Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 10 of 12
Found at i:1529972 original size:6 final size:6
Alignment explanation
Indices: 1529963--1529989 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1529953 ATTATTATTT
1529963 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1529990 TTACTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:1530679 original size:55 final size:55
Alignment explanation
Indices: 1530595--1531724 Score: 1165
Period size: 55 Copynumber: 19.4 Consensus size: 55
1530585 ATAAAGTGTA
* *
1530595 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1530650 TCCTGCTTTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1530711 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1530767 TCCTGCTCTTTAAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1530828 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1530884 TCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG------AAAGGCG
1530945 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGG-TTTGAAAGGCGAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCG
* * * *
1531006 TCCTGCTCTTTGAAGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
1531066 TCCTGCTCTTTGAGGACTAGAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
1 TCCTGCTCTTTGAGGACT-G-AAAAGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCG
* * *
1531129 TCCTGCTCTTTGAAGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
1531189 TCCTGCTCTTTGAGGACTAGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-G-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
1531246 TCCTACTCTTTGAGGACTAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1531302 TCCTGCTCTTTGAGGACTGAAAGGTGCCACGAACTTGTGTGGGCTTTAAAAAGAAATGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAA-GGCG
* *
1531363 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1531419 TCCTGCTCTTTGAGGACTAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1531474 TCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1531529 TCCTGCTCTTTGAGGACTAAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACT--GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1531586 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
1531647 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTCGTGTGGGTTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1531702 TCCTGCTCTTTGAGGTCT-AAAAG
1 TCCTGCTCTTTGAGGACTGAAAAG
1531725 GGTGAAAGGA
Statistics
Matches: 921, Mismatches: 88, Indels: 133
0.81 0.08 0.12
Matches are distributed among these distances:
53 4 0.00
54 4 0.00
55 262 0.28
56 119 0.13
57 78 0.08
58 5 0.01
59 24 0.03
60 80 0.09
61 163 0.18
62 104 0.11
63 72 0.08
64 4 0.00
65 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1530786 original size:117 final size:116
Alignment explanation
Indices: 1530595--1531725 Score: 1426
Period size: 117 Copynumber: 9.7 Consensus size: 116
1530585 ATAAAGTGTA
* *
1530595 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTTT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* *
1530659 TTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
1530711 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
1530776 TTAAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
1530828 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
1530893 TTGAGAACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
1530945 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGG-TTTGAAAGGCGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCGTCC
* * *
1531009 TGCTCTTTGAAGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCA
60 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
*
1531066 TCCTGCTCTTTGAGGACTAGAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTC
1 TCCTGCTCTTTGAGGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTG--A----AAGGCGTC
* *
1531131 CTGCTCTTTGAAGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCG
59 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
1531189 TCCTGCTCTTTGAGGACTAGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
1 TCCTGCTCTTTGAGGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* ** * *
1531254 TTTGAGGACTAAAAAATTGCCACCAACTTATGTGGGCTTT----G-AAAGACG
65 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1531302 TCCTGCTCTTTGAGGACTG-AAAGGTGCCACGAACTTGTGTGGGCTTTAAAAAGAAATGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAA-GGCGTCC
**
1531366 TGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGCG
60 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1531419 TCCTGCTCTTTGAGGACT-AAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACGTCCTACTCT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
1531483 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1531529 TCCTGCTCTTTGAGGACTAAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACGTCCTACTC
1 TCCTGCTCTTTGAGGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
*
1531594 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
1531647 TCCTGCTCTTTGAGGACT-AGAAAA-TGCCACCAACTCGTGTGGGTTTTAAAAGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* *
1531710 TTTGAGGTCTAAAAGG
65 TTTGAGGACTGAAAGG
1531726 GTGAAAGGAG
Statistics
Matches: 935, Mismatches: 51, Indels: 58
0.90 0.05 0.06
Matches are distributed among these distances:
110 52 0.06
111 44 0.05
112 88 0.09
113 24 0.03
114 1 0.00
116 73 0.08
117 375 0.40
118 26 0.03
119 24 0.03
120 4 0.00
121 52 0.06
122 47 0.05
123 125 0.13
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1531797 original size:95 final size:94
Alignment explanation
Indices: 1531646--1531858 Score: 345
Period size: 95 Copynumber: 2.2 Consensus size: 94
1531636 AGGAAAAGGT
*
1531646 GTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGTTTTAAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1531711 TTGAGGTCTAAAAGGGTGAAAGGAGAGAGC
65 TTGAGGACTAAAAGGGTGAAAGGAGAGAGC
* * *
1531741 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGCGTCCTTCTCT
1 GTCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1531806 TTGGGGACTAAAAGGGTGAAAGGAGAGAGC
65 TTGAGGACTAAAAGGGTGAAAGGAGAGAGC
*
1531836 GTCTTGCTCTTTGAGGACTGAAA
1 GTCCTGCTCTTTGAGGACTGAAA
1531859 GTAGAAGAAG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 5 0.05
95 105 0.95
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (94 bp):
GTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAAAAGGGTGAAAGGAGAGAGC
Found at i:1545494 original size:80 final size:79
Alignment explanation
Indices: 1545223--1545494 Score: 267
Period size: 79 Copynumber: 3.4 Consensus size: 79
1545213 AAATTTAATA
* * * * *
1545223 TTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTTGAAAATAACGGGGTTGGAGTATCCCCGG
1 TTTTGGAAATAA-AATCGGAGTTGGAGTATCCCC-TCGGAAATAACGGGGTTGGAGTATCCCCGA
*
1545287 TTGTGAAAAATCCATG
64 TTGTGAAAAATCAATG
* * * * * * *
1545303 ATTGGGAAATAAAATCGGAATTAGAGTATCCTCTCGGAAATAACGAGGTTGGAGTATCCCCAATT
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
* * *
1545368 TTGAGAAATCAATA
66 GTGAAAAATCAATG
* ** * ** *
1545382 TTCTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATT
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
***
1545447 GTGAAAAATTGGTG
66 GTGAAAAATCAATG
*
1545461 TTTTTGGAAATAAAATTGGAGTTGGAGTATCCCC
1 -TTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1545495 GATTAAAGGA
Statistics
Matches: 149, Mismatches: 41, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
79 98 0.66
80 51 0.34
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATCAATG
Found at i:1545593 original size:51 final size:50
Alignment explanation
Indices: 1545427--1546119 Score: 315
Period size: 50 Copynumber: 13.4 Consensus size: 50
1545417 GGAGGTAACG
* ** * * * **
1545427 GGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATT
1 GGGTTGGAGTATCCCCGATTAAGGAAAGTTGGTG-TTTTAGAAATAAAACC
* *
1545478 GGAGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAACC
1 GG-GTTGGAGTATCCCCGATT-AAGGAAAGTTGGTGTTTT-AGAAATAAAACC
* * * *
1545531 GGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACC
1 -GGGTTGGAGTATCCCCGATTAAGGAAAGTTGGTGTTTTAGAAATAAAACC
*** * * *
1545582 AGGGTTGGAGTATCCCC-ATTAAGAGAAA-TCAATATTTTGGAAATAAAGCC
1 -GGGTTGGAGTATCCCCGATTAAG-GAAAGTTGGTGTTTTAGAAATAAAACC
* * ** * ***** *
1545632 GGGTTTGGAGTATCCCCTCGGAGGTAACGG--GGTTGGAATATCCCCGATGAAATAAC
1 GGG-TTGGAGTAT-CCC-C-GA-TTAA-GGAAAGTTGGTGTTTTAGAAAT-AAA-ACC
* * *
1545688 GAGGTTGGAGTATCCTCGATTGAA--AAA-TTGGTGTTTTTGGAAATAAAATC
1 G-GGTTGGAGTATCCCCGATT-AAGGAAAGTTGGTG-TTTTAGAAATAAAACC
*
1545738 GGAGTTGGAGTATCCCCGATTAAAGGAAA-TTAGTGTTTT-GAAAATAAAACC
1 GG-GTTGGAGTATCCCCGATT-AAGGAAAGTTGGTGTTTTAG-AAATAAAACC
* *
1545789 GGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAACC
1 GGGTTGGAGTATCCCCGATT-AAGGAAAGTTGGTGTTTT-AGAAATAAAACC
* * * * *
1545841 GGGGTTAGA-TATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAGCC
1 -GGGTTGGAGTATCCCCGATTAAGGAAAGTTGGTGTTTTAGAAATAAAACC
*** * * *
1545891 GGGGTTGGAGTATCCCC-ATTAAGAGAAA-TCAATATTTTGGAAATAAAGCC
1 -GGGTTGGAGTATCCCCGATTAAG-GAAAGTTGGTGTTTTAGAAATAAAACC
* * * * **** *
1545941 GAGGTTGGAGTATCCCCTCGGAGGTAACGG--GGTTGGAGTATCCCCAATGAAATAAC
1 G-GGTTGGAGTAT-CCC-C-GA-TTAA-GGAAAGTTGGTGTTTTAGAAAT-AAA-ACC
* * * * **
1545997 GAGGTTGGAGTATCCTCGATT--GAAAATTTGGTGTTTTTGGAAATAAAATT
1 G-GGTTGGAGTATCCCCGATTAAGGAAAGTTGGTG-TTTTAGAAATAAAACC
* *
1546047 GGAGTTGGAGTATCCCCGATTAAAGGAAA-TAGGTGTTTT-GAAAAAAAAACC
1 GG-GTTGGAGTATCCCCGATT-AAGGAAAGTTGGTGTTTTAG-AAATAAAACC
1546098 GGGGTTGGAGTATCCCCGATTA
1 -GGGTTGGAGTATCCCCGATTA
1546120 TGAGCAATTG
Statistics
Matches: 490, Mismatches: 103, Indels: 99
0.71 0.15 0.14
Matches are distributed among these distances:
49 7 0.01
50 150 0.31
51 131 0.27
52 85 0.17
53 52 0.11
54 18 0.04
55 18 0.04
56 27 0.06
57 2 0.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTAAGGAAAGTTGGTGTTTTAGAAATAAAACC
Found at i:1545687 original size:28 final size:29
Alignment explanation
Indices: 1545656--1545712 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
1545646 CCCTCGGAGG
*
1545656 TAACGGGGTTGGAATATCCCCGA-TGAAA
1 TAACGAGGTTGGAATATCCCCGATTGAAA
* *
1545684 TAACGAGGTTGGAGTATCCTCGATTGAAA
1 TAACGAGGTTGGAATATCCCCGATTGAAA
1545713 AATTGGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (29 bp):
TAACGAGGTTGGAATATCCCCGATTGAAA
Found at i:1545912 original size:309 final size:310
Alignment explanation
Indices: 1545452--1546119 Score: 1171
Period size: 309 Copynumber: 2.1 Consensus size: 310
1545442 CGATTGTGAA
* * **
1545452 AAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTT
1 AAATTAGTG-TTTTGAAAATAAAACCGG-GTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTT
1545517 TGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACC
64 TGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACC
1545582 AGGGTTGGAGTATCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCG-GGTTTGGAGTATC
129 AGGGTTGGAGTATCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGAGG-TTGGAGTATC
*
1545646 CCCTCGGAGGTAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGA
193 CCCTCGGAGGTAACGGGGTTGGAATATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGA
1545711 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
258 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1545764 AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTG
1 AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTG
* *
1545829 AAAAATAAAACCGGGGTTAGA-TATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAGCCGG
66 AAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACCAG
1545893 GGTTGGAGTATCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTGGAGTATCCCC
131 GGTTGGAGTATCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTGGAGTATCCCC
*
1545958 TCGGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGAAAA
196 TCGGAGGTAACGGGGTTGGAATATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGAAAA
* *
1546023 TTTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGG
261 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
*
1546073 AAA-TAGGTGTTTTGAAAAAAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAATTA-GTGTTTTGAAAATAAAACC-GGGTTGGAGTATCCCCGATTA
1546120 TGAGCAATTG
Statistics
Matches: 342, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
308 2 0.01
309 235 0.69
310 82 0.24
311 15 0.04
312 8 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (310 bp):
AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTG
AAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACCAG
GGTTGGAGTATCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTGGAGTATCCCC
TCGGAGGTAACGGGGTTGGAATATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTGAAAA
ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:1545919 original size:102 final size:102
Alignment explanation
Indices: 1545452--1546128 Score: 295
Period size: 106 Copynumber: 6.5 Consensus size: 102
1545442 CGATTGTGAA
* * **
1545452 AAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAA-AGGAAATTTGGTG-T
1 AAATTAGTG-TTTTGAAAATAAAACCGG-GTTGGAGTATCCCC-ATTAAGA-GAAATTTGGTGTT
* *
1545515 TTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATT-ATGG
62 TTTG-AAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
* *** *
1545556 AAAGTTAGTGTTTT-AGAAATGAAACCAGGGTTGGAGTATCCCCATTAAGAGAAA-TCAAT-ATT
1 AAA-TTAGTGTTTTGA-AAATAAAACC-GGGTTGGAGTATCCCCATTAAGAGAAATTTGGTGTTT
* * * * *
1545618 TTGGAAATAAAGCCGG-GTTTGGAGTATCCCCTCGGAGGTAACGG
63 TTGAAAATAAAACCGGAG-TTAGAGTAT-CCC-C-GA-TTAAAGG
** * ** * ***** * * *
1545662 -GGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATT--GA-AAAATTGGTGTT
1 AAATTAGTGTTTTGAAAAT-AAA-ACCG-GGTTGGAGTATCC-CCATTAAGAGAAATTTGGTGTT
* * *
1545723 TTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
62 TTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
1545764 AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTAA-AGGAAATTTGGTG-TTT
1 AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCC-ATTAAGA-GAAATTTGGTGTTTT
* *
1545827 TGAAAAATAAAACCGGGGTTAGA-TATCCCCGATT-ATGG
64 TG-AAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
* * *** *
1545865 AAAGTTAGTGTTTT-AGAAATGAAGCCGGGGTTGGAGTATCCCCATTAAGAGAAA-TCAAT-ATT
1 AAA-TTAGTGTTTTGA-AAATAAAACC-GGGTTGGAGTATCCCCATTAAGAGAAATTTGGTGTTT
* * * * *
1545927 TTGGAAATAAAGCC-GAGGTTGGAGTATCCCCTCGGAGGTAACGG
63 TTGAAAATAAAACCGGA-GTTAGAGTAT-CCC-C-GA-TTAAAGG
** * * * **** * *
1545971 -GGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATT--GA-AAATTTGGTGTT
1 AAATTAGTGTTTTGAAAAT-AAA-ACCG-GGTTGGAGTATCC-CCATTAAGAGAAATTTGGTGTT
* ** *
1546032 TTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGG
62 TTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
* * *
1546073 AAA-TAGGTGTTTTGAAAAAAAAACCGGGGTTGGAGTATCCCCGATTATGAGCAATT
1 AAATTA-GTGTTTTGAAAATAAAACC-GGGTTGGAGTATCCCC-ATTAAGAGAAATT
1546129 GCGAAGCTTA
Statistics
Matches: 422, Mismatches: 98, Indels: 106
0.67 0.16 0.17
Matches are distributed among these distances:
99 2 0.00
100 32 0.08
101 58 0.14
102 74 0.18
103 72 0.17
104 61 0.14
105 29 0.07
106 83 0.20
107 11 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (102 bp):
AAATTAGTGTTTTGAAAATAAAACCGGGTTGGAGTATCCCCATTAAGAGAAATTTGGTGTTTTTG
AAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
Found at i:1547053 original size:16 final size:18
Alignment explanation
Indices: 1547032--1547070 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1547022 TGAAATTAAA
1547032 TTGCTAC-CT-GCTAGAG
1 TTGCTACTCTCGCTAGAG
1547048 TTGCTACTCTCGCTAGAG
1 TTGCTACTCTCGCTAGAG
*
1547066 CTGCT
1 TTGCT
1547071 GTTGCGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.33
Consensus pattern (18 bp):
TTGCTACTCTCGCTAGAG
Found at i:1547119 original size:43 final size:43
Alignment explanation
Indices: 1547066--1547173 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 43
1547056 CTCGCTAGAG
1547066 CTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTAGAGTTGCTA
1 CTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTAGAGTTGCTA
* * *
1547109 CTGCTATTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCTG
1 CTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTAGAGTTGCTA
*
1547152 CTGCTGTTGCGTGCTAGAGCTG
1 CTGCTGTTGCGTGCTGGAGCTG
1547174 TCACCGTCGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.10, C:0.23, G:0.36, T:0.31
Consensus pattern (43 bp):
CTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTAGAGTTGCTA
Found at i:1547186 original size:43 final size:41
Alignment explanation
Indices: 1547065--1547203 Score: 156
Period size: 43 Copynumber: 3.2 Consensus size: 41
1547055 TCTCGCTAGA
1547065 GCTGCTGTTGCGTGCTGGAGCTGCA-GTCGCTGCTAGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCACGTCGCTG---GAGTTGCT
* *
1547108 ACTGCTATTGCGTGCTGGAGCTGCA-GTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCACGT--C-GCTGGAGTTGCT
* *
1547151 GCTGCTGTTGCGTGCTAGAGCTGTCACCGTCGCTGGAGTTGGT
1 GCTGCTGTTGCGTGCTGGAGCTG-CA-CGTCGCTGGAGTTGCT
1547194 GCTGCTGTTG
1 GCTGCTGTTG
1547204 GAGCTGCTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
43 74 0.88
44 3 0.04
45 1 0.01
46 6 0.07
ACGTcount: A:0.09, C:0.23, G:0.37, T:0.31
Consensus pattern (41 bp):
GCTGCTGTTGCGTGCTGGAGCTGCACGTCGCTGGAGTTGCT
Found at i:1547555 original size:26 final size:26
Alignment explanation
Indices: 1547519--1547650 Score: 237
Period size: 26 Copynumber: 5.1 Consensus size: 26
1547509 TGTCTCCAAT
*
1547519 TGCAATTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
1547545 TGCATTTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
1547571 TGCATTTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
*
1547597 TGCATTTTTTATTTCTTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
*
1547623 TGCATTTTCTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
1547649 TG
1 TG
1547651 TAAGTTTTCA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.12, C:0.27, G:0.08, T:0.53
Consensus pattern (26 bp):
TGCATTTTTTATTTCCTTTCCCATGC
Found at i:1547700 original size:20 final size:20
Alignment explanation
Indices: 1547670--1547715 Score: 76
Period size: 19 Copynumber: 2.3 Consensus size: 20
1547660 ACGTTTGCTT
1547670 TTTTTTAATTTATTTATTTTA
1 TTTTTTAATTTATTT-TTTTA
1547691 TTTTTT-ATTTATTTTTTTA
1 TTTTTTAATTTATTTTTTTA
1547710 TTTTTT
1 TTTTTT
1547716 TATGCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.44
20 8 0.32
21 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTAATTTATTTTTTTA
Found at i:1547704 original size:24 final size:23
Alignment explanation
Indices: 1547668--1547716 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
1547658 TCACGTTTGC
1547668 TTTTTTTTAATTTATTTATTTTA
1 TTTTTTTTAATTTATTTATTTTA
1547691 --TTTTTT-ATTTATTT-TTTTA
1 TTTTTTTTAATTTATTTATTTTA
1547710 TTTTTTT
1 TTTTTTT
1547717 ATGCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTTAATTTATTTATTTTA
Found at i:1547711 original size:8 final size:8
Alignment explanation
Indices: 1547669--1547718 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
1547659 CACGTTTGCT
1547669 TTTTTTTAA
1 TTTTTTT-A
*
1547678 TTTATTTA
1 TTTTTTTA
1547686 TTTTATTT-
1 TTTT-TTTA
*
1547694 TTTATTTA
1 TTTTTTTA
1547702 TTTTTTTA
1 TTTTTTTA
1547710 TTTTTTTA
1 TTTTTTTA
1547718 T
1 T
1547719 GCATGAATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 3 0.09
8 23 0.66
9 9 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:1547716 original size:20 final size:21
Alignment explanation
Indices: 1547669--1547718 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
1547659 CACGTTTGCT
1547669 TTTTTTTAATTTATTTATTTTA
1 TTTTTTT-ATTTATTTATTTTA
1547691 -TTTTTTATTTATTT-TTTTA
1 TTTTTTTATTTATTTATTTTA
1547710 TTTTTTTAT
1 TTTTTTTAT
1547719 GCATGAATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 16 0.59
21 6 0.22
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTATTTATTTATTTTA
Found at i:1547823 original size:6 final size:6
Alignment explanation
Indices: 1547789--1547815 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1547779 ATTATTATTT
1547789 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1547816 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:1549342 original size:13 final size:13
Alignment explanation
Indices: 1549324--1549348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1549314 ATGTTGCATA
1549324 GTATCGATACATT
1 GTATCGATACATT
1549337 GTATCGATACAT
1 GTATCGATACAT
1549349 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1549361 original size:20 final size:20
Alignment explanation
Indices: 1549336--1549387 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1549326 ATCGATACAT
**
1549336 TGTATCGATACATGACCAA-A
1 TGTATCGATACAT-AAAAAGA
1549356 TGTATCGATACATAAAAAGA
1 TGTATCGATACATAAAAAGA
1549376 TGTATCGATACA
1 TGTATCGATACA
1549388 GGTCATTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATAAAAAGA
Found at i:1549457 original size:13 final size:13
Alignment explanation
Indices: 1549439--1549463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1549429 ACACACAGTA
1549439 TGTATCGATACAT
1 TGTATCGATACAT
1549452 TGTATCGATACA
1 TGTATCGATACA
1549464 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1549460 original size:32 final size:33
Alignment explanation
Indices: 1549419--1549486 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1549409 GTAGCCAAAC
**
1549419 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1549451 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
1549484 TTG
1 TTG
1549487 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1552389 original size:21 final size:20
Alignment explanation
Indices: 1552349--1552389 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1552339 TTTTGTTGGT
* *
1552349 GATTTTGATGAAAAATGAAG
1 GATTTTGAAGAAAAAAGAAG
1552369 GATTTTGAAGTAAAAAAGAAG
1 GATTTTGAAG-AAAAAAGAAG
1552390 AAATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (20 bp):
GATTTTGAAGAAAAAAGAAG
Found at i:1552536 original size:13 final size:13
Alignment explanation
Indices: 1552518--1552543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1552508 TAGTAACTCG
1552518 TGTATCGATACAA
1 TGTATCGATACAA
1552531 TGTATCGATACAA
1 TGTATCGATACAA
1552544 GGAATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1558734 original size:20 final size:20
Alignment explanation
Indices: 1558709--1558848 Score: 90
Period size: 20 Copynumber: 6.9 Consensus size: 20
1558699 GTTAGAAGCA
*
1558709 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1558729 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
***
1558749 ATGTATCGATACAAATAGTGGTA
1 ATGTATCGATAC-AAT-GT-ACC
* * * * * **
1558772 AGGTAGCTACTGCCA-GTTTC
1 ATGTATCGA-TACAATGTACC
1558792 ATGTATCGATACAATTGT-CC
1 ATGTATCGATACAA-TGTACC
*
1558812 ATGTATCGATACAATG-AAC
1 ATGTATCGATACAATGTACC
1558831 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
1558849 TTGATACAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
19 22 0.24
20 52 0.56
21 8 0.09
22 2 0.02
23 7 0.08
24 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1558835 original size:19 final size:19
Alignment explanation
Indices: 1558791--1558846 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1558781 CTGCCAGTTT
**
1558791 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1558811 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1558830 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1558847 TATTGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1559032 original size:22 final size:23
Alignment explanation
Indices: 1558984--1559032 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
1558974 AATTTTTACT
*
1558984 TAAAAACATTTGAATTAAAATTC
1 TAAAAACATTTGAATTAAAACTC
* *
1559007 -AAAAACATTTG-TTTATAACTC
1 TAAAAACATTTGAATTAAAACTC
1559028 TAAAA
1 TAAAA
1559033 CTTCCATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAAAACATTTGAATTAAAACTC
Found at i:1571882 original size:65 final size:64
Alignment explanation
Indices: 1571779--1571908 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 64
1571769 AACAAAAAAG
* * *
1571779 ACAAGGTCATCAGTACACATAATGGGGATCGACAACTCAGCAAATTTCATATTTGCATCCATGA
1 ACAAGGTCATCAGTACACATAATAGGGATCAACAACTCAGCAAATTTCATATTCGCATCCATGA
* *
1571843 ACAAGGTCATCACGTACACATGATAGGGTTCAACAACTCAGCAAATTTCATATTCGCATCCATGA
1 ACAAGGTCATCA-GTACACATAATAGGGATCAACAACTCAGCAAATTTCATATTCGCATCCATGA
1571908 A
1 A
1571909 TTTTGTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 12 0.20
65 48 0.80
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (64 bp):
ACAAGGTCATCAGTACACATAATAGGGATCAACAACTCAGCAAATTTCATATTCGCATCCATGA
Found at i:1572619 original size:56 final size:55
Alignment explanation
Indices: 1572532--1572796 Score: 332
Period size: 56 Copynumber: 4.8 Consensus size: 55
1572522 TGGCTGGTTG
* * ** * *
1572532 TTTTTGAATGCTGGAGGTTGCTATTCGTGCTATTATGGAAGCTACTAGATGGAGTT
1 TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAG-T
* * *
1572588 TTTTTGATTGCTGGAGGTTGTTGTTCATGCTATCGTGGAAGCTGCTGGCTGGAGTT
1 TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAG-T
* * * * * * *
1572644 TTTTTTATTACTGGAGGTTACTATTCGGGCTATCGTGGAAGCTGCTGGCTAGAGT
1 TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAGT
* *
1572699 TTCTTAATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAGT
1 TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAGT
* *
1572754 TTCTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTTGAAGCT
1 TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCT
1572797 ACTGGCTAGA
Statistics
Matches: 182, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
55 89 0.49
56 93 0.51
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.39
Consensus pattern (55 bp):
TTTTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAGT
Found at i:1572647 original size:111 final size:111
Alignment explanation
Indices: 1572532--1572799 Score: 340
Period size: 111 Copynumber: 2.4 Consensus size: 111
1572522 TGGCTGGTTG
* * * * *
1572532 TTTTTGAATGCTGGAGGTTGCTATTCGTGCTATTATGGAAGCTACTAGATGGAGTTTTTTTGATT
1 TTTTTGATTGCTGGAGGTTGCTATTCGTGCTATCATGGAAGCTACTAGATAGAG-TTTCTTAATT
* *
1572597 GCTGGAGGTTGTTGTTCATGCTATCGTGGAAGCTGCTGGCTGGAGTT
65 GCTGGAGGTTGCTGTTCATGCTATCGTGGAAGCTGCTAGCTGGAGTT
* * * * * * * *
1572644 TTTTTTATTACTGGAGGTTACTATTCGGGCTATCGTGGAAGCTGCTGGCTAGAGTTTCTTAATTG
1 TTTTTGATTGCTGGAGGTTGCTATTCGTGCTATCATGGAAGCTACTAGATAGAGTTTCTTAATTG
*
1572709 CTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAG-T
66 CTGGAGGTTGCTGTTCATGCTATCGTGGAAGCTGCTAGCTGGAGTT
* * * *
1572754 TTCTTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTTGAAGCTACT
1 TTTTTGATTGCTGGAGGTTGCTATTCGTGCTATCATGGAAGCTACT
1572800 GGCTAGAATT
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
110 39 0.30
111 50 0.38
112 43 0.33
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.39
Consensus pattern (111 bp):
TTTTTGATTGCTGGAGGTTGCTATTCGTGCTATCATGGAAGCTACTAGATAGAGTTTCTTAATTG
CTGGAGGTTGCTGTTCATGCTATCGTGGAAGCTGCTAGCTGGAGTT
Found at i:1572738 original size:55 final size:56
Alignment explanation
Indices: 1572535--1572803 Score: 335
Period size: 55 Copynumber: 4.8 Consensus size: 56
1572525 CTGGTTGTTT
* * ** * * * *
1572535 TTGAATGCTGGAGGTTGCTATTCGTGCTATTATGGAAGCTACTAGATGGAGTTTTT
1 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCTGGAGTTTTC
* * *
1572591 TTGATTGCTGGAGGTTGTTGTTCATGCTATCGTGGAAGCTGCTGGCTGGAGTTTTT
1 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCTGGAGTTTTC
* * * * * *
1572647 TTTATTACTGGAGGTTACTATTCGGGCTATCGTGGAAGCTGCTGGCTAGAG-TTTC
1 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCTGGAGTTTTC
* *
1572702 TTAATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTAGCTGGAG-TTTC
1 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCTGGAGTTTTC
* *
1572757 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTTGAAGCTACTGGCT
1 TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCT
1572804 AGAATTTTTT
Statistics
Matches: 184, Mismatches: 29, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
55 94 0.51
56 90 0.49
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.38
Consensus pattern (56 bp):
TTGATTGCTGGAGGTTGCTGTTCGTGCTATCGTGGAAGCTGCTGGCTGGAGTTTTC
Found at i:1573336 original size:8 final size:8
Alignment explanation
Indices: 1573325--1573375 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
1573315 TTTCATGATT
1573325 TTTTTTAA
1 TTTTTTAA
1573333 TTTTTTAA
1 TTTTTTAA
*
1573341 -CTTTT-A
1 TTTTTTAA
*
1573347 TTTTTTTA
1 TTTTTTAA
*
1573355 TTTTTTTA
1 TTTTTTAA
1573363 TTTTTTAA
1 TTTTTTAA
1573371 TTTTT
1 TTTTT
1573376 GATTTCTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 1 0.03
7 8 0.21
8 29 0.76
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1573368 original size:23 final size:23
Alignment explanation
Indices: 1573324--1573380 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
1573314 ATTTCATGAT
*
1573324 TTTTTTTAATTTTTTAACTTTTA
1 TTTTTTTATTTTTTTAACTTTTA
**
1573347 TTTTTTTATTTTTTTATTTTTTA
1 TTTTTTTATTTTTTTAACTTTTA
* *
1573370 ATTTTTGATTT
1 TTTTTTTATTT
1573381 CTACCTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTTTATTTTTTTAACTTTTA
Found at i:1573369 original size:15 final size:15
Alignment explanation
Indices: 1573325--1573380 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
1573315 TTTCATGATT
*
1573325 TTTTTTAATTTTTTA
1 TTTTTTATTTTTTTA
**
1573340 ACTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
*
1573355 TTTTTTTATTTTTTAA
1 -TTTTTTATTTTTTTA
*
1573371 TTTTTGATTT
1 TTTTTTATTT
1573381 CTACCTATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:1581354 original size:92 final size:92
Alignment explanation
Indices: 1581084--1582193 Score: 1470
Period size: 92 Copynumber: 12.1 Consensus size: 92
1581074 TGAAGAAGAA
** * ** * * *
1581084 TGCCAATGTGCTGAGACAAAGCCAATGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTA--AA-GATAAAGGTGCCAATATGCTG
* ** *
1581149 ATTCAAGGCCAACGATATCCGACCTAAAGATGAAG
63 ATTCAAGGCCAGCGATATTGGA-CTTAA-A-G--G
* * * ** *
1581184 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTTATAGATGACTGGTGCCAATATACTG
1 -TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTC-TTAAAGAT-AAAGGTGCCAATATGCTG
* * *
1581248 ATTCAAGGCTAGCGATACTAGACTTAAAGG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * * *
1581278 TGTCAATGTGCTGATTCAAGGCTAGTGACATTAGTCTTAAAGATAAAGGTGCCAATACGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1581343 CAAGGCCAGCGATATTGGGCTT--A--
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1581366 TGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAA-GTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1581430 CAAGGCCATCGATATTGGGCTT--A--
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * * * *
1581453 TGCCAATGTGCTGATTCAAGGCCAACGACACTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1581517 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * * * *
1581544 TGCCAACGTGCTGATTCAAGGCTAGCGAAATTGGTTTTAAAGATAAAGGTGACAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1581609 CAAGGCCAACGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
*
1581636 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGCCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* ** *
1581701 CAAGGTCAATGATATTTGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
*
1581728 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTTTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1581793 CAAGGCCAGTGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1581820 TGCCAATGTGCTGATTCAAAGCTAGTGGC-TTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1581884 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * * *
1581911 TGCCAATGTGCTAATTCGAAGCTAGCGGCATTAGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1581976 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
1582003 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1582068 CAAGGCCAACAATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1582095 TGCCAATATGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCTAATATACTGAT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCC-AATATGCTGAT
* *
1582160 TCAAGGAACAGCGATATTGAACTTAAAGG
65 TCAAGG-CCAGCGATATTGGACTTAAAGG
1582189 TGCCA
1 TGCCA
1582194 CGAAATTGTG
Statistics
Matches: 913, Mismatches: 84, Indels: 31
0.89 0.08 0.03
Matches are distributed among these distances:
86 2 0.00
87 114 0.12
88 45 0.05
89 1 0.00
90 1 0.00
91 123 0.13
92 476 0.52
93 53 0.06
94 25 0.03
96 1 0.00
97 1 0.00
98 6 0.01
99 32 0.04
100 1 0.00
101 32 0.04
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGG
Found at i:1581381 original size:39 final size:41
Alignment explanation
Indices: 1581326--1582134 Score: 271
Period size: 43 Copynumber: 18.0 Consensus size: 41
1581316 AAAGATAAAG
*
1581326 GTGCCAATACGCTGATTCAAGGCCAGCGATATTGGGCTT-A
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* * * * *
1581366 -TGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-AA
*
1581413 GTGCCAATATGCTGATTCAAGGCCATCGATATTGGGCTT-A
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* * * * *
1581453 -TGCCAATGTGCTGATTCAAGGCCAACGACACTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------AA
*
1581499 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
** * * * *
1581542 GGTGCCAACGTGCTGATTCAAGGCTAGCGAAATTGGTTTTAAAGATAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------GCTTAA
* * *
1581591 GGTGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * * *
1581634 GGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGCCTTAAAGATAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-AA
* ** * *
1581683 GGTGCCAATATGCTGATTCAAGGTCAATGATATTTGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * * * *
1581726 GGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTTTTAAAGATAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------GCTTAA
* *
1581775 GGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * * ** *
1581818 GGTGCCAATGTGCTGATTCAAAGCTAGTG-GCTTGGTCTTAAAGATAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-AA
*
1581866 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * ** * *
1581909 GGTGCCAATGTGCTAATTCGAA-GCTAGCGGCATTAGTCTTAAAGATAAA
1 -GTGCCAATATGCTGATTC-AAGGCCAGC-G-A-TA---TT-GGGCTTAA
*
1581958 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * * *
1582001 GGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-AA
* * *
1582050 GGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
* * * *
1582093 GGTGCCAATATGCTGATTCAAAGCTAGCGACATTGGTCTTAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
1582135 AGATAAAGGT
Statistics
Matches: 585, Mismatches: 121, Indels: 124
0.70 0.15 0.15
Matches are distributed among these distances:
39 63 0.11
40 2 0.00
42 11 0.02
43 229 0.39
44 5 0.01
45 2 0.00
46 5 0.01
47 3 0.01
48 98 0.17
49 164 0.28
50 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (41 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
Found at i:1581748 original size:22 final size:22
Alignment explanation
Indices: 1581680--1581748 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
1581670 CCTTAAAGAT
*
1581680 AAAGGTGCCAATATGCTGATTC
1 AAAGGTGCCAATGTGCTGATTC
**
1581702 -AAGGT--CAATGATATTTGACTT-
1 AAAGGTGCCAATG-T-GCTGA-TTC
1581723 AAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATGTGCTGATTC
1581745 AAAG
1 AAAG
1581749 CTAGCGACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 10 0.29
22 14 0.40
23 1 0.03
24 5 0.14
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (22 bp):
AAAGGTGCCAATGTGCTGATTC
Found at i:1581899 original size:275 final size:276
Alignment explanation
Indices: 1581084--1582193 Score: 1479
Period size: 275 Copynumber: 4.0 Consensus size: 276
1581074 TGAAGAAGAA
** * ** * * *
1581084 TGCCAATGTGCTGAGACAAAGCCAATGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTA--AA-GATAAAGGTGCCAATATGCTG
** * *
1581149 ATTCAAGGCCAACGATATCCGACCTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGAC
63 ATTCAAGGCCAACGATATTGGA-CTTAA-A-G--G-TGCCAATGTGCTGATTCAAAGCCAGCGAC
* ** * * * *
1581214 ATTGG-CTTTATAGATGACTGGTGCCAATATACTGATTCAAGGCTAGCGATACTAGACTTAAAGG
122 ATTGGTC-TTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * * *
1581278 TGTCAATGTGCTGATTCAAGGCTAGTGACATTAGTCTTAAAGATAAAGGTGCCAATACGCTGATT
185 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1581343 CAAGGCCAGCGATATTGGGCTT--A--
250 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1581366 TGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAA-GTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* * * * *
1581430 CAAGGCCATCGATATTGGGCTT--A--TGCCAATGTGCTGATTCAAGGCCAACGACACTGGTCTT
66 CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT
* *
1581491 AAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAACGTGC
131 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
* * * * *
1581555 TGATTCAAGGCTAGCGAAATTGGTTTTAAAGATAAAGGTGACAATATGCTGATTCAAGGCCAACG
196 TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
1581620 ATATTGGACTTAAAGG
261 ATATTGGACTTAAAGG
*
1581636 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGCCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* * * * *
1581701 CAAGGTCAATGATATTTGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTTTT
66 CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT
*
1581766 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGC
131 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
* *
1581831 TGATTCAAAGCTAGTGGC-TTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
196 TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
1581895 ATATTGGACTTAAAGG
261 ATATTGGACTTAAAGG
* * * *
1581911 TGCCAATGTGCTAATTCGAAGCTAGCGGCATTAGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1581976 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTT
66 CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT
* * *
1582041 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGGTGCCAATATGC
131 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
* *
1582106 TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCTAATATACTGATTCAAGGAACAG
196 TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCC-AATATGCTGATTCAAGG-CCAG
*
1582171 CGATATTGAACTTAAAGG
259 CGATATTGGACTTAAAGG
1582189 TGCCA
1 TGCCA
1582194 CGAAATTGTG
Statistics
Matches: 739, Mismatches: 75, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
266 118 0.16
268 39 0.05
269 1 0.00
270 44 0.06
271 34 0.05
273 1 0.00
274 1 0.00
275 294 0.40
276 93 0.13
277 18 0.02
278 56 0.08
279 5 0.01
280 2 0.00
282 33 0.04
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (276 bp):
TGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCG
ATATTGGACTTAAAGG
Found at i:1581937 original size:367 final size:368
Alignment explanation
Indices: 1581084--1582193 Score: 1499
Period size: 367 Copynumber: 3.0 Consensus size: 368
1581074 TGAAGAAGAA
** * * * * *
1581084 TGCCAATGTGCTGAGACAAAGCCAATGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAAGCCAACGACACTGGTCTTA--AA-GATAAAGGTGCCAATATGCTG
* ** * *
1581149 ATTCAAGGCCAACGATATCCGACCTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGAC
63 ATTCAAGGCCAGCGATATTGGA-CTTAA-A-G--G-TGCCAATGTGCTGATTCAAGGCTAGCGAC
* * ** * * * *
1581214 ATTGGCTTTATAGATGACTGGTGCCAATATACTGATTCAAGGCTAGCGATACTAGACTTAAAGGT
122 ATTGGTTTTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * * *
1581279 GTCAATGTGCTGATTCAAGGCTAGTGACATTAGTCTTAAAGATAAAGGTGCCAATACGCTGATTC
186 GCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTC
* * * *
1581344 AAGGCCAGCGATATTGGGCTT--A--TGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTA
251 AAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTA
*
1581405 AAGATAAA-GTGCCAATATGCTGATTCAAGGCCA-TCGATATTGGGCTT--A--
316 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGT-GATATTGGACTTAAAGG
* *
1581453 TGCCAATGTGCTGATTCAAGGCCAACGACACTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCCAACGACACTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1581517 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAACGTGCTGATTCAAGGCTAGCGAAATTGGTTTT
66 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTTTT
* *
1581582 AAAGATAAAGGTGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGC
131 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
* * *
1581647 TGATTCAAAGCTAGCGACATTGGCCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGTCAATG
196 TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACG
* *
1581712 ATATTTGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTTTTAAAGATAAAGG
261 ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGG
1581777 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGG
326 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGG
* ** * *
1581820 TGCCAATGTGCTGATTCAAAGCTAGTGGC-TTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAAGCCAACGACACTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* * * *
1581884 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCGAA-GCTAGCGGCATTAGTCT
66 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTC-AAGGCTAGCGACATTGGTTT
1581948 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTG
130 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTG
1582013 CTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAAC
195 CTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAAC
* *
1582078 AATATTGGACTTAAAGGTGCCAATATGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAG
260 GATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAG
* * * *
1582143 GTGCCTAATATACTGATTCAAGGAACAGCGATATTGAACTTAAAGG
325 GTGCC-AATATGCTGATTCAAGG-CCAGTGATATTGGACTTAAAGG
1582189 TGCCA
1 TGCCA
1582194 CGAAATTGTG
Statistics
Matches: 660, Mismatches: 67, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
358 116 0.18
359 39 0.06
360 2 0.00
362 45 0.07
363 37 0.06
364 5 0.01
365 36 0.05
366 13 0.02
367 292 0.44
368 18 0.03
369 57 0.09
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (368 bp):
TGCCAATGTGCTGATTCAAAGCCAACGACACTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTTTT
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
TGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACG
ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCGACATTGGTCTTAAAGATAAAGG
TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGG
Found at i:1582115 original size:22 final size:22
Alignment explanation
Indices: 1582047--1582115 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
1582037 TCTTAAAGAT
1582047 AAAGGTGCCAATATGCTGATTC
1 AAAGGTGCCAATATGCTGATTC
*
1582069 -AAGG-CCAACAATAT--TGGACTT-
1 AAAGGTGC--CAATATGCT-GA-TTC
1582090 AAAGGTGCCAATATGCTGATTC
1 AAAGGTGCCAATATGCTGATTC
1582112 AAAG
1 AAAG
1582116 CTAGCGACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 18 0.50
23 2 0.06
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (22 bp):
AAAGGTGCCAATATGCTGATTC
Found at i:1582327 original size:33 final size:33
Alignment explanation
Indices: 1582184--1582536 Score: 288
Period size: 34 Copynumber: 10.9 Consensus size: 33
1582174 TATTGAACTT
* * *
1582184 AAAGGTGCCACGAAATTGTGGACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1582216 AAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* *
1582252 AAGGGTGCCACGGAGTTGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1582284 AAAGGTGCCACAGAGTTGTGGACATAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1582317 GAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1582350 AAAGATGTCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1582380 ---GGTGCCATGGAGTTATGGACCTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
1582410 AAAGTATGCCACGGATTTGTAGG-TTATAAAAAGAA
1 AAAG-GTGCCACGGAGTTGT-GGACT-TAAAAGGAA
* *
1582445 AAAGGTACCACAGAGTTGTGGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1582472 AAAGGTGTCACAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
1582506 AAAGGTGGCACAGAGTTGTGGACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1582537 GTGCCGCAAA
Statistics
Matches: 257, Mismatches: 41, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
27 44 0.17
28 3 0.01
32 36 0.14
33 67 0.26
34 83 0.32
35 18 0.07
36 6 0.02
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1582470 original size:95 final size:93
Alignment explanation
Indices: 1582211--1582534 Score: 292
Period size: 95 Copynumber: 3.4 Consensus size: 93
1582201 GTGGACTTAT
* * * * *
1582211 AGGAAAAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTTGTGGACT
1 AGGAAAAA--GATGCCACGGAGTTGTGGACTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGACT
*
1582276 TAAAAAGAAAAGGTGCCACAGAGTTGTGGACATAAA
63 T-AAAAG----GGTGCCACAGAGTTATGGACATAAA
* * * * *
1582312 AGGAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGTCACGGAGTTGTGGACTTAA
1 AGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAA
** *
1582377 AAGGGTGCCATGGAGTTATGGACCTAAA
66 AAGGGTGCCACAGAGTTATGGACATAAA
* * * *
1582405 AGGAAAAAGTATGCCACGGATTTGTAGG-TTATAAAAAGAAAAAGGTACCACAGAGTTGTGGACT
1 AGGAAAAAG-ATGCCACGGAGTTGT-GGACT-TAAAAAGAAAAAGGTGCCACGGAGTTGTGGACT
* * * *
1582469 TAAAAAGGTGTCACAGAGTTGTGGACTTTGAAA
63 TAAAAGGGTGCCACAGAGTTATGGAC-AT-AAA
* * *
1582502 A-GAAAAAGGTGGCACAGAGTTGTGGACTTAAAA
1 AGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
1582535 GGGTGCCGCA
Statistics
Matches: 185, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
93 29 0.16
94 21 0.11
95 63 0.34
96 8 0.04
97 9 0.05
98 26 0.14
99 22 0.12
101 7 0.04
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.20
Consensus pattern (93 bp):
AGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAA
AAGGGTGCCACAGAGTTATGGACATAAA
Found at i:1582483 original size:27 final size:27
Alignment explanation
Indices: 1582443--1582588 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 27
1582433 TTATAAAAAG
*
1582443 AAAAAGGTACCACAGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTGTGGACTT
*
1582470 AAAAAGGTGTCACAGAGTTGTGGACTTT
1 AAAAAGGTGCCACAGAGTTGTGGAC-TT
*
1582498 GAAAAGAAAAAGGTGGCACAGAGTTGTGGACTT
1 ------AAAAAGGTGCCACAGAGTTGTGGACTT
* * *
1582531 AAAAGGGTGCCGCAAAGTTGTGGACTTT
1 AAAAAGGTGCCACAGAGTTGTGGAC-TT
* *
1582559 GAAAAGAGATTGCCACCGAGTTGTGGACTT
1 -AAAA-AG-GTGCCACAGAGTTGTGGACTT
1582589 TGAAGAAAAG
Statistics
Matches: 96, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
27 44 0.46
28 4 0.04
29 4 0.04
30 3 0.03
31 15 0.16
33 2 0.02
34 24 0.25
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:1582518 original size:61 final size:61
Alignment explanation
Indices: 1582438--1582565 Score: 202
Period size: 61 Copynumber: 2.1 Consensus size: 61
1582428 GTAGGTTATA
* *
1582438 AAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAAGGTGTCACAGAGTTGTGGACTTTG
1 AAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAAGGTGCCACAAAGTTGTGGACTTTG
** * *
1582499 AAAAGAAAAAGGTGGCACAGAGTTGTGGACTTAAAAGGGTGCCGCAAAGTTGTGGACTTTG
1 AAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAAGGTGCCACAAAGTTGTGGACTTTG
1582560 AAAAGA
1 AAAAGA
1582566 GATTGCCACC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (61 bp):
AAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAAGGTGCCACAAAGTTGTGGACTTTG
Found at i:1582711 original size:95 final size:92
Alignment explanation
Indices: 1582569--1582775 Score: 234
Period size: 95 Copynumber: 2.2 Consensus size: 92
1582559 GAAAAGAGAT
* * * * * * ** *
1582569 TGCCACCGAGTTGTGGACTTTGAAGAAAAGATACCATTGAGTCGTGGACTTTGGGAAGAGATGCC
1 TGCCACTGAGTCGTGGACTTGGAAGAAAAGATACCACTAAGTCGTGGACTTAGAAAAAAGATGCC
* *
1582634 ACTGAGTCGTGGACTTTGAAGAAAAAAGA
66 ACTGAGTCGTGGACTCT-AA-AAAAAACA
* * *
1582663 TGCGACTGAGTCGTGGACTTGGACGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAAAGATGC
1 TGCCACTGAGTCGTGGACTTGGAAGAAAA-GATACCACTAAGTCGTGGACTTAGAAAAAAGATGC
* *
1582728 CACTGAGTTGTGGACTCTAAAGAAAACA
65 CACTGAGTCGTGGACTCTAAAAAAAACA
*
1582756 TGCCACTGAGTCGTAGACTT
1 TGCCACTGAGTCGTGGACTT
1582776 TGGGACAAGA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
93 24 0.26
94 26 0.28
95 44 0.47
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (92 bp):
TGCCACTGAGTCGTGGACTTGGAAGAAAAGATACCACTAAGTCGTGGACTTAGAAAAAAGATGCC
ACTGAGTCGTGGACTCTAAAAAAAACA
Found at i:1582792 original size:32 final size:31
Alignment explanation
Indices: 1582550--1582794 Score: 214
Period size: 31 Copynumber: 7.8 Consensus size: 31
1582540 CCGCAAAGTT
* * *
1582550 GTGGACTTTGA-AAAGAGATTGCCACCGAGTT
1 GTGGACTTTGAGAAAAAGA-TGCCACTGAGTC
* *
1582581 GTGGACTTTGA-AGAAAAGATACCATTGAGTC
1 GTGGACTTTGAGA-AAAAGATGCCACTGAGTC
* *
1582612 GTGGACTTTG-GGAAGAGATGCCACTGAGTC
1 GTGGACTTTGAGAAAAAGATGCCACTGAGTC
*
1582642 GTGGACTTTGAAGAAAAAAGATGCGACTGAGTC
1 GTGGACTTTG-AG-AAAAAGATGCCACTGAGTC
* * *
1582675 GTGGACTTGGACGAAAAGGATGCCACTAAGTC
1 GTGGACTTTGA-GAAAAAGATGCCACTGAGTC
* *
1582707 GTGGACTTAGA-AAAAAGATGCCACTGAGTT
1 GTGGACTTTGAGAAAAAGATGCCACTGAGTC
* * *
1582737 GTGGACTCT-AAAGAAAACATGCCACTGAGTC
1 GTGGACTTTGAGA-AAAAGATGCCACTGAGTC
* *
1582768 GTAGACTTTGGGACAAGAA-ATGCCACT
1 GTGGACTTTGAGA-AA-AAGATGCCACT
1582795 TTTAGACACC
Statistics
Matches: 175, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
29 1 0.01
30 49 0.28
31 53 0.30
32 44 0.25
33 28 0.16
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (31 bp):
GTGGACTTTGAGAAAAAGATGCCACTGAGTC
Found at i:1583121 original size:13 final size:13
Alignment explanation
Indices: 1583103--1583128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1583093 ACATAAGTGT
1583103 TATATCGATACAA
1 TATATCGATACAA
1583116 TATATCGATACAA
1 TATATCGATACAA
1583129 AGCTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TATATCGATACAA
Found at i:1598049 original size:29 final size:29
Alignment explanation
Indices: 1598016--1598076 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
1598006 ATTCCTCACC
*
1598016 TTCAAAAGCCTACAAATTAGTGGCATCTT
1 TTCAAAAGCCCACAAATTAGTGGCATCTT
*
1598045 TTCAAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAAGCCCACAAATTAGTGGCATCTT
1598074 TTC
1 TTC
1598077 TTCAAAGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (29 bp):
TTCAAAAGCCCACAAATTAGTGGCATCTT
Found at i:1598146 original size:30 final size:30
Alignment explanation
Indices: 1598034--1598228 Score: 148
Period size: 31 Copynumber: 6.4 Consensus size: 30
1598024 CCTACAAATT
* * * * *
1598034 AGTGGCATCTTTTC-AAAAGCCCACAAGTT
1 AGTGGCATCTTTTCTCAAAGTCCACGACTC
*
1598063 AGTGGCATCTTTTCTTCAAAGTCCACGAGTC
1 AGTGGCATCTTTTC-TCAAAGTCCACGACTC
*
1598094 AGTGGCAATCTTTTCTCAAAGTCCGCGACTC
1 AGTGGC-ATCTTTTCTCAAAGTCCACGACTC
* *
1598125 AGTGGCATCTCTTCCCAAAGTCCACGACTC
1 AGTGGCATCTTTTCTCAAAGTCCACGACTC
* *
1598155 TGTGGCA-CATTTTTCTTTTCAAAGTCCACAACTC
1 AGTGGCATC--TTTTC---TCAAAGTCCACGACTC
* * * *
1598189 TGTGGCACCCTTT-T--AAGTCCACAACTC
1 AGTGGCATCTTTTCTCAAAGTCCACGACTC
*
1598216 AGTGGCACCTTTT
1 AGTGGCATCTTTT
1598229 TCTTTTTAAA
Statistics
Matches: 141, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
27 24 0.17
29 16 0.11
30 27 0.19
31 41 0.29
32 8 0.06
33 3 0.02
34 21 0.15
35 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (30 bp):
AGTGGCATCTTTTCTCAAAGTCCACGACTC
Found at i:1598207 original size:61 final size:61
Alignment explanation
Indices: 1598142--1598579 Score: 421
Period size: 61 Copynumber: 7.0 Consensus size: 61
1598132 TCTCTTCCCA
* * * * *
1598142 AAGTCCACGACTCTGTGGCACATTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1598203 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1598264 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCAC-C-----C-T
1598329 TTT
59 TTT
* * * * * * *
1598332 AATTCCAAAACTCCGTGGCATCTTTTTCCTTTTAAA-TCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
* *
1598392 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTATGGCACTATTTTTCCT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCAC-------CCT
1598457 TTT
59 TTT
* *
1598460 AAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACAACT-TCGTGGCATCTTTTTCCT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCT-GTGGCA-C-----CCT
1598517 TTT
59 TTT
* * * *
1598520 AAGTCCACAACTCCA-TGGCACCTTTTCCCTTTT-AAGTCCACGACTCTGTGGCACCCTTTT
1 AAGTCCACAACT-CAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1598580 CCCTTTTAAG
Statistics
Matches: 327, Mismatches: 25, Indels: 51
0.81 0.06 0.13
Matches are distributed among these distances:
60 72 0.22
61 144 0.44
62 6 0.02
63 1 0.00
65 2 0.01
66 22 0.07
67 18 0.06
68 62 0.19
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (61 bp):
AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
Found at i:1598365 original size:33 final size:33
Alignment explanation
Indices: 1598142--1598646 Score: 362
Period size: 34 Copynumber: 15.8 Consensus size: 33
1598132 TCTCTTCCCA
* *
1598142 AAGTCCACGACTCTGTGGCA-CATTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCATC-TTTTTCCTTTT
*
1598174 CAAAGTCCACAACTCTGTGGCA-C-----CCTTTT
1 --AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1598203 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
1598236 AAAGCCCACAACTCTGTGGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1598264 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1598297 AAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTT
1 -AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* *
1598332 AATTCCAAAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
1598365 AAATCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1598392 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** *
1598425 AAAGCCCACAACTCTATGGCACTATTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
1598460 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
1598487 AAGTCCACAACTTCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1598520 AAGTCCACAACTCCATGGCACCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * *
1598553 AAGTCCACGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * * * *
1598587 AAGCCCATACCTCTGTGGCATCTTTTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCATC---TTTTTCCTTTT
* *
1598622 AAGTCCACAACTCTGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCATCTTT
1598647 AAGTTTAATA
Statistics
Matches: 387, Mismatches: 50, Indels: 70
0.76 0.10 0.14
Matches are distributed among these distances:
27 86 0.22
28 9 0.02
29 5 0.01
32 4 0.01
33 99 0.26
34 136 0.35
35 42 0.11
36 6 0.02
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:1598398 original size:128 final size:128
Alignment explanation
Indices: 1598142--1598613 Score: 515
Period size: 128 Copynumber: 3.7 Consensus size: 128
1598132 TCTCTTCCCA
* * * * *
1598142 AAGTCCACGACTCTGTGGCACATTTTTCTTTTCAAAGTCCACAACTCTGTGGCA--C-----CCT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
* * * * *
1598200 TTTAAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
66 TTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAA-TCCACAACTCCGTGGCACCCTTTT
*
1598264 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
* *
1598329 TTTAATTCCAAAACTCCGTGGCATCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCCTTTT
66 TTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCCTTTT
* * *
1598392 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTATGGCACTATTTTTCCT
1 AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
* *
1598457 TTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTTCGTGGCATCTTTTTCC
66 TTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACAACTCCGTGGCA-C-----CC
1598516 TTTT
125 TTTT
* * * * * *
1598520 AAGTCCACAACTCCA-TGGCACCTTTTCCCTTTT-AAGTCCACGACTCTGTGGCACCCTTTTCCC
1 AAGTCCACAACT-CAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
* * * *
1598583 TTTTAAGCCCATACCTCTGTGGCATCTTTTT
65 TTTTAAGTCCACAACTCCGTGGCATCTTTTT
1598614 TTTCCTGTAA
Statistics
Matches: 296, Mismatches: 34, Indels: 29
0.82 0.09 0.08
Matches are distributed among these distances:
122 73 0.25
123 1 0.00
124 1 0.00
127 45 0.15
128 139 0.47
129 37 0.12
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (128 bp):
AAGTCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
TTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCCTTTT
Found at i:1598831 original size:49 final size:49
Alignment explanation
Indices: 1598757--1599193 Score: 358
Period size: 49 Copynumber: 8.7 Consensus size: 49
1598747 CTTGGCATCA
* * * *
1598757 ACATTGGCACCTAACCATCTCTAAGTCCAATGTCGCTAGCCTTGAATCAGC
1 ACATTGGCACCT--TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * *
1598808 ACATTGGCACGTTCATCTTTAAGTCCGATATTGCTGGCCTTGAATCAAC
1 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * *
1598857 ACATTAGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGC
1 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1598906 ACATTGGCACCTTAACCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 ACATTGGCACCTT---CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * *
1598958 ACATTGGTACGTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGT
1 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * ** * *
1599007 ACATTGGCACCTTCATTTTTAAGTCCGATATCATTGTCCTTGAATCAAC
1 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * * * * * **
1599056 ATATTGGCATCTTTAACATTCCTAGGCCCAATGTCGCTAGCCTTGTCTCAGC
1 ACATTGGCACCTTCATC-TT--TAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * *
1599108 ACATTGGCA--TTC-TACTTCAAGTCTAATGTCGCTAGCCATGAATCAGC
1 ACATTGGCACCTTCAT-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* * * *
1599155 ACTATTGTCATTCTTCGCATCTTTGAGCCCAATATCGCT
1 AC-ATTGGCA-CCTT--CATCTTTAAGTCCAATATCGCT
1599194 AGCCGCATAT
Statistics
Matches: 308, Mismatches: 64, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
47 25 0.08
48 6 0.02
49 173 0.56
50 5 0.02
51 13 0.04
52 70 0.23
53 15 0.05
54 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (49 bp):
ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
Found at i:1598962 original size:101 final size:98
Alignment explanation
Indices: 1598772--1599056 Score: 381
Period size: 101 Copynumber: 2.9 Consensus size: 98
1598762 GGCACCTAAC
* * * *
1598772 CATCTCTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACGTTCATCTTTAAGTCCGAT
1 CATCTTTAAGTCCGATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGAT
*
1598837 ATTGCTGGCCTTGAATCAACACATTAGCACCTT
66 ATCGCTGGCCTTGAATCAACACATTAGCACCTT
* *
1598870 CATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGTCC
1 CATCTTTAAGTCCGATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGTCC
* * * * *
1598935 AATATCGCTGGCCTTGAATCAGCACATTGGTACGTT
63 GATATCGCTGGCCTTGAATCAACACATTAGCACCTT
* * *
1598971 CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGTACATTGGCACCTTCATTTTTAAGTCCGAT
1 CATCTTTAAGTCCGATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGAT
** *
1599036 ATCATTGTCCTTGAATCAACA
66 ATCGCTGGCCTTGAATCAACA
1599057 TATTGGCATC
Statistics
Matches: 162, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
98 74 0.46
101 88 0.54
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
CATCTTTAAGTCCGATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGAT
ATCGCTGGCCTTGAATCAACACATTAGCACCTT
Found at i:1599048 original size:150 final size:149
Alignment explanation
Indices: 1598757--1599116 Score: 481
Period size: 150 Copynumber: 2.4 Consensus size: 149
1598747 CTTGGCATCA
*
1598757 ACATTGGCACCTAACCATCTCTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACGTTC
1 ACATTGGCACCTAACCATCTCTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACGTTC
* *
1598822 ATCTTTAAGTCCGATATTGCTGGCCTTGAATCAACACATTAGCACCTTCATCTTTAAGACCGATG
66 ATCTTTAAGTCCGATATCGCTGGCCTTGAATCAACACATTAGCACCTTCATCTTTAAGACCGATA
* *
1598887 TCGTTGGCCTTGAATCAGC
131 TCATTGGCCTTGAATCAAC
* * *
1598906 ACATTGGCACCTTAACCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTACGTT
1 ACATTGGCACC-TAACCATCTCTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACGTT
** * * *
1598971 CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGTACATTGGCACCTTCATTTTTAAGTCCGAT
65 CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAACACATTAGCACCTTCATCTTTAAGACCGAT
*
1599036 ATCATTGTCCTTGAATCAAC
130 ATCATTGGCCTTGAATCAAC
* * * * * **
1599056 ATATTGGCATCTTTAA-CAT-TCCTAGGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA
1 ACATTGGCA-C-CTAACCATCT-CTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA
1599117 TTCTACTTCA
Statistics
Matches: 183, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
149 12 0.07
150 167 0.91
151 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (149 bp):
ACATTGGCACCTAACCATCTCTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACGTTC
ATCTTTAAGTCCGATATCGCTGGCCTTGAATCAACACATTAGCACCTTCATCTTTAAGACCGATA
TCATTGGCCTTGAATCAAC
Found at i:1599093 original size:101 final size:98
Alignment explanation
Indices: 1598757--1599116 Score: 346
Period size: 101 Copynumber: 3.6 Consensus size: 98
1598747 CTTGGCATCA
* * * *
1598757 ACATTGGCACCTAACCATCTCTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACGTTC
1 ACATTGGCACTTTA-CAT-TCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTC
*
1598822 ATCTTTAAGTCCGATATTGCTGGCCTTGAATCAAC
64 ATCTTTAAGTCCGATATCGCTGGCCTTGAATCAAC
* * * * * *
1598857 ACATTAGCACCTT-CATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAA
1 ACATTGGCACTTTACAT-TCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTT--
* *
1598921 CCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
63 -CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAAC
* * * * * * * *
1598958 ACATTGGTACGTT-CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGTACATTGGCACCTTCA
1 ACATTGGCACTTTACAT-TCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCA
* ** *
1599022 TTTTTAAGTCCGATATCATTGTCCTTGAATCAAC
65 TCTTTAAGTCCGATATCGCTGGCCTTGAATCAAC
* * * **
1599056 ATATTGGCATCTTTAACATTCCTAGGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA
1 ACATTGGCA-CTTT-ACATT-CTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1599117 TTCTACTTCA
Statistics
Matches: 217, Mismatches: 36, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
98 80 0.37
99 3 0.01
100 12 0.06
101 122 0.56
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (98 bp):
ACATTGGCACTTTACATTCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCAT
CTTTAAGTCCGATATCGCTGGCCTTGAATCAAC
Found at i:1604496 original size:12 final size:11
Alignment explanation
Indices: 1604479--1604518 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
1604469 GCCTTTACAC
1604479 TTTTTTTGTGTG
1 TTTTTTT-TGTG
*
1604491 TTTTTTTTTTG
1 TTTTTTTTGTG
1604502 TTTTTTTTTGTG
1 -TTTTTTTTGTG
1604514 TTTTT
1 TTTTT
1604519 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:1604531 original size:25 final size:25
Alignment explanation
Indices: 1604477--1604532 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
1604467 TTGCCTTTAC
*
1604477 ACTTTTTTTGTGTGTTTTTTTTTTG
1 ACTTTTTTTGTGTGTTTTTCTTTTG
*
1604502 --TTTTTTTTTGTGTTTTTACTTTTG
1 ACTTTTTTTGTGTGTTTTT-CTTTTG
1604526 ACTTTTT
1 ACTTTTT
1604533 CATCATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 16 0.62
24 5 0.19
26 5 0.19
ACGTcount: A:0.05, C:0.05, G:0.12, T:0.77
Consensus pattern (25 bp):
ACTTTTTTTGTGTGTTTTTCTTTTG
Found at i:1614671 original size:13 final size:13
Alignment explanation
Indices: 1614653--1614680 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1614643 ACATTATGCT
1614653 TTGTATCGATACA
1 TTGTATCGATACA
1614666 TTGTATCGATACA
1 TTGTATCGATACA
1614679 TT
1 TT
1614681 ATGCTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1614676 original size:33 final size:33
Alignment explanation
Indices: 1614634--1614731 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
1614624 CACACCCAGA
1614634 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* *
1614667 TGTATCGATACATTATGCTTTGTATTGATATAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* * *
1614700 TGTATCGATATA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
1614732 GGACAATTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 16 0.28
33 42 0.72
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:1614820 original size:13 final size:13
Alignment explanation
Indices: 1614802--1614849 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1614792 CATGGTATAA
1614802 TGTATCGATACAT
1 TGTATCGATACAT
1614815 TGTATCGATACA-
1 TGTATCGATACAT
1614827 TG-AT-G--A-AT
1 TGTATCGATACAT
1614835 TGTATCGATACAT
1 TGTATCGATACAT
1614848 TG
1 TG
1614850 CTTATAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1614826 original size:33 final size:33
Alignment explanation
Indices: 1614784--1614849 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1614774 CCACTGTTTA
1614784 TATCGATACATGGTAT-AA-TGTATCGATACATTG
1 TATCGATACAT-G-ATGAATTGTATCGATACATTG
1614817 TATCGATACATGATGAATTGTATCGATACATTG
1 TATCGATACATGATGAATTGTATCGATACATTG
1614850 CTTATAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.10
33 26 0.84
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACATTG
Found at i:1616964 original size:22 final size:21
Alignment explanation
Indices: 1616939--1616994 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1616929 TATCATTTAA
1616939 TAATAAAAAATTTATTTAAAT-T
1 TAATAAAAAATTTA--TAAATAT
*
1616961 TAATTATAAAATTTATAAATAT
1 TAA-TAAAAAATTTATAAATAT
*
1616983 TAATAGAAAATT
1 TAATAAAAAATT
1616995 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 13 0.43
22 7 0.23
23 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAAAAAATTTATAAATAT
Found at i:1625002 original size:15 final size:15
Alignment explanation
Indices: 1624982--1625015 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1624972 AGAAGCATGA
*
1624982 TAATAAATGGAACAT
1 TAATAAATGGAACAC
1624997 TAATAAATGGAACAC
1 TAATAAATGGAACAC
1625012 TAAT
1 TAAT
1625016 GCACACTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (15 bp):
TAATAAATGGAACAC
Found at i:1625213 original size:39 final size:39
Alignment explanation
Indices: 1625146--1625222 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
1625136 AATAATTTTA
** * * *
1625146 TGAATTAATTAAGTTAAATTTTAAATCATTTATATATTC
1 TGAATTAATTAAACTAAACTCTAAATCATCTATATATTC
*
1625185 TGAATTAATTAAACTAAACTCTAGATCATCTATATATT
1 TGAATTAATTAAACTAAACTCTAAATCATCTATATATT
1625223 ATATAAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (39 bp):
TGAATTAATTAAACTAAACTCTAAATCATCTATATATTC
Found at i:1625857 original size:18 final size:18
Alignment explanation
Indices: 1625817--1625858 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1625807 ATTTATCTTT
1625817 TATTTA-TAAAAAATATA
1 TATTTATTAAAAAATATA
*
1625834 TTTTTATTAAAAAAT-TCA
1 TATTTATTAAAAAATAT-A
1625852 TATTTAT
1 TATTTAT
1625859 CGTAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTATTAAAAAATATA
Found at i:1625920 original size:15 final size:15
Alignment explanation
Indices: 1625900--1625932 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1625890 TTATAAAAAT
1625900 TTAATTGCTATTAAA
1 TTAATTGCTATTAAA
*
1625915 TTAATTTCTATTAAA
1 TTAATTGCTATTAAA
1625930 TTA
1 TTA
1625933 CTCTAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (15 bp):
TTAATTGCTATTAAA
Found at i:1626058 original size:16 final size:16
Alignment explanation
Indices: 1626025--1626070 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
1626015 CTTTTGAAGT
*
1626025 ATTTAAAATAATTTTAA
1 ATTTAATATAA-TTTAA
1626042 A-TTATATATAATTTAA
1 ATTTA-ATATAATTTAA
1626058 ATTTAATATAATT
1 ATTTAATATAATT
1626071 AATTTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATATAATTTAA
Found at i:1631982 original size:13 final size:13
Alignment explanation
Indices: 1631964--1631994 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1631954 ATAACAAAAA
1631964 AAAGACGCATGCT
1 AAAGACGCATGCT
1631977 AAAGACGCATGCT
1 AAAGACGCATGCT
1631990 AAAGA
1 AAAGA
1631995 GAAATAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (13 bp):
AAAGACGCATGCT
Found at i:1632938 original size:13 final size:13
Alignment explanation
Indices: 1632920--1632950 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1632910 ACTTTTCACT
*
1632920 ATGTATCGATACA
1 ATGTATCAATACA
1632933 ATGTATCAATACA
1 ATGTATCAATACA
1632946 ATGTA
1 ATGTA
1632951 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1633043 original size:19 final size:20
Alignment explanation
Indices: 1632999--1633046 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1632989 CAGTTTTATG
** *
1632999 TATCGATACAATTGATTATG
1 TATCGATACAATTGAACATA
1633019 TATCGATACAA-TGAACATA
1 TATCGATACAATTGAACATA
1633038 TATCGATAC
1 TATCGATAC
1633047 GTTGTATCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATA
Found at i:1641377 original size:23 final size:24
Alignment explanation
Indices: 1641329--1641378 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
1641319 AAGAACCTCT
*
1641329 CAAATCTCTTAAAGAATTATACCC
1 CAAATCTCTTAAAGAATTATAACC
*
1641353 CAAAT-TCTT-AAGAGATTGTAACC
1 CAAATCTCTTAAAGA-ATTATAACC
1641376 CAA
1 CAA
1641379 GGTTGAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 14 0.61
24 5 0.22
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (24 bp):
CAAATCTCTTAAAGAATTATAACC
Found at i:1641812 original size:13 final size:13
Alignment explanation
Indices: 1641794--1641824 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1641784 TCTTTTTACT
1641794 ATGTATCGATACA
1 ATGTATCGATACA
*
1641807 ATGTATCGATATA
1 ATGTATCGATACA
1641820 ATGTA
1 ATGTA
1641825 CCATGCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1641921 original size:19 final size:20
Alignment explanation
Indices: 1641869--1641921 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1641859 CTGCCAGTTT
*
1641869 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
* *
1641889 TATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
1641908 CATTTATCGATACA
1 CATGTATCGATACA
1641922 TTGTATCGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1642711 original size:21 final size:21
Alignment explanation
Indices: 1642673--1642713 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1642663 AAATACAAAG
*
1642673 TAGTATATGAAGTTTGTCATA
1 TAGTATATGAAGTCTGTCATA
1642694 TAGTATATGTAAG-CTGTCAT
1 TAGTATATG-AAGTCTGTCAT
1642714 GCATAGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (21 bp):
TAGTATATGAAGTCTGTCATA
Found at i:1647193 original size:31 final size:31
Alignment explanation
Indices: 1647156--1647223 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1647146 CCCAAATTAG
1647156 AAATGACCTAAATCCA-AAATAATTGAAC-CTA
1 AAATGACCTAAA-CCAGAAATAATTGAACTC-A
* *
1647187 AAATGACTTAAACCAGAAATACTTGAACTCA
1 AAATGACCTAAACCAGAAATAATTGAACTCA
1647218 AAATGA
1 AAATGA
1647224 TTCAAACTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.09, T:0.22
Consensus pattern (31 bp):
AAATGACCTAAACCAGAAATAATTGAACTCA
Found at i:1647206 original size:16 final size:16
Alignment explanation
Indices: 1647186--1647237 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1647176 AATTGAACCT
1647186 AAAATGACTTAAAC-C
1 AAAATGACTTAAACTC
*
1647201 AGAAAT-ACTTGAACTC
1 A-AAATGACTTAAACTC
1647217 AAAATGA-TTCAAACTC
1 AAAATGACTT-AAACTC
1647233 AAAAT
1 AAAAT
1647238 TACCTAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (16 bp):
AAAATGACTTAAACTC
Found at i:1647221 original size:15 final size:14
Alignment explanation
Indices: 1647169--1647221 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
1647159 TGACCTAAAT
*
1647169 CCAAAATAATTGAA
1 CCAAAATACTTGAA
*
1647183 CCTAAAATGACTTAAA
1 CC-AAAAT-ACTTGAA
1647199 CCAGAAATACTTGAA
1 CCA-AAATACTTGAA
1647214 CTCAAAAT
1 C-CAAAAT
1647222 GATTCAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.06
15 17 0.53
16 13 0.41
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.23
Consensus pattern (14 bp):
CCAAAATACTTGAA
Found at i:1651479 original size:33 final size:33
Alignment explanation
Indices: 1651442--1651508 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1651432 TTCAACGATT
1651442 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1651475 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1651508 T
1 T
1651509 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1651480 original size:13 final size:13
Alignment explanation
Indices: 1651462--1651486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1651452 CATAAAATGT
1651462 TGTATCGATACAA
1 TGTATCGATACAA
1651475 TGTATCGATACA
1 TGTATCGATACA
1651487 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1651567 original size:13 final size:13
Alignment explanation
Indices: 1651549--1651573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1651539 ATTACTCAAA
1651549 TGTATCGATACAT
1 TGTATCGATACAT
1651562 TGTATCGATACA
1 TGTATCGATACA
1651574 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1651675 original size:52 final size:52
Alignment explanation
Indices: 1651582--1651709 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1651572 CACTGATCTT
*
1651582 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1651633 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1651685 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1651710 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1656503 original size:13 final size:13
Alignment explanation
Indices: 1656485--1656510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1656475 CAATTTTTTG
1656485 TGTATCGATACAT
1 TGTATCGATACAT
1656498 TGTATCGATACAT
1 TGTATCGATACAT
1656511 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1656522 original size:32 final size:33
Alignment explanation
Indices: 1656465--1656528 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1656455 TACAAGCCAA
**
1656465 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1656498 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1656529 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1659817 original size:165 final size:164
Alignment explanation
Indices: 1659646--1660317 Score: 593
Period size: 165 Copynumber: 4.2 Consensus size: 164
1659636 TCTTAAATTG
* * * * *
1659646 AGAAAAATCCTCTCGAAAATATTTACAAAGCAGAAAACTCGATTTTTTGGAAATAGGGGCATTTC
1 AGAAAAATCCTCCCGAAAATATTTACAAAGCAAAAAACTCG-TATTTTGGAAATAGGGGAAATTC
* * * *
1659711 AAAGAAAAAAATTAAAAACTCAAGAAAA-AAATGAAATTTT-AAAAACTAATTT-ATATGAATTA
65 AAAG-AAAAAATGAAAAA-TCAAGAAAATAAATGAATTTTTCAAAAA-TGATTTAATATAAATTA
* * *
1659773 AATTATGATATTTGATGAATTTTAAAAATTAAAAATCA
127 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
* * * * *
1659811 AGAAAAATCCTCCCGAAAGTATTTACAGAA-TAAAAAACTCTGTATTTTGTAAACA-GGAAAATT
1 AGAAAAATCCTCCCGAAAATATTTACA-AAGCAAAAAACTC-GTATTTTGGAAATAGGGGAAA-T
* * *
1659874 TCAAAGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAAATGATTTAATTTAGATTA
63 TCAAAGAAAAAATGAAAAA-TCAAGAAAATAAATGAATTTTTCAAAAATGATTTAATATAAATTA
* ** * * *
1659939 AATGATGGTATTTTATAAATTTTAAAAACTAAAAACCA
127 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
* * * *** * **
1659977 AGAAATATCC-CCCTGAAAACATATATGGAGCAAAAAACTTCGTATTTTGAAAATAAAGGAAATT
1 AGAAAAATCCTCCC-GAAAATATTTACAAAGCAAAAAAC-TCGTATTTTGGAAATAGGGGAAATT
* *
1660041 -AAAGAAAAAATGAAAAAT---G------AATGGATTTTT-AAAAACTGATTTAATATAAATTAC
64 CAAAGAAAAAATGAAAAATCAAGAAAATAAATGAATTTTTCAAAAA-TGATTTAATATAAATTAA
*
1660095 ATAATAATATTTGATGAATTTTAAAAATTAAAGACCA
128 ATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
* * * *
1660132 A-AAAAAT-CTCCCCTGAAAATATTTACGAAGTAGAAAACTCCGTA-TTTCGAAATA--GG-AAT
1 AGAAAAATCCT-CCC-GAAAATATTTACAAAGCAAAAAACT-CGTATTTTGGAAATAGGGGAAAT
* * * * *
1660191 TCAAGGAAAAAATG-AAAATGAATGAAAATGAATGAATTTTTGAAAAATGATTTAATACAAATTA
63 TCAAAGAAAAAATGAAAAATCAA-GAAAATAAATGAATTTTTCAAAAATGATTTAATATAAATTA
1660255 AATAATAATATTTGATGAATTTT-AAAATTAAAAACCA
127 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
* *
1660292 AGAAAAATCTTCCCGAAAACATTTAC
1 AGAAAAATCCTCCCGAAAATATTTAC
1660318 TGAGTAGAAA
Statistics
Matches: 417, Mismatches: 62, Indels: 61
0.77 0.11 0.11
Matches are distributed among these distances:
151 9 0.02
152 13 0.03
153 1 0.00
154 19 0.05
155 83 0.20
160 25 0.06
161 58 0.14
162 6 0.01
164 25 0.06
165 87 0.21
166 85 0.20
167 6 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (164 bp):
AGAAAAATCCTCCCGAAAATATTTACAAAGCAAAAAACTCGTATTTTGGAAATAGGGGAAATTCA
AAGAAAAAATGAAAAATCAAGAAAATAAATGAATTTTTCAAAAATGATTTAATATAAATTAAATA
ATAATATTTGATGAATTTTAAAAATTAAAAACCA
Found at i:1660216 original size:10 final size:10
Alignment explanation
Indices: 1660201--1660226 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1660191 TCAAGGAAAA
1660201 AATGAAAATG
1 AATGAAAATG
1660211 AATGAAAATG
1 AATGAAAATG
1660221 AATGAA
1 AATGAA
1660227 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (10 bp):
AATGAAAATG
Found at i:1660273 original size:161 final size:158
Alignment explanation
Indices: 1659740--1660344 Score: 554
Period size: 155 Copynumber: 3.8 Consensus size: 158
1659730 TCAAGAAAAA
* * * * *
1659740 AATGAAATTTTAAAAACTAATTT-ATATGAATTAAATTATGATATTTGATGAATTTTAAAAATTA
1 AATGAATTTTTAAAAA-TGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTA
* ** * *
1659804 AAAATCAAGAAAAATCCTCCCGAAAGTATTTACAGAA-TAAAAAACTCTGTATTTTGTAAACAGG
65 AAAACCAAGAAAAATCC-CCCGAAAACATTTACAGAAGTAAAAAACTCCGTATTTCG-AAA-AGG
* * *
1659868 AAAATTTCAAAGAAAAAATGAAAAACTCATGAAAATA
127 --AA-TTCAAGGAAAAAATG-AAAA-TAATGAAAATG
* * * ** * * *
1659905 AATGAATTTTTCAAAAATGATTTAATTTAGATTAAATGATGGTATTTTATAAATTTTAAAAACTA
1 AATGAATTTTT-AAAAATGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTA
* * * * * * *
1659970 AAAACCAAGAAATATCCCCCTGAAAACATATA-TGGAGCAAAAAACTTCGTATTTTG--AA--AA
65 AAAACCAAGAAAAATCCCCC-GAAAACATTTACAGAAGTAAAAAACTCCGTATTTCGAAAAGGAA
*
1660030 -TAAAGGAAATTAAA-GAAAA-AATGAAAAATG
129 TTCAAGGAAA--AAATGAAAATAATG-AAAATG
* *
1660060 AATGGATTTTTAAAAACTGATTTAATATAAATTACATAATAATATTTGATGAATTTTAAAAATTA
1 AATGAATTTTTAAAAA-TGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTA
* * *
1660125 AAGACCAA-AAAAATCTCCCCTGAAAATATTTAC-GAAGTAGAAAACTCCGTATTTCGAAATAGG
65 AAAACCAAGAAAAATC-CCCC-GAAAACATTTACAGAAGTAAAAAACTCCGTATTTCGAAA-AGG
1660188 AATTCAAGGAAAAAATGAAAATGAATGAAAATG
127 AATTCAAGGAAAAAATGAAAAT-AATGAAAATG
*
1660221 AATGAATTTTTGAAAAATGATTTAATACAAATTAAATAATAATATTTGATGAATTTT-AAAATTA
1 AATGAATTTTT-AAAAATGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTA
* * * * * *
1660285 AAAACCAAGAAAAATCTTCCCGAAAACATTTACTG-AGTAGAAACCTCTGTATTTCTAAAA
65 AAAACCAAGAAAAATC-CCCCGAAAACATTTACAGAAGTAAAAAACTCCGTATTTCGAAAA
1660345 CAAGAAAAAT
Statistics
Matches: 365, Mismatches: 53, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
154 14 0.04
155 93 0.25
156 11 0.03
157 2 0.01
158 6 0.02
159 4 0.01
160 53 0.15
161 74 0.20
162 10 0.03
163 1 0.00
165 20 0.05
166 77 0.21
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (158 bp):
AATGAATTTTTAAAAATGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAA
AAACCAAGAAAAATCCCCCGAAAACATTTACAGAAGTAAAAAACTCCGTATTTCGAAAAGGAATT
CAAGGAAAAAATGAAAATAATGAAAATG
Found at i:1666821 original size:3 final size:3
Alignment explanation
Indices: 1666813--1666838 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1666803 ATATATACAC
1666813 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1666839 GTATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1666878 original size:17 final size:17
Alignment explanation
Indices: 1666843--1666903 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
1666833 AATAATGTAT
* *
1666843 TTATA-TTATATTTTTA
1 TTATATTTATATTATAA
*
1666859 TTATTTTTATATTATAA
1 TTATATTTATATTATAA
* * *
1666876 TTATATTTAAAATATTA
1 TTATATTTATATTATAA
1666893 -TATATTTATAT
1 TTATATTTATAT
1666904 AAATTTTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 13 0.37
17 22 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATTTATATTATAA
Found at i:1666906 original size:20 final size:20
Alignment explanation
Indices: 1666867--1666906 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1666857 TATTATTTTT
*
1666867 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
1666887 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
1666907 TTTTTATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:1666937 original size:18 final size:17
Alignment explanation
Indices: 1666876--1666939 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 17
1666866 TATATTATAA
1666876 TTATATT-TA-AAATAT
1 TTATATTATATAAATAT
1666891 TATATATTTATATAAAT-T
1 T-TATA-TTATATAAATAT
*
1666909 TT-TA-TACATAAATAAT
1 TTATATTATATAAAT-AT
1666925 TTATATTATATAAAT
1 TTATATTATATAAAT
1666940 TTTGACTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
14 8 0.21
15 1 0.03
16 9 0.23
17 5 0.13
18 12 0.31
19 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATATTATATAAATAT
Found at i:1667038 original size:2 final size:2
Alignment explanation
Indices: 1667031--1667061 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1667021 AATTATAAGT
1667031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1667062 GCATGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1667143 original size:49 final size:49
Alignment explanation
Indices: 1667071--1667170 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
1667061 TGCATGTATA
*
1667071 TTTCTTTTAGGCTTAAAGGAATTTTCTAAATTCTCCCCTAAACAGCTGG
1 TTTCTTTTAGGCTTAAAGGAATTTTCTAAATGCTCCCCTAAACAGCTGG
* *
1667120 TTTCTTTTAGGCTTAAAGGAATTTTCTAAATGCTTCCCTAAGCAGCTGG
1 TTTCTTTTAGGCTTAAAGGAATTTTCTAAATGCTCCCCTAAACAGCTGG
1667169 TT
1 TT
1667171 GCACCTGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (49 bp):
TTTCTTTTAGGCTTAAAGGAATTTTCTAAATGCTCCCCTAAACAGCTGG
Found at i:1671907 original size:42 final size:42
Alignment explanation
Indices: 1671840--1671936 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
1671830 GCTAAAACAA
* * *
1671840 AAAGGGGGA-AAA-TTTTGAACAATAAATTTTGGCATTTTAC
1 AAAGGGGGAGAAATTTTTGAAAAATAAATTTTAGCATTTGAC
*
1671880 GAAGGGGGAGAAATTTTTGAAAAATAAATTTTAGCATTTGAC
1 AAAGGGGGAGAAATTTTTGAAAAATAAATTTTAGCATTTGAC
*
1671922 AAAAGGGGAGAAATT
1 AAAGGGGGAGAAATT
1671937 ATTTTTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 8 0.16
41 3 0.06
42 38 0.78
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (42 bp):
AAAGGGGGAGAAATTTTTGAAAAATAAATTTTAGCATTTGAC
Found at i:1672654 original size:20 final size:20
Alignment explanation
Indices: 1672629--1672718 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
1672619 CCCTAGAAAA
*
1672629 TATCGATACATATCCAGATG
1 TATCGATACATATCCAGTTG
* *
1672649 TATCGATACATTATGC-TTTG
1 TATCGATACA-TATCCAGTTG
* *
1672669 TATCGATACATGTTCA-TTG
1 TATCGATACATATCCAGTTG
*
1672688 TATTGATACATA-CTCAGTTG
1 TATCGATACATATC-CAGTTG
1672708 TATCGATACAT
1 TATCGATACAT
1672719 GAAACTGGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 18 0.32
20 35 0.61
21 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (20 bp):
TATCGATACATATCCAGTTG
Found at i:1672697 original size:39 final size:40
Alignment explanation
Indices: 1672629--1672719 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
1672619 CCCTAGAAAA
* *
1672629 TATCGATACATATCCAGATGTATCGATACATTA-TGC-TTTG
1 TATCGATACATGTCCAGATGTATCGATACA-TACT-CAGTTG
* * *
1672669 TATCGATACATGTTCA-TTGTATTGATACATACTCAGTTG
1 TATCGATACATGTCCAGATGTATCGATACATACTCAGTTG
1672708 TATCGATACATG
1 TATCGATACATG
1672720 AAACTGGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 3 0.07
39 27 0.61
40 14 0.32
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (40 bp):
TATCGATACATGTCCAGATGTATCGATACATACTCAGTTG
Found at i:1672792 original size:20 final size:20
Alignment explanation
Indices: 1672749--1672800 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1672739 TAAGTGAAAT
* **
1672749 GTATCGATACATGGGACATT
1 GTATCGATACATGGGAAAGA
*
1672769 GTATCGATACATGGTAAAGA
1 GTATCGATACATGGGAAAGA
1672789 GTATCGATACAT
1 GTATCGATACAT
1672801 TGTATCGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGGGAAAGA
Found at i:1672807 original size:13 final size:13
Alignment explanation
Indices: 1672789--1672813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1672779 ATGGTAAAGA
1672789 GTATCGATACATT
1 GTATCGATACATT
1672802 GTATCGATACAT
1 GTATCGATACAT
1672814 GTGCCCAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1677443 original size:22 final size:21
Alignment explanation
Indices: 1677417--1677465 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
1677407 AGTGAAAGTG
1677417 AAATTCCTAAAAGTTAGGAAT
1 AAATTCCTAAAAGTTAGGAAT
* *
1677438 ATAATTCCTAAAATTTAGGGAT
1 A-AATTCCTAAAAGTTAGGAAT
1677460 AAATTC
1 AAATTC
1677466 TACTTGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
AAATTCCTAAAAGTTAGGAAT
Found at i:1680886 original size:13 final size:13
Alignment explanation
Indices: 1680868--1680903 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1680858 ATTTATGATG
*
1680868 TATCGATACACTA
1 TATCGATACAATA
*
1680881 TATCGATACAATG
1 TATCGATACAATA
1680894 TATCGATACA
1 TATCGATACA
1680904 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1681076 original size:53 final size:53
Alignment explanation
Indices: 1681012--1681148 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
1681002 CTACTACCAA
*
1681012 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
1681065 TGTATCGATACATATTATGTGTATCGATAGAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
1681118 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1681149 TATGCAATCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 64 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1681184 original size:21 final size:20
Alignment explanation
Indices: 1681136--1681190 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1681126 TACATATTTG
**
1681136 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
1681156 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
1681177 TGTGTATCGATACT
1 TGTGTATCGATACT
1681191 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:1681255 original size:21 final size:21
Alignment explanation
Indices: 1681229--1681269 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1681219 GTCAACCTTG
1681229 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1681250 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1681270 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1682931 original size:13 final size:13
Alignment explanation
Indices: 1682913--1682937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1682903 ACTGAAGCAA
1682913 TGTATCGATACAT
1 TGTATCGATACAT
1682926 TGTATCGATACA
1 TGTATCGATACA
1682938 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1684622 original size:84 final size:84
Alignment explanation
Indices: 1684467--1684631 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1684457 CATTTTCCAC
* * * *
1684467 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
1684532 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
1684551 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
1684613 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
1684632 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1685044 original size:21 final size:21
Alignment explanation
Indices: 1685020--1685061 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1685010 ATCCATTTCT
* *
1685020 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
1685041 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
1685062 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:1686712 original size:13 final size:13
Alignment explanation
Indices: 1686693--1686731 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1686683 ACTATTTATG
1686693 ATGTATCGATACA
1 ATGTATCGATACA
*
1686706 CTGTATCGATACA
1 ATGTATCGATACA
1686719 ATGTATCGATACA
1 ATGTATCGATACA
1686732 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1686807 original size:10 final size:10
Alignment explanation
Indices: 1686792--1686816 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1686782 ATACATGGAC
1686792 AGTGATGAAT
1 AGTGATGAAT
1686802 AGTGATGAAT
1 AGTGATGAAT
1686812 AGTGA
1 AGTGA
1686817 AAATGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (10 bp):
AGTGATGAAT
Found at i:1686904 original size:53 final size:53
Alignment explanation
Indices: 1686840--1686968 Score: 215
Period size: 53 Copynumber: 2.5 Consensus size: 53
1686830 CTACTACCAA
*
1686840 TGTATCGATACATATTTTGTGTATCAATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCAATACAAATTTGGCTACTGCCAATGACC
* * *
1686893 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCAATACAAATTTGGCTACTGCCAATGACC
1686946 TGTATCGATACATA-TTTGTGTAT
1 TGTATCGATACATATTTTGTGTAT
1686969 ATCGATACTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
52 8 0.11
53 63 0.89
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCAATACAAATTTGGCTACTGCCAATGACC
Found at i:1687854 original size:13 final size:13
Alignment explanation
Indices: 1687814--1687866 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1687804 CCGTTACAAG
1687814 CAATGTATCGATA
1 CAATGTATCGATA
1687827 CAA--T-TC-AT-
1 CAATGTATCGATA
1687835 C-ATGTATCGATA
1 CAATGTATCGATA
1687847 CAATGTATCGATA
1 CAATGTATCGATA
*
1687860 TAATGTA
1 CAATGTA
1687867 CCATGCATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1687854 original size:33 final size:33
Alignment explanation
Indices: 1687814--1687882 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1687804 CCGTTACAAG
* *
1687814 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGCATCGATA
*
1687847 CAATGTATCGATATAATGTACCATGCATCGATA
1 CAATGTATCGATACAATGTACCATGCATCGATA
1687880 CAA
1 CAA
1687883 ACAGTGGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGCATCGATA
Found at i:1687955 original size:19 final size:18
Alignment explanation
Indices: 1687910--1687967 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1687900 ACTGCCAGTT
1687910 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1687929 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
1687948 ATCATGTATTGATACAATG
1 -TCATGTATCGATACAATG
1687967 T
1 T
1687968 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1696658 original size:33 final size:33
Alignment explanation
Indices: 1696597--1696661 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1696587 CGTTACAAGC
*
1696597 AATGTATCGATACAATTCATCATCTATCGATAT
1 AATGTATCGATACAATTCACCATCTATCGATAT
*
1696630 AATGTATCGATACAATGT-ACCATGTATCGATA
1 AATGTATCGATACAAT-TCACCATCTATCGATA
1696662 CAAACAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATTCACCATCTATCGATAT
Found at i:1696718 original size:20 final size:20
Alignment explanation
Indices: 1696693--1696752 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1696683 TTGCCAGTTT
1696693 CATGTATCGATATAATTATC
1 CATGTATCGATATAATTATC
* *
1696713 CATGTATCGATACAATGAT-
1 CATGTATCGATATAATTATC
1696732 CATGTATCGATATAATGTATC
1 CATGTATCGATATAAT-TATC
1696753 GATACAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
CATGTATCGATATAATTATC
Found at i:1696737 original size:19 final size:19
Alignment explanation
Indices: 1696692--1696748 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1696682 ATTGCCAGTT
*
1696692 TCATGTATCGATATAATTA
1 TCATGTATCGATATAATGA
*
1696711 TCCATGTATCGATACAATGA
1 T-CATGTATCGATATAATGA
1696731 TCATGTATCGATATAATG
1 TCATGTATCGATATAATG
1696749 TATCGATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (19 bp):
TCATGTATCGATATAATGA
Found at i:1696755 original size:32 final size:33
Alignment explanation
Indices: 1696714--1696776 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1696704 ATAATTATCC
* *
1696714 ATGTATCGATACAATG-ATCATGTATCGATATA
1 ATGTATCGATACAAAGCATAATGTATCGATATA
1696746 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
1696777 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:1699521 original size:20 final size:20
Alignment explanation
Indices: 1699476--1699530 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
1699466 ATTGAACAAC
1699476 TTGTATCGATACAATAAGGCA
1 TTGTATCGATAC-ATAAGGCA
*
1699497 ATGTATCGATACATAAGTG-A
1 TTGTATCGATACATAAG-GCA
*
1699517 TTGTATCAATACAT
1 TTGTATCGATACAT
1699531 GCCTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAAGGCA
Found at i:1702475 original size:30 final size:27
Alignment explanation
Indices: 1702441--1702545 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 27
1702431 TCTCGCCTCC
*
1702441 AAGTCCACGACT-TAGTGGCATCCTTCTT
1 AAGTCCACGACTCT-GTGGCACCCTT-TT
* *
1702469 CAAAGTCTACAACTCTGTGGCACCCTTTT
1 --AAGTCCACGACTCTGTGGCACCCTTTT
**
1702498 AAGTCCACGACTCCATGGCACCCTTTT
1 AAGTCCACGACTCTGTGGCACCCTTTT
* *
1702525 AAGTCCACAACTCTGGGGCAC
1 AAGTCCACGACTCTGTGGCAC
1702546 TTTTTTTCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 40 0.63
29 2 0.03
30 20 0.32
31 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGTCCACGACTCTGTGGCACCCTTTT
Found at i:1702569 original size:35 final size:34
Alignment explanation
Indices: 1702521--1702899 Score: 182
Period size: 32 Copynumber: 11.8 Consensus size: 34
1702511 CATGGCACCC
* ** *
1702521 TTTTAAGTCCACAACTCTGGGGCACTTTTTTTCTT
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTC-A
* *
1702556 TTTTAAGTTCACAACTCCAGTGGCACCGTTTTTCA
1 TTTTAAGTCCACAACT-CTGTGGCACCGTTTTTCA
1702591 TTTTAAGTCCACAACTCTGTGGCACC------C-
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
* *
1702618 TTTTAAGTCCACAACT-TCGTGGTACCATTTTT--
1 TTTTAAGTCCACAACTCT-GTGGCACCGTTTTTCA
* * *
1702650 TTTAAAGTCTACAACTCCGTGGCACC-TTTTTC-
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
*
1702682 TTTTAAGTCCACAACTCCGTGGCACC------C-
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
* ** * *
1702709 TTTTAAGTCCACAATTCCATGGCAAC--TTTTCC
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
* *
1702741 TTTTAAGTCCACAACTCCGTGGCA-C-TATTTTCT
1 TTTTAAGTCCACAACTCTGTGGCACCGT-TTTTCA
** * *
1702774 TTTTAAGTCCACAACTCCATGGCA-C--ATTTCC
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
* * * * *
1702805 TTCGTAAGTCTATAACTCTATGGCATCC-TTTTTCT
1 TT-TTAAGTCCACAACTCTGTGGCA-CCGTTTTTCA
* * ** * * *
1702840 TTTTAAGTCTACCACTCCATGGTACCCTTTTTCT
1 TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
* *
1702874 TTTTAGGTCCATAACTCTGTGGCACC
1 TTTTAAGTCCACAACTCTGTGGCACC
1702900 CATTTCTAAA
Statistics
Matches: 280, Mismatches: 42, Indels: 45
0.76 0.11 0.12
Matches are distributed among these distances:
26 1 0.00
27 47 0.17
28 1 0.00
31 13 0.05
32 85 0.30
33 31 0.11
34 53 0.19
35 36 0.13
36 13 0.05
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCTGTGGCACCGTTTTTCA
Found at i:1702664 original size:32 final size:30
Alignment explanation
Indices: 1702494--1702798 Score: 214
Period size: 27 Copynumber: 9.8 Consensus size: 30
1702484 TGTGGCACCC
* * *
1702494 TTTTAAGTCCACGACTCCATGGCACC---C
1 TTTTAAGTCCACAACTCCGTGGCACCTTTT
* * *
1702521 TTTTAAGTCCACAACTCTGGGGCACTTTTTTTCTT
1 TTTTAAGTCCACAACTCCGTGGCAC----CTT-TT
*
1702556 TTTTAAGTTCACAACTCCAGTGGCACCGTTTTT
1 TTTTAAGTCCACAACTCC-GTGGCACC--TTTT
* *
1702589 CATTTTAAGTCCACAACTCTGTGGCACC---C
1 --TTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
1702618 TTTTAAGTCCACAACTTCGTGGTACCATTTT
1 TTTTAAGTCCACAACTCCGTGGCACC-TTTT
*
1702649 TTTTAAAGTCTACAACTCCGTGGCACCTTTTT
1 TTTT-AAGTCCACAACTCCGTGGCACC-TTTT
*
1702681 CTTTTAAGTCCACAACTCCGTGGCACC---C
1 -TTTTAAGTCCACAACTCCGTGGCACCTTTT
* * *
1702709 TTTTAAGTCCACAATTCCATGGCAACTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTT
*
1702739 CCTTTTAAGTCCACAACTCCGTGGCACTATTTTCT
1 --TTTTAAGTCCACAACTCCGTGGCAC--CTTT-T
*
1702774 TTTTAAGTCCACAACTCCATGGCAC
1 TTTTAAGTCCACAACTCCGTGGCAC
1702799 ATTTCCTTCG
Statistics
Matches: 219, Mismatches: 32, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
27 67 0.31
31 4 0.02
32 66 0.30
33 30 0.14
34 13 0.06
35 33 0.15
36 6 0.03
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (30 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTT
Done.