Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 4 of 18
Found at i:448522 original size:44 final size:43
Alignment explanation
Indices: 448427--448533 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
448417 AAAGAGTACA
* * *
448427 TCCTGCTCTTCGAGGAC-AAAGGAAAAAAGGAAACAAAATGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAAAGGAAACAAAACGCG
* * *
448469 TCCGGCTCTTTGAGGACAAAAGAAAAAAAGGAAATTAAAGCGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAAAGGAAA-CAAAACGCG
*
448513 TCCTACTCTTT-AGGGACAAAA
1 TCCTGCTCTTTGA-GGACAAAA
448534 AGGTGCCACC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 15 0.28
43 16 0.30
44 23 0.43
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAAGAAAAAAAGGAAACAAAACGCG
Found at i:448784 original size:61 final size:60
Alignment explanation
Indices: 448533--450102 Score: 1891
Period size: 61 Copynumber: 26.0 Consensus size: 60
448523 TAGGGACAAA
* * *
448533 AAGGTGCCACCAACTTGTGTCGGCTTTGAAAGG--TATGCGTCCTGCTCTTTGAGGACTAG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * * *
448592 AAGGTGCCACCAATTTATGTGGGCTTTGAAAGGAAAA--CATCATGCTCTTTGAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* *
448651 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA--TGTCCTGCTTTTTGAGGACTAG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * * *
448710 AAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAAGCGTCCTACTCTTTTAGGACTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * *
448770 ATAGGTGCCACCAACTTGTATGGGCTTTAAAAGG-AAA-GCATCTTGCTCTTTGAGGACTGG
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * *
448830 AAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAA--CGTCATGCTTTTTGAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * * *
448889 AAGGTGCCACCAACTTGTGTGAGTTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGATTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
*
448949 ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* *
449010 AAAGGTGCCACCAATTTGTGTGGGCTTT-AAATGGAAAA--CATCCTGCTCTTTGAGGACTG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * *
449069 AAAGGTCCCACCAACTTTTGTGGGCTTTGAAAGGAAAA--CATCCTGCTCTTTGAGGACTG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* *
449128 AAAGGTGCCACCAACTTGTGTGGGCTTTGGAAGGAAAAGGCATCCTGCTCTTTGAGGACTG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * * * *
449189 ATAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTTTTTTAGGACTTA
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC-TG
* * * * * **
449251 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCTTACTCTTTGAGGTTTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * * *
449312 AAGGTGCCACCAACTTGTATGGGTTTTGAAAGGAAAA--TGTCCTGCTCTTTGAGGCCTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
*
449371 AAGGTGCCACCAACTTGTCTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * * *
449431 ACAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGTCCTGCTCTTTAAGGACTG
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * * * *
449492 AAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGTGTCCTACTCTTTGAAGACTGG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* *
449554 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA--TGTCCTGCTCTTTGAGGACTAG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * *
449613 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCTACTCTTTGAGGACTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * * * * *
449673 ACGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCTTGTTCTTTGAAGACTG
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * *
449734 AAAGGTGCCGCCAACTTATGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* * *
449796 AAGGTGCCATCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G
* ** * *
449857 AAGGTGCCACCAACTTGCGTGGGCTTTGAAAGGAAGCGGCGTCCTACTCTTTGAGGATTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * *
449917 ATAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTG
1 A-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * * * * *
449978 AAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTACTCTTTGAGGATTG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
* * *
450039 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGGGCGTCCTACTCTTTGAGGACTG
1 -AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
450101 AA
1 AA
450103 AAGATAAAAG
Statistics
Matches: 1325, Mismatches: 155, Indels: 60
0.86 0.10 0.04
Matches are distributed among these distances:
59 448 0.34
60 26 0.02
61 816 0.62
62 35 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (60 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:449132 original size:30 final size:30
Alignment explanation
Indices: 449042--449132 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
449032 GGCTTTAAAT
449042 GGAAAACATCCTGCTCTTTGAGGACTGAAA
1 GGAAAACATCCTGCTCTTTGAGGACTGAAA
*** ** * *
449072 GG-TCCCA-CCAACT-TTTGTGGGCTTTGAAA
1 GGAAAACATCCTGCTCTTTGAGGAC--TGAAA
449101 GGAAAACATCCTGCTCTTTGAGGACTGAAA
1 GGAAAACATCCTGCTCTTTGAGGACTGAAA
449131 GG
1 GG
449133 TGCCACCAAC
Statistics
Matches: 42, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
27 7 0.17
28 4 0.10
29 9 0.21
30 11 0.26
31 4 0.10
32 7 0.17
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (30 bp):
GGAAAACATCCTGCTCTTTGAGGACTGAAA
Found at i:449425 original size:242 final size:242
Alignment explanation
Indices: 448505--450100 Score: 2168
Period size: 242 Copynumber: 6.6 Consensus size: 242
448495 AAAGGAAATT
* ** * * *
448505 AAAGCGCGTCCTACTCTTT-AGGGACAAAAAGGTGCCACCAACTTGTGTCGGCTTTGAAA-G-GT
1 AAAG-GCGTCCTGCTCTTTGA-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
* * * * *
448567 ATGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAATTTATGTGGGCTTTGAAAGGAAAACAT
64 AGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGT
* *
448632 CATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA--TGTCCTG
129 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
* * *
448695 CTTTTTGAGGACTAGA-AGGTGCCACCAACTTATGTGGGCTTTGAAAGGA
194 CTCTTTGAGGACT-GACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * * *
448744 AAAAGCGTCCTACTCTTTTAGGACTGATAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA-AA-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * *
448807 GCATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAACGTCA
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCC
* * * *
448872 TGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAGTTTTGAAAGGAAAAGGCATCCTGCT
131 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
*
448937 CTTTGAGGATTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
196 CTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
448984 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAATGGA-AA-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * * *
449047 ACATCCTGCTCTTTGAGGACTGAAAGGTCCCACCAACTTTTGTGGGCTTTGAAAGGAAAACATCC
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCC
* * *
449112 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGGAAGGAAAAGGCATCCTGCT
131 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
* *
449177 CTTTGAGGACTGATAGGTGCCACCAACTTGTGTGGGATTTAAAAGGA
196 CTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
449224 AAAGGCATCCTGCTTTTTTAGGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * ** * * *
449289 GCATCTTACTCTTTGAGGTTTGGAAGGTGCCACCAACTTGTATGGGTTTTGAAAGGAAAATGTCC
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCC
* *
449354 TGCTCTTTGAGGCCTGGAAGGTGCCACCAACTTGTCTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
131 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
*
449419 CTTTGAGGACTGACAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGA
196 CTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
449466 AAAAGTGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * *
449531 GTGTCCTACTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCC
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCC
* * * *
449596 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCTACT
131 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
* *
449661 CTTTGAGGACTGACGGGTGCCACCAACTTATGTGGGCTTTAAAAGGA
196 CTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * * * *
449708 AAAGGCATCTTGTTCTTTGAAGACTGAAAGGTGCCGCCAACTTATGTGGGCTTTAAAAGGAGAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* **
449773 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGT
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAACGT
* ** *
449838 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGAAAGGAAGCGGCGTCCTA
129 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
* * *
449903 CTCTTTGAGGATTGATAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGA
194 CTCTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
449952 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * * * *
450017 GTGTCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGGGCG
66 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA--ACG
*
450082 TCCTACTCTTTGAGGACTG
128 TCCTGCTCTTTGAGGACTG
450101 AAAAGATAAA
Statistics
Matches: 1203, Mismatches: 142, Indels: 18
0.88 0.10 0.01
Matches are distributed among these distances:
238 155 0.13
239 8 0.01
240 319 0.27
241 2 0.00
242 475 0.39
243 7 0.01
244 216 0.18
245 21 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (242 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCC
TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCT
CTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:464019 original size:231 final size:230
Alignment explanation
Indices: 463473--464141 Score: 734
Period size: 231 Copynumber: 2.9 Consensus size: 230
463463 AAATTTAATA
* * * * *
463473 TTTTGGAGATAAAAACGGGGTTGGAGTAT-CCTTTCAAAAATAACAGGGCTGGAGTATCCCCGAT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTT-GAAAATAAC-GGGTTGGAGTATCCCCGAT
* * ** * * * * * **
463537 TATGGAAAACCGATGTTCTGGAAATAAAATCAGGGTTGGAGTATCCCTTCGAAAATAATAGGGTT
64 TGTGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTATCCC-TCGAAAATAACGGGGTT
* * * * * *
463602 GGAATATCCTCGACTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTAAAGTATCCCCTCG
128 GGAATATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAA-CCGGGTTAGAGTATCCCCTCG
* * *
463667 AAAATAACGGGGTTATAGTATCCCCGATGGTGAAAAATTGATG
192 GAAATAACGAGGTTAGAGTATCCCCGAT-GT---AAATTGATG
* * * * *
463710 TGTTGGAAATAAAATCGAGGTTGAAGTATCCCCTTGAAAATAATTGGGTTGGAGTATCCCCAATT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTTGAAAATAA-CGGGTTGGAGTATCCCCGATT
463775 GTGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTG
65 GTGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTATCC-CTCGAAAATAACGGGGTTG
* * *
463840 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCTTCGG
129 GAATATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACC-GGGTTAGAGTATCCCCTCGG
* * *
463905 AAATAATGAGGTTGGAGTATCTCCGAT-T-AATT-AGTG
193 AAATAACGAGGTTAGAGTATCCCCGATGTAAATTGA-TG
*
463941 TTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTTGAAAATAACGGGATTGGAGTATCCCCGATT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTTGAAAATAACGGG-TTGGAGTATCCCCGATT
* * ** * * *
464006 GTGAAAAATTGGTATTTTGGAAATAAAACTGGGGTTAGAGCGTCCCCTCGGAAATAACGGGTTTA
65 GTGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTG
* * * * *
464071 GAATATCCCTGATTATGAAAAATTGGTATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAG
129 GAATATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACCG-GGTTAGAGTATCCCCTCGG
464136 AAATAA
193 AAATAA
464142 AAACATGAAT
Statistics
Matches: 368, Mismatches: 56, Indels: 22
0.83 0.13 0.05
Matches are distributed among these distances:
230 5 0.01
231 178 0.48
232 2 0.01
235 1 0.00
236 1 0.00
237 176 0.48
238 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (230 bp):
TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTTGAAAATAACGGGTTGGAGTATCCCCGATTG
TGAAAAATTGGTATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGA
ATATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACCGGGTTAGAGTATCCCCTCGGAAA
TAACGAGGTTAGAGTATCCCCGATGTAAATTGATG
Found at i:464141 original size:79 final size:78
Alignment explanation
Indices: 463471--464138 Score: 650
Period size: 79 Copynumber: 8.5 Consensus size: 78
463461 AAAAATTTAA
* * * ** * *
463471 TATTTTGGAGATAAAAACGGGGTTGGAGTATCCTTTCAAAAATAACAGGGCTGGAGTATCCCCGA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGA
* * ** *
463536 TTATGGAAAACCGA
65 TTGTGAAAAATTGG
* * * * * * *
463550 TGTTCTGGAAATAAAATC-AGGGTTGGAGTATCCCTTCGAAAATAATAGGGTTGGAATATCCTCG
1 TATTTTGGAAATAAAACCGA-GGTTGGAGTATCCCCTCGAAAATAA-CGGGTTGGAGTATCCCCG
* *
463614 ACTGTGGAAAATTGG
64 ATTGTGAAAAATTGG
* * * ** **
463629 TATTTTAGAAATAAAATCGGGGTTAAAGTATCCCCTCGAAAATAACGGGGTTATAGTATCCCCGA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGA
* *
463694 TGGTGAAAAATTGA
65 TTGTGAAAAATTGG
* * * * * * *
463708 TGTGTTGGAAATAAAATCGAGGTTGAAGTATCCCCTTGAAAATAATTGGGTTGGAGTATCCCCAA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAA-CGGGTTGGAGTATCCCCGA
463773 TTGTGAAAAATTGG
65 TTGTGAAAAATTGG
* *
463787 TATTTTGGAAATAAAACCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGA
463852 TTGTGAAAAATTGG
65 TTGTGAAAAATTGG
* * * * * *
463866 TGTTTTGGAAATAAAACC-AGGGTTAGAGTATCCCTTCGGAAATAATGAGGTTGGAGTATCTCCG
1 TATTTTGGAAATAAAACCGA-GGTTGGAGTATCCCCTCGAAAATAACG-GGTTGGAGTATCCCCG
*
463930 A-T-T----AATTAG
64 ATTGTGAAAAATTGG
* *
463939 TGTTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTTGAAAATAACGGGATTGGAGTATCCCCGA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGA
464004 TTGTGAAAAATTGG
65 TTGTGAAAAATTGG
* * * ** * * * *
464018 TATTTTGGAAATAAAACTGGGGTTAGAGCGTCCCCTCGGAAATAACGGGTTTAGAATATCCCTGA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGG-TTGGAGTATCCCCGA
*
464083 TTATGAAAAATTGG
65 TTGTGAAAAATTGG
*
464097 TATTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAA
1 TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTC-GAAA
464139 TAAAAACATG
Statistics
Matches: 483, Mismatches: 89, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
72 2 0.00
73 59 0.12
74 2 0.00
75 1 0.00
77 1 0.00
78 2 0.00
79 413 0.86
80 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
TATTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGAT
TGTGAAAAATTGG
Found at i:472462 original size:14 final size:13
Alignment explanation
Indices: 472439--472473 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
472429 CTTCGATCGC
472439 AAAAAAAAAATAA
1 AAAAAAAAAATAA
472452 AAAATAAAAAATAA
1 AAAA-AAAAAATAA
472466 AGAAAAAA
1 A-AAAAAA
472474 GAGAAAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 13 0.65
15 3 0.15
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATAA
Found at i:472462 original size:18 final size:18
Alignment explanation
Indices: 472439--472473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
472429 CTTCGATCGC
*
472439 AAAAAAAAAATAAAAAAT
1 AAAAAAAAAAGAAAAAAT
*
472457 AAAAAATAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
472474 GAGAAAAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAT
Found at i:473547 original size:61 final size:61
Alignment explanation
Indices: 473441--474322 Score: 855
Period size: 61 Copynumber: 14.3 Consensus size: 61
473431 AACTTTTTAT
* * * * *
473441 CCTTCTAGTCTTCAAAGAGCCGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
473502 CCTTTCAGTCCTCAAAAAGCAGGATGCCTTTTCCTATTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
473563 CCTTTTAGTTCTCAAAGAGTAAGACGCCTTTTCTTTTTACAA-CCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA-AAGCCCACACAAGTTGGTGGCA
* * * * * *
473624 CCTTTTAGTTCTCAAAGAGTAGAACACCTTTTCCTTTTAAATCCCACACAAGTTTGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
473685 CCTTTTAGTCCTCAAAGAGCAAGATG-CTTTT--TTTTAAAGCCTACACAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
473743 CCTTTCAGTCCTCAAAAAGCAGGATGTTTTTCTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG----CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
473808 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGTTCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
473869 TCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTTTTTACAA-CCCACATAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA-AAGCCCACACAAGTTGGTGGCA
* * * * *
473930 CCTTTTAGTTCTCAAAGAGCAGAACACCTTTTCCTTTTAAATCCCACACAAGTTTGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
473991 CCTTTTAGTCTTCAAAGAGCAAGATG-CTTTT--TTTTAAAGCCCACACAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
474049 CCTTTCAGTCTTCAAAGAGTAGGATGCTTTTCTTTTTCTTTTAAAGTCCATAAAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGC----CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
474114 CCTTTCAGTCCTTAAAGAGTAGGACGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
474175 CCTTTTAGTCCTCGAAGAGCATAACGCTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGC----CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * * *
474240 CC-TTTAATCCTCAAATAGAAAGATGTCTTTTCCTTTTTAAAAGACCACACGAGCTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTT-AAAGCCCACACAAGTTGGTGGCA
*
474302 CCTTTTAGTCCTTAAAGAGCA
1 CCTTTTAGTCCTCAAAGAGCA
474323 AGATGCCATT
Statistics
Matches: 683, Mismatches: 113, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
58 93 0.14
60 20 0.03
61 379 0.55
62 25 0.04
63 24 0.04
64 16 0.02
65 126 0.18
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:473901 original size:245 final size:243
Alignment explanation
Indices: 473441--474320 Score: 922
Period size: 245 Copynumber: 3.6 Consensus size: 243
473431 AACTTTTTAT
* * * * *
473441 CCTTCTAGTCTTCAAAGAGC-CGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAAGAACACCTTTT-CTTTTAAAGCCCACACAAGCTAGTGGCACCT
* * *
473505 TTCAGTCCTCAAAAAGCAGGATGCCTTTTCCTATTAAAGCCCACACAAGTTGGTGGCACCTTTTA
65 TTCAGTCCTCAAAAAGCAGGATG-CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
* * * * * *
473570 GTTCTCAAAGAGTAAGACGCCTTTTCTTTTTACAA-CCCACACAAGCTGGTGGCACCTTTTAGTT
129 GTCCTCAAAGAGTAGGACGCCTTTTCCTTTTA-AAGTCCACACAAGTTGGTGGCACCTTTTAGTC
* *
473634 CTCAAAGAGT-AGAACACCTTTTCCTTTTAAATCCCACACAAGTTTGTGGCA
193 CTCAAAGAGTAAG-ACGCCTTTTCCTTTTAAATCCCACACAAGTTGGTGGCA
** *
473685 CCTTTTAGTCCTCAAAGAGCAAG-A-TGCTTTT-TTTTAAAGCCTACACAAGCTAGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGCAAGAACACCTTTTCTTTTAAAGCCCACACAAGCTAGTGGCACCTT
*
473747 TCAGTCCTCAAAAAGCAGGATGTTTTTCTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTT
66 TCAGTCCTCAAAAAGCAGGATG-----CTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
473812 TCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGTTCACACAAGTTGGTGGCATCTTTTAG
126 TCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAG
* * *
473877 TCCTCAAAGAGTAAGACGCCTTTTCTTTTTACAA-CCCACATAAGCTGGTGGCA
191 TCCTCAAAGAGTAAGACGCCTTTTCCTTTTA-AATCCCACACAAGTTGGTGGCA
* * * *
473930 CCTTTTAGTTCTCAAAGAGC-AGAACACCTTTTCCTTTTAAATCCCACACAAGTTTGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAAGAACACCTTTT-CTTTTAAAGCCCACACAAGCTAGTGGCACCT
* * * * * *
473994 TTTAGTCTTCAAAGAGCAAGATGC-TTTT-TTTTAAAGCCCACACAAGCTAGTGGCACCTTTCAG
65 TTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * * * * *
474057 TCTTCAAAGAGTAGGATGCTTTTCTTTTTCTTTTAAAGTCCATAAAAGTTGGTGGCACCTTTCAG
130 TCCTCAAAGAGTAGGACGC----CTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAG
* *
474122 TCCTTAAAGAGTAGGACGCCTTTTCCTTTTAAAGT-CCACACAAGTTGGTGGCA
191 TCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAA-TCCCACACAAGTTGGTGGCA
* * * * *
474175 CCTTTTAGTCCTCGAAGAGC-ATAACGCTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGC
1 CCTTTTAGTCCTCAAAGAGCAAGAACAC----C-TTTTCTTTTAAAGCCCACACAAGCTAGTGGC
* * * * * * * * *
474239 ACCTTT-AATCCTCAAATAGAAAGATGTCTTTTCCTTTTTAAAAGACCACACGAGCTGGTGACAC
61 ACCTTTCAGTCCTCAAAAAGCAGGATG-CTTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
474303 CTTTTAGTCCTTAAAGAG
123 CTTTCAGTCCTCAAAGAG
474321 CAAGATGCCA
Statistics
Matches: 538, Mismatches: 70, Indels: 47
0.82 0.11 0.07
Matches are distributed among these distances:
241 100 0.19
242 4 0.01
243 6 0.01
244 25 0.05
245 254 0.47
246 9 0.02
248 61 0.11
249 33 0.06
250 7 0.01
252 4 0.01
253 35 0.07
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (243 bp):
CCTTTTAGTCCTCAAAGAGCAAGAACACCTTTTCTTTTAAAGCCCACACAAGCTAGTGGCACCTT
TCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTC
AAAGAGTAAGACGCCTTTTCCTTTTAAATCCCACACAAGTTGGTGGCA
Found at i:474027 original size:306 final size:306
Alignment explanation
Indices: 473468--474211 Score: 1249
Period size: 306 Copynumber: 2.4 Consensus size: 306
473458 AGCCGGACAC
* * * * * *
473468 CTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGCCTTT
1 CTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTT
* * *
473533 TCCTATTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTTCTCAAAGAGTAAGACGCCTTTTCTT
66 TCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTT
*
473598 TTTACAACCCACACAAGCTGGTGGCACCTTTTAGTTCTCAAAGAGTAGAACACCTTTTCCTTTTA
131 TTTACAACCCACACAAGCTGGTGGCACCTTTTAGTTCTCAAAGAGCAGAACACCTTTTCCTTTTA
*
473663 AATCCCACACAAGTTTGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTTTAAAGCCTA
196 AATCCCACACAAGTTTGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTTTAAAGCCCA
*
473728 CACAAGCTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGTTTTT
261 CACAAGCTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGCTTTT
473774 CTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTT
1 CTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTT
* *
473839 TCCTTTTAAAGTTCACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTT
66 TCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTT
*
473904 TTTACAACCCACATAAGCTGGTGGCACCTTTTAGTTCTCAAAGAGCAGAACACCTTTTCCTTTTA
131 TTTACAACCCACACAAGCTGGTGGCACCTTTTAGTTCTCAAAGAGCAGAACACCTTTTCCTTTTA
*
473969 AATCCCACACAAGTTTGTGGCACCTTTTAGTCTTCAAAGAGCAAGATGCTTTTTTTTAAAGCCCA
196 AATCCCACACAAGTTTGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTTTAAAGCCCA
* * *
474034 CACAAGCTAGTGGCACCTTTCAGTCTTCAAAGAGTAGGATGCTTTT
261 CACAAGCTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGCTTTT
* * *
474080 CTTTTTCTTTTAAAGTCCATAAAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGTAGGACGCCTTT
1 CTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTT
* *
474145 TCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAAGAGCATA-ACG-CTTTTCT
66 TCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTA-AGACGCCTTTTCT
474208 TTTT
130 TTTT
474212 CTTTTAAAGC
Statistics
Matches: 411, Mismatches: 26, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
305 11 0.03
306 399 0.97
307 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (306 bp):
CTTTTTCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTT
TCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTT
TTTACAACCCACACAAGCTGGTGGCACCTTTTAGTTCTCAAAGAGCAGAACACCTTTTCCTTTTA
AATCCCACACAAGTTTGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTTTAAAGCCCA
CACAAGCTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGCTTTT
Found at i:474953 original size:20 final size:21
Alignment explanation
Indices: 474924--474997 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 21
474914 TTTTAGAATT
474924 TGTATCGATACAATAAGT-AA
1 TGTATCGATACAATAAGTGAA
*
474944 TGTATAGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
***
474964 TGTATCGATAC-ATTCTTGAAA
1 TGTATCGATACAATAAGTG-AA
474985 TGTATCGATACAA
1 TGTATCGATACAA
474998 AACCACTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 6 0.13
20 26 0.57
21 13 0.28
22 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:478282 original size:5 final size:4
Alignment explanation
Indices: 478251--478315 Score: 62
Period size: 4 Copynumber: 15.8 Consensus size: 4
478241 TGAAAAAAAA
* *
478251 AAAG AGAG AAAG AAAG AAAG AAAG ACAAG ACAAG AAAAG AAA- AAGG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG A-AAG -AAAG AAAG AAAG AAAG
478301 AAAGG AAA- AAAG AAA
1 AAA-G AAAG AAAG AAA
478316 AAATTTATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
3 5 0.10
4 31 0.60
5 15 0.29
6 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:478930 original size:15 final size:15
Alignment explanation
Indices: 478907--478948 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
478897 CGTGAAGGGA
*
478907 GAGAAAGAAGGAAAT
1 GAGAAAGAAAGAAAT
*
478922 GAGAGAGAAAGAAA-
1 GAGAAAGAAAGAAAT
478936 GA-AAAGAAAGAAA
1 GAGAAAGAAAGAAA
478949 AAAAAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (15 bp):
GAGAAAGAAAGAAAT
Found at i:478947 original size:32 final size:31
Alignment explanation
Indices: 478908--478971 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
478898 GTGAAGGGAG
** * *
478908 AGAAAGAAGGAAATGAGAGAGAAAGAAAGAAA
1 AGAAAGAAAAAAAAGAGAGACAAAGAAA-AAA
478940 AGAAAGAAAAAAAAGAGAGACAAAGAAAAAA
1 AGAAAGAAAAAAAAGAGAGACAAAGAAAAAA
478971 A
1 A
478972 TTGCAGGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (31 bp):
AGAAAGAAAAAAAAGAGAGACAAAGAAAAAA
Found at i:479942 original size:11 final size:11
Alignment explanation
Indices: 479926--479996 Score: 60
Period size: 11 Copynumber: 6.8 Consensus size: 11
479916 TAAATATTCA
479926 TATATTTATAT
1 TATATTTATAT
479937 TATATTTATAT
1 TATATTTATAT
* * *
479948 TATTTTTGTGT
1 TATATTTATAT
*
479959 T-TAATTATAT
1 TATATTTATAT
* *
479969 TTTAGTTAT-T
1 TATATTTATAT
479979 T-T-TTTATAT
1 TATATTTATAT
479988 TATATTTAT
1 TATATTTAT
479997 GTCATATCTC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 4 0.09
9 3 0.06
10 9 0.19
11 31 0.66
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:480538 original size:20 final size:20
Alignment explanation
Indices: 480478--480538 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
480468 TTTTTATAAA
* *
480478 ATTAATATTAA-TAGTATTA
1 ATTAATATCAATTAGTATTG
* *
480497 ATT-TTATCAATTTA-TATAG
1 ATTAATATCAA-TTAGTATTG
480516 ATTAATATCAATTAGTATTG
1 ATTAATATCAATTAGTATTG
480536 ATT
1 ATT
480539 CCTATCCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTAATATCAATTAGTATTG
Found at i:480575 original size:8 final size:8
Alignment explanation
Indices: 480564--480596 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
480554 AAAATTTATA
480564 TTTTTAAT
1 TTTTTAAT
480572 TTTTT-AT
1 TTTTTAAT
480579 TTATTTAAT
1 TT-TTTAAT
480588 TTTTTAAT
1 TTTTTAAT
480596 T
1 T
480597 AATTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.17
8 15 0.65
9 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:480604 original size:23 final size:23
Alignment explanation
Indices: 480560--480647 Score: 58
Period size: 22 Copynumber: 3.9 Consensus size: 23
480550 AAATAAAATT
**
480560 TATA-TTTTTAATTTTTTATTTA
1 TATATTTTTTAATTAATTATTTA
*
480582 TTTAATTTTTTAATTAATT-TTTA
1 TAT-ATTTTTTAATTAATTATTTA
* * *
480605 TATATTTTTATCA-TGATTATTTT
1 TATATTTTT-TAATTAATTATTTA
*
480628 TAT-TTTTTATAATTACTTAT
1 TATATTTTT-TAATTAATTAT
480648 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
22 20 0.39
23 20 0.39
24 11 0.22
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (23 bp):
TATATTTTTTAATTAATTATTTA
Found at i:480782 original size:15 final size:15
Alignment explanation
Indices: 480743--480787 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
480733 TTAATGTTTC
*
480743 AAAATTT-TGAATATT
1 AAAATTTAT-AATTTT
480758 AAATATTTATAATTTT
1 AAA-ATTTATAATTTT
480774 AAAATTTATAATTT
1 AAAATTTATAATTT
480788 GTATATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 12 0.44
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAAATTTATAATTTT
Found at i:481016 original size:29 final size:29
Alignment explanation
Indices: 480984--481079 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
480974 AAATAAAAGT
480984 TACTTATCTCTAAATTTTTATAAAAAATA
1 TACTTATCTCTAAATTTTTATAAAAAATA
* * * *
481013 TACTTGTCTCTTAATATTTA-AAAAATATT
1 TACTTATCTCTAAATTTTTATAAAAA-ATA
* * *
481042 TACTTATCTTTTTAAGTTTTTGATAAAAAACA
1 TACTTATC--TCTAAATTTTT-ATAAAAAATA
481074 TACTTA
1 TACTTA
481080 ATCTTAAGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
28 5 0.10
29 26 0.51
31 7 0.14
32 8 0.16
33 5 0.10
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (29 bp):
TACTTATCTCTAAATTTTTATAAAAAATA
Found at i:481224 original size:21 final size:21
Alignment explanation
Indices: 481198--481237 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
481188 ATAATAAAAA
481198 TTTAATTAATT-TTAAATTATC
1 TTTAATT-ATTGTTAAATTATC
481219 TTTAATTATTGTTAAATTA
1 TTTAATTATTGTTAAATTA
481238 AATTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATTATTGTTAAATTATC
Found at i:481336 original size:14 final size:14
Alignment explanation
Indices: 481317--481360 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
481307 TATATTAATT
481317 TTAAAATAAATTTA
1 TTAAAATAAATTTA
*
481331 TTAAAAT-ATTTTA
1 TTAAAATAAATTTA
* *
481344 TTTAAATAAATTAA
1 TTAAAATAAATTTA
481358 TTA
1 TTA
481361 GTATTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAATAAATTTA
Found at i:481418 original size:18 final size:19
Alignment explanation
Indices: 481397--481439 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
481387 GAAATCAGTT
*
481397 AAAATAAAATAAAATATAAAA
1 AAAATAAAA-AATATAT-AAA
481418 AAAATAAAAAATATATAAA
1 AAAATAAAAAATATATAAA
481437 AAA
1 AAA
481440 TATATTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAAAAATATATAAA
Found at i:481420 original size:20 final size:20
Alignment explanation
Indices: 481397--481439 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
481387 GAAATCAGTT
481397 AAAATAAAATAAAATATAAAA
1 AAAATAAAA-AAAATATAAAA
*
481418 AAAATAAAAAATATATAAAA
1 AAAATAAAAAAAATATAAAA
481438 AA
1 AA
481440 TATATTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATAAAAAAAATATAAAA
Found at i:481440 original size:18 final size:18
Alignment explanation
Indices: 481407--481441 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
481397 AAAATAAAAT
481407 AAAATATAAAAAAAATAA
1 AAAATATAAAAAAAATAA
*
481425 AAAATATATAAAAAATA
1 AAAATATAAAAAAAATA
481442 TATTCTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATATAAAAAAAATAA
Found at i:481632 original size:25 final size:25
Alignment explanation
Indices: 481598--481661 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
481588 TATTTTCAAA
*
481598 TAAAAATAATATAATAT-ATTAATAT
1 TAAAATTAATATAATATAATTAA-AT
*
481623 TAAAATTAATAT-ATGTAATTAAAT
1 TAAAATTAATATAATATAATTAAAT
*
481647 TAAAGATAAATATAA
1 TAAA-ATTAATATAA
481662 AATTTTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 9 0.27
25 23 0.70
26 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
TAAAATTAATATAATATAATTAAAT
Found at i:481864 original size:18 final size:16
Alignment explanation
Indices: 481841--481887 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
481831 TAACTTTATA
481841 ATAATTAAAAATAATTTT
1 ATAATTAAAAATAA--TT
481859 ATAATTAAAAAT-ATT
1 ATAATTAAAAATAATT
*
481874 ATAAATAAAAATAA
1 ATAATTAAAAATAA
481888 AAATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 13 0.48
16 1 0.04
17 1 0.04
18 12 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATTAAAAATAATT
Found at i:482575 original size:17 final size:17
Alignment explanation
Indices: 482544--482576 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
482534 TAACGCAAAG
482544 GACCTTTTCATGATCCC
1 GACCTTTTCATGATCCC
482561 GACCTGTTTCA-GATCC
1 GACCT-TTTCATGATCC
482577 GTCACTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (17 bp):
GACCTTTTCATGATCCC
Found at i:485336 original size:20 final size:20
Alignment explanation
Indices: 485311--485351 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
485301 TCCATGGTCT
485311 ATTTAGAGTGCAGAGCTCCC
1 ATTTAGAGTGCAGAGCTCCC
485331 ATTTAGAGTGCAGAGCTCCC
1 ATTTAGAGTGCAGAGCTCCC
485351 A
1 A
485352 CATTATCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (20 bp):
ATTTAGAGTGCAGAGCTCCC
Found at i:486098 original size:26 final size:26
Alignment explanation
Indices: 486044--486099 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
486034 GTAATTAATT
* *
486044 ATAATAAAATAATGATCATAATATCA
1 ATAATAAAATAATGATCAAAATATAA
486070 ATAATAAAA-AAT-ATCAAAATTATTAA
1 ATAATAAAATAATGATCAAAA-TA-TAA
486096 ATAA
1 ATAA
486100 CAATTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 15 0.58
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (26 bp):
ATAATAAAATAATGATCAAAATATAA
Found at i:488049 original size:27 final size:27
Alignment explanation
Indices: 488009--488088 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
487999 AATAAAAATT
*
488009 AACCACCAATTTTGACAAACACAAAAG
1 AACCACCATTTTTGACAAACACAAAAG
*** * * *
488036 AACTTTCATTTTTGATAAATATAAAAG
1 AACCACCATTTTTGACAAACACAAAAG
*
488063 AACCACCATTTTTTACAAACACAAAA
1 AACCACCATTTTTGACAAACACAAAA
488089 AGTGGCTTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (27 bp):
AACCACCATTTTTGACAAACACAAAAG
Found at i:489945 original size:21 final size:21
Alignment explanation
Indices: 489907--489948 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
489897 ATCTGTTGAA
* **
489907 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGCTGCGGAGTAT
489928 ACTCCACCTGCTGCGGAGTAT
1 ACTCCACCTGCTGCGGAGTAT
489949 TACTTGTTTG
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:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (21 bp):
ACTCCACCTGCTGCGGAGTAT
Found at i:490780 original size:13 final size:13
Alignment explanation
Indices: 490762--490788 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
490752 ACATTTCTTC
490762 ATGTATCGATACA
1 ATGTATCGATACA
490775 ATGTATCGATACA
1 ATGTATCGATACA
490788 A
1 A
490789 ATAGTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:490862 original size:19 final size:19
Alignment explanation
Indices: 490817--490873 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
490807 TTGCCAGTTT
**
490817 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
490838 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
490857 CATGTATCGATACAATG
1 CATGTATCGATACAATG
490874 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:490876 original size:13 final size:13
Alignment explanation
Indices: 490858--490884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
490848 TACAATGAAC
490858 ATGTATCGATACA
1 ATGTATCGATACA
490871 ATGTATCGATACA
1 ATGTATCGATACA
490884 A
1 A
490885 AGCAGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:490880 original size:32 final size:33
Alignment explanation
Indices: 490839--490903 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
490829 CAATTTGTCC
* *
490839 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAACATATATCGATACA
*
490871 ATGTATCGATACAAAGCAGCATATATCGATACA
1 ATGTATCGATACAAAGCAACATATATCGATACA
490904 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATATATCGATACA
Found at i:491488 original size:22 final size:19
Alignment explanation
Indices: 491439--491477 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
491429 TAAAAATTTT
*
491439 TCCCCCTTAAACGATTATC
1 TCCCCCTTAAACAATTATC
491458 TCCCCCTTAAACAATTATC
1 TCCCCCTTAAACAATTATC
491477 T
1 T
491478 TCTCCCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.36, G:0.03, T:0.33
Consensus pattern (19 bp):
TCCCCCTTAAACAATTATC
Found at i:493306 original size:13 final size:13
Alignment explanation
Indices: 493286--493326 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
493276 AATAGTACCT
*
493286 AATGTATCAATAC
1 AATGTATCGATAC
*
493299 ATTGTATCGATAC
1 AATGTATCGATAC
493312 AATGTATCGATAC
1 AATGTATCGATAC
493325 AA
1 AA
493327 GGAATGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:499524 original size:13 final size:13
Alignment explanation
Indices: 499506--499569 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
499496 ACATTTCTTC
*
499506 ATGTATTGATACA
1 ATGTATCGATACA
499519 ATGTATCGATAC-
1 ATGTATCGATACA
*
499531 A--T-T-G-TACC
1 ATGTATCGATACA
499539 ATGTATCGATACA
1 ATGTATCGATACA
499552 ATGTATCGATACA
1 ATGTATCGATACA
*
499565 TTGTA
1 ATGTA
499570 CCATGTATCG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 1 0.02
10 2 0.05
11 1 0.02
12 2 0.05
13 31 0.74
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:499524 original size:33 final size:33
Alignment explanation
Indices: 499486--499585 Score: 159
Period size: 33 Copynumber: 3.0 Consensus size: 33
499476 GTTACAAGCT
*
499486 ATGTATCGATACATT-T-CTTCATGTATTGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
499519 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
499552 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
499585 A
1 A
499586 ATAGTGATAG
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
33 62 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:499544 original size:20 final size:20
Alignment explanation
Indices: 499519--499584 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
499509 TATTGATACA
499519 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
499539 ATGTATCGATAC-----A--
1 ATGTATCGATACATTGTACC
499552 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
499572 ATGTATCGATACA
1 ATGTATCGATACA
499585 AATAGTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:499653 original size:13 final size:13
Alignment explanation
Indices: 499635--499659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499625 ACAATGAACA
499635 TGTATCGATACAT
1 TGTATCGATACAT
499648 TGTATCGATACA
1 TGTATCGATACA
499660 AAGCAGCATG
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:499675 original size:33 final size:32
Alignment explanation
Indices: 499616--499681 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
499606 GCCAGTTTCA
*
499616 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
499648 TGTATCGATACAAAGCAGCATGTATCGATACAT
1 TGTATCGATACAAAG-AACATGTATCGATACAT
499681 T
1 T
499682 TGGGTGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:502467 original size:27 final size:27
Alignment explanation
Indices: 502435--502486 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
502425 TAAAAATTAG
502435 CCACCAATTTTGACAAACACAAAGGAA
1 CCACCAATTTTGACAAACACAAAGGAA
* *
502462 CCACCATTTTTGACAAACATAAAGG
1 CCACCAATTTTGACAAACACAAAGG
502487 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (27 bp):
CCACCAATTTTGACAAACACAAAGGAA
Found at i:503883 original size:29 final size:29
Alignment explanation
Indices: 503849--504078 Score: 175
Period size: 29 Copynumber: 7.9 Consensus size: 29
503839 TTTCAATTCA
503849 TAATTTTTAAAAGTTTAAGGGTCAATGTG
1 TAATTTTTAAAAGTTTAAGGGTCAATGTG
*
503878 TAATTTTTAAAAGTTTAAGGGTCAATTTG
1 TAATTTTTAAAAGTTTAAGGGTCAATGTG
*
503907 TAATTTTTAAAAGTTTACA-AGTCAATGTG
1 TAATTTTTAAAAGTTTA-AGGGTCAATGTG
* * *
503936 TAATTATGAAAAGTTT-AGGAGTCAAAGTG
1 TAATTTTTAAAAGTTTAAGG-GTCAATGTG
* * * *
503965 -AAATTTTAAGAAGTTT-GGGGACTAATTTG
1 TAATTTTTAA-AAGTTTAAGGGTC-AATGTG
* * * * *
503994 TAATTTTGAAATGTCTAGGGGTTCAATATG
1 TAATTTTTAAAAGTTTAAGGG-TCAATGTG
* ** * *
504024 TAATTTTGAGGAGTTT-AGGAATCAAAGTG
1 TAATTTTTAAAAGTTTAAGG-GTCAATGTG
*
504053 TAA-TTTTAAAAGGTTTAATGGTCAAT
1 TAATTTTTAAAA-GTTTAAGGGTCAAT
504079 ACGCAGTTTT
Statistics
Matches: 156, Mismatches: 34, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.01
28 13 0.08
29 110 0.71
30 31 0.20
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (29 bp):
TAATTTTTAAAAGTTTAAGGGTCAATGTG
Found at i:504567 original size:142 final size:142
Alignment explanation
Indices: 504329--504593 Score: 417
Period size: 142 Copynumber: 1.9 Consensus size: 142
504319 GTTTGCCCTT
** *
504329 TTACGATCATTTCGTGTCTTTTAAGGTTACCTGGATACTTTCATGTCAAAGGTATACCTAAGAGG
1 TTACGATCATTTCGTGTCTTTTAAGGTTACCTGGATACTTTCACATCAAAGGTATACCCAAGAGG
* *
504394 CATTTTGATAATTTTTCTTAGAACCGAGTCCTAGGTAGTCACTTGGTCGTTTTTACATTTAGGAT
66 CATTTTGATAATTTTTCCTAGAACCGAGTCCTAGGTAGTCACTTGGTCCTTTTTACATTTAGGAT
504459 AGGTTCATCTTC
131 AGGTTCATCTTC
* * *
504471 TTACGATCTTTTCGTGTCTTTTAGGGTTACC-GTGATACTTTCACATCGAAA-GTATACCCAAGG
1 TTACGATCATTTCGTGTCTTTTAAGGTTACCTG-GATACTTTCACATC-AAAGGTATACCCAAGA
*
504534 GGCATTTTGATAATTTTTCCTAGAATCGAGTCCTAGGTAGTCACTTGGTCCTTTTTACAT
64 GGCATTTTGATAATTTTTCCTAGAACCGAGTCCTAGGTAGTCACTTGGTCCTTTTTACAT
504594 CAAAGTTCTA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 1 0.01
142 108 0.96
143 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (142 bp):
TTACGATCATTTCGTGTCTTTTAAGGTTACCTGGATACTTTCACATCAAAGGTATACCCAAGAGG
CATTTTGATAATTTTTCCTAGAACCGAGTCCTAGGTAGTCACTTGGTCCTTTTTACATTTAGGAT
AGGTTCATCTTC
Found at i:504830 original size:3 final size:3
Alignment explanation
Indices: 504812--504874 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
504802 CGATGTCTGG
504812 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
504858 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
504875 TGTTTGTTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:516158 original size:13 final size:13
Alignment explanation
Indices: 516140--516169 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
516130 ACTTTTTACC
*
516140 ATGTATCGATATA
1 ATGTATCGATACA
516153 ATGTATCGATACA
1 ATGTATCGATACA
516166 ATGT
1 ATGT
516170 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:516240 original size:20 final size:19
Alignment explanation
Indices: 516215--516305 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 19
516205 TGCCAGTTTC
516215 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAA-TGAGT
*
516235 ATGTATCGATACAATGAGC
1 ATGTATCGATACAATGAGT
*
516254 ATGTATCGATACAAAGCA-T
1 ATGTATCGATACAATG-AGT
*
516273 AATGTATCGATACATCTG-GAT
1 -ATGTATCGATACA-ATGAG-T
516294 ATGTATCGATAC
1 ATGTATCGATAC
516306 TTTCTAGGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.31
20 40 0.66
21 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAGT
Found at i:522240 original size:333 final size:332
Alignment explanation
Indices: 521629--522285 Score: 1012
Period size: 333 Copynumber: 2.0 Consensus size: 332
521619 TTTTTTAAGC
* *
521629 CTTCGTCTTTGGTGCTTAAGAATAAAACCCAATTATATCTAGAATAATCATCCACAATAACAAAT
1 CTTCATCTTTGGTGCTTAAGAATAAAACCCAAGTATATCTAGAATAATCATCCACAATAACAAAT
* * *
521694 CCGTATCTTTTACCATCTAGACTTTGTGTTCTAGTTGGACCAAATAAGTCGATATGAACTACTTG
66 CCGTATCTTTTACCACCTAGACTTTGCGTTCTAGTTAGACCAAATAAGTCGATATGAACTACTTG
** *
521759 CAAAACTCTAGAGGTCGTGACAATGTTTATGGGTTTAAAAGAATTTCTTTTATCCTTACCCTTAA
131 CAAAACTCTAGACATCGTGACAATGTTTACGGGTTTAAAAGAATTTCTTTTATCCTTACCCTTAA
*
521824 TACATGCATCACATACTTTATCGCAATCAAATTTAACCTTAAGCAATCCAATAACAAGGTATTTC
196 TACATGCATCACATACTTTATCGCAATCAAATTTAACCTTAAGCAACCCAATAACAAGGTATTTC
521889 CCAGATAATTTCGAAAGTACAC-CTATACTTGCGTGTCCTAATTTACGGTGCCATAGCCAAGGTA
261 CCAGATAATTTCGAAAGTACACTC-ATACTTGCGT-TCCTAATTTACGGTGCCATAGCCAAGGTA
521953 TTTCTAAAG
324 TTTCTAAAG
*
521962 CTTCATCTTTGGTGCTTAAGAATAAAACCCTAGTATATCTAGAATAATCATCCACAATAACAAAT
1 CTTCATCTTTGGTGCTTAAGAATAAAACCCAAGTATATCTAGAATAATCATCCACAATAACAAAT
* * * *
522027 CCGTATCTTTTACCACCTAGACTTTGCGTTCTAGTTAGACCGAATAAGTTGATGTGAACTAGTTG
66 CCGTATCTTTTACCACCTAGACTTTGCGTTCTAGTTAGACCAAATAAGTCGATATGAACTACTTG
* * *
522092 CCATACTCTAGACATCGTGACAATGTTTACGGGTTTAAAAGAATTTCTTTTATGCTTACCCTTAA
131 CAAAACTCTAGACATCGTGACAATGTTTACGGGTTTAAAAGAATTTCTTTTATCCTTACCCTTAA
* * * * * * *
522157 TACATGCATCACATACTTTATTGCAATCAAATTTGACCTTAGGTAGCCCAATAATAAGGTCTTTC
196 TACATGCATCACATACTTTATCGCAATCAAATTTAACCTTAAGCAACCCAATAACAAGGTATTTC
* * * **
522222 CTAGATAACTTT-GAAAGTATACTCATACTTGTGTTCCTAATTTTTGGTGCCATAGCCAAGGTAT
261 CCAGATAA-TTTCGAAAGTACACTCATACTTGCGTTCCTAATTTACGGTGCCATAGCCAAGGTAT
522286 GTCATTGTTG
Statistics
Matches: 293, Mismatches: 29, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
332 28 0.10
333 261 0.89
334 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (332 bp):
CTTCATCTTTGGTGCTTAAGAATAAAACCCAAGTATATCTAGAATAATCATCCACAATAACAAAT
CCGTATCTTTTACCACCTAGACTTTGCGTTCTAGTTAGACCAAATAAGTCGATATGAACTACTTG
CAAAACTCTAGACATCGTGACAATGTTTACGGGTTTAAAAGAATTTCTTTTATCCTTACCCTTAA
TACATGCATCACATACTTTATCGCAATCAAATTTAACCTTAAGCAACCCAATAACAAGGTATTTC
CCAGATAATTTCGAAAGTACACTCATACTTGCGTTCCTAATTTACGGTGCCATAGCCAAGGTATT
TCTAAAG
Found at i:525429 original size:13 final size:13
Alignment explanation
Indices: 525397--525422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
525387 GCCATTGGGC
525397 ATAATGTATCGAT
1 ATAATGTATCGAT
525410 ATAATGTATCGAT
1 ATAATGTATCGAT
525423 TAAATGTCCC
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:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ATAATGTATCGAT
Found at i:525517 original size:19 final size:19
Alignment explanation
Indices: 525474--525529 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
525464 CTGCTAGTTT
525474 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
525494 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
525513 CATGTATCGTTACAATG
1 CATGTATCGATACAATG
525530 TATCGATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:526412 original size:102 final size:102
Alignment explanation
Indices: 526287--526489 Score: 370
Period size: 102 Copynumber: 2.0 Consensus size: 102
526277 TGCTACTGTT
526287 AATTGCTTAGCAGCTTTATTTCTTCTTTTCCTTGCTTTTCTTCAGCTGTCGTTTCTTCTTAGTTA
1 AATTGCTTAGCAGCTTTATTTCTTCTTTTCCTTGCTTTTCTTCAGCTGTCGTTTCTTCTTAGTTA
*
526352 TTGCAGCTTTAATTTCGTGCTTGAAATTGCCGTTTGA
66 TTGCAGCTTTAATTTCATGCTTGAAATTGCCGTTTGA
**
526389 AATTGCTTAGCAGCTTTATTTCTTCTTTTCCTTTTTTTTCTTCAGCTGTCGTTTCTTCTTAGTTA
1 AATTGCTTAGCAGCTTTATTTCTTCTTTTCCTTGCTTTTCTTCAGCTGTCGTTTCTTCTTAGTTA
*
526454 TTGCAGCTTTAATTTCATGCTTGAAATTGCTGTTTG
66 TTGCAGCTTTAATTTCATGCTTGAAATTGCCGTTTG
526490 CTGATTTGAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (102 bp):
AATTGCTTAGCAGCTTTATTTCTTCTTTTCCTTGCTTTTCTTCAGCTGTCGTTTCTTCTTAGTTA
TTGCAGCTTTAATTTCATGCTTGAAATTGCCGTTTGA
Found at i:526520 original size:12 final size:12
Alignment explanation
Indices: 526503--526536 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
526493 ATTTGATTCC
526503 ATGCATGAAAGT
1 ATGCATGAAAGT
526515 ATGCATGAAAGT
1 ATGCATGAAAGT
*
526527 AGGCATGAAA
1 ATGCATGAAA
526537 TGCAATGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (12 bp):
ATGCATGAAAGT
Found at i:526593 original size:57 final size:57
Alignment explanation
Indices: 526530--526718 Score: 252
Period size: 57 Copynumber: 3.1 Consensus size: 57
526520 TGAAAGTAGG
526530 CATGAAATGCAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGTAGCAAATTAAA
1 CATGAAATGCAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGTAGCAAATTAAA
* *
526587 CATGAAATCCAATGCAATGCAATGACACCTAGAAAGCTTAGCTGGTAGCAAATTAAA
1 CATGAAATGCAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGTAGCAAATTAAA
*
526644 CATGAAATCCAATGCAATGCAATGTAATACAATGACACCTAGAAAACTTAGGTGGTAGCAAATTA
1 CATG--A---AATGCAATGCAATG-----CAATGACACCTAGAAAGCTTAGGTGGTAGCAAATTA
*
526709 AG
56 AA
526711 CATGAAAT
1 CATGAAAT
526719 CCACCTAATT
Statistics
Matches: 116, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
57 59 0.51
59 1 0.01
62 16 0.14
65 1 0.01
67 39 0.34
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (57 bp):
CATGAAATGCAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGTAGCAAATTAAA
Found at i:526700 original size:67 final size:67
Alignment explanation
Indices: 526596--526721 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
526586 ACATGAAATC
* *
526596 CAATGCAATGCAATGACACCTAGAAAGCTTAGCTGGTAGCAAATTAAACATGAAATCCAATGCAA
1 CAATGCAATACAATGACACCTAGAAAACTTAGCTGGTAGCAAATTAAACATGAAATCCAATGCAA
526661 TG
66 TG
* * *
526663 CAATGTAATACAATGACACCTAGAAAACTTAGGTGGTAGCAAATTAAGCATGAAATCCA
1 CAATGCAATACAATGACACCTAGAAAACTTAGCTGGTAGCAAATTAAACATGAAATCCA
526722 CCTAATTCGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (67 bp):
CAATGCAATACAATGACACCTAGAAAACTTAGCTGGTAGCAAATTAAACATGAAATCCAATGCAA
TG
Found at i:526829 original size:13 final size:13
Alignment explanation
Indices: 526811--526835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
526801 TTATTCTTTT
526811 TATTTTTATTATA
1 TATTTTTATTATA
526824 TATTTTTATTAT
1 TATTTTTATTAT
526836 TTTTTAATGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTATTATA
Found at i:530511 original size:32 final size:32
Alignment explanation
Indices: 530423--530578 Score: 192
Period size: 32 Copynumber: 4.9 Consensus size: 32
530413 GATGCTTTGA
* * * **
530423 ATGAAAACCCAAAAAGGCATTC-AAAAAATGG
1 ATGAAAACCCCAAAGGGCATCCAAAAAAAAAG
* *
530454 ATGAAAA-CCTAAAGGGTATCC-AAAAAAAAG
1 ATGAAAACCCCAAAGGGCATCCAAAAAAAAAG
*
530484 ATGAAAACCCGAAAGGGCATCCAAAAAAAAAG
1 ATGAAAACCCCAAAGGGCATCCAAAAAAAAAG
*
530516 ATGAAAACCCCACAGGGCATCCAAAAAAAAAGG
1 ATGAAAACCCCAAAGGGCATCCAAAAAAAAA-G
*
530549 ATGAAAACCCCAAAGGGTATCCAAAAAAAA
1 ATGAAAACCCCAAAGGGCATCCAAAAAAAA
530579 CAAAAAAAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 24 0.22
31 19 0.17
32 38 0.35
33 29 0.26
ACGTcount: A:0.55, C:0.19, G:0.17, T:0.10
Consensus pattern (32 bp):
ATGAAAACCCCAAAGGGCATCCAAAAAAAAAG
Found at i:530617 original size:41 final size:42
Alignment explanation
Indices: 530537--530620 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
530527 ACAGGGCATC
* **
530537 CAAAAAAAAAGGATGAAAACCCCAAAGGGTATCCAAAAAAAA
1 CAAAAAAAAAGGAAGAAAACCCCAAAGGACATCCAAAAAAAA
* *
530579 CAAAAAAAATGGAAGAAAACCCGAAAGGACATCCAAAAAAAA
1 CAAAAAAAAAGGAAGAAAACCCCAAAGGACATCCAAAAAAAA
530621 AGATGTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.63, C:0.17, G:0.14, T:0.06
Consensus pattern (42 bp):
CAAAAAAAAAGGAAGAAAACCCCAAAGGACATCCAAAAAAAA
Found at i:531600 original size:67 final size:66
Alignment explanation
Indices: 531524--531736 Score: 205
Period size: 67 Copynumber: 3.2 Consensus size: 66
531514 AATCCTTTTG
531524 ACTTAGGTTTTGTCCCAGTAATTTATAGGTTTGACATAATGGTTTCGTCCTGGTCAAGCTCTTTT
1 ACTTAGGTTTT-TCCCAGTAATTTATAGGTTTGACATAATGGTTTCGTCCTGGTCAAGCTCTTTT
531589 CA
65 CA
* * * ** * * ** *
531591 ACTTAGGTTTTTCCCTGGTCACCTTT-TATG-TTGATGTAATGGTTTTTGCCCTGGTCAATTTCG
1 ACTTAGGTTTTTCCC-AGT-A-ATTTATAGGTTTGACATAATGG-TTTCGTCCTGGTCAAGCTCT
* *
531654 TCTCG
62 TTTCA
* * * *
531659 ACTTAGGTTTCTTCCTAGTCATTTATAGGTTTGACATAATGGTTTCATCCTAGTCAAGCTCTTTT
1 ACTTAGGTTT-TTCCCAGTAATTTATAGGTTTGACATAATGGTTTCGTCCTGGTCAAGCTCTTTT
531724 CA
65 CA
*
531726 ACTAAGGTTTT
1 ACTTAGGTTTT
531737 GCCCTGGTCA
Statistics
Matches: 110, Mismatches: 29, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
66 8 0.07
67 51 0.46
68 44 0.40
69 7 0.06
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (66 bp):
ACTTAGGTTTTTCCCAGTAATTTATAGGTTTGACATAATGGTTTCGTCCTGGTCAAGCTCTTTTC
A
Found at i:531768 original size:67 final size:66
Alignment explanation
Indices: 531560--531907 Score: 231
Period size: 67 Copynumber: 5.2 Consensus size: 66
531550 AGGTTTGACA
* * *
531560 TAATGGTTTCGTCCTGGTCAAGCTCTTTTCAACTTAGGTTTTTCCCTGGTCACCTTTTATGTTGA
1 TAATGGTTTCATCCTAGTCAAGCTCTTTTCAACTTAGG-TTTTCCCTAGTCACCTTTTATGTTGA
531625 TG
65 TG
* * ** * * * * *
531627 TAATGGTTT-TTGCCCTGGTCAATTTCGTCTCGACTTAGGTTTCTTCCTAGTCA--TTTATAGGT
1 TAATGGTTTCAT--CCTAGTCAAGCTCTTTTCAACTTAGGTTT-TCCCTAGTCACCTTT-TATG-
**
531689 TTGACA
61 TTGATG
* *
531695 TAATGGTTTCATCCTAGTCAAGCTCTTTTCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGA
1 TAATGGTTTCATCCTAGTCAAGCTCTTTTCAACTTAGGTTTT-CCCTAGTCACCTTTTATGTTGA
531760 TG
65 TG
* * * * * *
531762 TTATGGTTTCACCCTAGTCAA-CTTCTTTTCGATTTAGGTTTCACCCTAGTCGCCTTTTATGTTG
1 TAATGGTTTCATCCTAGTCAAGC-TCTTTTCAACTTAGGTTT-TCCCTAGTCACCTTTTATGTTG
*
531826 ACG
64 ATG
* * * * ** * **
531829 TGACA-GTTTTAACCCTAGCCAA-CTTCTTTTTGACTTAGGTTTCACCCTAGTTGCCTTTTATGT
1 T-A-ATGGTTTCATCCTAGTCAAGC-TCTTTTCAACTTAGGTTT-TCCCTAGTCACCTTTTATGT
*
531892 TGACG
62 TGATG
*
531897 TGATGGTTTCA
1 TAATGGTTTCA
531908 CCTTGATCAA
Statistics
Matches: 224, Mismatches: 43, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
66 7 0.03
67 109 0.49
68 103 0.46
69 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (66 bp):
TAATGGTTTCATCCTAGTCAAGCTCTTTTCAACTTAGGTTTTCCCTAGTCACCTTTTATGTTGAT
G
Found at i:531768 original size:135 final size:135
Alignment explanation
Indices: 531523--531770 Score: 417
Period size: 135 Copynumber: 1.8 Consensus size: 135
531513 CAATCCTTTT
* *
531523 GACTTAGGTTTTGTCCCAGTAATTTATAGGTTTGACATAATGGTTTCGTCCTGGTCAAGCTCTTT
1 GACTTAGGTTTTGTCCCAGTAATTTATAGGTTTGACATAATGGTTTCATCCTAGTCAAGCTCTTT
* *
531588 TCAACTTAGGTTTTTCCCTGGTCACCTTTTATGTTGATGTAATGGTTTTTGCCCTGGTCAATTTC
66 TCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTAATGGTTTTTGCCCTGGTCAATTTC
531653 GTCTC
131 GTCTC
* *
531658 GACTTAGGTTTCT-TCCTAGTCATTTATAGGTTTGACATAATGGTTTCATCCTAGTCAAGCTCTT
1 GACTTAGGTTT-TGTCCCAGTAATTTATAGGTTTGACATAATGGTTTCATCCTAGTCAAGCTCTT
*
531722 TTCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTTATGGTTT
65 TTCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTAATGGTTT
531771 CACCCTAGTC
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
135 104 0.99
136 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (135 bp):
GACTTAGGTTTTGTCCCAGTAATTTATAGGTTTGACATAATGGTTTCATCCTAGTCAAGCTCTTT
TCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTAATGGTTTTTGCCCTGGTCAATTTC
GTCTC
Found at i:531846 original size:135 final size:134
Alignment explanation
Indices: 531510--531934 Score: 380
Period size: 135 Copynumber: 3.2 Consensus size: 134
531500 GTCTAAATAG
* ** * ***
531510 AGTCAA-TCCTTTT-GACTTAGGTTTTGTCCC-AGTAATTTATAGGTTTGACATAATGGTTTCGT
1 AGTCAACTTCTTTTCGACTTAGG-TTTCACCCTAGTCATTTATAGGTTTGACATAATGGTTTAAC
* *
531572 CCTGGTCAAGCTCTTTTCAACTTAGGTTTTTCCCTGGTCACCTTTTATGTTGATGTAATGGTTTT
65 CCTAGTCAAGCTCTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTATGTTGATGTAATGG-TTT
**
531637 TGCCCT
129 CACCCT
* * * * ** * *
531643 GGTCAATTTCGTCTCGACTTAGGTTTCTTCCTAGTCATTTATAGGTTTGACATAATGGTTTCATC
1 AGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGTCATTTATAGGTTTGACATAATGGTTTAACC
* * *
531708 CTAGTCAAGCTCTTTTCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTTATGGTTTCA
66 CTAGTCAAGCTCTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTATGTTGATGTAATGGTTTCA
531773 CCCT
131 CCCT
* * * * *
531777 AGTCAACTTCTTTTCGATTTAGGTTTCACCCTAGTCGCCTTT-TATG-TTGACGTGACA-GTTTT
1 AGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGT--CATTTATAGGTTTGACAT-A-ATGGTTT
* ** * * ** * *
531839 AACCCTAGCCAA-CTTCTTTTTGACTTAGGTTTCACCCTAGTTGCCTTTTATGTTGACGTGATGG
62 AACCCTAGTCAAGC-TCTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTATGTTGATGTAATGG
531903 TTTCA-CCT
126 TTTCACCCT
* *
531911 TGATCAACTTCTTTTTGACTTAGG
1 AG-TCAACTTCTTTTCGACTTAGG
531935 CTTGACATGA
Statistics
Matches: 242, Mismatches: 41, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
133 5 0.02
134 56 0.23
135 176 0.73
136 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (134 bp):
AGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGTCATTTATAGGTTTGACATAATGGTTTAACC
CTAGTCAAGCTCTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTATGTTGATGTAATGGTTTCA
CCCT
Found at i:531867 original size:68 final size:67
Alignment explanation
Indices: 531707--531934 Score: 244
Period size: 67 Copynumber: 3.4 Consensus size: 67
531697 ATGGTTTCAT
** * ** * * * * *
531707 CCTAGTCAAGC-TCTTTTCAACTAAGGTTTTGCCCTGGTCACCTTTTATGTTGATGTTATGGTTT
1 CCTAGTCAA-CTTCTTTTTGACTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGAAGGTTT
*
531771 CAC
65 AAC
* * *
531774 CCTAGTCAACTTCTTTTCGATTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGACAGTTTT
1 CCTAGTCAACTTCTTTTTGACTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGA-AGGTTT
531839 AAC
65 AAC
* * * *
531842 CCTAGCCAACTTCTTTTTGACTTAGGTTTCACCCTAGTTGCCTTTTATGTTGACGTGATGGTTTC
1 CCTAGTCAACTTCTTTTTGACTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGAAGGTTTA
531907 A-
66 AC
*
531908 CCTTGATCAACTTCTTTTTGACTTAGG
1 CCTAG-TCAACTTCTTTTTGACTTAGG
531935 CTTGACATGA
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
66 5 0.04
67 72 0.53
68 60 0.44
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (67 bp):
CCTAGTCAACTTCTTTTTGACTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGAAGGTTTA
AC
Found at i:531878 original size:32 final size:32
Alignment explanation
Indices: 531766--531934 Score: 110
Period size: 32 Copynumber: 5.1 Consensus size: 32
531756 TTGATGTTAT
* *
531766 GGTTTCACCCTAGTCAACTTCTTTTCGATTTA
1 GGTTTCACCCTAGTCAACTTCTTTTTGACTTA
** *
531798 GGTTTCACCCTAGTCGCCTT-TTATGTTGACGTGACA
1 GGTTTCACCCTAGTCAACTTCTT-T-TTGAC-T--TA
* * *
531834 GTTTTAACCCTAGCCAACTTCTTTTTGACTTA
1 GGTTTCACCCTAGTCAACTTCTTTTTGACTTA
*** *
531866 GGTTTCACCCTAGTTGCCTT-TTATGTTGACGTGA
1 GGTTTCACCCTAGTCAACTTCTT-T-TTGAC-TTA
*
531900 TGGTTTCA-CCTTGATCAACTTCTTTTTGACTTA
1 -GGTTTCACCCTAG-TCAACTTCTTTTTGACTTA
531933 GG
1 GG
531935 CTTGACATGA
Statistics
Matches: 102, Mismatches: 23, Indels: 24
0.68 0.15 0.16
Matches are distributed among these distances:
31 4 0.04
32 37 0.36
33 10 0.10
34 13 0.13
35 17 0.17
36 19 0.19
37 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (32 bp):
GGTTTCACCCTAGTCAACTTCTTTTTGACTTA
Found at i:531907 original size:35 final size:34
Alignment explanation
Indices: 531797--531909 Score: 106
Period size: 36 Copynumber: 3.3 Consensus size: 34
531787 TTTTCGATTT
531797 AGGTTTCACCCTAGTCGCCTTTTATGTTGACGTG
1 AGGTTTCACCCTAGTCGCCTTTTATGTTGACGTG
* * * ** *
531831 ACAGTTTTAACCCTAGCCAACTTCTT-T-TTGAC-TT
1 --AGGTTTCACCCTAGTCGCCTT-TTATGTTGACGTG
*
531865 AGGTTTCACCCTAGTTGCCTTTTATGTTGACGTG
1 AGGTTTCACCCTAGTCGCCTTTTATGTTGACGTG
531899 ATGGTTTCACC
1 A-GGTTTCACC
531910 TTGATCAACT
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
31 2 0.03
32 16 0.27
33 5 0.08
34 3 0.05
35 14 0.24
36 17 0.29
37 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (34 bp):
AGGTTTCACCCTAGTCGCCTTTTATGTTGACGTG
Found at i:532086 original size:66 final size:67
Alignment explanation
Indices: 531966--532115 Score: 194
Period size: 66 Copynumber: 2.3 Consensus size: 67
531956 TGGTTAACCT
** *
531966 CTTTTCGACTTAGGTTTCACCCTAGTCATCGTTTATGCTGACGTGATGGTTTCACCCTAGTCAAC
1 CTTTTCGACTTAGGTTTCACCCTAGTCATCCCTTATGCTGACGTGATGGCTTCACCCTAGTCAAC
532031 TA
66 TA
** * * *
532033 CTTTTCGACTTAGGTTTTGCCCTGGTCA-CCCTTATGTTGACGTGATGGCTTCACCTTAGTCAAC
1 CTTTTCGACTTAGGTTTCACCCTAGTCATCCCTTATGCTGACGTGATGGCTTCACCCTAGTCAAC
*
532097 TT
66 TA
* *
532099 CTTCTCTACTTAGGTTT
1 CTTTTCGACTTAGGTTT
532116 GACGCGATGG
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 47 0.65
67 25 0.35
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (67 bp):
CTTTTCGACTTAGGTTTCACCCTAGTCATCCCTTATGCTGACGTGATGGCTTCACCCTAGTCAAC
TA
Found at i:532101 original size:178 final size:179
Alignment explanation
Indices: 531768--532228 Score: 525
Period size: 178 Copynumber: 2.6 Consensus size: 179
531758 GATGTTATGG
* *
531768 TTTCACCCT-AGTCAACTTCTTTTCGATTTAGGTTTCACCCTAGTCGCCTTTTATGTTGACGTGA
1 TTTCACCCTCA-TCAACCTCTTTTCGATTTAGGTTTCACCCTAGTCACCTTTTATGTTGACGTGA
* * * * * ** *
531832 CAGTTTTAACCCTAGCCAACTTCTTTTTGACTTAGGTTTCACCCTAGTTGCCTTTTATGTTGACG
65 -TGGTTTCACCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACCTCTTATGTTGACG
* * *
531897 TGATGGTTTCACCTTGATCAACTTCTT-TTTGACTTAGGCTTGACATGATCA
129 TGATGGCTTCACCTTGATCAACTTCTTCTCT-ACTTAGGCTTGACACGATCA
* * ** * * * * *
531948 TTTCGCCTTGGTTAACCTCTTTTCGACTTAGGTTTCACCCTAGTCATCGTTTATGCTGACGTGAT
1 TTTCACCCTCATCAACCTCTTTTCGATTTAGGTTTCACCCTAGTCACCTTTTATGTTGACGTGAT
* ** *
532013 GGTTTCACCCTAGTCAACTACTTTTCGACTTAGGTTTTGCCCTGGTCACC-CTTATGTTGACGTG
66 GGTTTCACCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACCTCTTATGTTGACGTG
* * **
532077 ATGGCTTCACCTT-AGTCAACTTCTTCTCTACTTAGGTTTGACGCGATGG
131 ATGGCTTCACCTTGA-TCAACTTCTTCTCTACTTAGGCTTGACACGATCA
* * *
532126 TTTCACCCTCATCAGCCTCTTTTCGATTTAGGTTTCACCCTAGTTACCTTTTATGTTGACATGAT
1 TTTCACCCTCATCAACCTCTTTTCGATTTAGGTTTCACCCTAGTCACCTTTTATGTTGACGTGAT
* * * *
532191 GGTTTCGCCCTGGTCAACTTCGTTTCAACTTAGGTTTC
66 GGTTTCACCCTAGTCAACTTCTTTTCGACTTAGGTTTC
532229 GTCGTAGTCA
Statistics
Matches: 231, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
177 1 0.00
178 135 0.58
179 42 0.18
180 53 0.23
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (179 bp):
TTTCACCCTCATCAACCTCTTTTCGATTTAGGTTTCACCCTAGTCACCTTTTATGTTGACGTGAT
GGTTTCACCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACCTCTTATGTTGACGTG
ATGGCTTCACCTTGATCAACTTCTTCTCTACTTAGGCTTGACACGATCA
Found at i:532227 original size:112 final size:111
Alignment explanation
Indices: 532004--532227 Score: 265
Period size: 111 Copynumber: 2.0 Consensus size: 111
531994 TCGTTTATGC
* ** *
532004 TGACGTGATGGTTTCACCCTAGTCAACTACTTTTCGACTTAGGTTTTGCCCTGGTCACCCTTATG
1 TGACGCGATGGTTTCACCCTAGTCAACTACTTTTCGACTTAGGTTTCACCCTAGTCACCCTTATG
* * *
532069 TTGACGTGATGGCTTCACCTTAGTCAACTTCTTCTCTACTTAGGTT
66 TTGACATGATGGCTTCACCCTAGTCAACTTCTTCTCAACTTAGGTT
* * * *
532115 TGACGCGATGGTTTCACCCTCA-TCAGCCT-CTTTTCGATTTAGGTTTCACCCTAGTTACCTTTT
1 TGACGCGATGGTTTCACCCT-AGTCA-ACTACTTTTCGACTTAGGTTTCACCCTAGTCACC-CTT
* * *
532178 ATGTTGACATGATGGTTTCGCCCTGGTCAACTTCGTT-TCAACTTAGGTT
63 ATGTTGACATGATGGCTTCACCCTAGTCAACTTC-TTCTCAACTTAGGTT
532227 T
1 T
532228 CGTCGTAGTC
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
111 47 0.49
112 46 0.48
113 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (111 bp):
TGACGCGATGGTTTCACCCTAGTCAACTACTTTTCGACTTAGGTTTCACCCTAGTCACCCTTATG
TTGACATGATGGCTTCACCCTAGTCAACTTCTTCTCAACTTAGGTT
Found at i:533400 original size:165 final size:165
Alignment explanation
Indices: 533163--533515 Score: 464
Period size: 165 Copynumber: 2.1 Consensus size: 165
533153 AATTATGGGG
* *
533163 TTTTCTTCTCCGTAAATTTTTTCAAAGGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCATAT
1 TTTTCTTCTCCATAAA-TTTTTCAAAGGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCAAAT
* *
533228 ATTATTATTTAGTTCAT-TTAAATACATTTTTAAAAATTCATTCATTTTCATTCA-TTTTTTAAT
65 ATTATTATTTAATTCATATTAAATACATTTTTAAAAATTCATTCATTTTCA-TCACTTTTTAAAT
* *
533291 TTTTTTCTTGAAATTTCCTTGTTTCT-AAAATAC-GAAA
129 TTTTTCCTTGAAATTCCCTTGTTTCTGAAAA-ACTG-AA
* * * * *
533328 TTTTCTTCTCTATAAATTTTTCGGAAGG-ATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAA
1 TTTTCTTCTCCATAAATTTTTC-AAAGGAATTTTT-TTGGTGTTTAATTTTTAAAATTCACCAAA
* * *
533392 TATTATTATTTAATTCATATTAAATTCGTTTTTAAAAATTCATTCATTTTCATGAGCTTTTTAAA
64 TATTATTATTTAATTCATATTAAATACATTTTTAAAAATTCATTCATTTTCATCA-CTTTTTAAA
* *
533457 TTTTTTCCTTGAAATTCCCTTTTTTTTGAAAAACTGAA
128 TTTTTTCCTTGAAATTCCCTTGTTTCTGAAAAACTGAA
533495 TTTTCTTCTCCATAAATTTTT
1 TTTTCTTCTCCATAAATTTTT
533516 TTGGAGGGAT
Statistics
Matches: 164, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
164 12 0.07
165 62 0.38
166 31 0.19
167 54 0.33
168 5 0.03
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (165 bp):
TTTTCTTCTCCATAAATTTTTCAAAGGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCAAATA
TTATTATTTAATTCATATTAAATACATTTTTAAAAATTCATTCATTTTCATCACTTTTTAAATTT
TTTCCTTGAAATTCCCTTGTTTCTGAAAAACTGAA
Found at i:533579 original size:199 final size:197
Alignment explanation
Indices: 533356--533725 Score: 514
Period size: 197 Copynumber: 1.9 Consensus size: 197
533346 TTTCGGAAGG
* * ***
533356 ATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTCGT
1 ATTTTTCTTGGTTTTTAATTTTTAAAATTCACCAAATATTATTATTTAATTCAT-TTAAATAAAT
** * **
533421 TTTTAAAAATTCATTCATTTTCATGAGCTTTTTAAATTT-TTTCCTTGAAATTCCCTTTTTTTTG
65 TTTTAAAAATTCATTCATTTTCAT-AAATTTTTAAATTTATTT-CTTGAAATTCCC-TTGTTTCC
*
533485 AAAA-ACTG-AA-TTTTCTTCTCCATAAATTTTTTTGGAGGGATTTTCCTCAATTTAAAATTTTT
127 AAAATAC-GAAACTTTT-TTCTCCATAAATTTTTTCGGAGGGATTTTCCTCAATTTAAAATTTTT
533547 TTTGGGGA
190 TTTGGGGA
* *
533555 ATTTTTTTTGGTTTTTAATTTTTAAAATTCACCATATATTATTATTTAATTCATTTAAATAAATT
1 ATTTTTCTTGGTTTTTAATTTTTAAAATTCACCAAATATTATTATTTAATTCATTTAAATAAATT
*
533620 TTTAAAAATTCATTCATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCAAAA
66 TTTAAAAATTCATTCATTTTCATAAATTTTTAAATTTATTTCTTGAAATTCCCTTGTTTCCAAAA
**
533685 TACGAAACTTTTTTCTCTGTAAATTTTTTCGGAGGGATTTT
131 TACGAAACTTTTTTCTCCATAAATTTTTTCGGAGGGATTTT
533726 TCTTAGTTTT
Statistics
Matches: 151, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
196 10 0.07
197 53 0.35
198 38 0.25
199 50 0.33
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (197 bp):
ATTTTTCTTGGTTTTTAATTTTTAAAATTCACCAAATATTATTATTTAATTCATTTAAATAAATT
TTTAAAAATTCATTCATTTTCATAAATTTTTAAATTTATTTCTTGAAATTCCCTTGTTTCCAAAA
TACGAAACTTTTTTCTCCATAAATTTTTTCGGAGGGATTTTCCTCAATTTAAAATTTTTTTTGGG
GA
Found at i:533601 original size:364 final size:363
Alignment explanation
Indices: 533189--533910 Score: 1182
Period size: 364 Copynumber: 2.0 Consensus size: 363
533179 TTTTTTCAAA
* *
533189 GGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCATATATTATTATTTAGTTCATTTAAATACA
1 GGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCATATATTATTATTTAATTCATTTAAATAAA
** * * * *
533254 TTTTTAAAAATTCATTCATTTTCATTCATTTTTTAATTTTTTTCTTGAAATTTCCTTGTTTCTAA
66 TTTTTAAAAATTCATTCATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCAA
*
533319 AATACGAAA-TTTTCTTCTCTATAAA-TTTTTCGGAAGGATTTTTCTTGGTTTTTATTTTTTAAA
131 AATACGAAACTTTT-TTCTCTATAAATTTTTTCGGAAGGATTTTTCTTAGTTTTTATTTTTTAAA
* *
533382 ATTCATCAAATATTATTATTTAATTCATATTAAATTCGTTTTTAAAAATTCATTCATTTTCATGA
195 ATTCATAAAATATTATTATTTAATTCATATTAAATTCATTTTTAAAAATTCATTCATTTTCATGA
*
533447 GCTTTTT-AAA-TTTTTTCCTTGAAATTCCCTTTTTTTTGAAAAACTGAATTTTCTTCTCCATAA
260 G-TTTTTAAAATTTTTTTCCTTGAAATTCCC-TTTTTCTGAAAAACTGAATTTTCTTCTCCATAA
* **
533510 ATTTTTTTGGAGGGATTTTCCTCAATTTAAAATTTTTTTTGG
323 A-TTTTTTAGAAAGATTTTCCTCAATTTAAAATTTTTTTTGG
*
533552 GGAATTTTTTTTGGTTTTTAATTTTTAAAATTCACCATATATTATTATTTAATTCATTTAAATAA
1 GGAA-TTTTTTTGGTGTTTAATTTTTAAAATTCACCATATATTATTATTTAATTCATTTAAATAA
533617 ATTTTTAAAAATTCATTCATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCA
65 ATTTTTAAAAATTCATTCATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCA
* *
533682 AAATACGAAACTTTTTTCTCTGTAAATTTTTTCGGAGGGATTTTTCTTAGTTTTTATTTTTTAAA
130 AAATACGAAACTTTTTTCTCTATAAATTTTTTCGGAAGGATTTTTCTTAGTTTTTATTTTTTAAA
533747 ATTCATAAAATATTATTATTTAATTCATATTAAATTCATTTTTAAAAATTCATTCATTTTCATGA
195 ATTCATAAAATATTATTATTTAATTCATATTAAATTCATTTTTAAAAATTCATTCATTTTCATGA
* * *
533812 GTTTTTAAAATTTTTTTCCTTGAAGTTTCCTTTTTCTGAAAAACTGAATTTTCTTCTTCATAAAT
260 GTTTTTAAAATTTTTTTCCTTGAAATTCCCTTTTTCTGAAAAACTGAATTTTCTTCTCCATAAAT
533877 TTTTTAGAAAGATTTTCCTCAATTTAAAATTTTT
325 TTTTTAGAAAGATTTTCCTCAATTTAAAATTTTT
533911 AAAATTTATC
Statistics
Matches: 333, Mismatches: 21, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
363 4 0.01
364 173 0.52
365 139 0.42
366 17 0.05
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (363 bp):
GGAATTTTTTTGGTGTTTAATTTTTAAAATTCACCATATATTATTATTTAATTCATTTAAATAAA
TTTTTAAAAATTCATTCATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCAA
AATACGAAACTTTTTTCTCTATAAATTTTTTCGGAAGGATTTTTCTTAGTTTTTATTTTTTAAAA
TTCATAAAATATTATTATTTAATTCATATTAAATTCATTTTTAAAAATTCATTCATTTTCATGAG
TTTTTAAAATTTTTTTCCTTGAAATTCCCTTTTTCTGAAAAACTGAATTTTCTTCTCCATAAATT
TTTTAGAAAGATTTTCCTCAATTTAAAATTTTTTTTGG
Found at i:533912 original size:167 final size:166
Alignment explanation
Indices: 533571--533965 Score: 410
Period size: 167 Copynumber: 2.4 Consensus size: 166
533561 TTTGGTTTTT
* * *
533571 AATTTTTAAAATTCACCATATATTATTATTTAATTCAT-TTAAATAAATTTTTAAAAATTCATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-TATTTTTAAAAATTCATTC
*
533635 ATTTTCATAAATTTTTCAATTTATTTCTTGAAATTCCCTTGTTTCCAAAATACGAAACTTTTTTC
65 ATTTTCATAAATTTTTAAATTTATTTCTTGAAATTCCCTTGTTTCCAAAATACGAAACTTTTTTC
* * ** * * * **
533700 TCTGTAAATTTTTTCGGAGGGATTTTTCTTAGTTTTT
130 TCTATAAATTTTTTCAGAAAGATTTTCCTCAATTTAA
* *
533737 ATTTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATTCATTTTTAAAAATTCATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATT-ATTTTTAAAAATTCATTC
* * * * * *
533802 ATTTTCATGAGTTTTTAAAATTTTTTTCCTTGAAGTTTCCTT-TTTCTGAAAA-ACTG-AA-TTT
65 ATTTTCATAAATTTTT-AAATTTATTT-CTTGAAATTCCCTTGTTTC-CAAAATAC-GAAACTTT
533863 TCTTCT-TCATAAATTTTTT-AGAAAGATTTTCCTCAATTTAA
126 T-TTCTCT-ATAAATTTTTTCAGAAAGATTTTCCTCAATTTAA
* * * * *
533904 AATTTTTAAAATTTATCTAATATT-TTCATTAAATTCACATTAAATTAGTTTTGAAAAATTCA
1 AATTTTTAAAATTCATCAAATATTATT-ATTTAATTCATATTAAATTA-TTTTTAAAAATTCA
533966 AATTATTTCA
Statistics
Matches: 191, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
166 37 0.19
167 107 0.56
168 30 0.16
169 17 0.09
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (166 bp):
AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTATTTTTAAAAATTCATTCA
TTTTCATAAATTTTTAAATTTATTTCTTGAAATTCCCTTGTTTCCAAAATACGAAACTTTTTTCT
CTATAAATTTTTTCAGAAAGATTTTCCTCAATTTAA
Found at i:534163 original size:26 final size:27
Alignment explanation
Indices: 534100--534163 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
534090 CTGAGAATTG
534100 ATTTTAATTTTAATTTTTTTATTTTTA
1 ATTTTAATTTTAATTTTTTTATTTTTA
* *
534127 AATTT-ACTTTAATTTTTTTA-TTTT-
1 ATTTTAATTTTAATTTTTTTATTTTTA
534151 ATTTTAGATTTTA
1 ATTTTA-ATTTTA
534164 TTAGGTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 4 0.13
25 4 0.13
26 19 0.61
27 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTAATTTTAATTTTTTTATTTTTA
Found at i:541308 original size:20 final size:20
Alignment explanation
Indices: 541283--541333 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
541273 TTTTTCCAAA
541283 CATCAAATTCATCT-AATATT
1 CATCAAATTC-TCTAAATATT
*
541303 CATCAAATTTCTTTAAATATT
1 CATCAAA-TTCTCTAAATATT
541324 CATCAAATTC
1 CATCAAATTC
541334 CTTCATTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (20 bp):
CATCAAATTCTCTAAATATT
Found at i:543939 original size:20 final size:20
Alignment explanation
Indices: 543911--543967 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
543901 TCCATGTTTA
* *
543911 AATTGTATCGATACATTATG
1 AATTATATCAATACATTATG
543931 AATTATATCAATACATTATG
1 AATTATATCAATACATTATG
*
543951 AATTTTATCAATACATT
1 AATTATATCAATACATT
543968 TGGCCTAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (20 bp):
AATTATATCAATACATTATG
Found at i:545648 original size:29 final size:29
Alignment explanation
Indices: 545572--545795 Score: 166
Period size: 29 Copynumber: 7.7 Consensus size: 29
545562 ATTCCAACCA
* *
545572 TTTTAAAAATGTTTGGGGTCAATTCGTAAT
1 TTTTAAAAGT-TTTGGGGTCAATGCGTAAT
* * * *
545602 TTTCAAAAG-CTTAGGGTCAATGCGTATT
1 TTTTAAAAGTTTTGGGGTCAATGCGTAAT
*
545630 TTTTAAAAGTTTTGGGGTCAAT-CATTAAT
1 TTTTAAAAGTTTTGGGGTCAATGC-GTAAT
* * *
545659 TTTTAAAA-TGTTCGGGGTCAATTCCTAAT
1 TTTTAAAAGT-TTTGGGGTCAATGCGTAAT
**
545688 TTTTAAAAGTTTAAGGGTCAATGCGTAAT
1 TTTTAAAAGTTTTGGGGTCAATGCGTAAT
*** * * * *
545717 TTTTAAAAGTTCAAGTGCCAATCCATAAT
1 TTTTAAAAGTTTTGGGGTCAATGCGTAAT
** *
545746 TTTTAAAAGTTTAAGGGTCAATGAGTAAT
1 TTTTAAAAGTTTTGGGGTCAATGCGTAAT
* * * *
545775 TATGAAAAGTTTAGGAGTCAA
1 TTTTAAAAGTTTTGGGGTCAA
545796 AGTGAAATTT
Statistics
Matches: 157, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
28 25 0.16
29 123 0.78
30 9 0.06
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (29 bp):
TTTTAAAAGTTTTGGGGTCAATGCGTAAT
Found at i:545691 original size:58 final size:56
Alignment explanation
Indices: 545587--545795 Score: 197
Period size: 58 Copynumber: 3.6 Consensus size: 56
545577 AAAATGTTTG
* * * * **
545587 GGGTCAATTCGTAATTTTCAAAAGCTT-AGGGTCAATGCGTATTTTTTAAAAGTTTTG
1 GGGTCAA-TCGTAATTTTTAAAAG-TTCAGGGTCAATTCCTAATTTTTAAAAGTTTAA
* *
545644 GGGTCAATCATTAATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTTAAAAGTTTAA
1 GGGTCAATC-GTAATTTTTAAAA-GTTCAGGGTCAATTCCTAATTTTTAAAAGTTTAA
* *
545702 GGGTCAATGCGTAATTTTTAAAAGTTCAAGTGCCAA-TCCATAATTTTTAAAAGTTTAA
1 GGGTCAAT-CGTAATTTTTAAAAGTTC-AGGGTCAATTCC-TAATTTTTAAAAGTTTAA
* * * *
545760 GGGTCAATGAGTAATTATGAAAAGTTTAGGAGTCAA
1 GGGTCAAT-CGTAATTTTTAAAAGTTCAGG-GTCAA
545796 AGTGAAATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
56 2 0.02
57 29 0.23
58 95 0.75
59 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (56 bp):
GGGTCAATCGTAATTTTTAAAAGTTCAGGGTCAATTCCTAATTTTTAAAAGTTTAA
Found at i:545739 original size:87 final size:86
Alignment explanation
Indices: 545571--545753 Score: 242
Period size: 87 Copynumber: 2.1 Consensus size: 86
545561 CATTCCAACC
* * * *
545571 ATTTTAAAAATGTTTGGGGTCAATTCGTAATTTTCAAAAGCTTAGGGTCAATGCGTATTTTTTAA
1 ATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTCAAAAGCTTAGGGTCAATGCGTAATTTTTAA
*** *
545636 AAGTTTTGGGGTCAAT-CATTA
66 AAGTTCAAGGGCCAATCCA-TA
* *
545657 ATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTTAAAAGTTTAAGGGTCAATGCGTAATTTTTA
1 ATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTCAAAAGCTT-AGGGTCAATGCGTAATTTTTA
*
545722 AAAGTTCAAGTGCCAATCCATA
65 AAAGTTCAAGGGCCAATCCATA
545744 ATTTTTAAAA
1 ATTTTTAAAA
545754 GTTTAAGGGT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 38 0.45
87 44 0.52
88 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (86 bp):
ATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTCAAAAGCTTAGGGTCAATGCGTAATTTTTAA
AAGTTCAAGGGCCAATCCATA
Found at i:545775 original size:87 final size:86
Alignment explanation
Indices: 545571--545795 Score: 238
Period size: 87 Copynumber: 2.6 Consensus size: 86
545561 CATTCCAACC
* ** * *
545571 ATTTTAAAAATGTTTGGGGTCAATTCGTAATTTTCAAAAGCTTAGGGTCAATGCGTATTTTTTAA
1 ATTTTTAAAATGTTAAGGGTCAATTCGTAATTTTCAAAAGTTTAGGGTCAATGCGTAATTTTTAA
*** *
545636 AAGTTTTGGGGTCAATCATTA
66 AAGTTCAAGGGCCAATCATTA
** * *
545657 ATTTTTAAAATGTTCGGGGTCAATTCCTAATTTTTAAAAGTTTAAGGGTCAATGCGTAATTTTTA
1 ATTTTTAAAATGTTAAGGGTCAATTCGTAATTTTCAAAAGTTT-AGGGTCAATGCGTAATTTTTA
*
545722 AAAGTTCAAGTGCCAATCCA-TA
65 AAAGTTCAAGGGCCAAT-CATTA
** * *
545744 ATTTTTAAAA-GTTTAAGGGTCAATGAGTAATTATGAAAAGTTTAGGAGTCAA
1 ATTTTTAAAATG-TTAAGGGTCAATTCGTAATTTTCAAAAGTTTAGG-GTCAA
545796 AGTGAAATTT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
86 42 0.36
87 73 0.62
88 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (86 bp):
ATTTTTAAAATGTTAAGGGTCAATTCGTAATTTTCAAAAGTTTAGGGTCAATGCGTAATTTTTAA
AAGTTCAAGGGCCAATCATTA
Found at i:546465 original size:155 final size:154
Alignment explanation
Indices: 546015--546549 Score: 587
Period size: 155 Copynumber: 3.5 Consensus size: 154
546005 TTTCATAGTG
* *
546015 ATTTCGTGTCCTTTATGGTTACCAAGATACTTTCACGTCGAAA-GTATACTCAAAGGGGCATTTT
1 ATTTCGTGTCCTTTAGGGTTACCAAGATACTTTCACGTC-AAAGGTATAC-CCAAGGGGCATTTT
* * * * * * * *
546079 GGTAATATTTGCTAGAATCGAGTCTTAGGTGGTCA-TTGGTTGCTTTTATGCCAAAGGTCTACAC
64 GGTAATTTTTTCTAGAATCGAGTCCTAGGTAGTCACTTGGTCGCTTTTACGTCAAAGTTCTACAC
* **
546143 TTAAGATAGGTTCGCCCTTTTATGATC
129 TTAGGATAGGTTC-ATCTTTTATGATC
* * * * * * *
546170 ATTTCGTGTCTTTTAGAGTTACCGAGATTCTTTCATGTCAAAGGTATACCCAAAGGG-AATTTGG
1 ATTTCGTGTCCTTTAGGGTTACCAAGATACTTTCACGTCAAAGGTATACCCAAGGGGCATTTTGG
* * ** * * * *
546234 TAA-TTTTTCTAGAACCAAGTCCTAGGTAGTCACTTCTTCGTTTTTACATCAAAGTTTTACATTT
66 TAATTTTTTCTAGAATCGAGTCCTAGGTAGTCACTTGGTCGCTTTTACGTCAAAGTTCTACACTT
546298 AGGATAGGTTCATCTTCTTATGATC
131 AGGATAGGTTCATCTT-TTATGATC
* * * *
546323 CTTTCGTATCTTTTAGGGTTACCAAGATACTTTCACGTCGAAGGTATACCCAAGGGGCATTTTGG
1 ATTTCGTGTCCTTTAGGGTTACCAAGATACTTTCACGTCAAAGGTATACCCAAGGGGCATTTTGG
* * *
546388 TAATTTTTTCTAAAATCGAGTCCTAGGTAGTTACTTGGTCGCTTTTACGTCAAAATTCTACACTT
66 TAATTTTTTCTAGAATCGAGTCCTAGGTAGTCACTTGGTCGCTTTTACGTCAAAGTTCTACACTT
* *
546453 AGGATAGGTTCATCTTTTTTTAATC
131 AGGATAGGTTCATC-TTTTATGATC
* * * * * *
546478 TTTTCGTGTCCTTTAGGGCTA-GAGAGATACTTTCACGTCAAAGATATACCTAA-AGGCATTTTG
1 ATTTCGTGTCCTTTAGGGTTACCA-AGATACTTTCACGTCAAAGGTATACCCAAGGGGCATTTTG
546541 GTAATTTTT
65 GTAATTTTT
546550 ATAGAATTGA
Statistics
Matches: 314, Mismatches: 59, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
152 26 0.08
153 97 0.31
154 37 0.12
155 152 0.48
156 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (154 bp):
ATTTCGTGTCCTTTAGGGTTACCAAGATACTTTCACGTCAAAGGTATACCCAAGGGGCATTTTGG
TAATTTTTTCTAGAATCGAGTCCTAGGTAGTCACTTGGTCGCTTTTACGTCAAAGTTCTACACTT
AGGATAGGTTCATCTTTTATGATC
Found at i:551344 original size:29 final size:29
Alignment explanation
Indices: 551302--551357 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
551292 TTAGCTAGAC
551302 ATAGCCTTTGCAATGAGCATGGCAAGTTA
1 ATAGCCTTTGCAATGAGCATGGCAAGTTA
551331 ATAGCCTTTGCAATGAGCATGGCAAGT
1 ATAGCCTTTGCAATGAGCATGGCAAGT
551358 CAATTCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (29 bp):
ATAGCCTTTGCAATGAGCATGGCAAGTTA
Found at i:552337 original size:30 final size:30
Alignment explanation
Indices: 552301--552361 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
552291 AAACTTTGAT
*
552301 AATGAGATGATTTGTATGTCTTGTATATCA
1 AATGAGATGATTTGTATGCCTTGTATATCA
*
552331 AATGAGATGATTTTTATGCCTTGTATATCA
1 AATGAGATGATTTGTATGCCTTGTATATCA
552361 A
1 A
552362 CCACTAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (30 bp):
AATGAGATGATTTGTATGCCTTGTATATCA
Found at i:554298 original size:4 final size:5
Alignment explanation
Indices: 554252--554300 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
554242 AGTAATTTCA
* *
554252 ATTTT ATTTT GA-TTT AATTA ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
554301 CTTCAACTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
4 5 0.13
5 32 0.84
6 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:554502 original size:13 final size:13
Alignment explanation
Indices: 554473--554501 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
554463 AATAGCTTGG
554473 AAAATGAAAAAAT
1 AAAATGAAAAAAT
554486 AAAATG-AAAAAT
1 AAAATGAAAAAAT
554498 AAAA
1 AAAA
554502 AAAAATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAAAT
Found at i:554656 original size:19 final size:20
Alignment explanation
Indices: 554628--554678 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
554618 AAAAGTGGAG
554628 AGAAA-AAAAAGAAGAAA-AA
1 AGAAAGAAAAA-AAGAAAGAA
554647 AGAAAGAAAAAAAGAAAGAA
1 AGAAAGAAAAAAAGAAAGAA
*
554667 AAAAAGGAAAAA
1 AGAAA-GAAAAA
554679 GTAAAGGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 11 0.39
21 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AGAAAGAAAAAAAGAAAGAA
Found at i:554672 original size:12 final size:12
Alignment explanation
Indices: 554631--554672 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
554621 AGTGGAGAGA
554631 AAAAAAAG-AAG
1 AAAAAAAGAAAG
554642 -AAAAAAGAAAG
1 AAAAAAAGAAAG
554653 AAAAAAAGAAAG
1 AAAAAAAGAAAG
554665 AAAAAAAG
1 AAAAAAAG
554673 GAAAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.24
11 3 0.10
12 19 0.66
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:558073 original size:55 final size:55
Alignment explanation
Indices: 557989--558102 Score: 201
Period size: 55 Copynumber: 2.1 Consensus size: 55
557979 TAGAAAAGGA
* *
557989 ATTTACGATAATTTTTTTTCCAACCTTTTCAAGTACATTGGGAAACCCCTTTTCC
1 ATTTACGATAATTTTTTTCCCAACCTTTTCAACTACATTGGGAAACCCCTTTTCC
*
558044 ATTTACGATAATTTTTTTCCCGACCTTTTCAACTACATTGGGAAACCCCTTTTCC
1 ATTTACGATAATTTTTTTCCCAACCTTTTCAACTACATTGGGAAACCCCTTTTCC
558099 ATTT
1 ATTT
558103 TTGCAATGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.42
Consensus pattern (55 bp):
ATTTACGATAATTTTTTTCCCAACCTTTTCAACTACATTGGGAAACCCCTTTTCC
Found at i:566409 original size:159 final size:157
Alignment explanation
Indices: 566053--566615 Score: 464
Period size: 158 Copynumber: 3.6 Consensus size: 157
566043 GGAGAACGTT
* * * * * *
566053 TTTTTGTTGCCCAATCATGAAAAGAATAGATATCATCACAAGAAACCATGGTTGTCACATTTGAG
1 TTTTTGTTGCCCAATCATGAAAAGAATAGATATTATCACTAGAATCCATGTTTGTCTCATTTGAA
* * * * * *
566118 GGATGAACTTCGATTCAAAGAAAATAGTGGAAAC-AAAAGCTTTTC-TTTCAATCCAAAGCATTA
66 AGATGAACTTTGATTCAAGGAAAATGGTGG-AACGAAAAGCTTTTCTTTTCAAACCAAAGCATCA
566181 ATATCATGTATCCTTATAAGAAAATGTC
130 ATATCATGTATCCTTATAAGAAAATGTC
* * * * * * *
566209 TTTTTGGTGCCAAATC-TGGAAAAGATTTGAAATTA-CTACTAGAATCCAAGTTTATCTCATTTG
1 TTTTTGTTGCCCAATCAT-GAAAAGAATAGATATTATC-ACTAGAATCCATGTTTGTCTCATTTG
* * * *
566272 AAAGATGAACTTTGATTCTTAGGAAAATGGTTGAACGAAAAGCTTTTCTTTTGAAACCAAGGCAT
64 AAAGATGAACTTTGATTC-AAGGAAAATGGTGGAACGAAAAGCTTTTCTTTTCAAACCAAAGCAT
* * *
566337 CAATATTATGTATCCTAATGTAA-AAAATGTG
128 CAATATCATGTATCCT--TATAAGAAAATGTC
* * *
566368 TTTTTGTTGCCCAATCATGAAAATAATGGATATTATCACTAGAATCCATGTTTGTCTCATTTGCA
1 TTTTTGTTGCCCAATCATGAAAAGAATAGATATTATCACTAGAATCCATGTTTGTCTCATTTGAA
* * * * *
566433 AG-TGAACTTTAATTCCAAGG-AAATGGATGGAAAGAAAAGCTTTTC-TTGCAATGCCAAAACAT
66 AGATGAACTTTGATT-CAAGGAAAATGG-TGGAACGAAAAGCTTTTCTTTTCAA-ACCAAAGCAT
** * * *
566495 CACCATCGTGTATCCTAATGAGTAAAATGTC
128 CAATATCATGTATCCTTATAAG-AAAATGTC
** * * * * * * * * *
566526 TTTAAGGTGCCAAATCACGAAATGAATAGACATTATTA-T-GTAATCAAAGTTTATCTCATTT-A
1 TTTTTGTTGCCCAATCATGAAAAGAATAGATATTATCACTAG-AATCCATGTTTGTCTCATTTGA
* *
566588 AAGGATGAACTTTAATTCTAGGCAAAAT
65 AA-GATGAACTTTGATTCAAGG-AAAAT
566616 AGGGGAAAAT
Statistics
Matches: 321, Mismatches: 67, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
155 2 0.01
156 70 0.22
157 54 0.17
158 123 0.38
159 66 0.21
160 6 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (157 bp):
TTTTTGTTGCCCAATCATGAAAAGAATAGATATTATCACTAGAATCCATGTTTGTCTCATTTGAA
AGATGAACTTTGATTCAAGGAAAATGGTGGAACGAAAAGCTTTTCTTTTCAAACCAAAGCATCAA
TATCATGTATCCTTATAAGAAAATGTC
Found at i:568399 original size:19 final size:19
Alignment explanation
Indices: 568377--568413 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
568367 TTTTCCTATT
*
568377 AAACCAAGGCATCCATGCA
1 AAACCAAGGCATCAATGCA
568396 AAACCAAGGCATCAATGC
1 AAACCAAGGCATCAATGC
568414 GTGTATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.30, G:0.16, T:0.11
Consensus pattern (19 bp):
AAACCAAGGCATCAATGCA
Found at i:569372 original size:159 final size:157
Alignment explanation
Indices: 568392--569631 Score: 515
Period size: 158 Copynumber: 7.9 Consensus size: 157
568382 AAGGCATCCA
* * * * * * *
568392 TGCAAAACCAAGGCATCAAT-GCGTGTATCCCAATAAGGAGAAC-ATGTTTATAG-CACCAAATC
1 TGCAAAACCAAAGCATCAATATCATGTATCCCAATGAGAAG-ACTAT-TTTATGGTGA-CAAATC
* * * * * * * *
568454 ATGAAAAGAATGGAGATTATTGCT-AGAATACATGTTTGTCTCATTTGTATGATGATCTTTGATT
63 ATGAAAAGAATGGAGATTAATG-TGAGAATCCATGTTTGACTCGTTTGAAGGATGAACTTTAATT
* * * *
568518 CTAAGGAAAATGGT-CATAAAAAAAACTTTTCT
127 CTAAGAAAAATGGTGGA-AAGAAAAGC-TTTCT
* * * * * * *
568550 CGCTAAAGCAAAGCATTAATATTATGTGTCCCAATGA-AGAGAAC-ATTTTTATAGTG-CAAAT-
1 TGCAAAACCAAAGCATCAATATCATGTATCCCAATGAGA-AG-ACTA-TTTTATGGTGACAAATC
* * * ** * * ** * *
568611 TTAGGAAAGAATGGAGATTATTGCAAGAATTCTTGTTTGACTTATTT-AAGGGATGAATTTTTAT
63 AT-GAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAA-GGATGAACTTTAAT
* ** * *
568675 TTTAAGAAAAATAATGGAAA-AGAATGATTTTCT
126 TCTAAGAAAAATGGTGGAAAGA-AAAG-CTTTCT
* * * ** * *
568708 T-CTGAAATCAAAGCATTAATATCATGTATCATAAGGAG-A-AC-ATGTTTA-GGT-AGCAAAAA
1 TGC-AAAACCAAAGCATCAATATCATGTATCCCAATGAGAAGACTAT-TTTATGGTGA-C-AAAT
* * *** * ** * * *
568767 CATGAGAACG-ATGGAGATTATTACAAGAATCTATGTTTCTCCCATTTGAAGGATGAACTTTGAT
62 CATGA-AAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAAGGATGAACTTTAAT
*
568831 TCTAA-AGAAAATGGTAGAAAGAAAAGCTTTTCT
126 TCTAAGA-AAAATGGTGGAAAGAAAAGC-TTTCT
* ** * * * *** * **
568864 AGTGAAACCAAAGCATTAGTGAT-AT-TCATCCTAATGA-AGAGAAGGTGTTTATAGTTTCAAAT
1 TGCAAAACCAAAGCATCAAT-ATCATGT-ATCCCAATGAGA-AGACTAT-TTTATGGTGACAAAT
* * * * * ** *
568926 CATGAAAAAAAT--AGATTATTATGAGAATCTAAGTTT-ATCTTATTTGATA-GACGAACTTTAA
62 CATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGA-CTCGTTTGA-AGGATGAACTTTAA
* * * *
568987 ---TAAGGAAAATGGTGGAAACAAAAGTTTTTT
125 TTCTAAGAAAAATGGTGGAAAGAAAAGCTTTCT
** * * * * * * * *
569017 TGTGAAACCAAAGCATCAATATTATGTA-CCCTAATAAGGAGAATGTGTTTATTGTGCCAAATAA
1 TGCAAAACCAAAGCATCAATATCATGTATCCC-AATGAGAAGACTAT-TTTATGGTGACAAATCA
* * * ** * * * * *
569081 TGAAAATAATGGAGATTATTGTGAGAATCAATGAATAACTCATTT-AAGAGATTAATTTTAATTT
64 TGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAAG-GATGAACTTTAATTC
* *
569145 TAA-AGAAAATGGTAGAAGGAAAAGCTTTTCT
128 TAAGA-AAAATGGTGGAAAGAAAAGC-TTTCT
* *
569176 TGCAAAACTGAAGGCATCAATATCATGTA-CCCTAATGAGAAGACTATATTTATGGTGACAAATC
1 TGCAAAAC-CAAAGCATCAATATCATGTATCCC-AATGAGAAGACTAT-TTTATGGTGACAAATC
* *
569240 ATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTG-C-C-TTATTAAGGGATGATCTTTAAT
63 ATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTT-TGAA-GGATGAACTTTAAT
* *
569302 TCTATGAAAAATGGTGGAAAGAAATGCTTTCT
126 TCTAAGAAAAATGGTGGAAAGAAAAGCTTTCT
* * * *
569334 TGCAAAACCAAAGCACCAATATATCATGTATTCCAATGAGGAGAAC-ATTTTATGGTGTCAAA-C
1 TGCAAAACCAAAGCATC-A-ATATCATGTATCCCAATGAGAAG-ACTATTTTATGGTGACAAATC
* * *
569397 AATGAAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCGTTTGAAGGATGAACTTTGATT
63 -ATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAAGGATGAACTTTAATT
* * *
569462 TTAAGGAAAATGGTGGAAAGAAAAGATTTTCT
127 CTAAGAAAAATGGTGGAAAGAAAAG-CTTTCT
* * * * * * * * *
569494 TGTAACATCAAAGCATCAAGATCGTGTCTCCCAATGAGAAGAATGTGTTTATAGT-ACCAAGATC
1 TGCAAAACCAAAGCATCAATATCATGTATCCCAATGAGAAGACTAT-TTTATGGTGA-CAA-ATC
* ** ** * ** * * *
569558 ATGAAAAGAATGGATATTTTTACGAGAATCCTTGTTTGACTAATTTGAAGGATAAACGTTGATTC
63 ATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAAGGATGAACTTTAATTC
569623 TAATGAAAA
128 TAA-GAAAA
569632 TAATGGAGAT
Statistics
Matches: 833, Mismatches: 180, Indels: 135
0.73 0.16 0.12
Matches are distributed among these distances:
152 4 0.00
153 58 0.07
154 25 0.03
155 44 0.05
156 93 0.11
157 63 0.08
158 221 0.27
159 150 0.18
160 168 0.20
161 7 0.01
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (157 bp):
TGCAAAACCAAAGCATCAATATCATGTATCCCAATGAGAAGACTATTTTATGGTGACAAATCATG
AAAAGAATGGAGATTAATGTGAGAATCCATGTTTGACTCGTTTGAAGGATGAACTTTAATTCTAA
GAAAAATGGTGGAAAGAAAAGCTTTCT
Found at i:569411 original size:158 final size:158
Alignment explanation
Indices: 568992--569512 Score: 461
Period size: 160 Copynumber: 3.3 Consensus size: 158
568982 TTTAATAAGG
* * * ** *
568992 AAAATGGTGGAAACAAAAGTTTTTTTGTGAAACCAAAGCATCAATAT-T-ATGTACCCTAATAAG
1 AAAATGGTGGAAAGAAAAGCTTTCTTGCAAAACCAAAGCATCAATATATCATGTACCCTAATGAG
** * * * * * * ** **
569055 GAGAATGTGTTTATTGTGCCAAATAATGAAAATAATGGAGATTATTGTGAGAATCAATGAATAAC
66 GAGAACATATTTATGGTGACAAACAATGAAAAGAATGGAGATTATTGTGAGAATCCATGTTTGCC
* * * *
569120 TCATTTAAGAGATTAAT-TTTAATTTTAAA
131 TTA-TTAAGGGA-TGATCTTTAATTTTAGA
* * * *
569149 GAAAATGGTAGAAGGAAAAGCTTTTCTTGCAAAACTGAAGGCATC-A-ATATCATGTACCCTAAT
1 -AAAATGGTGGAAAGAAAAGC-TTTCTTGCAAAAC-CAAAGCATCAATATATCATGTACCCTAAT
* *
569212 GAGAAG-ACTATATTTATGGTGACAAATC-ATGAAAAGAATGGAGATTAATGTGAGAATCCATGT
63 GAGGAGAAC-ATATTTATGGTGACAAA-CAATGAAAAGAATGGAGATTATTGTGAGAATCCATGT
*
569275 TTGCCTTATTAAGGGATGATCTTTAATTCTATGA
126 TTGCCTTATTAAGGGATGATCTTTAATTTTA-GA
* * *
569309 AAAATGGTGGAAAGAAATGCTTTCTTGCAAAACCAAAGCACCAATATATCATGTATTCC-AATGA
1 AAAATGGTGGAAAGAAAAGCTTTCTTGCAAAACCAAAGCATCAATATATCATGTA-CCCTAATGA
* *
569373 GGAGAACAT-TTTATGGTGTCAAACAATGAAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGA
65 GGAGAACATATTTATGGTGACAAACAATGAAAAGAATGGAGATTATTGTGAGAATCCATGTTTG-
* * * *
569437 CTCGTT-TGAA-GGATGAACTTTGATTTTAAGG
129 C-C-TTATTAAGGGATGATCTTTAATTTT-AGA
* * * *
569468 AAAATGGTGGAAAGAAAAGATTTTCTTGTAACATCAAAGCATCAA
1 AAAATGGTGGAAAGAAAAG-CTTTCTTGCAAAACCAAAGCATCAA
569513 GATCGTGTCT
Statistics
Matches: 294, Mismatches: 51, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
157 7 0.02
158 84 0.29
159 100 0.34
160 101 0.34
161 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (158 bp):
AAAATGGTGGAAAGAAAAGCTTTCTTGCAAAACCAAAGCATCAATATATCATGTACCCTAATGAG
GAGAACATATTTATGGTGACAAACAATGAAAAGAATGGAGATTATTGTGAGAATCCATGTTTGCC
TTATTAAGGGATGATCTTTAATTTTAGA
Found at i:569427 original size:318 final size:317
Alignment explanation
Indices: 568415--569571 Score: 717
Period size: 314 Copynumber: 3.7 Consensus size: 317
568405 CATCAATGCG
* **
568415 TGTATCCC-AATAAGGAGAACATGTTTATAGCACCAAATC-ATGAAAAGAATGGAGATTATTGCT
1 TGTA-CCCTAATAAGGAGAACATGTTTATGGTGCCAAA-CAATGAAAAGAATGGAGATTATTG-T
** ** * * * * * * *
568478 -AGAAT-ACATGTTTGTCTCATTTGTATGATGATCTTTGATTCTAAGGAAAATGGTCATAAA-AA
63 GAGAATCA-ATGAATAACTCATTTGAAGGATGAACTTTAATTTTAAAGAAAATGGT-AGAAAGAA
* * * * * * * * *
568540 AA-ACTTTTCTCGCTAAAGCAAAGCATTAATATTATGTGTCCCAATGA-AGAGAACATTTTTATA
126 AAGA-TTTTCTTGCAAAATCAAAGCATCAAGATCATGTCTCCCAATGAGA-AGAATATATTTATA
* * * * ** * * *
568603 GT-GCAA-AT-TTAGGAAAGAATGGAGATTATTGCAAGAATTCTTGTTTGACTTATTTAAGGGAT
189 GTACCAAGATCAT-GAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTA-TTAAGGGAT
* * * ** * * * * **
568665 GAAT-TTTTATTTTAAGAAAAATAATGGAAA-AGAATGATTTTCTT-CTGAAATCAAAGCATTAA
252 G-ATCTTTAATTCTATGAAAAATGGTGGAAACA-AAAG-CTTTCTTGC-AAAACCAAAGCACCAA
*
568727 TATCA
313 TATTA
* * * **
568732 TGTA---TCATAAGGAGAACATGTTTA-GGTAG-CAAAAACATGAGAACG-ATGGAGATTATTAC
1 TGTACCCTAATAAGGAGAACATGTTTATGGT-GCCAAACA-ATGA-AAAGAATGGAGATTATTGT
* * ** ** * * *
568791 AAGAATCTATGTTTCTCCCATTTGAAGGATGAACTTTGATTCTAAAGAAAATGGTAGAAAGAAAA
63 GAGAATCAATGAATAACTCATTTGAAGGATGAACTTTAATTTTAAAGAAAATGGTAGAAAGAAAA
* * ** * * * * ** *
568856 GCTTTTCTAGTGAAACCAAAGCATTAGTGAT-AT-TCATCCTAATGA-AGAGAAGGTGTTTATAG
128 GATTTTCTTGCAAAATCAAAGCATCA-AGATCATGTC-TCCCAATGAGA-AGAATATATTTATAG
** * * * * * ** * ** *
568918 TTTCAA-ATCATGAAAAAAAT--AGATTATTATGAGAATCTAAGTTTATCTTATTTGATAGACGA
190 TACCAAGATCATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTA-TTAAGGGATGA
* * * * * ** *
568980 ACTTTAA---TAAGGAAAATGGTGGAAACAAAAGTTTTTTTGTGAAACCAAAGCATCAATATTA
254 TCTTTAATTCTATGAAAAATGGTGGAAACAAAAGCTTTCTTGCAAAACCAAAGCACCAATATTA
** * * *
569041 TGTACCCTAATAAGGAGAATGTGTTTATTGTGCCAAATAATGAAAATAATGGAGATTATTGTGAG
1 TGTACCCTAATAAGGAGAACATGTTTATGGTGCCAAACAATGAAAAGAATGGAGATTATTGTGAG
* * * *
569106 AATCAATGAATAACTCATTT-AAGAGATTAATTTTAATTTTAAAGAAAATGGTAGAAGGAAAAGC
66 AATCAATGAATAACTCATTTGAAG-GATGAACTTTAATTTTAAAGAAAATGGTAGAAAGAAAAGA
* * * * * *
569170 TTTTCTTGCAAAACTGAAGGCATCAATATCATGTAC-CCTAATGAGAAGACTATATTTATGGTGA
130 TTTTCTTGCAAAA-TCAAAGCATCAAGATCATGT-CTCCCAATGAGAAGAATATATTTATAGT-A
569234 -CAA-ATCATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTATTAAGGGATGATCT
192 CCAAGATCATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTATTAAGGGATGATCT
* *
569297 TTAATTCTATGAAAAATGGTGGAAAGAAATGCTTTCTTGCAAAACCAAAGCACCAATATATCA
257 TTAATTCTATGAAAAATGGTGGAAACAAAAGCTTTCTTGCAAAACCAAAGCACCAATAT-T-A
* * *
569360 TGTATTCC-AATGAGGAGAACAT-TTTATGGTGTCAAACAATGAAAAGAATGGAGATTATTGTGA
1 TGTA-CCCTAATAAGGAGAACATGTTTATGGTGCCAAACAATGAAAAGAATGGAGATTATTGTGA
** ** * * * * *
569423 GAATCCTTGTTTGACTCGTTTGAAGGATGAACTTTGATTTTAAGGAAAATGGTGGAAAGAAAAGA
65 GAATCAATGAATAACTCATTTGAAGGATGAACTTTAATTTTAAAGAAAATGGTAGAAAGAAAAGA
* * * * *
569488 TTTTCTTGTAACATCAAAGCATCAAGATCGTGTCTCCCAATGAGAAGAATGTGTTTATAGTACCA
130 TTTTCTTGCAAAATCAAAGCATCAAGATCATGTCTCCCAATGAGAAGAATATATTTATAGTACCA
569553 AGATCATGAAAAGAATGGA
195 AGATCATGAAAAGAATGGA
569572 TATTTTTACG
Statistics
Matches: 654, Mismatches: 145, Indels: 81
0.74 0.16 0.09
Matches are distributed among these distances:
309 28 0.04
310 18 0.03
311 6 0.01
312 98 0.15
313 93 0.14
314 144 0.22
315 42 0.06
316 3 0.00
317 87 0.13
318 114 0.17
319 19 0.03
320 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (317 bp):
TGTACCCTAATAAGGAGAACATGTTTATGGTGCCAAACAATGAAAAGAATGGAGATTATTGTGAG
AATCAATGAATAACTCATTTGAAGGATGAACTTTAATTTTAAAGAAAATGGTAGAAAGAAAAGAT
TTTCTTGCAAAATCAAAGCATCAAGATCATGTCTCCCAATGAGAAGAATATATTTATAGTACCAA
GATCATGAAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTATTAAGGGATGATCTTTAA
TTCTATGAAAAATGGTGGAAACAAAAGCTTTCTTGCAAAACCAAAGCACCAATATTA
Found at i:569528 original size:158 final size:158
Alignment explanation
Indices: 568396--571081 Score: 1129
Period size: 159 Copynumber: 17.1 Consensus size: 158
568386 CATCCATGCA
* * * * * **
568396 AAACCAAGGCATCAAT-GCGTGTATCCCAATAAGGAGAACATGTTTATAGCACCAAATCATGAAA
1 AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGAAA
* * * * * *
568460 AGAATGGAGATTATTGCT-AGAATACATGTTTGTCTCATTTGTATGATGATCTTTGATTCTAAGG
66 AGAATGGAGATTATTG-TGAGAATCCTTGTTTGACTCATTTGAAGGATGAACTTTGATTCTAAGG
* * *
568524 AAAATGGT-CATAA-AAAAAACTTTTCTCGCT
130 AAAATGGTGGA-AAGAAAAGA-TTTTCTTG-T
* * * * * * * *
568554 AAAGCAAAGCATTAATATTATGTGTCCCAATGAAGAGAACATTTTTATAGTG-CAAAT-TTAGGA
1 AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCAT-GAA
** * * * * *
568617 AAGAATGGAGATTATTGCAAGAATTCTTGTTTGACTTATTT-AAGGGATGAATTTTTATTTTAAG
65 AAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAA-GGATGAACTTTGATTCTAAG
* ** * *
568681 AAAAATAATGGAAA-AGAATGATTTTCTTCT
129 GAAAATGGTGGAAAGA-AAAGATTTTCTTGT
* * * * * * *
568711 GAAATCAAAGCATTAATATCATGTAT--C-ATAAGGAGAACATGTTTA-GGTAGCAAAAACATGA
1 -AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGT-GCCAAATCATGA
* *** ** *
568772 GAACG-ATGGAGATTATTACAAGAAT-CTATGTTTCTCCCATTTGAAGGATGAACTTTGATTCTA
64 -AAAGAATGGAGATTATTGTGAGAATCCT-TGTTTGACTCATTTGAAGGATGAACTTTGATTCTA
* * * *
568835 AAGAAAATGGTAGAAAGAAAAGCTTTTCTAGT
127 AGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * * ** **
568867 GAAACCAAAGCATTAGTGAT-AT-TCATCCTAATGAAGAGAAGGTGTTTATAGTTTCAAATCATG
1 -AAACCAAAGCATCAAT-ATCATGTC-TCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATG
* * * * * *
568930 AAAAAAAT--AGATTATTATGAGAAT-CTAAGTTT-ATCTTATTTGATA-GACGAACTTT-A--A
63 AAAAGAATGGAGATTATTGTGAGAATCCT-TGTTTGA-CTCATTTGA-AGGATGAACTTTGATTC
* *
568987 TAAGGAAAATGGTGGAAACAAAAG-TTTTTTTGT
125 TAAGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * ** * *
569020 GAAACCAAAGCATCAATATTATGTAC-CCTAATAAGGAGAATGTGTTTATTGTGCCAAATAATGA
1 -AAACCAAAGCATCAATATCATGT-CTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGA
* ** ** * * * * *
569084 AAATAATGGAGATTATTGTGAGAATCAATGAATAACTCATTT-AAGAGATTAATTTTAATTTTAA
64 AAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAG-GATGAACTTTGATTCTAA
* * * * *
569148 AGAAAATGGTAGAAGGAAAAGCTTTTCTTGCA
128 GGAAAATGGTGGAAAGAAAAGATTTTCTTG-T
* * * * * * *
569180 AAACTGAAGGCATCAATATCATGTAC-CCTAATGAGAAG-ACTATATTTATGGTGACAAATCATG
1 AAAC-CAAAGCATCAATATCATGT-CTCCCAATGAGGAGAAC-ATGTTTATAGTGCCAAATCATG
* * * * * *
569243 AAAAGAATGGAGATTAATGTGAGAATCCATGTTTGCCTTA-TT-AAGGGATGATCTTTAATTCTA
63 AAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAA-GGATGAACTTTGATTCTA
* * * * *
569306 TGAAAAATGGTGGAAAGAAATG-CTTTCTTGCA
127 AGGAAAATGGTGGAAAGAAAAGATTTTCTTG-T
* * * * *
569338 AAACCAAAGCACCAATATATCATGTATTCCAATGAGGAGAACAT-TTTATGGTGTCAAA-CAATG
1 AAACCAAAGCATC-A-ATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATC-ATG
* *
569401 AAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCGTTTGAAGGATGAACTTTGATTTTAA
63 AAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAGGATGAACTTTGATTCTAA
569466 GGAAAATGGTGGAAAGAAAAGATTTTCTTGT
128 GGAAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * * ** *
569497 AACATCAAAGCATCAAGATCGTGTCTCCCAATGAGAAGAATGTGTTTATAGTACCAAGATCATGA
1 AA-ACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAA-ATCATGA
* * ** * * * *
569562 AAAGAATGGATATTTTTACGAGAATCCTTGTTTGACTAATTTGAAGGATAAACGTTGATTCTAAT
64 AAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAGGATGAACTTTGATTCTAAG
** * **
569627 GAAAATAATGG--AGATAATGA-TTTCTTACA
129 GAAAATGGTGGAAAGA-AAAGATTTTCTT-GT
* * * ** ** * * *
569656 AAACCAAAGTATCACTATCACGTAGCTTAATAAGGAAAAC-TGCTTAT-G-G--AAA-C------
1 AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGAAA
* * * ** * * * *
569709 --AATGGAAATTATTATAAGAAT-CTAATTTTATGTCATTTG-AGGA-AAACTTTTATTCTAAGG
66 AGAATGGAGATTATTGTGAGAATCCTTGTTTGA-CTCATTTGAAGGATGAACTTTGATTCTAAGG
* *
569769 AAAAT--TGGAAACAAAAGATTTTCTTAT
130 AAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * * * * * *
569796 GAAACCAAAGCATTAATGTCATGTATCCTAATGAGAAGAACATGTTTTTGGTACCAAATCATGAA
1 -AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGAA
* * * ** ** * **
569861 AAAAATGGAGATTATTATGTGAATCCAAGTTTCTCTCATTTGAGGGACAAACTTT-ATTCTAAGG
65 AAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAGGATGAACTTTGATTCTAAGG
569925 AAAATGGTGGAAAGAAAAG-TTTCTCTTGT
130 AAAATGGTGGAAAGAAAAGATTT-TCTTGT
* * * * * *
569954 GAAACCAAAGCATTAATATTATGTATTCAAATGAGGAG-A-ATGTCTCTATGGAT-CCAAATCAT
1 -AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGT-T-TATAG-TGCCAAATCAT
* * * * ** * * * * *
570016 GAAAATATTCGATATTACTACT-AGAACCCATGTTT-ATGTCATTTTAGGGATGAACTTTGATTC
62 GAAAAGAATGGAGATTA-TTGTGAGAATCCTTGTTTGA-CTCATTTGAAGGATGAACTTTGATTC
* * *
570079 CAAGGAAAATGCTGGAAAGAAAAGCTTTTCTTGT
125 TAAGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * * * * *
570113 AAAACCAAAGCATCAATATTATGTAC-CCTAATAAGGAGAACGTGTTT-TAATTGCCCAATCAAG
1 -AAACCAAAGCATCAATATCATGT-CTCCCAATGAGGAGAACATGTTTAT-AGTGCCAAATCATG
** * * * * * *
570176 TGAA-AATGGAGATTATTATGAGAATCCATATTTGTCTCATTTG-AGGAATAAACTTTGTTTCTA
63 AAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAGG-ATGAACTTTGATTCT-
* * * ** *
570239 AAGGAAAATAGAGGAGAGAAAATCTTTTCTTGCC
126 AAGGAAAATGGTGGAAAGAAAAGATTTTCTTG-T
** * ** * * * * *
570273 AAACCAAAGCATCAATATTGTGTAT-CTTAT-AGAAGATA-ATATCTTGTTGTTGCCCAATCATG
1 AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGA-ACATGT-TTATAG-TGCCAAATCATG
* * ** ** * * * *
570335 AAAAAAATGGATATTATTACGAGAATCCAAGTTTGTCTCATTTGACA-GATAAACTTTAAATCTA
63 AAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGA-AGGATGAACTTTGATTCTA
* * * *
570399 ATGAAAATGGTGGAAAGAATAGCTTTTCTTGC
127 AGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
*** * * * * * *
570431 AAATCCTTCGCATCATTATCATG-CATCCTAATGAGGAGAATATGTTTATGGTACCAAATCA-CA
1 AAA-CCAAAGCATCAATATCATGTC-TCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGA
* * ** * * * **
570494 AAATGATTGAAGATTATTACGAAAATCCTAGTTTGTCTCATTTG-AGAGACAAACTTTGATTCTA
64 AAA-GAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAG-GATGAACTTTGATTCTA
* * * *
570558 AGGAAAATGGTGCAAGGAAAAGCTTTTCTTGC
127 AGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
* * * * * **
570590 AAATCCAAAGCATCATTA-CTGTGTATGCTAATGAGGAGAATGTGTCTT-T-GTTGTCC-AATCA
1 AAA-CCAAAGCATCAATATC-ATGTCTCCCAATGAGGAGAACATGT-TTATAG-TG-CCAAATCA
** ** *** * *
570651 TGAAAAGAATGGAGATTATAATGAGAATCCAAGTTT-A-TCCAATTTGACCAAAGAACTTTGATC
61 TGAAAAGAATGGAGATTATTGTGAGAATCCTTGTTTGACT-C-ATTTGAAGGATGAACTTTGATT
* * * * * *
570714 CTATGGCAAGTAGTGGCAAGAAAA-ACTTTTCTTAT
124 CTAAGGAAAATGGTGGAAAGAAAAGA-TTTTCTTGT
* * * * * * * ** *
570749 GAAACTAAGGCATCAATATCCTATATCCCAATGAGAAAAATGTGTTTATAGTGCCAAATTATGAA
1 -AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGAA
* * ** ** ** * *
570814 AAGAATGAAAATTATTACGAGAATCCAAGTTTGTGTCATTT-AACGAATGAACATTGATTCTAAG
65 AAGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAA-GGATGAACTTTGATTCTAAG
* * **
570878 GAAAATGGTGGAAGGAAAAGCTTTTCTTACA
129 GAAAATGGTGGAAAGAAAAGATTTTCTT-GT
* * * * * * * * *
570909 AAACTAAAGTATCAATATCGTGTAT-CTAATGAGAAGAACAAT-TTT-TTGTTGTCTAATCATGA
1 AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAAC-ATGTTTATAG-TGCCAAATCATGA
* * * * * * * *
570971 AAAGAATAGATATTATTATGAGAAT-CTAAGTTGGTCT-ATGTTTAAGGATGAACATTGATTCTA
64 AAAGAATGGAGATTATTGTGAGAATCCT-TGTTTGACTCAT-TTGAAGGATGAACTTTGATTCTA
** * * *
571034 AGGAAAATGG-CCAAAGGAAAGCTTTACTTGT
127 AGGAAAATGGTGGAAAGAAAAGATTTTCTTGT
571065 GAAACCAAAGCATCAAT
1 -AAACCAAAGCATCAAT
571082 TATCGAAAAA
Statistics
Matches: 1942, Mismatches: 448, Indels: 277
0.73 0.17 0.10
Matches are distributed among these distances:
139 3 0.00
140 4 0.00
141 57 0.03
142 15 0.01
143 24 0.01
146 3 0.00
147 1 0.00
151 1 0.00
152 3 0.00
153 64 0.03
154 25 0.01
155 75 0.04
156 118 0.06
157 120 0.06
158 494 0.25
159 676 0.35
160 244 0.13
161 14 0.01
162 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (158 bp):
AAACCAAAGCATCAATATCATGTCTCCCAATGAGGAGAACATGTTTATAGTGCCAAATCATGAAA
AGAATGGAGATTATTGTGAGAATCCTTGTTTGACTCATTTGAAGGATGAACTTTGATTCTAAGGA
AAATGGTGGAAAGAAAAGATTTTCTTGT
Found at i:572850 original size:28 final size:28
Alignment explanation
Indices: 572816--572890 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
572806 TTCCTTTTCA
572816 TTGATTTCTCTTCCTTTGATAATTCTTG
1 TTGATTTCTCTTCCTTTGATAATTCTTG
* * *
572844 CTT-ATTTCAT-TTCCCTTCATATTTCTTG
1 -TTGATTTC-TCTTCCTTTGATAATTCTTG
*
572872 TTGATTTCACTT-CTTTGAT
1 TTGATTTCTCTTCCTTTGAT
572891 CTTTTTATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
27 7 0.19
28 27 0.73
29 3 0.08
ACGTcount: A:0.15, C:0.20, G:0.08, T:0.57
Consensus pattern (28 bp):
TTGATTTCTCTTCCTTTGATAATTCTTG
Found at i:587490 original size:20 final size:20
Alignment explanation
Indices: 587437--587509 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
587427 AAATGGTCTA
*
587437 GTATCGATACAATAAACCTTA-
1 GTATCGATAC-ATTAA-CTTAT
* *
587458 GTATTGATACATTCACTTAT
1 GTATCGATACATTAACTTAT
* *
587478 GTATCGATTCATTAACTTGTT
1 GTATCGATACATTAACTT-AT
587499 GTATCGATACA
1 GTATCGATACA
587510 AATTGTAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 4 0.10
20 18 0.43
21 20 0.48
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTAACTTAT
Found at i:588628 original size:28 final size:28
Alignment explanation
Indices: 588597--588657 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
588587 GCTCGTGTGG
588597 GCTTTTTGGGTGCCACCAACTCATGCAA
1 GCTTTTTGGGTGCCACCAACTCATGCAA
* * * *
588625 GCTTTTTGGGTGCCGCTAGCTCATGCAG
1 GCTTTTTGGGTGCCACCAACTCATGCAA
588653 GCTTT
1 GCTTT
588658 AAGAAAGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (28 bp):
GCTTTTTGGGTGCCACCAACTCATGCAA
Found at i:588956 original size:33 final size:33
Alignment explanation
Indices: 588914--588978 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
588904 GCAAGCTTTG
* *
588914 AGAAAGGATGCCATCAGCTTTTATGGGCTTTTA
1 AGAAAGGATGCCACCAGCTTGTATGGGCTTTTA
* *
588947 AGAAAGGATGCTACCAGCTTGTGTGGGCTTTT
1 AGAAAGGATGCCACCAGCTTGTATGGGCTTTT
588979 GGGCGTCGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (33 bp):
AGAAAGGATGCCACCAGCTTGTATGGGCTTTTA
Found at i:589057 original size:31 final size:31
Alignment explanation
Indices: 589019--589148 Score: 136
Period size: 31 Copynumber: 4.0 Consensus size: 31
589009 AAGGTTTGGT
* **
589019 TGCCACCAACTTGTGTGAACTTTGAATGGGA
1 TGCCACCAACTTGTGTGGACTTTGAAAAGGA
*
589050 TGCCACCAACTTGTGTGGACTTTGAAAAGGC
1 TGCCACCAACTTGTGTGGACTTTGAAAAGGA
* *
589081 TGCCACCAACTTGTGTGGACTTCGGAAAAGATTTA
1 TGCCACCAACTTGTGTGGACTT-TGAAAAG---GA
*
589116 CTTGCCAACAACTTGTGTGGACTTTG-AAAGGA
1 --TGCCACCAACTTGTGTGGACTTTGAAAAGGA
589148 T
1 T
589149 TTGACTCCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
30 1 0.01
31 49 0.59
32 7 0.08
35 4 0.05
36 1 0.01
37 21 0.25
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGACTTTGAAAAGGA
Found at i:589518 original size:18 final size:17
Alignment explanation
Indices: 589487--589520 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
589477 TTTAATAAAA
589487 TTTCTGACACAAGTTTT
1 TTTCTGACACAAGTTTT
*
589504 TTTCTTGACAGAAGTTT
1 TTTC-TGACACAAGTTT
589521 AGGACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (17 bp):
TTTCTGACACAAGTTTT
Found at i:589946 original size:28 final size:27
Alignment explanation
Indices: 589915--589976 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
589905 GACTCTAATG
*
589915 GGGATTGCAATTCATCCTGGTTCCACTA
1 GGGATTGCAATT-ATCCTGATTCCACTA
* * * *
589943 GGGATTGGAATTTTCTTGATTGCACTA
1 GGGATTGCAATTATCCTGATTCCACTA
589970 GGGATTG
1 GGGATTG
589977 TAGGCTGTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (27 bp):
GGGATTGCAATTATCCTGATTCCACTA
Found at i:603907 original size:42 final size:42
Alignment explanation
Indices: 603844--603965 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
603834 TAGCCCTCAA
603844 AGAGA-AACAAGAGATAGAAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAAC-AGAGATAGAAGGGATGATAGGAGGAGAGATAGG
** *
603886 AGAGATAGTAGAGATAAAAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAACAGAGATAGAAGGGATGATAGGAGGAGAGATAGG
* *
603928 AGAGATAACAGAGAGAGGAA-GGATGACAGGAGGAGAGA
1 AGAGATAACAGAGATA-GAAGGGATGATAGGAGGAGAGA
603966 GAAGATGGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 67 0.96
43 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.41, T:0.10
Consensus pattern (42 bp):
AGAGATAACAGAGATAGAAGGGATGATAGGAGGAGAGATAGG
Found at i:612984 original size:20 final size:20
Alignment explanation
Indices: 612961--613024 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
612951 TAATGTATTA
*
612961 ATACAATGAGTTATGTATCG
1 ATACAATAAGTTATGTATCG
*
612981 ATACATTACAAG-TATGTATCG
1 ATACA--ATAAGTTATGTATCG
*
613002 ATAC-ATAAGTGAATGTATCG
1 ATACAATAAGT-TATGTATCG
613022 ATA
1 ATA
613025 TAGTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.11
20 16 0.44
21 13 0.36
22 3 0.08
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
ATACAATAAGTTATGTATCG
Found at i:614127 original size:150 final size:150
Alignment explanation
Indices: 613842--614115 Score: 329
Period size: 150 Copynumber: 1.8 Consensus size: 150
613832 TGACAAAAAA
* * * * * *
613842 ATGTTTATGGTGCCAAATCACAAAAAGAATGGAGATTATTATAAGAATCCTTGTTCGACTTATTA
1 ATGTTCATGGAGCCAAATCACAAAAACAATGGAGATTATTACAAGAATCCTAGTTCGACTCATTA
* * *
613907 AAGGGATGAACTTTGATTCTAATGAAAATAATGGAAAAGAATGATTTTCTTATAAAATCAAAGCA
66 AAGGGATGAACTTTGATTCTAATCAAAATAATGGAAAAGAAAGATTTTCTTATAAAACCAAAGCA
613972 TCAATATCGCGTAAAGGAAC
131 TCAATATCGCGTAAAGGAAC
** * *
613992 ATGTTCATGGAGCCAAATCATGAAAACAATGGAGATTATTACAAGAAT-CTAAGTTTGTCTCATT
1 ATGTTCATGGAGCCAAATCACAAAAACAATGGAGATTATTACAAGAATCCT-AGTTCGACTCATT
** * ** *
614056 TGAGGGATGAACTTTTATTCTTAA-CAAAATGGTGG-AAAGAAAAGATTTTCTTATGAAACC
65 AAAGGGATGAACTTTGATTC-TAATCAAAATAATGGAAAAG-AAAGATTTTCTTATAAAACC
614116 GAAGGGTCAA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
149 6 0.06
150 93 0.91
151 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (150 bp):
ATGTTCATGGAGCCAAATCACAAAAACAATGGAGATTATTACAAGAATCCTAGTTCGACTCATTA
AAGGGATGAACTTTGATTCTAATCAAAATAATGGAAAAGAAAGATTTTCTTATAAAACCAAAGCA
TCAATATCGCGTAAAGGAAC
Found at i:614212 original size:159 final size:158
Alignment explanation
Indices: 614003--614330 Score: 380
Period size: 159 Copynumber: 2.1 Consensus size: 158
613993 TGTTCATGGA
* **
614003 GCCAAATCATGAAAACAATGGAGATTATTACAAGAATCTAAGTTTGTCTCATTTGAGGGATGAAC
1 GCCAAATCATGAAAACAATGGAGATTATTACAAGAATCTAAGTTTGTCTCATTTAAGGGACAAAC
* * **
614068 TTTTATTCTTAA-CAAAATGGT-GGAAAGAAAAGATTTTCTTATGAAACCGAAGGGTCAATACTA
66 CTTGATTC-TAAGCAAAAT-GTAGGAAAGAAAAGATTTTCTTACAAAACC-AAGGGTCAATACTA
* *
614131 TGTATCCTAA-TACGGAGAACATTTTTAT-GTT
128 TGTATAC-AATTA-GAAGAACATTTTTATGGTT
* ** *
614162 GCCAAATCATGAAAATAATGGAGATTATTATGATAATCCT-AGTTTGTCTCATTTAAGGGACAAA
1 GCCAAATCATGAAAACAATGGAGATTATTACAAGAAT-CTAAGTTTGTCTCATTTAAGGGACAAA
* * * * * * *
614226 CCTTGATTCTAAGGAAGATGTAGGGAAGAAAAGCTTTTCTTACAAAACCAAGTGTCAATATTGTG
65 CCTTGATTCTAAGCAAAATGTAGGAAAGAAAAGATTTTCTTACAAAACCAAGGGTCAATACTATG
614291 TATACAATTAGAAGAACATTTTTATGGTT
130 TATACAATTAGAAGAACATTTTTATGGTT
614320 -CCAAATCATGA
1 GCCAAATCATGA
614331 GAATCCAAGT
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
157 27 0.19
158 27 0.19
159 88 0.61
160 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (158 bp):
GCCAAATCATGAAAACAATGGAGATTATTACAAGAATCTAAGTTTGTCTCATTTAAGGGACAAAC
CTTGATTCTAAGCAAAATGTAGGAAAGAAAAGATTTTCTTACAAAACCAAGGGTCAATACTATGT
ATACAATTAGAAGAACATTTTTATGGTT
Found at i:614855 original size:158 final size:158
Alignment explanation
Indices: 614327--616268 Score: 811
Period size: 158 Copynumber: 12.3 Consensus size: 158
614317 GTTCCAAATC
* * * *
614327 ATGAGAATCCAAGTTTATGTCATTTGAGGGATGAACTTTGATTCTAAGGAAAATAGTGGAAAGAT
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGAA
* * * * * * **
614392 AAGCTTTTCTTGCGAAACCAAAGCATCAA-ATCATATACCCCAATGAAGAGAATGTATTTTTACT
66 AAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTTTTGTT
* *
614456 GCCCAATCATGAGAATAATGGAAATTATT
131 GCCCAATCATGA-AAGAATGGAGATTATT
* * * * * * *
614485 ATGAGAATCTATGTTTGTCTCATTTGAGGGACAAACATTGATTCTAAAGAAAAATAAGAGGAAAT
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCT-AAGGAAAAT-AGTGGAAAG
* ** * * * * * * *
614550 AAAA-ACTATTCTTATGAAACTAAAGCACCAATATCGTGTATCTTAA-AGAGGAGAACATGTTTT
64 AAAAGA-TTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATA-AAGAGAACGTATTTT
* * ** * * *
614613 TCTTGCCTAATCACAAAAAGAATGAATATTGTT
127 TGTTGCCCAATCA-TGAAAGAATGGAGATTATT
* * * * * * * *
614646 ATGAGAATACATGTTTATCTCATTTTAGTGATGAACTTTAATTCTTA-GAAAATAGTGGAAAGAA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGAA
* ** * *
614710 AAGATTTTCTTGTGAAACCAAAGCATCAATATTTTGTATGCTAATAAAGAGAATGTATTTTTGTT
66 AAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTTTTGTT
* * *
614775 GACCAAGCATGAAAGAAAGGAGATTATT
131 GCCCAATCATGAAAGAATGGAGATTATT
* ** * ***
614803 ACT-AGAATCCAGGTTTGTCTCATTCAAGGGATAAACTTTGATTCTAAGGAAAATGGCAAAAAGA
1 A-TGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGA
* * * ** * * * * *
614867 AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATTGTGAATCCTAATAAGGATAACGT-GTTTGGT
65 AAAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTTTTGT
**
614931 TGCCCAATCATGAAAAGAATGGTTATTATT
130 TGCCCAATCATG-AAAGAATGGAGATTATT
** * * * * * * **
614961 ACCAAAATCCAAGTTTGTCTCACTTGAGGGATGAACTTTTGTTTTTAAGGAAAATGGTAAAAAGA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAAC-TTTGATTCTAAGGAAAATAGTGGAAAGA
* * * * * * **
615026 AAA-A----CTTACGAAACCAAAGCATCAATATCTTGTATCCCAATGAAGAGAACATCTTTAAAG
65 AAAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTT-TTG
* * * *
615086 -TGTCAAATCATGAAAGGATTGGAGGTTATT
129 TTGCCCAATCATGAAA-GAATGGAGATTATT
** * * *
615116 ATGAGAATTTAAGTTTGTTTCATTTGAGGGATAAACTTTAATTCTAAGTAAAAT-GTTGGAAA-A
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAG-TGGAAAGA
* * * * * * *
615179 ACAAGCTTTTCTTGAGAAACCAAAGCATCAGTGA-CATGTATCCTAATTAGGAGAATGTGTTTTT
65 A-AAGATTTTCTTGCGAAACCAAAGCATCAAT-ATCATGTATCCTAATAAAGAGAACGTATTTTT
* * * *
615243 GTTGCCCAATCATGAAGGAATAGATATTGTT
128 GTTGCCCAATCATGAAAGAATGGAGATTATT
* * * * * * ** * *
615274 ACGAGAATCCCTA-TTTGTCTCATTTGAAGGATGAACATTGATTTTAATAAAAATGGTAG-AA-A
1 ATGAGAAT-CCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGA
* * * * * * * *
615336 AAAGCTATTCTTGTG--A--AAAGCATCAATATCATATATCCTAACAAGGAGAACGTGTTTATCG
65 AAAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTT-TTG
* *
615397 -TGCCAAATCATGAAAAGATTGGAGATTATT
129 TTGCCCAATCATG-AAAGAATGGAGATTATT
* * ** * * * ** *
615427 ATAATAATTTAAGTTTGTCTCACTTGAGGGACAAACTTTAATT-TAACATAACCTAATAATGGAA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAA-GGAA---AATAGTGGAA
* * * * * *
615491 AGAAAAGATTTTCCTAT-AG-AACCAAAGTATCAAAAT-ATTGTGTCGC-AAT-GAGTAAAATCT
62 AGAAAAGATTTT-CT-TGCGAAACCAAAGCATCAATATCA-TGTATC-CTAATAAAG-AGAA-C-
* * *
615551 GT-TTATAG-T-CCCAAATCATGAAA-AA---A-A--ATG
120 GTATTTTTGTTGCCC-AATCATGAAAGAATGGAGATTATT
* * * * * * * * *
615581 AAGATTAATCTAAGTTTGTCTCATTTGAGGGATGAGCTTTGA-T-TATGCAAACATGGTGAAAAG
1 ATGA-GAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAA-ATAGTGGAAAG
* * * * * * * *
615644 AAAA-ACTTTT-TTGTGAAAACAAAGCATCAATAAAAGTCATATACCCCAA-AGAGGAGAACATG
64 AAAAGA-TTTTCTTGCGAAACCAAAGCATCAAT---A-TCATGTATCCTAATA-AAGAGAACGTA
* * ** * * **
615706 TTTATGGTGCTAAATCATAAAAAAATGGAGATTAGA
123 TTTTTGTTGCCCAATCATGAAAGAATGGAGATTATT
* * * * *
615742 AAGAAAATTCAAGTTTGTCTCATTTGAGGGATAAAC-TTGATTCTAAGGAAAATGGAGG-AAGAA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGAA
* * * * * * *
615805 AA-ACTTTAT-TTGGTGAAACCAAAGCATC--TAT-GTGTATGCTAATCAGGAGGACGTGTTTTT
66 AAGA-TTT-TCTT-GCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTTTT
* *
615865 GTTGCCCAATCATAAAAAGAATGCATG-TTATT
128 GTTGCCCAATCAT-GAAAGAATGGA-GATTATT
* * * * * * *
615897 ACGAGAATCAAAGTTTGTCTCATTTAAGGGATGAACTTTGATTATAAGGAAAATGGTGGAAATAA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGAA
* * * * * * * * * * * ***
615962 AAGTTTTTCTTGAGAAATCAATGCATTAGTATTATGTATCAC-AATGAGGAGAA--TGTGTTAAC
66 AAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATC-CTAATAAAGAGAACGTATTTTTGT
* *
616024 AGCACCAAATCATGAAAAGAATGGAGATCATT
130 TGC-CC-AATCATG-AAAGAATGGAGATTATT
* * * * * * * *
616056 ATGAAAATCCATGTTTATCTCATTTAAGGGACAAACTTTGATT-TCAAGGAAAATGGTTGTAAGA
1 ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCT-AAGGAAAATAGTGGAAAGA
* * * * * ** **
616120 AAAGCTTTCCTTGC-AAAACAATGCATCAAATAAT-GTGTATCCT-ATTGAGA-AAAATATGTTT
65 AAAGATTTTCTTGCGAAACCAAAGCATC-AAT-ATCATGTATCCTAATAAAGAGAACGTAT-TTT
* * * *
616181 ATGGTGCCAAATCATAAAAAGAATGAAGATTATT
127 -TGTTGCCCAATCAT-GAAAGAATGGAGATTATT
*** * * * *
616215 ATGAGAAT-CAGAGTTTAAATTATTTGAGGGAAAAACTTTTGACTATAAGGAAAA
1 ATGAGAATCCA-AGTTTGTCTCATTTGAGGGATAAAC-TTTGATTCTAAGGAAAA
616269 CAATGGACAT
Statistics
Matches: 1332, Mismatches: 350, Indels: 202
0.71 0.19 0.11
Matches are distributed among these distances:
148 1 0.00
149 2 0.00
150 14 0.01
151 17 0.01
152 50 0.04
153 56 0.04
154 116 0.09
155 129 0.10
156 54 0.04
157 91 0.07
158 289 0.22
159 271 0.20
160 91 0.07
161 114 0.09
162 31 0.02
163 4 0.00
164 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (158 bp):
ATGAGAATCCAAGTTTGTCTCATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGTGGAAAGAA
AAGATTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATAAAGAGAACGTATTTTTGTT
GCCCAATCATGAAAGAATGGAGATTATT
Found at i:615205 original size:313 final size:310
Alignment explanation
Indices: 614793--615469 Score: 692
Period size: 313 Copynumber: 2.2 Consensus size: 310
614783 ATGAAAGAAA
** * ** *
614793 GGAGATTATTACT-AGAATCCAGGTTTGTCTCATTCAAGGGATAAACTTTGATTCTAAGGAAAAT
1 GGAGATTATTA-TAAGAATTTAAGTTTGTCTCATTTGAGGGATAAACTTTAATTCTAAGGAAAAT
* * *
614857 GGCAAAAAGAAAAGCTTTTCTTGCAAAAGCAAAGCATCAAT-A-TTGTGAATCCTAATAAGGATA
65 GGCAAAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATGACATGT--ATCCTAATAAGGAGA
* *
614920 ACGTG-TTTGGTTGCCCAATCATGAAAAGAATGGTTATTATTACCAAAAT-CCAAGTTTGTCTCA
128 ACGTGTTTTGGTTGCCCAATCATG-AAAGAATAGATATTATTACCAAAATCCCAA-TTTGTCTCA
* * * *
614983 CTTGAGGGATGAACTTTTGTTTTTAAGGAAAATGGTAAAAAGAAAAACT-TAC-GAAACCAAAGC
191 CTTGAAGGATGAAC-ATTGATTTTAAGAAAAATGGT-AAAA-AAAAACTATACTGAAA--AAAGC
* * * * *
615046 ATCAATATCTTGTATCCCAATGAA-GAGAACATCTTTAAAGTGTCAAATCATGAAAGGATT
251 ATCAATATCATATATCCCAA-CAAGGAGAACATCTTTAAAGTGCCAAATCATGAAAAGATT
* * * *
615106 GGAGGTTATTATGAGAATTTAAGTTTGTTTCATTTGAGGGATAAACTTTAATTCTAAGTAAAATG
1 GGAGATTATTATAAGAATTTAAGTTTGTCTCATTTGAGGGATAAACTTTAATTCTAAGGAAAATG
* * * *
615171 TTG-GAAAA-ACAAGCTTTTCTTG-AGAAACCAAAGCATCAGTGACATGTATCCTAATTAGGAGA
66 --GCAAAAAGAAAAGCTTTTCTTGCA-AAACCAAAGCATCAATGACATGTATCCTAATAAGGAGA
* * * * * * * *
615233 ATGTGTTTTTGTTGCCCAATCATGAAGGAATAGATATTGTTACGAGAATCCCTATTTGTCTCATT
128 ACGTGTTTTGGTTGCCCAATCATGAAAGAATAGATATTATTACCAAAATCCCAATTTGTCTCACT
* * * * **
615298 TGAAGGATGAACATTGATTTTAATAAAAATGGTAGAAAAAAGCTATTCTTGTGAAAAGCATCAAT
193 TGAAGGATGAACATTGATTTTAAGAAAAATGGTAAAAAAAAACTATAC-TGAAAAAAGCATCAAT
* * * **
615363 ATCATATATCCTAACAAGGAGAACGTGTTTATCGTGCCAAATCATGAAAAGATT
257 ATCATATATCCCAACAAGGAGAACATCTTTAAAGTGCCAAATCATGAAAAGATT
* * *
615417 GGAGATTATTATAATAATTTAAGTTTGTCTCACTTGAGGGACAAACTTTAATT
1 GGAGATTATTATAAGAATTTAAGTTTGTCTCATTTGAGGGATAAACTTTAATT
615470 TAACATAACC
Statistics
Matches: 300, Mismatches: 52, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
310 8 0.03
311 104 0.35
312 19 0.06
313 140 0.47
314 25 0.08
315 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (310 bp):
GGAGATTATTATAAGAATTTAAGTTTGTCTCATTTGAGGGATAAACTTTAATTCTAAGGAAAATG
GCAAAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATGACATGTATCCTAATAAGGAGAACG
TGTTTTGGTTGCCCAATCATGAAAGAATAGATATTATTACCAAAATCCCAATTTGTCTCACTTGA
AGGATGAACATTGATTTTAAGAAAAATGGTAAAAAAAAACTATACTGAAAAAAGCATCAATATCA
TATATCCCAACAAGGAGAACATCTTTAAAGTGCCAAATCATGAAAAGATT
Found at i:616231 original size:159 final size:158
Alignment explanation
Indices: 615703--616268 Score: 373
Period size: 159 Copynumber: 3.6 Consensus size: 158
615693 AGAGGAGAAC
* * ** * * *
615703 ATGTTTATGGTGCTAAATCATAAAAA-AATGGAGATTAGAAAGAAAATTCAAGTTTGTCTCATTT
1 ATGTTTATGGTGCCAAATCATAAAAAGAATGAAGATTATTATGAGAA-TCAAGTTTATCTCATTT
* * * * * ** * * *
615767 GAGGGATAAAC-TTGATTCTAAGGAAAATGGAGG-AAGAAAAACTTTATTTGGTGAAACCAAAGC
65 AAGGGACAAACTTTGATTATAAGGAAAATGGTGGAAAGAAAAGCTTTCCTT-GAGAAATCAATGC
* * * * * ** *
615830 AT--CT-ATGTGTATGC-TAATCAGGAGGAC
129 ATAAATAATATGTAT-CACAATGAGAAAAAT
* * * * * * *
615857 GTGTTTTTGTTGCCCAATCATAAAAAGAATGCATG-TTATTACGAGAATCAAAGTTTGTCTCATT
1 ATGTTTATGGTGCCAAATCATAAAAAGAATG-AAGATTATTATGAGAATC-AAGTTTATCTCATT
** * * *
615921 TAAGGGATGAACTTTGATTATAAGGAAAATGGTGGAAATAAAAGTTTTTCTTGAGAAATCAATGC
64 TAAGGGACAAACTTTGATTATAAGGAAAATGGTGGAAAGAAAAGCTTTCCTTGAGAAATCAATGC
* * * * *
615986 ATTAGTATTATGTATCACAATGAGGAGAAT
129 ATAAATAATATGTATCACAATGAGAAAAAT
* * ** ** * * * * *
616016 GTGTTAACAGCACCAAATCATGAAAAGAATGGAGATCATTATGAAAATCCATGTTTATCTCATTT
1 ATGTTTATGGTGCCAAATCATAAAAAGAATGAAGATTATTATGAGAAT-CAAGTTTATCTCATTT
* *
616081 AAGGGACAAACTTTGATT-TCAAGGAAAATGGTTGTAAGAAAAGCTTTCCTTGCA-AAA-CAATG
65 AAGGGACAAACTTTGATTAT-AAGGAAAATGGTGGAAAGAAAAGCTTTCCTTG-AGAAATCAATG
* *
616143 CATCAAATAATGTGTATC-CTATTGAGAAAAAT
128 CAT-AAATAATATGTATCAC-AATGAGAAAAAT
** *
616175 ATGTTTATGGTGCCAAATCATAAAAAGAATGAAGATTATTATGAGAATCAGAGTTTAAATTATTT
1 ATGTTTATGGTGCCAAATCATAAAAAGAATGAAGATTATTATGAGAATCA-AGTTTATCTCATTT
* * *
616240 GAGGGAAAAACTTTTGACTATAAGGAAAA
65 AAGGGACAAAC-TTTGATTATAAGGAAAA
616269 CAATGGACAT
Statistics
Matches: 317, Mismatches: 77, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
154 23 0.07
155 36 0.11
156 33 0.10
157 11 0.03
158 15 0.05
159 182 0.57
160 16 0.05
161 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (158 bp):
ATGTTTATGGTGCCAAATCATAAAAAGAATGAAGATTATTATGAGAATCAAGTTTATCTCATTTA
AGGGACAAACTTTGATTATAAGGAAAATGGTGGAAAGAAAAGCTTTCCTTGAGAAATCAATGCAT
AAATAATATGTATCACAATGAGAAAAAT
Found at i:623264 original size:19 final size:21
Alignment explanation
Indices: 623230--623268 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
623220 TTTTTGTTGG
623230 TTTGTCCAACCTTTTTTTTTT
1 TTTGTCCAACCTTTTTTTTTT
623251 TTTG-CCAA-CTTTTTTTTT
1 TTTGTCCAACCTTTTTTTTT
623269 GAAATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.10, C:0.18, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTGTCCAACCTTTTTTTTTT
Found at i:629812 original size:27 final size:27
Alignment explanation
Indices: 629772--629848 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
629762 ATTAATACAT
* *
629772 AAGAAAGATCAAGGAAATGAAACCAA-C
1 AAGAAATATGAAGGAAATGAAA-CAAGC
*
629799 AAGAAATATGAAGGGAAATGAAATAAGC
1 AAGAAATATGAA-GGAAATGAAACAAGC
*
629827 AAGAAATATCGAGGGAAA-GAAA
1 AAGAAATAT-GAAGGAAATGAAA
629849 TCAATGAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 16 0.37
28 25 0.58
29 2 0.05
ACGTcount: A:0.58, C:0.08, G:0.23, T:0.10
Consensus pattern (27 bp):
AAGAAATATGAAGGAAATGAAACAAGC
Found at i:629858 original size:28 final size:28
Alignment explanation
Indices: 629784--629849 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
629774 GAAAGATCAA
*
629784 GGAAATGAAACCAA-CAAGAAATATGAAG
1 GGAAATGAAA-TAAGCAAGAAATATGAAG
629812 GGAAATGAAATAAGCAAGAAATATCG-AG
1 GGAAATGAAATAAGCAAGAAATAT-GAAG
629840 GGAAA-GAAAT
1 GGAAATGAAAT
629850 CAATGAAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 7 0.20
28 27 0.77
29 1 0.03
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (28 bp):
GGAAATGAAATAAGCAAGAAATATGAAG
Found at i:640808 original size:12 final size:11
Alignment explanation
Indices: 640786--640861 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
640776 AGAGAAAGAA
*
640786 GAGAGAGGAGG
1 GAGATAGGAGG
640797 GATGATAGGAGG
1 GA-GATAGGAGG
*
640809 AGAGACAGGA--
1 -GAGATAGGAGG
*
640819 GAGATAGTA--
1 GAGATAGGAGG
640828 GAGATAGGAGG
1 GAGATAGGAGG
640839 GATGATAGGAGG
1 GA-GATAGGAGG
*
640851 AGAGACAGGAG
1 -GAGATAGGAG
640862 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:640818 original size:24 final size:24
Alignment explanation
Indices: 640785--640870 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
640775 AAGAGAAAGA
*
640785 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
640809 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
640827 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
640851 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
640871 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:640837 original size:42 final size:42
Alignment explanation
Indices: 640776--640894 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
640766 TAGCCCTCAA
* *
640776 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
640818 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
640860 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
640895 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:646406 original size:42 final size:42
Alignment explanation
Indices: 646297--646406 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
646287 AAGAGAAAGA
* *
646297 AGAGAGAGGAGGGATGATAGGAGGAAAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
646339 AGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
646381 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
646407 GAGAGAAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.42, C:0.03, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:655611 original size:30 final size:31
Alignment explanation
Indices: 655577--655661 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 31
655567 TACCCCTCAA
*
655577 AGAGAAAGAAGAGATAGGAGGAGA-GATAGG
1 AGAGAAAGAAGAGATAGGAGGAGATGACAGG
* *
655607 AGAGATAA-TAGAGAGAGGAGG-GATGACAGG
1 AGAGA-AAGAAGAGATAGGAGGAGATGACAGG
655637 AGGAGGAAAGAAGAAGAT-GGAGGAG
1 A-GA-GAAAGAAG-AGATAGGAGGAG
655662 TGAGCGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
29 2 0.05
30 22 0.51
31 6 0.14
32 9 0.21
33 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.45, T:0.07
Consensus pattern (31 bp):
AGAGAAAGAAGAGATAGGAGGAGATGACAGG
Found at i:661660 original size:42 final size:42
Alignment explanation
Indices: 661605--661723 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
661595 TTCTTCTCTC
* *
661605 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
661647 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
661689 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
661724 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:661664 original size:12 final size:11
Alignment explanation
Indices: 661638--661713 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
661628 TCTATTATCT
*
661638 CTCCTGTCTCTC
1 CTCCTATCTC-C
661650 CTCCTATCATCC
1 CTCCTATC-TCC
661662 CTCCTATCT--
1 CTCCTATCTCC
*
661671 CTACTATCT--
1 CTCCTATCTCC
*
661680 CTCCTGTCTCTC
1 CTCCTATCTC-C
661692 CTCCTATCATCC
1 CTCCTATC-TCC
*
661704 CTCCTCTCTC
1 CTCCTATCTC
661714 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:661665 original size:24 final size:24
Alignment explanation
Indices: 661629--661714 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
661619 CCTCCTCTCT
* *
661629 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
661653 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
661674 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
661695 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
661715 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Done.