAAGG
* * *
33103015 ATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAG-TGACACG
1 ATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAAAAATAATCCAAAAAGATGACACG
**
33103079 TGGCAGTCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AA-AATTACAGG
66 TGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTGAAGAATTACAGG
* *
33103142 GTAAAATT-GCAAAT-AATTGAAAGAGTGCAAAAAGG
129 GCAAAATTCGCAAATAAAAT-AAAG-GTG-AAAAAGG
* **
33103177 ATTAAATTGAAGTAAATAAAAA
1 ATTAAATTAAAACAAATAAAAA
33103199 TGCGGAAGGA
Statistics
Matches: 151, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
159 3 0.02
160 8 0.05
161 62 0.41
162 76 0.50
163 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (162 bp):
ATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAAAAATAATCCAAAAAGATGACACG
TGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAGAATTACAGGGC
AAAATTCGCAAATAAAATAAAGGTGAAAAAGG
Found at i:33104578 original size:14 final size:14
Alignment explanation
Indices: 33104559--33104592 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33104549 GGCCGAAAAA
*
33104559 TGGGCCTTTGTAAT
1 TGGGCCATTGTAAT
33104573 TGGGCCATTGTAAT
1 TGGGCCATTGTAAT
33104587 TGGGCC
1 TGGGCC
33104593 GTGGGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (14 bp):
TGGGCCATTGTAAT
Found at i:33104682 original size:48 final size:48
Alignment explanation
Indices: 33104622--33104728 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
33104612 ATTTGGACTT
* * ** *
33104622 TTAAATGTTAAAT-TTAATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAAT-TTAAATATTAA-ATTTTAAATTTAAAATAAATCTAAATTCAAA
* *
33104671 TTAAATTTAAATATTTAATTTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
33104719 -TAAATTTAAA
1 TTAAATTTAAA
33104729 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 10 0.20
48 31 0.62
49 9 0.18
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (48 bp):
TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:33104686 original size:31 final size:31
Alignment explanation
Indices: 33104651--33104713 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
33104641 TTTTAATTTT
* *
33104651 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
33104682 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
33104713 T
1 T
33104714 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:33104701 original size:6 final size:6
Alignment explanation
Indices: 33104621--33104728 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
33104611 CATTTGGACT
* ** *
33104621 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
33104671 -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33104719 --TAAA TTTAAA
1 TTTAAA TTTAAA
33104729 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 52 0.63
7 15 0.18
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:33104714 original size:42 final size:43
Alignment explanation
Indices: 33104624--33104719 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 43
33104614 TTGGACTTTT
* *
33104624 AAATGTTAAATTTAATATTTTAATTTTTATTTAAATTTAAATTC
1 AAAT-TTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
33104668 AAA-TTAAATTTAA-ATATTTAATTTTAAATTTAAA-ATAAA-TC
1 AAATTTAAATTTAATAT-TTTAATTTT-AATTTAAATATAAATTC
33104709 TAAATTTAAAT
1 -AAATTTAAAT
33104720 AAATTTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
41 4 0.09
42 26 0.57
43 13 0.28
44 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (43 bp):
AAATTTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
Found at i:33106852 original size:59 final size:57
Alignment explanation
Indices: 33106750--33107185 Score: 491
Period size: 59 Copynumber: 7.4 Consensus size: 57
33106740 TTTTGGACAC
* * * *
33106750 TCGGGGGCAAGATGGTAA-TTTTGGTGAAGTCGGGGTTAAAAATGGAATTTTTGAGAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAATGGAATTTTAGA-AGT
* * *
33106808 TCGGGAGTAAAACT-GTAATTTTTGGTGAAATCAGGGTTAAAAATGGTATTTTGGAAGGT
1 TCGGGGGTAAAA-TGGTAATTTTTGGTGAAATC-GGGTTAAAAATGGAATTTTAGAA-GT
* *
33106867 TCGGGGGTAAAATGGTAA-TTTTAGTAAAATCGAGGTTAAAAATGGAATTTTAGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCG-GGTTAAAAATGGAATTTTAG-AAGT
** *
33106925 TCAAGGATAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCG-GGTTAAAAATGGAATTTTAG-AAGT
* *
33106984 TTGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGTTAAAAATGGAATTTTAGAAGAT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGGAATTTTAGAAG-T
* ** * * *
33107042 TTGGGGGTAAAATGGTAATTTTCAGTGAAAACGGGGTTAAAAGTGGAATTTTAGAAGGC
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAATGGAATTTTAGAA-GT
* * *
33107101 TCGAGGGTAAAATGGTAAGTTTTGGTGAAACCGAGGTTAAAAAATGGAATTTTAGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCG-GGTT-AAAAATGGAATTTTAG-AAGT
* *
33107161 TCAGGGGTAAAATGGTAAATTTTGG
1 TCGGGGGTAAAATGGTAATTTTTGG
33107186 AAGTTTCGGG
Statistics
Matches: 326, Mismatches: 39, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
57 4 0.01
58 111 0.34
59 170 0.52
60 39 0.12
61 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (57 bp):
TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGGAATTTTAGAAGT
Found at i:33106926 original size:117 final size:119
Alignment explanation
Indices: 33106716--33107185 Score: 539
Period size: 117 Copynumber: 4.0 Consensus size: 119
33106706 GAAAAAATGA
* * * * * *
33106716 TGAAATCGGGGTTGAAAATGGGACTTTTGGACA--CTCGGGGGCAAGATGGTAA-TTTTGGTGAA
1 TGAAATCGGGGTTAAAAAT-GGAATTTTAGA-AGGCTCGGGGGTAAAATGGTAAGTTTTGGTAAA
* * * *
33106778 GTCGGGGTTAAAAATGGAATTTTTGAGAGTTC-GGGAGTAAAACT-GTAATTTTTGG
64 ATCGAGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAGTAAAA-TGGTAATTTTTGG
* * * * *
33106833 TGAAATCAGGGTTAAAAATGGTATTTTGGAAGGTTCGGGGGTAAAATGGTAA-TTTTAGTAAAAT
1 TGAAATCGGGGTTAAAAATGGAATTTTAGAAGGCTCGGGGGTAAAATGGTAAGTTTTGGTAAAAT
*
33106897 CGAGGTTAAAAATGGAATTTTAGAAAGTTCAAGGA-TAAAATGGTAATTTTTGG
66 CGAGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAGTAAAATGGTAATTTTTGG
* * * * *
33106950 TGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTAAAAT
1 TGAAATCGGGGTTAAAAATGGAATTTTAGAAGGCTCGGGGGTAAAATGGTAAGTTTTGGTAAAAT
* * **
33107015 CG-GGTTAAAAATGGAATTTTAG-AAGATT-TGGGGGTAAAATGGTAATTTTCAG
66 CGAGGTTAAAAATGGAATTTTAGAAAG-TTCAGGGAGTAAAATGGTAATTTTTGG
* * * * *
33107067 TGAAAACGGGGTTAAAAGTGGAATTTTAGAAGGCTCGAGGGTAAAATGGTAAGTTTTGGTGAAAC
1 TGAAATCGGGGTTAAAAATGGAATTTTAGAAGGCTCGGGGGTAAAATGGTAAGTTTTGGTAAAAT
*
33107132 CGAGGTTAAAAAATGGAATTTTAGAAAGTTCAGGG-GTAAAATGGTAAATTTTGG
66 CGAGGTT-AAAAATGGAATTTTAGAAAGTTCAGGGAGTAAAATGGTAATTTTTGG
33107186 AAGTTTCGGG
Statistics
Matches: 302, Mismatches: 40, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
115 1 0.00
116 15 0.05
117 226 0.75
118 20 0.07
119 34 0.11
120 6 0.02
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (119 bp):
TGAAATCGGGGTTAAAAATGGAATTTTAGAAGGCTCGGGGGTAAAATGGTAAGTTTTGGTAAAAT
CGAGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAGTAAAATGGTAATTTTTGG
Found at i:33107091 original size:176 final size:175
Alignment explanation
Indices: 33106761--33107185 Score: 595
Period size: 176 Copynumber: 2.4 Consensus size: 175
33106751 CGGGGGCAAG
* * * * *
33106761 ATGGTAATTTTGGTGAAGTCGGGGTTAAAAATGGAATTTTTGAGAGTTCGGGAGTAAAACT-GTA
1 ATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAA-TGGTA
* * * *
33106825 ATTTTTGGTGAAATCAGGGTTAAAAATGGTATTTTGGAAGGTTCGGGGGTAAAATGGTAATTTTA
65 ATTTTTGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTTA
*
33106890 GTAAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCAAGGATAAA
130 GTAAAATCGAGGTTAAAAATGGAATTTTAGAAAGCTCAAGGATAAA
*
33106936 ATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTA
1 ATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTA
*
33107001 ATTTTTGGTAAAATC-GGGTTAAAAATGGAATTTTAGAAGATTTGGGGGTAAAATGGTAATTTTC
65 ATTTTTGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTT-
* * * * *
33107065 AGTGAAAA-CGGGGTTAAAAGTGGAATTTTAGAAGGCTCGAGGGTAAA
129 AGT-AAAATCGAGGTTAAAAATGGAATTTTAGAAAGCTCAAGGATAAA
* *
33107112 ATGGTAAGTTTTGGTGAAACCGAGGTTAAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGGT
1 ATGGTAA-TTTTGGTGAAATCGAGGTT-AAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGT
*
33107177 AAATTTTGG
64 AATTTTTGG
33107186 AAGTTTCGGG
Statistics
Matches: 223, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
175 52 0.23
176 124 0.56
177 47 0.21
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (175 bp):
ATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAA
TTTTTGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATGGTAATTTTAG
TAAAATCGAGGTTAAAAATGGAATTTTAGAAAGCTCAAGGATAAA
Found at i:33107251 original size:29 final size:28
Alignment explanation
Indices: 33107164--33107254 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 28
33107154 AGAAAGTTCA
*
33107164 GGGGT-AAAATGGTAAATTT-TGGAAGTTT
1 GGGGTCAAAAT-GT-AATTTCTGGATGTTT
* **
33107192 CGGGGTCAGAATGTAATTTTCTAAAAT-TTT
1 -GGGGTCAAAATGTAA-TTTCT-GGATGTTT
33107222 GGGGTCAAAATGTAATTTCTGGACTGTTT
1 GGGGTCAAAATGTAATTTCTGGA-TGTTT
33107251 GGGG
1 GGGG
33107255 ACTTATAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
27 1 0.02
28 8 0.16
29 31 0.63
30 8 0.16
31 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.30, T:0.36
Consensus pattern (28 bp):
GGGGTCAAAATGTAATTTCTGGATGTTT
Found at i:33109290 original size:5 final size:5
Alignment explanation
Indices: 33109280--33109357 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
33109270 ATATTAAATT
*
33109280 TTAAA TTAAA TTCTAAC TTAAA TTAAA TTTAAA -TAAA TTTAAA TTTAAA
1 TTAAA TTAAA -T-TAAA TTAAA TTAAA -TTAAA TTAAA -TTAAA -TTAAA
* *
33109329 TTAAA TTAAAA TTTAAA ATAAA TTTAA TT
1 TTAAA TT-AAA -TTAAA TTAAA TTAAA TT
33109358 TCAAAGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
4 4 0.07
5 29 0.48
6 23 0.38
7 5 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:33109313 original size:11 final size:11
Alignment explanation
Indices: 33109297--33109355 Score: 77
Period size: 11 Copynumber: 5.4 Consensus size: 11
33109287 AAATTCTAAC
33109297 TTAAATTAAAT
1 TTAAATTAAAT
33109308 TTAAA-TAAAT
1 TTAAATTAAAT
33109318 TTAAATTTAAA-
1 TTAAA-TTAAAT
33109329 TTAAATTAAAAT
1 TTAAATT-AAAT
*
33109341 TTAAAATAAAT
1 TTAAATTAAAT
33109352 TTAA
1 TTAA
33109356 TTTCAAAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 12 0.28
11 21 0.49
12 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:33109345 original size:44 final size:46
Alignment explanation
Indices: 33109255--33109355 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 46
33109245 AATGGACATT
**
33109255 TTAAATTTACAAATAATATTAAATTTTAAATTAAATTCTAACTTAAA
1 TTAAATTTA-AAATAATATTAAATTTTAAATTAAATTAAAACTTAAA
*
33109302 TTAAATTT-AAATAA-ATTTAAA-TTTAAATTAAATTAAAATTTAAA
1 TTAAATTTAAAATAATA-TTAAATTTTAAATTAAATTAAAACTTAAA
*
33109346 ATAAATTTAA
1 TTAAATTTAA
33109356 TTTCAAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 28 0.58
45 12 0.25
47 8 0.17
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (46 bp):
TTAAATTTAAAATAATATTAAATTTTAAATTAAATTAAAACTTAAA
Found at i:33109367 original size:17 final size:15
Alignment explanation
Indices: 33109255--33109369 Score: 92
Period size: 17 Copynumber: 7.1 Consensus size: 15
33109245 AATGGACATT
33109255 TTAAATTTACAAATAATA
1 TTAAATTT--AAATAA-A
33109273 TTAAATTT---TAAA
1 TTAAATTTAAATAAA
*
33109285 TTAAATTCTAACTTAAA
1 TTAAATT-TAA-ATAAA
33109302 TTAAATTTAAATAAA
1 TTAAATTTAAATAAA
33109317 TTTAAATTTAAATTAAA
1 -TTAAATTTAAA-TAAA
33109334 TTAAAATTTAAAATAAA
1 TT-AAATTT-AAATAAA
*
33109351 TTTAATTTCAAAGTAAA
1 TTAAATTT-AAA-TAAA
33109368 TT
1 TT
33109370 CTAAAATGGT
Statistics
Matches: 84, Mismatches: 3, Indels: 21
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.10
13 4 0.05
15 4 0.05
16 24 0.29
17 33 0.39
18 11 0.13
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (15 bp):
TTAAATTTAAATAAA
Found at i:33109368 original size:28 final size:29
Alignment explanation
Indices: 33109319--33109376 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
33109309 TAAATAAATT
*
33109319 TAAATTTAAATTAAATTAAAATT-TAAAA
1 TAAATTTAAATTAAAGTAAAATTCTAAAA
*
33109347 TAAATTTAATTTCAAAGT-AAATTCTAAAA
1 TAAATTTAAATT-AAAGTAAAATTCTAAAA
33109376 T
1 T
33109377 GGTTTGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
TAAATTTAAATTAAAGTAAAATTCTAAAA
Found at i:33109790 original size:91 final size:92
Alignment explanation
Indices: 33109643--33109850 Score: 325
Period size: 91 Copynumber: 2.3 Consensus size: 92
33109633 CTTGCTCTTA
* * * *
33109643 TTCAATTTC-AGAGG-GACGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTCAAAG
33109706 GGACAAAGACTTGATATCCAGCTCTAC
66 GGACAAAGACTTGATATCCAGCTCTAC
*
33109733 TTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAAAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTCAAAG
* *
33109797 GGACAAAGGCTTGATATCTAGCTCTAC
66 GGACAAAGACTTGATATCCAGCTCTAC
33109824 TTCAATTTCAAGAGGATAGG-AAATGAT
1 TTCAATTTCAAGAGGATAGGAAAATGAT
33109851 CTTGCTCTTA
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
90 12 0.11
91 90 0.83
92 6 0.06
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (92 bp):
TTCAATTTCAAGAGGATAGGAAAATGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTCAAAG
GGACAAAGACTTGATATCCAGCTCTAC
Found at i:33109832 original size:40 final size:40
Alignment explanation
Indices: 33109690--33109834 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
33109680 ATCTTACTCT
* * *
33109690 TACTTCAATTTCAGAGGGACAAAGACTTGATATCCAGCTC
1 TACTTCAATTTCAAAGGGACAAAGGCTTGATATCTAGCTC
* * *
33109730 TACTTCAATTTCAAGAGGATAGGA-AAAGATGTCGGTGCTTCATCTTGCTC
1 TACTTCAATTTCAA-A-G---GGACAAAG--G-C-TTG-AT-ATCTAGCTC
33109780 TTACTTCAATTTCAAAGGGACAAAGGCTTGATATCTAGCTC
1 -TACTTCAATTTCAAAGGGACAAAGGCTTGATATCTAGCTC
33109821 TACTTCAATTTCAA
1 TACTTCAATTTCAA
33109835 GAGGATAGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
40 27 0.33
41 9 0.11
42 2 0.02
43 2 0.02
44 5 0.06
45 4 0.05
46 3 0.04
47 5 0.06
48 2 0.02
49 2 0.02
50 8 0.10
51 14 0.17
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (40 bp):
TACTTCAATTTCAAAGGGACAAAGGCTTGATATCTAGCTC
Found at i:33109901 original size:38 final size:37
Alignment explanation
Indices: 33109859--33110845 Score: 306
Period size: 38 Copynumber: 27.4 Consensus size: 37
33109849 ATCTTGCTCT
*
33109859 TACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCC-ACTC
* * * * *
33109897 TACTTCAATTTCAAGAGGAT-AGGAAATGATTTTGCTCT-
1 TACTTCAATTTC-AGA-GATGAAGACATG-TTATCCACTC
* * *
33109935 TACTTCAATTTCAGAGATAAAGACGTGTTATCCATTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * * *
33109972 TACTTCAATTTCA-AGAGGATGAC--CTTA--CTCT-
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * *
33110003 TACTTCAATTTCAGAGATAAAGATATGTTATTCACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * * * *
33110040 TACTTTAATTTCA-AAAGGATGAC--GTT-T-CTCT-
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* **
33110071 TACTTCAATTTCAGAGATAAAGACGCGTTATCCAGCTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCA-CTC
* ** * *
33110109 TACTTCAATTTCA-AGAGGGTGAC--GTTGT--TCT-
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
*
33110140 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * * * **
33110177 TACTTCAATTTCAAGCGGAT-AGGAAAAG--ATCTTGCTC
1 TACTTCAATTTC-AG-AGATGAAGACATGTTATC-CACTC
*
33110214 TTACTTCAATTTC----A--AAGACTTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * *
33110246 TACTTCAATTTCA-AGAGGATGACA---T-T--GCTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* *
33110276 TAACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 T-ACTTCAATTTCAGAGATGAAGACATGTTATCC-ACTC
* * * * *
33110315 TACTTCAATTTCAAGCGGAT-AGGAAAAG--ATCTCGCTCC
1 TACTTCAATTTC-AG-AGATGAAGACATGTTATC-CACT-C
* * * *
33110353 TACTTCAATTTCAGAGATAAAGACGTGTTATTCACTT
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
** * * *
33110390 TACTTCAATTTCA-AGCGGACAGGAAAAG--ATCTCGCTCC
1 TACTTCAATTTCAGAGATGA-A-GACATGTTATC-CACT-C
* *
33110428 TACTTCAATTTTAGAGATAAAGACATG-T-TCCACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * * **
33110463 TACTTCAATTTCA-AGAGGACAGGAAAAG--ATCTTGCTCC
1 TACTTCAATTTCAGAGATGA-A-GACATGTTATC-CACT-C
* *
33110501 TACTTCAATTTCAGAGATAAAGACGTG-T-TCCACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
* * * * *
33110536 TACTTCAATTTCAAGAGGAT-ATGGCATGATCT-TGC-TTT
1 TACTTCAATTTC-AGA-GATGAAGACATG-T-TATCCACTC
*
33110574 TACTTCAATTTCAGAGATAAAGAC-TCGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACAT-GTTATCC-ACTC
* * * **
33110612 TACTTCAATTTCAATGGGAT-ATGAAATG--ATCTTGCTC
1 TACTTCAATTTC-A-GAGATGAAGACATGTTATC-CACTC
* * * * *
33110649 TTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTT
1 -TACTTCAATTTCAGAGATGAAGACATGTTATCCA-CTC
* * *
33110688 TACTTCAATTTCAAGAGGATGGGAA-ACTAT-CT-TGCTCT-
1 TACTTCAATTTC-AGA-GAT--GAAGAC-ATGTTATCCACTC
* *
33110726 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACATGTTATCC-ACTC
* * ** * *
33110764 TACTTTAATTTCA-AGAGGGTGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
*
33110795 TACTTCAATTTCAGAGATGAAGACGTGTTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACATG-TTATCCACTC
33110833 TACTTCAATTTCA
1 TACTTCAATTTCA
33110846 AGCGGATAGG
Statistics
Matches: 687, Mismatches: 162, Indels: 200
0.65 0.15 0.19
Matches are distributed among these distances:
30 4 0.01
31 78 0.11
32 47 0.07
33 7 0.01
34 26 0.04
35 38 0.06
36 78 0.11
37 133 0.19
38 201 0.29
39 50 0.07
40 20 0.03
41 2 0.00
42 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATGAAGACATGTTATCCACTC
Found at i:33109916 original size:76 final size:75
Alignment explanation
Indices: 33109771--33110868 Score: 1209
Period size: 76 Copynumber: 15.1 Consensus size: 75
33109761 TCGGTGCTTC
* * * * * *
33109771 ATCTTGCTCTTACTTCAATTTCAAAGGGACAAAGGCTTGATATCTAGCTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAG
33109836 AGGATAGGAAATG
63 AGGATAGGAAATG
* *
33109849 ATCTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
33109914 GATAGGAAATG
65 GATAGGAAATG
* *
33109925 ATTTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCATTCTACTTCAATTTC-A-A-G
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
33109987 --AGG--ATG
66 ATAGGAAATG
* * ** * * *
33109993 ACCTTACTCTTACTTCAATTTCAGAGATAAAGATATGTTATTCACTCTACTTTAATTTCAAAAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
33110058 AT--G--ACG
66 ATAGGAAATG
*
33110064 -T-TT-CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCAGCTCTACTTCAATTTCAAGA-
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAG
33110125 G---GG---TG
65 GATAGGAAATG
* * *
33110130 A-CGTTGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCG
1 ATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAG
*
33110194 GATAGGAAAAG
65 GATAGGAAATG
*
33110205 ATCTTGCTCTTACTTCAATTTC------AAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
33110264 AT--G--A-C
66 ATAGGAAATG
* *
33110269 A--TTGCTCTAACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
*
33110332 GATAGGAAAAG
65 GATAGGAAATG
* * * * *
33110343 ATCTCGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATTCACTTTACTTCAATTTCAAGCGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
* *
33110408 ACAGGAAAAG
66 ATAGGAAATG
* * * *
33110418 ATCTCGCTCCTACTTCAATTTTAGAGATAAAGACATG-T-TCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
* *
33110481 ACAGGAAAAG
66 ATAGGAAATG
*
33110491 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACGTG-T-TCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
33110554 ATATGG-CATG
66 ATA-GGAAATG
*
33110564 ATCTTGCTTTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCAACTCTACTTCAATTTCAATG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCC-ACTCTACTTCAATTTCAA-G
*
33110628 -GGATATGAAATG
63 AGGATAGGAAATG
* * * *
33110640 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAG
*
33110705 GATGGGAAACT-
65 GATAGGAAA-TG
*
33110716 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTTAATTTCAAGA-
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
33110780 G---GG---TG
65 GATAGGAAATG
* *
33110785 A-CGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTTATCCACTCTACTTCAATTTCAAGC
1 ATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTG-TTATCCACTCTACTTCAATTTCAAGA
*
33110849 GGATAGGAAAAG
64 GGATAGGAAATG
33110861 ATCTTGCT
1 ATCTTGCT
33110869 GCGGTCTGAT
Statistics
Matches: 886, Mismatches: 77, Indels: 116
0.82 0.07 0.11
Matches are distributed among these distances:
62 18 0.02
64 1 0.00
65 1 0.00
66 1 0.00
67 2 0.00
68 125 0.14
69 167 0.19
70 11 0.01
71 5 0.01
72 6 0.01
73 133 0.15
74 6 0.01
75 107 0.12
76 275 0.31
77 6 0.01
78 22 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (75 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATAGGAAATG
Found at i:33110081 original size:31 final size:31
Alignment explanation
Indices: 33109972--33110083 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 31
33109962 TTATCCATTC
* * *
33109972 TACTTCAATTTCAAGAGGATGACCTTACTCT
1 TACTTCAATTTCAAAAGGATGACGTTTCTCT
* * *
33110003 TACTTCAATTTCAGAGATAAAGAT-ATGTTATTCACT
1 TACTTCAATTTC--A-A-AAGGATGACG-T-TTCTCT
*
33110039 CTACTTTAATTTCAAAAGGATGACGTTTCTCT
1 -TACTTCAATTTCAAAAGGATGACGTTTCTCT
33110071 TACTTCAATTTCA
1 TACTTCAATTTCA
33110084 GAGATAAAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
31 24 0.39
32 5 0.08
33 7 0.11
34 5 0.08
35 6 0.10
36 4 0.06
37 11 0.18
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (31 bp):
TACTTCAATTTCAAAAGGATGACGTTTCTCT
Found at i:33110145 original size:69 final size:68
Alignment explanation
Indices: 33109928--33110847 Score: 792
Period size: 69 Copynumber: 12.9 Consensus size: 68
33109918 GGAAATGATT
* *
33109928 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCATTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGGTG
*
33109993 ACC
66 ACG
* ** * * * *
33109996 TTACTCTTACTTCAATTTCAGAGATAAAGATATGTTATTCACTCTACTTTAATTTCAAAAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGGTG
33110061 ACG
66 ACG
* *
33110064 TTTCTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCAGCTCTACTTCAATTTCAAGAGGGT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGGT
33110129 GACG
65 GACG
* * * *
33110133 TTGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGGT-
*
33110198 GGAAAAG
65 -G--ACG
*
33110205 ATCTTGCTCTTACTTCAATTTC------AAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGG
1 ---TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
* *
33110264 ATGACA
63 GTGACG
* * *
33110270 TTGCTCTAACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGGT
*
33110335 AGGAAAAG
65 --G--ACG
* * * *
33110343 ATCTCGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATTCACTTTACTTCAATTTCAAGCGG
1 -T-T-GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
33110408 ACAG-GAAAAG
63 ---GTG--ACG
* * *
33110418 ATCTCGCTCCTACTTCAATTTTAGAGATAAAGACATG-T-TCCACTCTACTTCAATTTCAAGAGG
1 -T-T-GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
33110481 ACAG-GAAAAG
63 ---GTG--ACG
*
33110491 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACGTG-T-TCCACTCTACTTCAATTTCAAGAGG
1 ---TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGA-G
33110554 ATATGGCATGATC-
62 ----GG--TGA-CG
*
33110567 TTGCTTTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCAACTCTACTTCAATTTCAATG-GG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCC-ACTCTACTTCAATTTCAA-GAGG
33110630 ATATGAAATGATC-
63 ----G---TGA-CG
* * * *
33110643 TTGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGG--
* *
33110708 GGGAAACTATC
63 GTG--AC---G
*
33110719 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTTAATTTCAAGAGGGT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGGT
33110784 GACG
65 GACG
*
33110788 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTTATCCACTCTACTTCAATTTCAAG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTG-TTATCCACTCTACTTCAATTTCAAG
33110848 CGGATAGGAA
Statistics
Matches: 730, Mismatches: 65, Indels: 113
0.80 0.07 0.12
Matches are distributed among these distances:
62 18 0.02
65 1 0.00
67 1 0.00
68 131 0.18
69 171 0.23
70 7 0.01
71 3 0.00
72 6 0.01
73 118 0.16
74 10 0.01
75 90 0.12
76 169 0.23
77 3 0.00
78 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGGTG
ACG
Found at i:33123053 original size:29 final size:29
Alignment explanation
Indices: 33123021--33123335 Score: 155
Period size: 30 Copynumber: 10.8 Consensus size: 29
33123011 TTTGGTGAAA
33123021 TCGGGGTTAAAAATGG-AATTTTAGAAAGT
1 TCGGGGTT-AAAATGGTAATTTTAGAAAGT
* *
33123050 TCGGGGATAAAATGGTAATTTTTGGTGAAA-T
1 TCGGGGTTAAAATGGTAA-TTTT--AGAAAGT
*
33123081 T-GAGGTTAAAAATGG-AATTTTAGAAAGT
1 TCGGGGTT-AAAATGGTAATTTTAGAAAGT
* *
33123109 TCGGGGGTAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGTTAAAATGGTAA-TTTT--AGAAAGT
*
33123139 TC-GGGTTAAAATGG-AATTTTAGAAGATT
1 TCGGGGTTAAAATGGTAATTTTAGAA-AGT
*
33123167 TAGGGG-TAAAATGGTAATTTTCGATGAAA--
1 TCGGGGTTAAAATGGTAATTTT--A-GAAAGT
* * *
33123196 ACGGGGTTAAAAATGG-AATTTTAGAAGGC
1 TCGGGGTT-AAAATGGTAATTTTAGAAAGT
33123225 TCGAGGG-TAAAATGGTAAATTTCGGT-GAAA--
1 TCG-GGGTTAAAATGGT-AATTT---TAGAAAGT
*
33123255 TCGGGGTTAAAAAAT-GAAATTTTAGAAAGT
1 TCGGGGTT--AAAATGGTAATTTTAGAAAGT
* * *
33123285 TTGGGGGTAAAATGGTAAATTTT-GGAAGTT
1 TCGGGGTTAAAATGGT-AATTTTAGAAAG-T
* *
33123315 TCGGGGTCAGAAT-GTAATTTT
1 TCGGGGTTAAAATGGTAATTTT
33123336 CTAAAATTTT
Statistics
Matches: 223, Mismatches: 25, Indels: 77
0.69 0.08 0.24
Matches are distributed among these distances:
25 3 0.01
26 1 0.00
27 12 0.05
28 50 0.22
29 56 0.25
30 62 0.28
31 19 0.09
32 19 0.09
33 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
TCGGGGTTAAAATGGTAATTTTAGAAAGT
Found at i:33123094 original size:59 final size:58
Alignment explanation
Indices: 33122995--33123309 Score: 420
Period size: 59 Copynumber: 5.4 Consensus size: 58
33122985 TGGACACCTT
*
33122995 GGGGTAAGATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
* *
33123052 GGGGATAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTAGAAAGTTC
1 GGGG-TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
* *
33123111 GGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTT-AAAATGGAATTTTAGAAGATTTA
1 -GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAA-AGTTC
* * * * *
33123169 GGGGTAAAATGGTAATTTTCGATGAAAACGGGGTTAAAAATGGAATTTTAGAAGGCTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
* * * *
33123227 GAGGGTAAAATGGTAAATTTCGGTGAAATCGGGGTTAAAAAATGAAATTTTAGAAAGTTTG
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGAAAG-TTC
*
33123288 GGGGTAAAATGGTAAATTTTGG
1 GGGGTAAAATGGTAATTTTTGG
33123310 AAGTTTCGGG
Statistics
Matches: 227, Mismatches: 22, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
57 47 0.21
58 24 0.11
59 112 0.49
60 42 0.19
61 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
Found at i:33123176 original size:28 final size:28
Alignment explanation
Indices: 33123089--33123222 Score: 85
Period size: 29 Copynumber: 4.6 Consensus size: 28
33123079 ATTGAGGTTA
*
33123089 AAAATGGAATTTTAGAA-AGT-TCGGGGGT
1 AAAATGGAATTTTAGAAGA-TAT-AGGGGT
* ** * * *
33123117 AAAATGGTAATTTTTGGTGAAATCGGGTT
1 AAAATGG-AATTTTAGAAGATATAGGGGT
*
33123146 AAAATGGAATTTTAGAAGATTTAGGGGT
1 AAAATGGAATTTTAGAAGATATAGGGGT
* * *
33123174 AAAATGGTAATTTTCGATGA-AAACGGGGTT
1 AAAATGG-AATTTTAGAAGATATA-GGGG-T
33123204 AAAAATGGAATTTTAGAAG
1 -AAAATGGAATTTTAGAAG
33123223 GCTCGAGGGT
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
28 29 0.36
29 32 0.40
30 12 0.15
31 7 0.09
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAGATATAGGGGT
Found at i:33123195 original size:116 final size:116
Alignment explanation
Indices: 33122995--33123307 Score: 423
Period size: 116 Copynumber: 2.7 Consensus size: 116
33122985 TGGACACCTT
* * *
33122995 GGGGTAAGATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGATAA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAATTTAGGGG-TAA
* * ** *
33123060 AATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTAGAAAGTTCG
65 AATGGTAATTTTCGATGAAAACGAGGTTAAAAATGGAATTTTAGAAAGCTCG
33123112 GGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTT-AAAATGGAATTTTAGAAGATTTAGGGGTA
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAA-ATTTAGGGGTA
* *
33123175 AAATGGTAATTTTCGATGAAAACGGGGTTAAAAATGGAATTTTAGAAGGCTCG
64 AAATGGTAATTTTCGATGAAAACGAGGTTAAAAATGGAATTTTAGAAAGCTCG
* * * *
33123228 AGGGTAAAATGGTAAATTTCGGTGAAATCGGGGTTAAAAAATGAAATTTTAGAAAGTTTGGGGGT
1 GGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGAAA-TTTAGGGGT
33123293 AAAATGGTAAATTTT
63 AAAATGGT-AATTTT
33123308 GGAAGTTTCG
Statistics
Matches: 174, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
116 89 0.51
117 33 0.19
118 14 0.08
119 32 0.18
120 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (116 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAATTTAGGGGTAAA
ATGGTAATTTTCGATGAAAACGAGGTTAAAAATGGAATTTTAGAAAGCTCG
Found at i:33125410 original size:5 final size:5
Alignment explanation
Indices: 33125400--33125477 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
33125390 ATATTAAATT
*
33125400 TTAAA TTAAA TTCTAAC TTAAA TTAAA TTTAAA -TAAA TTTAAA TTTAAA
1 TTAAA TTAAA -T-TAAA TTAAA TTAAA -TTAAA TTAAA -TTAAA -TTAAA
* *
33125449 TTAAA TTAAAA TTTAAA ATAAA TTTAA TT
1 TTAAA TT-AAA -TTAAA TTAAA TTAAA TT
33125478 TCAAAGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
4 4 0.07
5 29 0.48
6 23 0.38
7 5 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:33125433 original size:11 final size:11
Alignment explanation
Indices: 33125417--33125475 Score: 77
Period size: 11 Copynumber: 5.4 Consensus size: 11
33125407 AAATTCTAAC
33125417 TTAAATTAAAT
1 TTAAATTAAAT
33125428 TTAAA-TAAAT
1 TTAAATTAAAT
33125438 TTAAATTTAAA-
1 TTAAA-TTAAAT
33125449 TTAAATTAAAAT
1 TTAAATT-AAAT
*
33125461 TTAAAATAAAT
1 TTAAATTAAAT
33125472 TTAA
1 TTAA
33125476 TTTCAAAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 12 0.28
11 21 0.49
12 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:33125465 original size:44 final size:46
Alignment explanation
Indices: 33125375--33125475 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 46
33125365 AATAGACATT
**
33125375 TTAAATTTACAAATAATATTAAATTTTAAATTAAATTCTAACTTAAA
1 TTAAATTTA-AAATAATATTAAATTTTAAATTAAATTAAAACTTAAA
*
33125422 TTAAATTT-AAATAA-ATTTAAA-TTTAAATTAAATTAAAATTTAAA
1 TTAAATTTAAAATAATA-TTAAATTTTAAATTAAATTAAAACTTAAA
*
33125466 ATAAATTTAA
1 TTAAATTTAA
33125476 TTTCAAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 28 0.58
45 12 0.25
47 8 0.17
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (46 bp):
TTAAATTTAAAATAATATTAAATTTTAAATTAAATTAAAACTTAAA
Found at i:33125487 original size:17 final size:15
Alignment explanation
Indices: 33125375--33125489 Score: 92
Period size: 17 Copynumber: 7.1 Consensus size: 15
33125365 AATAGACATT
33125375 TTAAATTTACAAATAATA
1 TTAAATTT--AAATAA-A
33125393 TTAAATTT---TAAA
1 TTAAATTTAAATAAA
*
33125405 TTAAATTCTAACTTAAA
1 TTAAATT-TAA-ATAAA
33125422 TTAAATTTAAATAAA
1 TTAAATTTAAATAAA
33125437 TTTAAATTTAAATTAAA
1 -TTAAATTTAAA-TAAA
33125454 TTAAAATTTAAAATAAA
1 TT-AAATTT-AAATAAA
*
33125471 TTTAATTTCAAAGTAAA
1 TTAAATTT-AAA-TAAA
33125488 TT
1 TT
33125490 CTAAGATGGT
Statistics
Matches: 84, Mismatches: 3, Indels: 21
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.10
13 4 0.05
15 4 0.05
16 24 0.29
17 33 0.39
18 11 0.13
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (15 bp):
TTAAATTTAAATAAA
Found at i:33126054 original size:19 final size:19
Alignment explanation
Indices: 33126032--33126076 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33126022 TTATATTAGG
33126032 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
33126051 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
33126070 ATTTAAT
1 ATTTAAT
33126077 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:33130429 original size:12 final size:12
Alignment explanation
Indices: 33130412--33130436 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33130402 ATGCATAGAA
33130412 TTTAATTCTAGG
1 TTTAATTCTAGG
33130424 TTTAATTCTAGG
1 TTTAATTCTAGG
33130436 T
1 T
33130437 CATATAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTAATTCTAGG
Found at i:33131135 original size:43 final size:43
Alignment explanation
Indices: 33131082--33131428 Score: 516
Period size: 43 Copynumber: 8.1 Consensus size: 43
33131072 TTATGAGGGA
* * *
33131082 AAACGCCGCTAAAGAACATGGTCTTTAGCAGCGCGTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * *
33131125 AAACACCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* *
33131168 AAATGTCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
*
33131211 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * *
33131254 AAACGCTGCTAAAGAACATGGTCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
*
33131297 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * * * * *
33131340 AAACGCCGCTAAAGATCATGGTCTTTAGTGGCGCTTATCTCGC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
33131383 AAACGCCGCTAAA-AACATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
33131425 AAAC
1 AAAC
33131429 AACACTAACA
Statistics
Matches: 275, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
42 27 0.10
43 248 0.90
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
Found at i:33135731 original size:41 final size:41
Alignment explanation
Indices: 33135670--33135882 Score: 268
Period size: 41 Copynumber: 5.2 Consensus size: 41
33135660 TTTGAATAAA
* *
33135670 TTAGCGGCGTTTTTCCCATAAGCGCCGCTATTGCTCTGACCT
1 TTAGCGGCG-CTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* *
33135712 TTGGCGGCGCTTGCCCATAAGCGCCGCTATTGCT-TGACTT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* *
33135752 TTAGTGGCGCTTGCCCATAAGCGCTGCTATTGCTCTGACCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
** * * * *
33135793 TTAGTAGTGCTTTCCCATTAGCGCCGCTATTGCTCTGATCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * *
33135834 TTAGCGGCGCTTGACCATAAGCGCCGCTATTGCT-TTATCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
33135874 TTAGCGGCG
1 TTAGCGGCG
33135883 TTTTCTGCCC
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 50 0.34
41 91 0.61
42 8 0.05
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
Found at i:33135819 original size:81 final size:82
Alignment explanation
Indices: 33135670--33135867 Score: 265
Period size: 81 Copynumber: 2.4 Consensus size: 82
33135660 TTTGAATAAA
* * * *
33135670 TTAGCGGCGTTTTTCCCATAAGCGCCGCTATTGCTCTGACCTTTGGCGGCGCTTGCCCATAAGCG
1 TTAGCGGCG-CTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCAGCGCTTGCCCATAAGCG
33135735 CCGCTATTGCT-TGA-CTT
65 CCGCTATTGCTCTGATC-T
* * * * * *
33135752 TTAGTGGCGCTTGCCCATAAGCGCTGCTATTGCTCTGACCTTTAGTAGTGCTTTCCCATTAGCGC
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCAGCGCTTGCCCATAAGCGC
33135817 CGCTATTGCTCTGATCT
66 CGCTATTGCTCTGATCT
*
33135834 TTAGCGGCGCTTGACCATAAGCGCCGCTATTGCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCT
33135868 TTATCTTTAG
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 57 0.56
82 43 0.43
83 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.32
Consensus pattern (82 bp):
TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCAGCGCTTGCCCATAAGCGC
CGCTATTGCTCTGATCT
Found at i:33137511 original size:8 final size:8
Alignment explanation
Indices: 33137498--33137550 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
33137488 AACCCAATTA
33137498 TTTTTATT
1 TTTTTATT
33137506 TTTTTATT
1 TTTTTATT
*
33137514 TTTCTATCT
1 TTTTTAT-T
33137523 TATTTTATT
1 T-TTTTATT
*
33137532 TATTTATT
1 TTTTTATT
*
33137540 TATTTATT
1 TTTTTATT
33137548 TTT
1 TTT
33137551 GTCCAAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 30 0.77
9 4 0.10
10 5 0.13
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATT
Found at i:33137535 original size:4 final size:4
Alignment explanation
Indices: 33137500--33137548 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
33137490 CCCAATTATT
*
33137500 TTTA TTTT TTTA TTT- TTCTA TCTTA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TT-TA T-TTA -TTTA TTTA TTTA TTTA TTTA TTT
33137549 TTGTCCAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 2 0.05
4 29 0.74
5 6 0.15
6 2 0.05
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:33139016 original size:19 final size:19
Alignment explanation
Indices: 33138994--33139038 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33138984 TTATATTAGG
33138994 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
33139013 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
33139032 ATTTAAT
1 ATTTAAT
33139039 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:33148001 original size:17 final size:17
Alignment explanation
Indices: 33147963--33148056 Score: 100
Period size: 17 Copynumber: 5.4 Consensus size: 17
33147953 CCCAACAGAG
*
33147963 TTTAAATTCATTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
33147981 -TTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
33147997 TTTAAATTTTATTTAAAA
1 TTTAAA-TTTATTTTAAA
**
33148015 TTTAAATTTATAATAAA
1 TTTAAATTTATTTTAAA
*
33148032 TTTAAATTTAAATTTAAA
1 TTTAAATTT-ATTTTAAA
33148050 TTTAAAT
1 TTTAAAT
33148057 GTCCAATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
16 6 0.10
17 30 0.48
18 27 0.43
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:33148023 original size:6 final size:6
Alignment explanation
Indices: 33147975--33148056 Score: 84
Period size: 6 Copynumber: 14.2 Consensus size: 6
33147965 TAAATTCATT
* * *
33147975 TTTAAA -TTAAA TTT-AT TTTAAG TTTAAA TTT-TA TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
33148021 TTTATAA --TAAA TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
33148057 GTCCAATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
4 2 0.03
5 15 0.23
6 41 0.64
7 6 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:33148036 original size:35 final size:35
Alignment explanation
Indices: 33147975--33148056 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
33147965 TAAATTCATT
** * *
33147975 TTTAAA-TTAAATTTATTTTAAGTTTAAATTT-TA
1 TTTAAATTTAAATTTATAATAAATTTAAATTTAAA
33148008 TTTAAAATTTAAATTTATAATAAATTTAAATTTAAA
1 TTT-AAATTTAAATTTATAATAAATTTAAATTTAAA
33148044 TTTAAATTTAAAT
1 TTTAAATTTAAAT
33148057 GTCCAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 3 0.07
35 32 0.76
36 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (35 bp):
TTTAAATTTAAATTTATAATAAATTTAAATTTAAA
Found at i:33148756 original size:22 final size:23
Alignment explanation
Indices: 33148713--33148763 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
33148703 AATTATTTAT
*
33148713 TAATAATATTTTCTTTTAAATAA
1 TAATAATATTTTATTTTAAATAA
33148736 TAATAAT-TTTTATTATT-AATAA
1 TAATAATATTTTATT-TTAAATAA
33148758 TAATAA
1 TAATAA
33148764 ATTAGAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATAATATTTTATTTTAAATAA
Found at i:33149972 original size:30 final size:28
Alignment explanation
Indices: 33149894--33150151 Score: 180
Period size: 30 Copynumber: 8.8 Consensus size: 28
33149884 TACCTTGAAA
* *
33149894 GACCCTAAACTATTCAAAAATTATATTTT
1 GACCCCAAACT-TCCAAAAATTATATTTT
* *
33149923 AACCCCCGAACTTCCAAAAATTATATTTTT
1 GA-CCCCAAACTTCCAAAAATTATA-TTTT
*
33149953 GACCTCCAAACTTCTAAAAATTATATTTT
1 GACC-CCAAACTTCCAAAAATTATATTTT
* * *
33149982 GACCCTCGAACTT-TAAAAATTACATTTTT
1 GACCC-CAAACTTCCAAAAATTATA-TTTT
* * ** *
33150011 AACCCTAAAACTTTTAAAATTTATATTTT
1 GACCC-CAAACTTCCAAAAATTATATTTT
* *
33150040 AACCCTCGAACTTCCAAAAATTATATTTTT
1 GACCC-CAAACTTCCAAAAATTATA-TTTT
*
33150070 GACCCCAAAACTTCCAAAAATTACATTTT
1 GACCCC-AAACTTCCAAAAATTATATTTT
* * *
33150099 -CCCCTCGAACTTTCAAAAATTACCT-TTTT
1 GACCC-CAAACTTCCAAAAATTA--TATTTT
* *
33150128 GACCTCGAAACTTCCAAGAATTAT
1 GACC-CCAAACTTCCAAAAATTAT
33150152 TTGCCCCTGA
Statistics
Matches: 185, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
28 29 0.16
29 77 0.42
30 78 0.42
31 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (28 bp):
GACCCCAAACTTCCAAAAATTATATTTT
Found at i:33150029 original size:58 final size:59
Alignment explanation
Indices: 33149894--33150151 Score: 283
Period size: 58 Copynumber: 4.4 Consensus size: 59
33149884 TACCTTGAAA
* * *
33149894 GACCCT-AAACTATTCAAAAATTATATTTTAACCCCCGAACTTCCAAAAATTATATTTTT
1 GACCCTAAAACT-TCCAAAAATTATATTTTAACCCTCGAACTTCCAAAAATTACATTTTT
* * * *
33149953 GA-CCTCCAAACTTCTAAAAATTATATTTTGACCCTCGAACTT-TAAAAATTACATTTTT
1 GACCCT-AAAACTTCCAAAAATTATATTTTAACCCTCGAACTTCCAAAAATTACATTTTT
* ** * *
33150011 AACCCTAAAACTTTTAAAATTTATATTTTAACCCTCGAACTTCCAAAAATTATATTTTT
1 GACCCTAAAACTTCCAAAAATTATATTTTAACCCTCGAACTTCCAAAAATTACATTTTT
* * * * *
33150070 GACCCCAAAACTTCCAAAAATTACATTTT-CCCCTCGAACTTTCAAAAATTACCTTTTT
1 GACCCTAAAACTTCCAAAAATTATATTTTAACCCTCGAACTTCCAAAAATTACATTTTT
* *
33150128 GA-CCTCGAAACTTCCAAGAATTAT
1 GACCCT-AAAACTTCCAAAAATTAT
33150152 TTGCCCCTGA
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
57 2 0.01
58 92 0.55
59 68 0.41
60 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (59 bp):
GACCCTAAAACTTCCAAAAATTATATTTTAACCCTCGAACTTCCAAAAATTACATTTTT
Found at i:33150127 original size:29 final size:29
Alignment explanation
Indices: 33149901--33150189 Score: 195
Period size: 29 Copynumber: 10.0 Consensus size: 29
33149891 AAAGACCCTA
* * *
33149901 AACTATTCAAAAATTATATTTTAACCCCCG
1 AACT-TTCAAAAATTACATTTTTACCCTCG
* * *
33149931 AACTTCCAAAAATTATATTTTTGA-CCTCCA
1 AACTTTCAAAAATTACATTTTT-ACCCT-CG
* *
33149961 AAC-TTCTAAAAATTATATTTTGACCCTCG
1 AACTTTC-AAAAATTACATTTTTACCCTCG
**
33149990 AACTTT-AAAAATTACATTTTTAACCCTAA
1 AACTTTCAAAAATTACATTTTT-ACCCTCG
* * * *
33150019 AACTTTTAAAATTTATATTTTAACCCTCG
1 AACTTTCAAAAATTACATTTTTACCCTCG
* * *
33150048 AACTTCCAAAAATTATATTTTTGACCC-CAA
1 AACTTTCAAAAATTACATTTTT-ACCCTC-G
* *
33150078 AACTTCCAAAAATTACA-TTTTCCCCTCG
1 AACTTTCAAAAATTACATTTTTACCCTCG
*
33150106 AACTTTCAAAAATTACCTTTTTGA-CCTCG
1 AACTTTCAAAAATTACATTTTT-ACCCTCG
* * **
33150135 AAACTTCCAAGAATT--A-TTTGCCCCT-G
1 -AACTTTCAAAAATTACATTTTTACCCTCG
33150161 AACTTTCAAAAATTACCA-TTTTACCCTCG
1 AACTTTCAAAAATTA-CATTTTTACCCTCG
33150190 GACGTCCAAA
Statistics
Matches: 205, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
25 12 0.06
26 1 0.00
27 6 0.03
28 39 0.19
29 75 0.37
30 72 0.35
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
AACTTTCAAAAATTACATTTTTACCCTCG
Found at i:33150140 original size:117 final size:117
Alignment explanation
Indices: 33149895--33150127 Score: 355
Period size: 117 Copynumber: 2.0 Consensus size: 117
33149885 ACCTTGAAAG
33149895 ACCCT-AAACTATTCAAAAATTATATTTTAACCCCCGAACTTCCAAAAATTATATTTTTGACCTC
1 ACCCTAAAACT-TTCAAAAATTATATTTTAACCCCCGAACTTCCAAAAATTATATTTTTGACCTC
* *
33149959 CAAACTTCTAAAAATTATATTTTGACCCTCGAACTTTAAAAATTACATTTTTA
65 CAAACTTCCAAAAATTACATTTTGACCCTCGAACTTTAAAAATTACATTTTTA
* * *
33150012 ACCCTAAAACTTTTAAAATTTATATTTTAACCCTCGAACTTCCAAAAATTATATTTTTGACC-CC
1 ACCCTAAAACTTTCAAAAATTATATTTTAACCCCCGAACTTCCAAAAATTATATTTTTGACCTCC
* *
33150076 AAAACTTCCAAAAATTACATTTT-CCCCTCGAACTTTCAAAAATTACCTTTTT
66 -AAACTTCCAAAAATTACATTTTGACCCTCGAACTTT-AAAAATTACATTTTT
33150128 GACCTCGAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
116 14 0.13
117 87 0.82
118 5 0.05
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (117 bp):
ACCCTAAAACTTTCAAAAATTATATTTTAACCCCCGAACTTCCAAAAATTATATTTTTGACCTCC
AAACTTCCAAAAATTACATTTTGACCCTCGAACTTTAAAAATTACATTTTTA
Found at i:33156435 original size:29 final size:29
Alignment explanation
Indices: 33156403--33156463 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
33156393 AAAATGAGAC
* *
33156403 TTTTTGGA-TGCCTGGGGGTAAAATGGTAA
1 TTTTTGGACT-CCTGAGGGCAAAATGGTAA
*
33156432 -TTTTGGACTCTTGAGGGCAAAATGGTAA
1 TTTTTGGACTCCTGAGGGCAAAATGGTAA
33156460 TTTT
1 TTTT
33156464 AAGAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.38
Consensus pattern (29 bp):
TTTTTGGACTCCTGAGGGCAAAATGGTAA
Found at i:33156519 original size:28 final size:28
Alignment explanation
Indices: 33156418--33156521 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
33156408 GGATGCCTGG
* * *
33156418 GGGTAAAATGGTAATTTTGGACTCTTGA
1 GGGTAAAATGGTAATTTTAGACACTTAA
* * * *
33156446 GGGCAAAATGGTAATTTTAAGAAAATTTA
1 GGGTAAAATGGTAATTTT-AGACACTTAA
*
33156475 GGGTTAAATAT-GAAATTTTAGACACTTAA
1 GGG-TAAA-ATGGTAATTTTAGACACTTAA
*
33156504 GGGTAAAACGGTAATTTT
1 GGGTAAAATGGTAATTTT
33156522 TAAAAGAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.02
28 28 0.47
29 18 0.31
30 10 0.17
31 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTAGACACTTAA
Found at i:33156665 original size:146 final size:147
Alignment explanation
Indices: 33156392--33156688 Score: 393
Period size: 146 Copynumber: 2.0 Consensus size: 147
33156382 AATCGGGATT
* * * * *
33156392 AAAAATGAGACTTTTTGGATGCCTGGGGGTAAAATGGTAATTTTGGACTCTTGAGGGCAAAATGG
1 AAAAATGAGACTTTTTGGATGCCCGAGGGCAAAATGGTAATTTTGGACTCTAGAGAGCAAAATGG
* ** *
33156457 TAATTTTAAGAAAATTTAGGGTTAAATATGAAATTTTAGACACTTAAGGGTAAAACGGTAATTTT
66 TAATTTTAAGAAAATTTAGGGTTAAATATGAAATTTTAAACACTTAACAGTAAAACGATAATTTT
33156522 T-AAAAGAATCAAGATAA
131 TCAAAA-AATCAAGATAA
*
33156539 AAAAATGGGACTTTTTGGATGCCCGAGGGCAAAATGGTAATTTTGGACTCTAGA-AGCAAAATGG
1 AAAAATGAGACTTTTTGGATGCCCGAGGGCAAAATGGTAATTTTGGACTCTAGAGAGCAAAATGG
* * * * * *
33156603 TAATTTTGAGAAATTTTGGGGTTAAA-ATGACATTTTAAACACTTTGACAGTAAAATGATAATTT
66 TAATTTTAAGAAAATTTAGGGTTAAATATGAAATTTTAAACAC-TTAACAGTAAAACGATAATTT
* *
33156667 TTCGAAAAATCAGGATAA
130 TTCAAAAAATCAAGATAA
33156685 AAAA
1 AAAA
33156689 CGGGATTTTG
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
145 14 0.11
146 64 0.49
147 52 0.40
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (147 bp):
AAAAATGAGACTTTTTGGATGCCCGAGGGCAAAATGGTAATTTTGGACTCTAGAGAGCAAAATGG
TAATTTTAAGAAAATTTAGGGTTAAATATGAAATTTTAAACACTTAACAGTAAAACGATAATTTT
TCAAAAAATCAAGATAA
Found at i:33156768 original size:29 final size:29
Alignment explanation
Indices: 33156736--33157233 Score: 354
Period size: 29 Copynumber: 17.1 Consensus size: 29
33156726 GAGAGTTTCC
* *
33156736 GGGTTAAAAATAG-AATTTTTTGAAGTTCA
1 GGGTTAAAAAT-GTAATTTTTGGAAGTTTA
** *
33156765 GGGTCCAAAATGGAATTTTTGGAAGTTTA
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
* * * * *
33156794 CGAG-CAAAAATATAATTTTTGAAAGTTCGA
1 -GGGTTAAAAATGTAATTTTTGGAAGTT-TA
* *
33156824 GGG-T---GATGTAATTTTTGGAATTTTA
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
* * *
33156849 GGGGTT-AAAATGGAATTTTTAGAAGTTCA
1 -GGGTTAAAAATGTAATTTTTGGAAGTTTA
* *
33156878 GGGAGTAAAAATGTAATTTTTGAAAGTTTCA
1 GGG-TTAAAAATGTAATTTTTGGAAGTTT-A
* * * *
33156909 -AGATAAAAATGTAATTTTTAGAAGTTTT
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
* * *
33156937 GGGGTCAAAATGTAATTTTTGGAAGTTTTG
1 GGGTTAAAAATGTAATTTTTGGAAG-TTTA
*
33156967 GGGTTACAAAT-TGAATTTTTGGAAGTTTGA
1 GGGTTAAAAATGT-AATTTTTGGAAGTTT-A
* *
33156997 GGG-CAAAATTGTAATTTTTGGAAGTTTA
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
** * *
33157025 GGGACAAAAATGTAATTTTTGAAAGTTTT
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
* * *
33157054 GGGGTCAAAATTTAATTTTTGGAAGTTTTA
1 GGGTTAAAAATGTAATTTTTGGAAG-TTTA
* *
33157084 GAGTTAAAAAT-TGAATTTTTGGAAGTTCGA
1 GGGTTAAAAATGT-AATTTTTGGAAGTT-TA
*
33157114 GGG-TAAAAATGCAATTTTTGGAAGTTTA
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
** *
33157142 GGGACAAAAATGTAATTTTTGGAAGTTTC
1 GGGTTAAAAATGTAATTTTTGGAAGTTTA
* * **
33157171 GAGGTCAAAAATGTAATTTTTGGAAGATCG
1 G-GGTTAAAAATGTAATTTTTGGAAGTTTA
** * *
33157201 GGGGCAAAAATGTAATTTCTAGATAGTTTA
1 GGGTTAAAAATGTAATTTTTGGA-AGTTTA
33157231 GGG
1 GGG
33157234 ACCTTCAAGG
Statistics
Matches: 373, Mismatches: 73, Indels: 45
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.00
26 18 0.05
27 1 0.00
28 12 0.03
29 234 0.63
30 106 0.28
31 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
GGGTTAAAAATGTAATTTTTGGAAGTTTA
Found at i:33156947 original size:88 final size:87
Alignment explanation
Indices: 33156740--33157234 Score: 400
Period size: 88 Copynumber: 5.7 Consensus size: 87
33156730 GTTTCCGGGT
* ** * *
33156740 TAAAAATAG-AATTTTTTGAAGTTCAGGGTCCAAAATGGAATTTTTGGAAGTTTA-CGAGCAAAA
1 TAAAAAT-GTAATTTTTGGAAGTTTGGGGT-CAAAATGGAATTTTTGGAAGTTTAGGGAGTAAAA
* * *
33156803 ATATAATTTTTGAAAG-TTCGAGGG
64 ATGTAATTTTTGGAAGTTTC-AAGG
* * * * *
33156827 T---GATGTAATTTTTGGAATTTTAGGGGTTAAAATGGAATTTTTAGAAGTTCAGGGAGTAAAAA
1 TAAAAATGTAATTTTTGGAAGTTT-GGGGTCAAAATGGAATTTTTGGAAGTTTAGGGAGTAAAAA
* *
33156889 TGTAATTTTTGAAAGTTTCAAGA
65 TGTAATTTTTGGAAGTTTCAAGG
* * * *
33156912 TAAAAATGTAATTTTTAGAAGTTTTGGGGTCAAAATGTAATTTTTGGAAGTTTTGGG-GTTACAA
1 TAAAAATGTAATTTTTGGAAG-TTTGGGGTCAAAATGGAATTTTTGGAAGTTTAGGGAG-TAAAA
* *
33156976 AT-TGAATTTTTGGAAGTTTGAGGG
64 ATGT-AATTTTTGGAAGTTTCAAGG
* * * * * * * *
33157000 CAAAATTGTAATTTTTGGAAGTTTAGGGACAAAAATGTAATTTTTGAAAGTTTTGGG-GTCAAAA
1 TAAAAATGTAATTTTTGGAAGTTTGGGGTC-AAAATGGAATTTTTGGAAGTTTAGGGAGTAAAAA
* * *
33157064 TTTAATTTTTGGAAGTTTTAGAGT
65 TGTAATTTTTGGAAGTTTCA-AGG
* * * *
33157088 TAAAAAT-TGAATTTTTGGAAGTTCGAGGGTAAAAATGCAATTTTTGGAAGTTTAGGGA-CAAAA
1 TAAAAATGT-AATTTTTGGAAGTTTG-GGGTCAAAATGGAATTTTTGGAAGTTTAGGGAGTAAAA
*
33157151 ATGTAATTTTTGGAAGTTTCGAGG
64 ATGTAATTTTTGGAAGTTTCAAGG
* * * * * *
33157175 TCAAAAATGTAATTTTTGGAAGATCGGGGGCAAAAATGTAATTTCTAGATAGTTTAGGGA
1 T-AAAAATGTAATTTTTGGAAGTTTGGGGTC-AAAATGGAATTTTTGGA-AGTTTAGGGA
33157235 CCTTCAAGGT
Statistics
Matches: 330, Mismatches: 58, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
83 1 0.00
84 35 0.11
85 29 0.09
86 3 0.01
87 38 0.12
88 207 0.63
89 17 0.05
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (87 bp):
TAAAAATGTAATTTTTGGAAGTTTGGGGTCAAAATGGAATTTTTGGAAGTTTAGGGAGTAAAAAT
GTAATTTTTGGAAGTTTCAAGG
Found at i:33157211 original size:117 final size:115
Alignment explanation
Indices: 33156740--33157196 Score: 514
Period size: 117 Copynumber: 3.9 Consensus size: 115
33156730 GTTTCCGGGT
* * * * *
33156740 TAAAAATAGAATTTTTTGAAGTTCAGGGTCCAAAATGGAATTTTTGGAAGTTTACGAGCAAAAAT
1 TAAAAATTGAATTTTTGGAAGTTCAGGGT-AAAAATGTAATTTTTGGAAGTTTAGGA-CAAAAAT
* *
33156805 ATAATTTTTGAAAG-TTCGAGGGT---GATGTAATTTTTGGAA-TTTTAGGGG
64 GTAATTTTTGAAAGTTTCGA-GGTCAAAATGTAATTTTTGGAAGTTTTAGGGG
* * * * * *
33156853 TTAAAATGGAATTTTTAGAAGTTCAGGGAGTAAAAATGTAATTTTTGAAAGTTTCAAGATAAAAA
1 TAAAAATTGAATTTTTGGAAGTTCA-GG-GTAAAAATGTAATTTTTGGAAGTTT-AGGACAAAAA
* *
33156918 TGTAATTTTT-AGAAGTTTTGGGGTCAAAATGTAATTTTTGGAAGTTTT-GGGG
63 TGTAATTTTTGA-AAGTTTCGAGGTCAAAATGTAATTTTTGGAAGTTTTAGGGG
* * * *
33156970 TTACAAATTGAATTTTTGGAAGTTTGAGGGCAAAATTGTAATTTTTGGAAGTTTAGGGACAAAAA
1 -TAAAAATTGAATTTTTGGAAG-TTCAGGGTAAAAATGTAATTTTTGGAAGTTTA-GGACAAAAA
* * * * *
33157035 TGTAATTTTTGAAAGTTTTGGGGTCAAAATTTAATTTTTGGAAGTTTTAGAGT
63 TGTAATTTTTGAAAGTTTCGAGGTCAAAATGTAATTTTTGGAAGTTTTAGGGG
*
33157088 TAAAAATTGAATTTTTGGAAGTTCGAGGGTAAAAATGCAATTTTTGGAAGTTTAGGGACAAAAAT
1 TAAAAATTGAATTTTTGGAAGTTC-AGGGTAAAAATGTAATTTTTGGAAGTTTA-GGACAAAAAT
*
33157153 GTAATTTTTGGAAGTTTCGAGGTCAAAAATGTAATTTTTGGAAG
64 GTAATTTTTGAAAGTTTCGAGGTC-AAAATGTAATTTTTGGAAG
33157197 ATCGGGGGCA
Statistics
Matches: 294, Mismatches: 34, Indels: 27
0.83 0.10 0.08
Matches are distributed among these distances:
113 23 0.08
114 42 0.14
115 8 0.03
116 3 0.01
117 171 0.58
118 44 0.15
119 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (115 bp):
TAAAAATTGAATTTTTGGAAGTTCAGGGTAAAAATGTAATTTTTGGAAGTTTAGGACAAAAATGT
AATTTTTGAAAGTTTCGAGGTCAAAATGTAATTTTTGGAAGTTTTAGGGG
Found at i:33158378 original size:15 final size:15
Alignment explanation
Indices: 33158360--33158388 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33158350 TTTAAACATT
33158360 TATTATTATTACTAA
1 TATTATTATTACTAA
33158375 TATTATTATTACTA
1 TATTATTATTACTA
33158389 TTTTCGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTATTACTAA
Found at i:33159213 original size:16 final size:16
Alignment explanation
Indices: 33159176--33159242 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
33159166 AAATTTAATC
* *
33159176 TTAAGTTTAAAACCATT
1 TTAAATTTAAAA-CAAT
*
33159193 TTAAATTTAATTA-AAT
1 TTAAATTTAA-AACAAT
*
33159209 TTAAATTCAAAACAAT
1 TTAAATTTAAAACAAT
33159225 TTAAATTTAAAATCAAT
1 TTAAATTTAAAA-CAAT
33159242 T
1 T
33159243 CAAACTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 1 0.02
16 25 0.61
17 14 0.34
18 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAAACAAT
Found at i:33159251 original size:17 final size:17
Alignment explanation
Indices: 33159217--33159263 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
33159207 ATTTAAATTC
* *
33159217 AAAA-CAATTTAAATTT
1 AAAATCAATTCAAACTT
33159233 AAAATCAATTCAAACTT
1 AAAATCAATTCAAACTT
* *
33159250 AATATAAATTCAAA
1 AAAATCAATTCAAA
33159264 AATCAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATCAATTCAAACTT
Found at i:33160585 original size:50 final size:50
Alignment explanation
Indices: 33160530--33160649 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 50
33160520 ATCTTTTACC
* * * * *
33160530 CCTAAAGCTGTGGAGGTGTAGATTGAAACCGTAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGGGCAGAATGAAACCGCAATGGCAAATCTCATACA
** *
33160580 CCTAAAGCTGTAGAGGGGCAGAATGAAGTCGCAATGGCAAATCTCATTCA
1 CCTAAAGCTGTAGAGGGGCAGAATGAAACCGCAATGGCAAATCTCATACA
* *
33160630 CTTAAAGCTATAGAGGGGCA
1 CCTAAAGCTGTAGAGGGGCA
33160650 AATTGAAGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGGGCAGAATGAAACCGCAATGGCAAATCTCATACA
Found at i:33160657 original size:50 final size:50
Alignment explanation
Indices: 33160562--33160659 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
33160552 TTGAAACCGT
*
33160562 AATGGCAAATCTCATACACCTAAAGCTGTAGAGGGGCAGAATGAAGTCGC
1 AATGGCAAATCTCATACACCTAAAGCTATAGAGGGGCAGAATGAAGTCGC
* *
33160612 AATGGCAAATCTCATTCACTTAAAGCTATAGAGGGGCA-AATTGAAGTC
1 AATGGCAAATCTCATACACCTAAAGCTATAGAGGGGCAGAA-TGAAGTC
33160660 ACAAGGACGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (50 bp):
AATGGCAAATCTCATACACCTAAAGCTATAGAGGGGCAGAATGAAGTCGC
Found at i:33160810 original size:39 final size:39
Alignment explanation
Indices: 33160727--33161040 Score: 222
Period size: 39 Copynumber: 8.0 Consensus size: 39
33160717 ATTTCACTTC
* * * *
33160727 AACCATGGGGCAGCTTAAAGTAATTCAGATCTTTTACCCT
1 AACCATGGGGCAGATTGAAGCAA-TCCGATCTTTTACCCT
* * *
33160767 AACCATGGGGCAGATTGAAGCCATCCGATCTCTTACCCC
1 AACCATGGGGCAGATTGAAGCAATCCGATCTTTTACCCT
* * *
33160806 AACCATGGGGTAGATTGAAGCAACCCAATCTTTTACCCT
1 AACCATGGGGCAGATTGAAGCAATCCGATCTTTTACCCT
** * * * *
33160845 AACCAAAGAGCAGATTGAAGACCATCTGATCTTTTACCCC
1 AACCATGGGGCAGATTGAAG-CAATCCGATCTTTTACCCT
* * * * * *
33160885 GATCATGGGGCAAATTGAAGGAATTCAATCTTTTACCCT
1 AACCATGGGGCAGATTGAAGCAATCCGATCTTTTACCCT
* * * * * * *
33160924 AACTA-GAAGGTAGATTGAAGACCATCCGATCTCTTATCAT
1 AACCATG-GGGCAGATTGAAG-CAATCCGATCTTTTACCCT
* * * *
33160964 GACCATGGGACGGGTTGAAGCAATCC-AGTCTTTTACCCT
1 AACCATGGGGCAGATTGAAGCAATCCGA-TCTTTTACCCT
**
33161003 AACCA-GAGGGCAGATTG-AGACAATCTAATCTTTTACCC
1 AACCATG-GGGCAGATTGAAG-CAATCCGATCTTTTACCC
33161041 CTAAAGCTAT
Statistics
Matches: 203, Mismatches: 63, Indels: 17
0.72 0.22 0.06
Matches are distributed among these distances:
38 5 0.02
39 126 0.62
40 71 0.35
41 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (39 bp):
AACCATGGGGCAGATTGAAGCAATCCGATCTTTTACCCT
Found at i:33160884 original size:79 final size:79
Alignment explanation
Indices: 33160728--33161020 Score: 320
Period size: 79 Copynumber: 3.7 Consensus size: 79
33160718 TTTCACTTCA
* * * * **
33160728 ACCATGGGGCAGCTTAAAGTAATTCAGATCTTTTACCCTAACCATGGGGCAGATTGAAG-CCATC
1 ACCATGGGGCAGATTGAAGCAATCCA-ATCTTTTACCCTAACCAAAGGGCAGATTGAAGACCATC
*
33160792 CGATCTCTTACCCCA
65 CGATCTCTTACCCCG
* * * *
33160807 ACCATGGGGTAGATTGAAGCAACCCAATCTTTTACCCTAACCAAAGAGCAGATTGAAGACCATCT
1 ACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGACCATCC
*
33160872 GATCTTTTACCCCG
66 GATCTCTTACCCCG
* * * * * *
33160886 ATCATGGGGCAAATTGAAGGAATTCAATCTTTTACCCTAACTAGAA-GGTAGATTGAAGACCATC
1 ACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCA-AAGGGCAGATTGAAGACCATC
* **
33160950 CGATCTCTTATCATG
65 CGATCTCTTACCCCG
* * * * *
33160965 ACCATGGGACGGGTTGAAGCAATCCAGTCTTTTACCCTAACCAGAGGGCAGATTGA
1 ACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAAAGGGCAGATTGA
33161021 GACAATCTAA
Statistics
Matches: 174, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
78 30 0.17
79 142 0.82
80 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (79 bp):
ACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAGACCATCC
GATCTCTTACCCCG
Found at i:33165489 original size:24 final size:24
Alignment explanation
Indices: 33165410--33165489 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
33165400 ACGAATTCAT
* *
33165410 TACGTTTACGTTCGTCTGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* * *
33165434 TACGATTACACTCGTCAGCTTACA
1 TACGTTTACGCTCGTCAGCTTATA
*
33165458 TACATTTACGCTCGTCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
*
33165482 TATGTTTA
1 TACGTTTA
33165490 GTTACTTCAA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.40
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCTTATA
Found at i:33167187 original size:7 final size:7
Alignment explanation
Indices: 33167175--33167215 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
33167165 CAAACCCTCT
33167175 CATTTTC
1 CATTTTC
33167182 CATTTTC
1 CATTTTC
33167189 CATTTTC
1 CATTTTC
33167196 CATTTTC
1 CATTTTC
33167203 CATTTTC
1 CATTTTC
33167210 CATTTT
1 CATTTT
33167216 ATCTCTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.59
Consensus pattern (7 bp):
CATTTTC
Found at i:33167742 original size:13 final size:14
Alignment explanation
Indices: 33167724--33167753 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
33167714 CAAGATTCAA
33167724 GAATTGAAT-CTAT
1 GAATTGAATCCTAT
33167737 GAATTGAATCCTAT
1 GAATTGAATCCTAT
33167751 GAA
1 GAA
33167754 GCAAAGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (14 bp):
GAATTGAATCCTAT
Found at i:33172064 original size:16 final size:17
Alignment explanation
Indices: 33172040--33172072 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33172030 TAATATTAGT
33172040 AATAATTATAA-TAATA
1 AATAATTATAATTAATA
*
33172056 AATATTTATAATTAATA
1 AATAATTATAATTAATA
33172073 TCAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATTATAATTAATA
Found at i:33172818 original size:32 final size:33
Alignment explanation
Indices: 33172782--33172845 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
33172772 TGCGCGTTTG
*
33172782 GTCC-TTTCGCTTTTTTAATT-TGTTTTAATTTA
1 GTCCTTTTCGCATTTTTAATTAT-TTTTAATTTA
*
33172814 GTCCTTTTTGCATTTTTAATTATTTTTAATTT
1 GTCCTTTTCGCATTTTTAATTATTTTTAATTT
33172846 GGCCCAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.17, C:0.11, G:0.08, T:0.64
Consensus pattern (33 bp):
GTCCTTTTCGCATTTTTAATTATTTTTAATTTA
Found at i:33173164 original size:29 final size:27
Alignment explanation
Indices: 33173132--33173432 Score: 100
Period size: 29 Copynumber: 10.3 Consensus size: 27
33173122 AGAAATTATG
33173132 TTTTGACCCCAAACTTTCCAAAATT-CCA
1 TTTT-ACCCCAAA-TTTCCAAAATTACCA
*
33173160 TTTTTGAATCCC-AATTTCACCAAAAATTACCA
1 -TTTT--ACCCCAAATTT--CC-AAAATTACCA
**
33173192 TTTTACCCCCAAACTTTCCAAAATCCCCA
1 TTTTA-CCCCAAA-TTTCCAAAATTACCA
* *
33173221 TTTTAACCTC-GATTTCACCAAAATTACCA
1 TTTT-ACCCCAAATTT--CCAAAATTACCA
* *
33173250 TTTTACCCTAAATCTTCCAAAA-TCCCA
1 TTTTACCCCAAAT-TTCCAAAATTACCA
*
33173277 TTTTTGACCTC-AATTTCACCAAAATTACCA
1 -TTTT-ACCCCAAATTT--CCAAAATTACCA
* *
33173307 TTTTACCCCCAAACTCTCCAAAA--CCTCA
1 TTTTA-CCCCAAA-TTTCCAAAATTAC-CA
* * *
33173335 TTTTA-ACCATGATTTTACTAAAAATTACCA
1 TTTTACCCCA--AATTT-C-CAAAATTACCA
* * *
33173365 TTTTACCCCTGAATCTTCTAAAA-TCCCA
1 TTTTACCCC-AAAT-TTCCAAAATTACCA
33173393 TTTTTAACCCCAAATTTTCCTAAAATTA-CA
1 -TTTT-ACCCCAAA-TTTCC-AAAATTACCA
33173423 TTTTTACCCC
1 -TTTTACCCC
33173433 TCATAAGTCA
Statistics
Matches: 204, Mismatches: 32, Indels: 72
0.66 0.10 0.23
Matches are distributed among these distances:
26 3 0.01
27 12 0.06
28 34 0.17
29 82 0.40
30 47 0.23
31 20 0.10
32 6 0.03
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (27 bp):
TTTTACCCCAAATTTCCAAAATTACCA
Found at i:33173257 original size:58 final size:58
Alignment explanation
Indices: 33173138--33173432 Score: 295
Period size: 58 Copynumber: 5.1 Consensus size: 58
33173128 TATGTTTTGA
*
33173138 CCCCAAACTTTCCAAAATTCCATTTTTGAATCC-CAATTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATCCCATTTTT-AA-CCTCAATTTCACC-AAAATTACCATTTTAC
*
33173198 CCCCAAACTTTCCAAAATCCCCA-TTTTAACCTCGATTTCACCAAAATTACCATTTTA-
1 CCCCAAACTTTCCAAAAT-CCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
* *
33173255 CCCTAAA-TCTTCCAAAATCCCATTTTTGACCTCAATTTCACCAAAATTACCATTTTAC
1 CCCCAAACT-TTCCAAAATCCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
* * * *
33173313 CCCCAAACTCTCCAAAA-CCTCA-TTTTAACCAT-GATTTTACTAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATCC-CATTTTTAACC-TCAATTTCAC-CAAAATTACCATTTTAC
** * * *
33173371 CCCTGAA-TCTTCTAAAATCCCATTTTTAACCCCAAATTTTC-CTAAAATTA-CATTTTTAC
1 CCCCAAACT-TTCCAAAATCCCATTTTTAACCTC-AA-TTTCACCAAAATTACCA-TTTTAC
33173430 CCC
1 CCC
33173433 TCATAAGTCA
Statistics
Matches: 200, Mismatches: 19, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
56 5 0.03
57 63 0.31
58 64 0.32
59 38 0.19
60 24 0.12
61 6 0.03
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.34
Consensus pattern (58 bp):
CCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
Found at i:33173293 original size:57 final size:57
Alignment explanation
Indices: 33173138--33173432 Score: 291
Period size: 57 Copynumber: 5.1 Consensus size: 57
33173128 TATGTTTTGA
*
33173138 CCCCAAACTTTCCAAAATTCCATTTTTGAATCC-CAATTTCACCAAAAATTACCATTTTAC
1 CCCCAAAC-TTCCAAAATCCCATTTTT-AA-CCTCAATTTCACC-AAAATTACCATTTTAC
*
33173198 CCCCAAACTTTCCAAAATCCCCA-TTTTAACCTCGATTTCACCAAAATTACCATTTTA-
1 CCCCAAAC-TTCCAAAAT-CCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
* *
33173255 CCCTAAATCTTCCAAAATCCCATTTTTGACCTCAATTTCACCAAAATTACCATTTTAC
1 CCCCAAA-CTTCCAAAATCCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
* * *
33173313 CCCCAAACTCTCCAAAA-CCTCA-TTTTAACCAT-GATTTTACTAAAAATTACCATTTTAC
1 CCCCAAACT-TCCAAAATCC-CATTTTTAACC-TCAATTTCAC-CAAAATTACCATTTTAC
* * * * *
33173371 CCCTGAATCTTCTAAAATCCCATTTTTAACCCCAAATTTTC-CTAAAATTA-CATTTTTAC
1 CCC-CAAACTTCCAAAATCCCATTTTTAACCTC-AA-TTTCACCAAAATTACCA-TTTTAC
33173430 CCC
1 CCC
33173433 TCATAAGTCA
Statistics
Matches: 202, Mismatches: 17, Indels: 33
0.80 0.07 0.13
Matches are distributed among these distances:
56 4 0.02
57 64 0.32
58 63 0.31
59 41 0.20
60 24 0.12
61 6 0.03
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.34
Consensus pattern (57 bp):
CCCCAAACTTCCAAAATCCCATTTTTAACCTCAATTTCACCAAAATTACCATTTTAC
Found at i:33173403 original size:30 final size:30
Alignment explanation
Indices: 33173365--33173433 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
33173355 AAAATTACCA
* *
33173365 TTTTACCCCTGAATCTT-CTAAAATCCCAT
1 TTTTACCCCTAAATCTTCCTAAAATCACAT
* *
33173394 TTTTAACCCC-AAATTTTCCTAAAATTACAT
1 TTTT-ACCCCTAAATCTTCCTAAAATCACAT
33173424 TTTTACCCCT
1 TTTTACCCCT
33173434 CATAAGTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.29, C:0.29, G:0.01, T:0.41
Consensus pattern (30 bp):
TTTTACCCCTAAATCTTCCTAAAATCACAT
Found at i:33180134 original size:5 final size:5
Alignment explanation
Indices: 33180124--33180150 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33180114 TAATTTACCC
33180124 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
33180151 CAAGGTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:33183469 original size:17 final size:17
Alignment explanation
Indices: 33183447--33183485 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
33183437 CTCCACCTTG
* *
33183447 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
33183464 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
33183481 ACAAG
1 ACAAG
33183486 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:33193344 original size:2 final size:2
Alignment explanation
Indices: 33193337--33193362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33193327 AGCACCATCA
33193337 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
33193363 GCTTCCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33202166 original size:17 final size:17
Alignment explanation
Indices: 33202097--33202170 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
33202087 ATTATTTTAA
33202097 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
*
33202114 TAATTCAATACTT--ATCT
1 TAATTTAATA-TTAAAT-T
* **
33202131 TAA--TAGTATTTTA-T
1 TAATTTAATATTAAATT
33202145 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
33202162 TAATTTAAT
1 TAATTTAAT
33202171 GTTTATCCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 6 0.14
15 3 0.07
16 10 0.23
17 23 0.52
18 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (17 bp):
TAATTTAATATTAAATT
Found at i:33202177 original size:48 final size:48
Alignment explanation
Indices: 33202083--33202254 Score: 170
Period size: 48 Copynumber: 3.6 Consensus size: 48
33202073 ATTTAAAAAA
* * * * *
33202083 TGATATTATTTTAATAATTTAATATTAAATTTAATTCAATACTTATCT
1 TGATAGTATTATATTAATTTAATATTAAATTTAATTTAATATTTATCT
* * *
33202131 TAATAGTATTTTATTAATTTAATATTAAATTTAATTTAATGTTTATC-
1 TGATAGTATTATATTAATTTAATATTAAATTTAATTTAATATTTATCT
* * * * *
33202178 CGGTAG-A-TAAATAAGATTTAATATTAAATTTAATCTAATATTTATCT
1 TGATAGTATTATATTA-ATTTAATATTAAATTTAATTTAATATTTATCT
* *
33202225 TGATAAATATTATATTAATTTTATATTAAA
1 TGAT-AGTATTATATTAATTTAATATTAAA
33202255 GTGATTAAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
45 4 0.04
46 30 0.30
47 5 0.05
48 42 0.42
49 13 0.13
50 5 0.05
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (48 bp):
TGATAGTATTATATTAATTTAATATTAAATTTAATTTAATATTTATCT
Found at i:33205509 original size:19 final size:18
Alignment explanation
Indices: 33205488--33205553 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 18
33205478 TTAAATGATT
*
33205488 TTTTTATAATTTATTAAAT
1 TTTTTATAATTT-TTAAAG
* *
33205507 TTTTTATATTTTTTTAAG
1 TTTTTATAATTTTTAAAG
33205525 TTTTTATGAATTTTTATAAG
1 TTTTTAT-AATTTTTA-AAG
33205545 TTTTTATAA
1 TTTTTATAA
33205554 AATTTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.28
19 19 0.47
20 10 0.25
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTTTAAAG
Found at i:33205517 original size:18 final size:19
Alignment explanation
Indices: 33205487--33205553 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
33205477 TTTAAATGAT
33205487 TTTTTTATAATTTATTAAA
1 TTTTTTATAATTTATTAAA
* *
33205506 TTTTTTAT-ATTTTTTTAA
1 TTTTTTATAATTTATTAAA
*
33205524 GTTTTTATGAATTT-TTATAA
1 TTTTTTAT-AATTTATTA-AA
*
33205544 GTTTTTATAA
1 TTTTTTATAA
33205554 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 15 0.37
19 12 0.29
20 14 0.34
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTTATAATTTATTAAA
Found at i:33205537 original size:20 final size:19
Alignment explanation
Indices: 33205488--33205553 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 19
33205478 TTAAATGATT
* * *
33205488 TTTTTATAATTTATTAAAT
1 TTTTTATAATTTTTTTAAG
33205507 TTTTTAT-ATTTTTTTAAG
1 TTTTTATAATTTTTTTAAG
*
33205525 TTTTTATGAATTTTTATAAG
1 TTTTTAT-AATTTTTTTAAG
33205545 TTTTTATAA
1 TTTTTATAA
33205554 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.37
19 9 0.22
20 17 0.41
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTTTAAG
Found at i:33205714 original size:10 final size:10
Alignment explanation
Indices: 33205487--33205714 Score: 71
Period size: 10 Copynumber: 22.8 Consensus size: 10
33205477 TTTAAATGAT
33205487 TTTTTTATAA
1 TTTTTTATAA
*
33205497 TTTATTA-AA
1 TTTTTTATAA
33205506 TTTTTTAT-A
1 TTTTTTATAA
33205515 TTTTTT-TAA
1 TTTTTTATAA
*
33205524 GTTTTTATGAA
1 TTTTTTAT-AA
33205535 -TTTTTATAA
1 TTTTTTATAA
*
33205544 GTTTTTATAA
1 TTTTTTATAA
**
33205554 AATTTTA-AA
1 TTTTTTATAA
33205563 TATATTTTATTAA
1 T-T-TTTTA-TAA
*
33205576 -ATTTTATAA
1 TTTTTTATAA
* *
33205585 CTTTTTAGAA
1 TTTTTTATAA
** ** *
33205595 CGTAGTAGAA
1 TTTTTTATAA
*
33205605 -TTCTTATAA
1 TTTTTTATAA
*
33205614 -ATTTTATAA
1 TTTTTTATAA
* * * **
33205623 ATTATAATGT
1 TTTTTTATAA
33205633 TTGTTTTATAA
1 TT-TTTTATAA
*
33205644 -TTTTTGT-A
1 TTTTTTATAA
33205652 TTTTTTATAA
1 TTTTTTATAA
* *
33205662 GTTTATATCAA
1 TTTTTTAT-AA
33205673 TTTTTTTAATAA
1 -TTTTTT-ATAA
* *
33205685 ATTTTTATGA
1 TTTTTTATAA
33205695 TTCCTTTTATAA
1 TT--TTTTATAA
33205707 TTTTTTAT
1 TTTTTTAT
33205715 GACTTTATAA
Statistics
Matches: 160, Mismatches: 39, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
8 2 0.01
9 51 0.32
10 70 0.44
11 18 0.11
12 15 0.09
13 4 0.03
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:33205723 original size:18 final size:19
Alignment explanation
Indices: 33205700--33205735 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33205690 TATGATTCCT
33205700 TTTATAAT-TTTTTATGAC
1 TTTATAATATTTTTATGAC
33205718 TTTATAATATTTTTATGA
1 TTTATAATATTTTTATGA
33205736 GAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTATAATATTTTTATGAC
Found at i:33212689 original size:19 final size:19
Alignment explanation
Indices: 33212653--33212690 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33212643 TCAATATTAT
*
33212653 TTTTAAAACACATGATAAA
1 TTTTAAAACACATCATAAA
33212672 TTTTAAAACTACA-CATAAA
1 TTTTAAAAC-ACATCATAAA
33212691 CTTCGATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (19 bp):
TTTTAAAACACATCATAAA
Found at i:33221064 original size:18 final size:18
Alignment explanation
Indices: 33221041--33221075 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33221031 TACGCCCGCT
33221041 ACTCCCAAGGCGGAGACC
1 ACTCCCAAGGCGGAGACC
*
33221059 ACTCCCACGGCGGAGAC
1 ACTCCCAAGGCGGAGAC
33221076 GGTAAGCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.40, G:0.29, T:0.06
Consensus pattern (18 bp):
ACTCCCAAGGCGGAGACC
Found at i:33223066 original size:29 final size:29
Alignment explanation
Indices: 33223033--33223101 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
33223023 AAAATGTTGA
33223033 TTTTTTAAATATTTATGGGATTAGGCT-T
1 TTTTTTAAATATTTATGGGATTAGGCTAT
* * *
33223061 CTTTTTGAAATATTTTTGTGATTAGGCTGAT
1 -TTTTTTAAATATTTATGGGATTAGGCT-AT
33223092 TTTTTTAAAT
1 TTTTTTAAAT
33223102 GCATTGAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.71
30 9 0.26
31 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.55
Consensus pattern (29 bp):
TTTTTTAAATATTTATGGGATTAGGCTAT
Found at i:33229942 original size:28 final size:27
Alignment explanation
Indices: 33229884--33229947 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
33229874 TATAAAATGT
* * *
33229884 AAATTTATAAAATCCTATGATATATAT
1 AAATATATAAAAACCTATGATATATAA
* *
33229911 AAATATATAAAAACGTATAGATTTATAA
1 AAATATATAAAAACCTAT-GATATATAA
33229939 AAATATATA
1 AAATATATA
33229948 TTAATAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (27 bp):
AAATATATAAAAACCTATGATATATAA
Found at i:33229947 original size:18 final size:18
Alignment explanation
Indices: 33229905--33229947 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
33229895 ATCCTATGAT
33229905 ATATATAAATATATAAAA
1 ATATATAAATATATAAAA
** * *
33229923 ACGTATAGATTTATAAAA
1 ATATATAAATATATAAAA
33229941 ATATATA
1 ATATATA
33229948 TTAATAAATT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (18 bp):
ATATATAAATATATAAAA
Found at i:33229955 original size:42 final size:39
Alignment explanation
Indices: 33229862--33229956 Score: 93
Period size: 42 Copynumber: 2.3 Consensus size: 39
33229852 AGTTTTAAGT
* * *
33229862 TATTATTAAATATATAAAATGTAAATTTATAAAATCCTA
1 TATTAATAAATATATAAAACGTAAATTTATAAAATCATA
33229901 TGATATATATAAATATATAAAAACGTATAGATTTATAAAAAT-ATA
1 T-AT-TA-ATAAATATAT-AAAACGTA-A-ATTTAT-AAAATCATA
33229946 TATTAATAAAT
1 TATTAATAAAT
33229957 TCTTACTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
39 1 0.02
40 2 0.04
41 2 0.04
42 15 0.33
43 9 0.20
44 3 0.07
45 9 0.20
46 5 0.11
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (39 bp):
TATTAATAAATATATAAAACGTAAATTTATAAAATCATA
Found at i:33236123 original size:59 final size:59
Alignment explanation
Indices: 33236015--33236536 Score: 805
Period size: 59 Copynumber: 8.9 Consensus size: 59
33236005 TATGGATACC
* * * * *
33236015 CGGGGGCAAAATGGTAATTTT-GGTGTAATCAGGATTAAAAACGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
*
33236073 CGGGGGTAAAAAGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
*
33236132 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTTAAAATGGAATTTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAA-TTTTAGAAGCTT
* * *
33236192 CGAGGGTAAAATGGTAATTTTCGGTAAAATAGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* *
33236251 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* *
33236310 CGGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAAAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * *
33236369 CGAGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * * * *
33236428 CGGGGGTAAAATAGTAATTTTCTGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* *
33236487 TGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGTAATTTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT
33236537 GGAAAAGTTT
Statistics
Matches: 429, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
58 30 0.07
59 344 0.80
60 55 0.13
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
Found at i:33236883 original size:160 final size:162
Alignment explanation
Indices: 33236641--33236972 Score: 490
Period size: 161 Copynumber: 2.1 Consensus size: 162
33236631 GTATCCAGAG
* * * * * *
33236641 GTCAAGGGACCAATTTAAAAATCTTGAAAAATTTTTGGACCAATTTTGTAATTAAATAAAAGTCG
1 GTCAAAGGACCAATTTAAAAACCTCGAAAAATTATGGGACCAATTTCGTAATTAAATAAAAGTCG
33236706 ATTTAAGGATTAAATTAAAACAAATTAAAAAT-AAAAGGACTAAATGCAGAAATAATCCAAAAAA
66 ATTTAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAA
**
33236770 TGACACGTGGCAACCTCTGGTGCAGTCAAAAA
131 TGACACGTGGCAACCTCTGGCACAGTCAAAAA
* * * *
33236802 GTCAAAGGACCAGTTTATAAACCTCGAAAAATTATGGGGCCAATTTCGTAATTAAA-ACAAAGTT
1 GTCAAAGGACCAATTTAAAAACCTCGAAAAATTATGGGACCAATTTCGTAATTAAATA-AAAGTC
*
33236866 GATTT-GGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAA
65 GATTTAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAA
* * *
33236930 ATTACACGTGGCAATCTCTGGCACAGTCAAACA
130 ATGACACGTGGCAACCTCTGGCACAGTCAAAAA
33236963 GTCAAAGGAC
1 GTCAAAGGAC
33236973 TAAATTGAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
160 27 0.18
161 126 0.82
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (162 bp):
GTCAAAGGACCAATTTAAAAACCTCGAAAAATTATGGGACCAATTTCGTAATTAAATAAAAGTCG
ATTTAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAA
TGACACGTGGCAACCTCTGGCACAGTCAAAAA
Found at i:33237039 original size:161 final size:160
Alignment explanation
Indices: 33236712--33237057 Score: 371
Period size: 161 Copynumber: 2.2 Consensus size: 160
33236702 GTCGATTTAA
33236712 GGATTAAATTAAAACAAATTAAAAATAAAAGGACTAAATGCAGAAATAATCCAAAAAATGACACG
1 GGATTAAATTAAAACAAATTAAAAATAAAAGGACTAAATGCAGAAATAATCCAAAAAATGACACG
** * * * ** ** *
33236777 TGGCAACCTCTGGTGCAGTCAAAAAGTCAAAGGACCAGTTTATAAACCTCGAAAAATTATGGGGC
66 TGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGACAAATTGATAAACCAAGAAAAATTACAGGAC
* * * * **
33236842 CAATTTCGTAATTAAAACAAAGTTGATTTG
131 AAAATTCGCAAATAAAACAAAGTTGAAATG
*
33236872 GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAATTACAC
1 GGATTAAATTAAAACAAATTAAAAAT-AAAAGGACTAAATGCAGAAATAATCCAAAAAATGACAC
* * * ** *
33236937 GTGGCAATCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTGA-AAAGCAATTAAAATTACATG
65 GTGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGAC-AAATTGATAAACCAAGAAAAATTACAGG
33237001 ACAAAATT-GCAAATAATTAA-AAAG-TGCAGAAT-
129 ACAAAATTCGCAAATAA--AACAAAGTTG-A-AATG
* *
33237033 GGATTAAATTGAAGCAAA-TAAAAAT
1 GGATTAAATTAAAACAAATTAAAAAT
33237058 GCGGAAGGAC
Statistics
Matches: 155, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
160 41 0.26
161 107 0.69
162 7 0.05
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.22
Consensus pattern (160 bp):
GGATTAAATTAAAACAAATTAAAAATAAAAGGACTAAATGCAGAAATAATCCAAAAAATGACACG
TGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGACAAATTGATAAACCAAGAAAAATTACAGGAC
AAAATTCGCAAATAAAACAAAGTTGAAATG
Found at i:33237583 original size:15 final size:15
Alignment explanation
Indices: 33237563--33237595 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
33237553 TCGTCTTTTC
33237563 AAAATCCAGATCTGG
1 AAAATCCAGATCTGG
33237578 AAAATCCAGATCTGG
1 AAAATCCAGATCTGG
33237593 AAA
1 AAA
33237596 CTTCTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAATCCAGATCTGG
Found at i:33237846 original size:23 final size:21
Alignment explanation
Indices: 33237796--33237847 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
33237786 ATTATTATTA
* *
33237796 TTATTAATGTTATTAATGTCT
1 TTATTAATCTTATTAATGCCT
33237817 TTCATTAATCCTTATTAATGCCAT
1 TT-ATTAAT-CTTATTAATGCC-T
33237841 TTATTAA
1 TTATTAA
33237848 ATTCAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 6 0.23
23 15 0.58
24 3 0.12
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATTAATCTTATTAATGCCT
Found at i:33238541 original size:6 final size:6
Alignment explanation
Indices: 33238525--33238590 Score: 59
Period size: 6 Copynumber: 11.0 Consensus size: 6
33238515 TTAAATTTGT
*
33238525 TTTATAA TTTAAA TTTAAA TAATTAAA TTTAAA TTTAAGA --TAGA TTTAAA
1 TTTA-AA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
33238575 TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
33238591 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
4 5 0.10
5 2 0.04
6 32 0.64
7 5 0.10
8 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:33238552 original size:14 final size:15
Alignment explanation
Indices: 33238528--33238558 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
33238518 AATTTGTTTT
33238528 ATAATTTAAATTTAA
1 ATAATTTAAATTTAA
33238543 ATAA-TTAAATTTAA
1 ATAATTTAAATTTAA
33238557 AT
1 AT
33238559 TTAAGATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTTAAATTTAA
Found at i:33238573 original size:17 final size:16
Alignment explanation
Indices: 33238534--33238590 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
33238524 TTTTATAATT
*
33238534 TAAATTTAAA--TAAT
1 TAAATTTAAATTTAAA
33238548 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
*
33238565 TAGATTTAAATTTAAA
1 TAAATTTAAATTTAAA
33238581 TAAATTTAAA
1 TAAATTTAAA
33238591 ATCAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 10 0.27
16 13 0.35
17 14 0.38
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:33238598 original size:27 final size:26
Alignment explanation
Indices: 33238536--33238609 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 26
33238526 TTATAATTTA
*
33238536 AATTTAAATAATTAAATTTAAATTTAAGAT
1 AATTTAAAT--TTAAA--TAAATTTAAAAT
33238566 AGATTTAAATTTAAATAAATTTAAAAT
1 A-ATTTAAATTTAAATAAATTTAAAAT
*
33238593 CAATTTAACCTTTAAAT
1 -AATTTAA-ATTTAAAT
33238610 TAAAGCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 17 0.44
28 8 0.21
29 5 0.13
30 1 0.03
31 8 0.21
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (26 bp):
AATTTAAATTTAAATAAATTTAAAAT
Found at i:33238974 original size:68 final size:68
Alignment explanation
Indices: 33238874--33239472 Score: 869
Period size: 68 Copynumber: 8.8 Consensus size: 68
33238864 GCTCTTCAGG
* * * * * *
33238874 GAGATAAAGACTTCGCTATCCAACTTTACTTCAATTTCGAGAGGATGATGTTGCTCTTACTTCAA
1 GAGATGAAGACTT-GTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAA
33238939 TTTCA
64 TTTCA
* * *
33238944 GAGGTAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
33239009 TCA
66 TCA
* * *
33239012 GAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTCGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
33239077 TCA
66 TCA
* * *
33239080 GAGAGGAAGTCTTGATATCCAACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
33239145 TTCA
65 TTCA
* *
33239149 GAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
33239214 TCA
66 TCA
* * * *
33239217 GAGAGGAAGACTTGATATCCAACTCTACTTTAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
33239282 TTCA
65 TTCA
* *
33239286 GAGAT-AAGGACTTGTTATCCACTCTATTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAA-GACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
33239350 TTCA
65 TTCA
* * *
33239354 GAGAGGAAGTCTTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATT
1 GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
33239419 TCA
66 TCA
* * *
33239422 GAGAT-AGAGACGTGTTATCCACTCTACTTCGATTTCAAGGGGATGATGTTG
1 GAGATGA-AGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
33239473 AGATCTGCAA
Statistics
Matches: 482, Mismatches: 42, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
67 1 0.00
68 340 0.71
69 130 0.27
70 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (68 bp):
GAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATT
TCA
Found at i:33239136 original size:137 final size:135
Alignment explanation
Indices: 33238903--33239472 Score: 899
Period size: 137 Copynumber: 4.2 Consensus size: 135
33238893 CCAACTTTAC
* * * * * *
33238903 TTCAATTTCGAGAGGATGATGTTGCTCTTACTTCAATTTCAGAG-GTAAAGACGTGTTATCCACT
1 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAG-GAAGACTTGATATCCACT
*
33238967 CTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACATGTTATCC
65 CTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-AAGACATGTTATCC
33239032 ACTCTAT
129 ACTCTAT
* *
33239039 TTCAATTTCAAGGGGATGACGTCGCTCTTACTTCAATTTCAGAGAGGAAGTCTTGATATCCAACT
1 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACTTGATATCC-ACT
*
33239104 CTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACATGTTATCC
65 CTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-AAGACATGTTATCC
33239169 ACTCTAT
129 ACTCTAT
33239176 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACTTGATATCCAACT
1 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACTTGATATCC-ACT
* *
33239241 CTACTTTAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAGGACTTGTTATCC
65 CTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAA-GACATGTTATCC
33239306 ACTCTAT
129 ACTCTAT
* * *
33239313 TTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGTCTTGTTATCCACTC
1 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACTTGATATCCACTC
*
33239378 TACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAGAGACGTGTTATCCA
66 TACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATA-AGACATGTTATCCA
*
33239443 CTCTAC
130 CTCTAT
* *
33239449 TTCGATTTCAAGGGGATGATGTTG
1 TTCAATTTCAAGGGGATGACGTTG
33239473 AGATCTGCAA
Statistics
Matches: 408, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
136 144 0.35
137 264 0.65
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (135 bp):
TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAGGAAGACTTGATATCCACTC
TACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAGACATGTTATCCAC
TCTAT
Found at i:33239319 original size:205 final size:203
Alignment explanation
Indices: 33238874--33239472 Score: 869
Period size: 205 Copynumber: 2.9 Consensus size: 203
33238864 GCTCTTCAGG
* * * *
33238874 GAGATAAAGACTTCGCTATCCAACTTTACTTCAATTTCGAGAGGATGATGTTGCTCTTACTTCAA
1 GAGAT-AAGACTT-GATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* * *
33238939 TTTCAGAGGTAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTT
64 TTTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTT
*
33239004 CAATTTCAGAGATGAAGACATGTTATCCACTCTA-TTTCAATTTCAAGGGGATGACGTCGCTCTT
129 CAATTTCAGAGA-GAAGACATGTTATCCACTCTACTTT-AATTTCAAGGGGATGACGTTGCTCTT
33239068 ACTTCAATTTCA
192 ACTTCAATTTCA
* * *
33239080 GAGAGGAAGTCTTGATATCCAACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAAT
1 GAGA-TAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
*
33239145 TTCAGAGATGAAGACATGTTATCCACTCTATTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
65 TTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
* * *
33239210 AATTTCAGAGAGGAAGACTTGATATCCAACTCTACTTTAATTTCAAGAGGATGACGTTGCTCTTA
130 AATTTCAGAGA-GAAGACATGTTATCC-ACTCTACTTTAATTTCAAGGGGATGACGTTGCTCTTA
33239275 CTTCAATTTCA
193 CTTCAATTTCA
* *
33239286 GAGATAAGGACTTGTTATCC-ACTCTATTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAA-GACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * * *
33239350 TTCAGAGAGGAAGTCTTGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTC
65 TTCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTC
* * ** *
33239415 AATTTCAGAGATAGAGACGTGTTATCCACTCTACTTCGATTTCAAGGGGATGATGTTG
130 AATTTCAGAGAGA-AGACATGTTATCCACTCTACTTTAATTTCAAGGGGATGACGTTG
33239473 AGATCTGCAA
Statistics
Matches: 355, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
204 28 0.08
205 258 0.73
206 66 0.19
207 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (203 bp):
GAGATAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATT
TCAGAGATGAAGACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCA
ATTTCAGAGAGAAGACATGTTATCCACTCTACTTTAATTTCAAGGGGATGACGTTGCTCTTACTT
CAATTTCA
Found at i:33251538 original size:59 final size:59
Alignment explanation
Indices: 33251434--33251984 Score: 755
Period size: 59 Copynumber: 9.3 Consensus size: 59
33251424 TGGATACCCA
* * * * *
33251434 GGGGCAAAATGGTAATTTT-GGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* ** * *
33251492 GGGGTAAGATGGTAATTTTCGGTGAAATCATGGTTAAAAACAGAATTTTAGAAGCTTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* *
33251551 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTTAGAAGCTTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAA-TTTTAAAAGCTTCG
* * * *
33251611 GGGGTAAAATGGTAATTTTCGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* * * * *
33251670 AGGGTAAAATGGTAATTTTCAAG-GAAATTGGGGTTAAAAATAGAATTTTAGAAGCTTCA
1 GGGGTAAAATGGTAATTTTC-GGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* *
33251729 GGGGTAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAACAGAATTTTAAAAGCTTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* * * *
33251788 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCA
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* * * * **
33251847 GGGGTAAAATAGTAATTTTCGATGAAATTGGGGTTAAAAATAGAATTTTAAAAGATTTA
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
* *
33251906 GGGGTAAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATTCG
1 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
33251965 GGGGTAAAATGGTAATTTTC
1 GGGGTAAAATGGTAATTTTC
33251985 AATTTAGGGT
Statistics
Matches: 443, Mismatches: 46, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
58 19 0.04
59 366 0.83
60 58 0.13
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGCTTCG
Found at i:33251997 original size:7 final size:7
Alignment explanation
Indices: 33251987--33252025 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
33251977 TAATTTTCAA
33251987 TTTAGGG
1 TTTAGGG
33251994 TTTAGGG
1 TTTAGGG
33252001 TTTAGGG
1 TTTAGGG
33252008 TTTAGGG
1 TTTAGGG
33252015 TTTAGGG
1 TTTAGGG
33252022 TTTA
1 TTTA
33252026 AATTAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:33252995 original size:23 final size:21
Alignment explanation
Indices: 33252945--33252996 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
33252935 ATTATTATTA
* *
33252945 TTATTAATGTTATTAATGTCT
1 TTATTAATCTTATTAATGCCT
33252966 TTCATTAATCCTTATTAATGCCAT
1 TT-ATTAAT-CTTATTAATGCC-T
33252990 TTATTAA
1 TTATTAA
33252997 ATTCAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 6 0.23
23 15 0.58
24 3 0.12
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATTAATCTTATTAATGCCT
Found at i:33253691 original size:6 final size:6
Alignment explanation
Indices: 33253675--33253751 Score: 65
Period size: 6 Copynumber: 13.0 Consensus size: 6
33253665 TTAAATTTGT
*
33253675 TTTATAA TTTAAA TTT-AA GTTAAA TTTAAA TAATTAAA TTTAAA TTTAAGA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
*
33253726 --TAGA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33253752 ATCAATTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
4 5 0.09
5 6 0.10
6 36 0.62
7 5 0.09
8 6 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:33253702 original size:17 final size:17
Alignment explanation
Indices: 33253657--33253751 Score: 90
Period size: 17 Copynumber: 5.8 Consensus size: 17
33253647 CTTTTATTCT
* *
33253657 AGTTAAGTTTAAATTTG
1 AGTTAAATTTAAATTTA
**
33253674 TTTTATAATTTAAATTTA
1 AGTTA-AATTTAAATTTA
33253692 AGTTAAATTTAAA--TA
1 AGTTAAATTTAAATTTA
33253707 A-TTAAATTTAAATTTA
1 AGTTAAATTTAAATTTA
* *
33253723 AGATAGATTTAAATTTA
1 AGTTAAATTTAAATTTA
*
33253740 A-ATAAATTTAAA
1 AGTTAAATTTAAA
33253752 ATCAATTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.17
15 3 0.05
16 13 0.20
17 25 0.38
18 13 0.20
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
AGTTAAATTTAAATTTA
Found at i:33253718 original size:31 final size:32
Alignment explanation
Indices: 33253680--33253751 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 32
33253670 TTTGTTTTAT
* *
33253680 AATTTAAATTTAAGTTAAATTTAAA-TAATTA
1 AATTTAAATTTAAGATAAATTTAAATTAAATA
*
33253711 AATTTAAATTTAAGATAGATTTAAATTTAAATA
1 AATTTAAATTTAAGATAAATTTAAA-TTAAATA
33253744 AATTTAAA
1 AATTTAAA
33253752 ATCAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 23 0.64
33 13 0.36
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (32 bp):
AATTTAAATTTAAGATAAATTTAAATTAAATA
Found at i:33253738 original size:23 final size:20
Alignment explanation
Indices: 33253694--33253742 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 20
33253684 TAAATTTAAG
33253694 TTAAATTTAAATAATTAAAT
1 TTAAATTTAAATAATTAAAT
33253714 TTAAATTTAAGATAGATTTAAAT
1 TTAAATTTAA-ATA-A-TTAAAT
33253737 TTAAAT
1 TTAAAT
33253743 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 1 0.04
23 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TTAAATTTAAATAATTAAAT
Found at i:33253759 original size:27 final size:26
Alignment explanation
Indices: 33253697--33253770 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 26
33253687 ATTTAAGTTA
*
33253697 AATTTAAATAATTAAATTTAAATTTAAGAT
1 AATTTAAAT--TTAAA--TAAATTTAAAAT
33253727 AGATTTAAATTTAAATAAATTTAAAAT
1 A-ATTTAAATTTAAATAAATTTAAAAT
*
33253754 CAATTTAACCTTTAAAT
1 -AATTTAA-ATTTAAAT
33253771 TAAAGCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 17 0.44
28 8 0.21
29 5 0.13
30 1 0.03
31 8 0.21
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (26 bp):
AATTTAAATTTAAATAAATTTAAAAT
Found at i:33255463 original size:9 final size:9
Alignment explanation
Indices: 33255449--33255473 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33255439 ATAATTAATT
33255449 AATTTTAAA
1 AATTTTAAA
33255458 AATTTTAAA
1 AATTTTAAA
33255467 AATTTTA
1 AATTTTA
33255474 TATTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTTTAAA
Found at i:33269843 original size:6 final size:6
Alignment explanation
Indices: 33269834--33269859 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33269824 TGTGTGTGTG
33269834 TGAGTA TGAGTA TGAGTA TGAGTA TG
1 TGAGTA TGAGTA TGAGTA TGAGTA TG
33269860 CAATATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (6 bp):
TGAGTA
Found at i:33270657 original size:20 final size:20
Alignment explanation
Indices: 33270634--33270695 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
33270624 TTAATAAAAA
33270634 AAAATAATTTTTAAAAATTC
1 AAAATAATTTTTAAAAATTC
* *
33270654 AAAATAAATTTT-AAAATTT
1 AAAATAATTTTTAAAAATTC
*
33270673 AAAAT-ATTTATAAAAATTAC
1 AAAATAATTTTTAAAAATT-C
33270693 AAA
1 AAA
33270696 TTTCATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 17 0.49
20 14 0.40
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTTTAAAAATTC
Found at i:33270696 original size:26 final size:26
Alignment explanation
Indices: 33270643--33270724 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
33270633 AAAAATAATT
* *
33270643 TTTAAAAATTCAAAATAAATTTTA-AAA
1 TTTAAAATTTTAAAA-AAA-TTTACAAA
*
33270670 TTTAAAATATTTATAAAAA-TTACAAA
1 TTTAAAAT-TTTAAAAAAATTTACAAA
* * *
33270696 TTTCATATTTTAAAAAAATTTATAAA
1 TTTAAAATTTTAAAAAAATTTACAAA
33270722 TTT
1 TTT
33270725 TTTTTAAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 12 0.27
26 18 0.40
27 10 0.22
28 5 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTAAAATTTTAAAAAAATTTACAAA
Found at i:33271145 original size:11 final size:11
Alignment explanation
Indices: 33271129--33271162 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33271119 TATTAAAAAG
33271129 AGAAAAAGAAA
1 AGAAAAAGAAA
33271140 AGAAAAAGGAAA
1 AGAAAAA-GAAA
*
33271152 AGGAAAAGAAA
1 AGAAAAAGAAA
33271163 TAAAAGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:33271145 original size:18 final size:18
Alignment explanation
Indices: 33271123--33271162 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33271113 GAAAATTATT
33271123 AAAAAGAGAAAAAGAAAAG
1 AAAAAG-GAAAAAGAAAAG
*
33271142 AAAAAGGAAAAGGAAAAG
1 AAAAAGGAAAAAGAAAAG
33271160 AAA
1 AAA
33271163 TAAAAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGGAAAAAGAAAAG
Found at i:33276014 original size:25 final size:24
Alignment explanation
Indices: 33275978--33276024 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
33275968 AGTTAATAAT
33275978 AATTCTCTTTGAGTTTTTCTTTAAG
1 AATTCTCTTTGAGTTTTT-TTTAAG
33276003 AATTGCTC-TTGAGTTTTTTTTA
1 AATT-CTCTTTGAGTTTTTTTTA
33276025 GAAGTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.19
25 14 0.67
26 3 0.14
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (24 bp):
AATTCTCTTTGAGTTTTTTTTAAG
Found at i:33276900 original size:11 final size:12
Alignment explanation
Indices: 33276884--33276912 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33276874 TATTTCCCAC
33276884 AAAAAAGT-GAT
1 AAAAAAGTAGAT
33276895 AAAAAAGTAGAT
1 AAAAAAGTAGAT
33276907 AAAAAA
1 AAAAAA
33276913 TAAAAATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAAAGTAGAT
Found at i:33276936 original size:8 final size:8
Alignment explanation
Indices: 33276907--33276945 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
33276897 AAAAGTAGAT
33276907 AAAAAATA
1 AAAAAATA
*
33276915 AAAATATGA
1 AAAAAAT-A
*
33276924 GAAAAATA
1 AAAAAATA
33276932 AAAAAATA
1 AAAAAATA
33276940 AAAAAA
1 AAAAAA
33276946 ATTCGTGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:33276945 original size:17 final size:17
Alignment explanation
Indices: 33276893--33276947 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
33276883 CAAAAAAGTG
*
33276893 ATAAAAAAGTAGATAAAAA
1 ATAAAAAAATA-A-AAAAA
* * *
33276912 ATAAAAATATGAGAAAA
1 ATAAAAAAATAAAAAAA
33276929 ATAAAAAAATAAAAAAA
1 ATAAAAAAATAAAAAAA
33276946 AT
1 AT
33276948 TCGTGGGTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 20 0.69
18 1 0.03
19 8 0.28
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (17 bp):
ATAAAAAAATAAAAAAA
Found at i:33280171 original size:23 final size:23
Alignment explanation
Indices: 33280022--33280169 Score: 215
Period size: 23 Copynumber: 6.3 Consensus size: 23
33280012 ACACTAGCGC
33280022 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
33280045 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
33280070 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
33280093 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * *
33280116 GCTCTCTGATTAGTACTTTGTGC
1 GCTCTCTGATTAGCACTGTGTGT
* *
33280139 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
33280162 GCTCTCTG
1 GCTCTCTG
33280170 TTGCCCAGCA
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 91 0.80
25 23 0.20
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:33284221 original size:19 final size:20
Alignment explanation
Indices: 33284187--33284242 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
33284177 AAAATTTAAT
*
33284187 ATTTTATAAA-TATTTTGA-
1 ATTTTAAAAATTATTTTGAC
33284205 ATTTTAAAAATTATTTTGAC
1 ATTTTAAAAATTATTTTGAC
* * *
33284225 TTTTTGAAAATTAATTTG
1 ATTTTAAAAATTATTTTG
33284243 GTTTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 9 0.28
19 8 0.25
20 15 0.47
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTTAAAAATTATTTTGAC
Found at i:33290386 original size:22 final size:21
Alignment explanation
Indices: 33290339--33290422 Score: 61
Period size: 25 Copynumber: 4.0 Consensus size: 21
33290329 AGTTTTTTAG
33290339 AAAT-TTTT-TAAA-AT-TTT
1 AAATGTTTTATAAATATATTT
* *
33290356 AAATTTTTTATATATATATTT
1 AAATGTTTTATAAATATATTT
33290377 AGAATGTTTTATAAATATAATTTTT
1 A-AATGTTTTATAAATAT-A--TTT
*
33290402 GAAATTTTTTATAAATA-ATTT
1 -AAATGTTTTATAAATATATTT
33290423 TAATTTTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.07
18 4 0.07
19 3 0.06
20 2 0.04
21 7 0.13
22 14 0.26
23 2 0.04
25 17 0.31
26 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
AAATGTTTTATAAATATATTT
Found at i:33290416 original size:25 final size:23
Alignment explanation
Indices: 33290351--33290451 Score: 83
Period size: 22 Copynumber: 4.7 Consensus size: 23
33290341 ATTTTTTAAA
*
33290351 ATTTT-AAATTTTTTATATATAT
1 ATTTTGAAATTTTTTATAAATAT
* *
33290373 ATTTAG-AATGTTTTATAAATAT
1 ATTTTGAAATTTTTTATAAATAT
33290395 AATTTTTGAAATTTTTTATAAATA-
1 -A-TTTTGAAATTTTTTATAAATAT
*
33290419 ATTTT--AA--TTTTAAAAAT-T
1 ATTTTGAAATTTTTTATAAATAT
*
33290437 ATTTTGAATTTTTTT
1 ATTTTGAAATTTTTT
33290452 TGTAATTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
18 14 0.22
20 3 0.05
22 26 0.41
23 2 0.03
24 4 0.06
25 14 0.22
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTTGAAATTTTTTATAAATAT
Done.