Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 31
Found at i:2416494 original size:16 final size:16
Alignment explanation
Indices: 2416448--2416494 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
2416438 ACGTATTATA
*
2416448 TTATATATA-TATATT
1 TTATATTTATTATATT
2416463 TTATA-TTATTATTATT
1 TTATATTTATTA-TATT
2416479 TTATATTTATTATATT
1 TTATATTTATTATATT
2416495 AGATTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 7 0.25
16 13 0.46
17 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATTTATTATATT
Found at i:2416507 original size:25 final size:24
Alignment explanation
Indices: 2416441--2416513 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
2416431 ATAGTGTACG
2416441 TATTATATTATATATATATATT-TTA
1 TATTATATTATAT-TATAT-TTATTA
*
2416466 TATTATTATTATTTTATATTTATTA
1 TATTA-TATTATATTATATTTATTA
*
2416491 TATTAGATTATAATTATTATTTA
1 TATTATATTAT-ATTA-TATTTA
2416514 ATTTCATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.17
25 21 0.51
26 13 0.32
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (24 bp):
TATTATATTATATTATATTTATTA
Found at i:2418568 original size:16 final size:16
Alignment explanation
Indices: 2418543--2418575 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2418533 TTGTCATAGG
2418543 AAAAAACATGTGGGGT
1 AAAAAACATGTGGGGT
*
2418559 AAAAATCATGTGGGGT
1 AAAAAACATGTGGGGT
2418575 A
1 A
2418576 GAATTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.21
Consensus pattern (16 bp):
AAAAAACATGTGGGGT
Found at i:2421228 original size:24 final size:24
Alignment explanation
Indices: 2421201--2421262 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
2421191 TCAAGAAGAC
* *
2421201 TCATCTGCTGCAAAACCACAAGTT
1 TCATCTGCTACAAAACCACAAGCT
* *
2421225 TCATATGCTACAAAAGCACAAGCT
1 TCATCTGCTACAAAACCACAAGCT
2421249 TCATC-GACTACAAA
1 TCATCTG-CTACAAA
2421263 GCATAAGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (24 bp):
TCATCTGCTACAAAACCACAAGCT
Found at i:2424969 original size:18 final size:18
Alignment explanation
Indices: 2424916--2424972 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
2424906 TCGATGGTTA
2424916 AAAGTGGTCCTTCGGGAC
1 AAAGTGGTCCTTCGGGAC
** *
2424934 GTAGTGGTCCTTCAGGAC
1 AAAGTGGTCCTTCGGGAC
**
2424952 AAAGTGGTTATTCGGGAC
1 AAAGTGGTCCTTCGGGAC
2424970 AAA
1 AAA
2424973 TTTTAAGTAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (18 bp):
AAAGTGGTCCTTCGGGAC
Found at i:2430310 original size:22 final size:22
Alignment explanation
Indices: 2430267--2430311 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2430257 TCAACATCGG
* *
2430267 TTAGTGACTAAATTATAAAATT
1 TTAGTGACTAAAGTAGAAAATT
*
2430289 TTAGTGACTAAAGTAGATAATT
1 TTAGTGACTAAAGTAGAAAATT
2430311 T
1 T
2430312 GAAAAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (22 bp):
TTAGTGACTAAAGTAGAAAATT
Found at i:2432598 original size:11 final size:11
Alignment explanation
Indices: 2432582--2432606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2432572 AATTTATATT
2432582 AAAATGTCATG
1 AAAATGTCATG
2432593 AAAATGTCATG
1 AAAATGTCATG
2432604 AAA
1 AAA
2432607 GACCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (11 bp):
AAAATGTCATG
Found at i:2432802 original size:12 final size:12
Alignment explanation
Indices: 2432787--2432812 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2432777 AATTTATATT
2432787 AAAATGTCATGA
1 AAAATGTCATGA
2432799 AAAATGTCATGA
1 AAAATGTCATGA
2432811 AA
1 AA
2432813 GACCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (12 bp):
AAAATGTCATGA
Found at i:2434884 original size:42 final size:41
Alignment explanation
Indices: 2434825--2434903 Score: 140
Period size: 42 Copynumber: 1.9 Consensus size: 41
2434815 AAACTACCCG
2434825 AAGGATTAATCATCATGCTCGAAAGACTTACTGATGGATTA
1 AAGGATTAATCATCATGCTCGAAAGACTTACTGATGGATTA
*
2434866 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGG
1 AAGGA-TTAATCATCATGCTCGAAAGACTTACTGATGG
2434904 CACTTACTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (41 bp):
AAGGATTAATCATCATGCTCGAAAGACTTACTGATGGATTA
Found at i:2434931 original size:134 final size:135
Alignment explanation
Indices: 2434732--2434996 Score: 444
Period size: 134 Copynumber: 2.0 Consensus size: 135
2434722 AAATGACCCG
* * *
2434732 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGTACTTCCTGATGGATTTGCTTCACTAC
1 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTAC
*
2434797 TCTTCTGTGAAGGCTTACAAACTACCCGAAGGA-TTAATCATCATGCTCGAAAGACTTACTGATG
66 TCTTCCGTGAAGGCTTACAAACTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
2434861 GATTA
131 GATTA
2434866 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGAT-GAGTTTGCTTCACTA
1 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGA-TTTGCTTCACTA
* * *
2434930 CTCTTCCGTGAAGGCTTATAAATTACCCGAGGGATTTAATCATCATGCTCGAAAGACTTACTGAT
65 CTCTTCCGTGAAGGCTTACAAACTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
2434995 GG
130 GG
2434997 CCCGAAGGAC
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
133 2 0.02
134 88 0.72
135 32 0.26
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (135 bp):
AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTAC
TCTTCCGTGAAGGCTTACAAACTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
GATTA
Found at i:2435379 original size:209 final size:212
Alignment explanation
Indices: 2435008--2436028 Score: 1216
Period size: 208 Copynumber: 4.9 Consensus size: 212
2434998 CCGAAGGACT
* *
2435008 TTTGGAAATTGCCTTCTTAGTTTCAAAGATTTCAT-TTC-TAAAACATCACTTTCTCATTTTCTC
1 TTTGGAAATCGCCTTCTTAGTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCA-TTT-TC
2435071 AAATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAA-GACTTATCATCTTACT-
64 AAATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTC
* * * * * *
2435134 TTAAGGCTTACATATTACCCGAAGGATTTAAGCATCATGCTCGAAAGA-TTATTGATGGCCCGAA
129 TAAAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAA
2435198 GGACTTACTAAGTGTGAAA
194 GGACTTACTAAGTGTGAAA
* *
2435217 TTTGGAAATCGCCTTCTTAGTTTTAAAAATTTCATCTTCTTAAAACAGCA-TTATCTCATTTTC-
1 TTTGGAAATCGCCTTCTTAGTTTCAAAAATTTCATCTTCTTAAAACATCACTT-TCTCATTTTCA
* *
2435280 AATTCATGTGGAAACATCCTACCGAAGGTCTTATAGATGGCCCGAA-GACTTATCATCTTACTCT
65 AATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCT
* * *
2435344 AAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTT-AT--TGGCCCGAAG
130 AAAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAG
2435406 GACTTACTAAGTGTGAAA
195 GACTTACTAAGTGTGAAA
* *
2435424 TTTTGTAAATCGCCTTCTTAGTTTTC-AAAATTTCATCTTCTTAAAACATCATTTTCTCA-TTTC
1 -TTTGGAAATCGCCTTCTTAG-TTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATTTTC
*
2435487 AAATTCATGTGAAAACATCCTACCGAA-GTCTTATGGATGGCCCGAAGGA-TTATCATCTTGCTC
64 AAATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTC
* * * * * *
2435550 T-AA-GATT-CAGATGACCTAAAGGATTTACTCATCATAC-CAAAAGACTTAATGATGGCCTGAA
129 TAAAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAA
* *
2435611 GGACTTA-TATG-GTGCGAA
194 GGACTTACTAAGTGTG-AAA
* * * * *
2435629 TTT-GAAATCGCATTCTTA-CTCCAAAGA-TTCAT-TTTTTAAAACATCACTTTCTCATTCTTCA
1 TTTGGAAATCGCCTTCTTAGTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATT-TTCA
* *
2435690 AA-TC-----AAAACATCTTACCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCT
65 AATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCT
* * * * *
2435749 AAAGACTTACAAATGA-CCAAATGATTTACTCATCACGCTCGAAAGACTTAATGATGG-CCGAAG
130 AAAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAG
*
2435812 GACTTACTAAGTGCGAAA
195 GACTTACTAAGTGTGAAA
* * * *
2435830 TTTGGAAATCACCTTCTTACTTTCAAAAATTTAAATCTTCTT-AAACATAACTTTCTCATTTCTC
1 TTTGGAAATCGCCTTCTTAGTTTCAAAAATTT-CATCTTCTTAAAACATCACTTTCTCATTT-TC
* * * * *
2435894 TAATTCCTGTG-CAACATCTTACCCGAAGGTCTTATGGATGGCCCGAAGGAC-TATCATCTTGCT
64 AAATTCATGTGAAAACATCCTA-CCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACT
* * * * *
2435957 C-AAACGCTTACAGATAACCCAAAGGATTTAATCATCATGCCCGAAAGACTTACTAATGGCCCGA
128 CTAAAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGA
2436021 AGGACTTA
193 AGGACTTA
2436029 ATTTGATTGC
Statistics
Matches: 702, Mismatches: 70, Indels: 78
0.83 0.08 0.09
Matches are distributed among these distances:
196 14 0.02
197 22 0.03
198 14 0.02
199 2 0.00
200 51 0.07
201 41 0.06
202 24 0.03
203 29 0.04
204 36 0.05
205 31 0.04
206 23 0.03
207 64 0.09
208 135 0.19
209 96 0.14
210 66 0.09
211 54 0.08
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (212 bp):
TTTGGAAATCGCCTTCTTAGTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATTTTCAA
ATTCATGTGAAAACATCCTACCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTACTCTA
AAGGCTTACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCCCGAAGG
ACTTACTAAGTGTGAAA
Found at i:2444162 original size:110 final size:109
Alignment explanation
Indices: 2443912--2444359 Score: 651
Period size: 107 Copynumber: 4.1 Consensus size: 109
2443902 TTGTCGGTTT
* *
2443912 GTGTCGATACTTT-T-AAAATATAT-GATCCATAACAATATAACAAGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAACCG
2443974 GTCTA-AAATGACAAAA-AGGTAAAGCGCTACCGGATATTGAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATTGAAA
** *
2444016 GTGTCGATACTTTATAAAAATGTATTTATCCATAACAATATAACATGTAAAAAATGAC-AAACCA
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAACCG
* *
2444080 ATCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACC-G-GATATTGAAA
2444126 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAACCG
*
2444190 GTCTATAAATGACAAAACAGGTAAAACGCTA-CGGATATTGAAA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATTGAAA
* *
2444233 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAAATGACAAAACC
* * * ** *
2444298 GGTCTATAAATGACAAAATAGGTAAAGCTCTATCAAATATGTTGATA
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA--TTGAAA
2444345 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
2444360 TATAATATCG
Statistics
Matches: 311, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
104 13 0.04
105 1 0.00
106 17 0.05
107 96 0.31
108 16 0.05
109 55 0.18
110 93 0.30
112 20 0.06
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (109 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATTGAAA
Found at i:2444202 original size:217 final size:217
Alignment explanation
Indices: 2443912--2444359 Score: 690
Period size: 217 Copynumber: 2.1 Consensus size: 217
2443902 TTGTCGGTTT
2443912 GTGTCGATACTTT-TAAAATATATGATCCATAACAATATAACAAGTAAAAAATGACAAAACCGGT
1 GTGTCGATACTTTATAAAATATATGATCCATAACAATATAACAAGTAAAAAATGACAAAACCGGT
*
2443976 CTAAAATGACAAAA-AGGTAAAGCGCTACCGGATATTGAAAGTGTCGATACTTTATAAAAATGTA
66 CTAAAATGACAAAACAGGTAAAACGCTA-CGGATATTGAAAGTGTCGATACTTTATAAAAATGTA
** * *
2444040 TTTATCCATAACAATATAACATGT-AAAAAATGAC-AAACCAATCTATAAATGACAAAACAGGTA
130 TCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCAATCTATAAATGACAAAACAGGTA
*
2444103 AAGCGCTACCAGATATATTGAAA
195 AAGCGCTACCAAATATATTGAAA
* *
2444126 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAATGACAAAACCG
1 GTGTCGATACTTTAT-AAAATATAT-GATCCATAACAATATAACAAGTAAAAAATGACAAAACCG
2444190 GTCTATAAATGACAAAACAGGTAAAACGCTACGGATATTGAAAGTGTCGATACTTTATAAAAATG
64 GTCTA-AAATGACAAAACAGGTAAAACGCTACGGATATTGAAAGTGTCGATACTTTATAAAAATG
** *
2444255 TATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAATAGG
128 TATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCAATCTATAAATGACAAAACAGG
* * * *
2444320 TAAAGCTCTATCAAATATGTTGATA
193 TAAAGCGCTACCAAATATATTGAAA
2444345 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
2444360 TATAATATCG
Statistics
Matches: 212, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
214 13 0.06
215 1 0.00
216 29 0.14
217 88 0.42
218 22 0.10
219 59 0.28
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (217 bp):
GTGTCGATACTTTATAAAATATATGATCCATAACAATATAACAAGTAAAAAATGACAAAACCGGT
CTAAAATGACAAAACAGGTAAAACGCTACGGATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCAATCTATAAATGACAAAACAGGTAA
AGCGCTACCAAATATATTGAAA
Found at i:2444602 original size:103 final size:102
Alignment explanation
Indices: 2444419--2444604 Score: 309
Period size: 103 Copynumber: 1.8 Consensus size: 102
2444409 ATAAAGTGTC
* *
2444419 GATATTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTC
1 GATATTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATAACAAAACCGATCTC
*
2444484 GAAATGACTAAACCGGTAAAGAGCTACCAGATATGTT
66 GAAATGACAAAACCGGTAAAGAGCTACCAGATATGTT
* *
2444521 GATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATAACAAAATCGATCT
1 GATA-TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATAACAAAACCGATCT
*
2444586 TGAAATGACAAAACCGGTA
65 CGAAATGACAAAACCGGTA
2444605 GTAAAAAAGT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 4 0.05
103 73 0.95
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (102 bp):
GATATTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATAACAAAACCGATCTC
GAAATGACAAAACCGGTAAAGAGCTACCAGATATGTT
Found at i:2446753 original size:18 final size:18
Alignment explanation
Indices: 2446728--2446778 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
2446718 CGAGGGTTTA
2446728 AAAGTGGTCCTTCGGGAC
1 AAAGTGGTCCTTCGGGAC
* *
2446746 ATAGTGGTCCTTCGCGAC
1 AAAGTGGTCCTTCGGGAC
*
2446764 AAAGTGGTCATTCGG
1 AAAGTGGTCCTTCGG
2446779 AAAAATTAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (18 bp):
AAAGTGGTCCTTCGGGAC
Found at i:2449826 original size:21 final size:21
Alignment explanation
Indices: 2449800--2449843 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2449790 ATTTCTGGGA
* *
2449800 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
2449821 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
2449842 AA
1 AA
2449844 ACGAACAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:2450812 original size:31 final size:31
Alignment explanation
Indices: 2450774--2450898 Score: 182
Period size: 31 Copynumber: 4.0 Consensus size: 31
2450764 AGGGTCGAGG
*
2450774 GTTTACCTATGTTCTTCGGGACAAATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2450805 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2450836 GTTTACCTATG-TCATTCGGGACATATGGACT
1 GTTTACCTATGTTC-TTCGGGACATATGGACT
* * *
2450867 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
2450898 G
1 G
2450899 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.02
31 82 0.94
32 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2454060 original size:21 final size:21
Alignment explanation
Indices: 2454034--2454077 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2454024 ATTTCTGGGA
* *
2454034 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
2454055 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
2454076 AA
1 AA
2454078 ACGAACAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:2455049 original size:31 final size:31
Alignment explanation
Indices: 2455011--2455121 Score: 186
Period size: 31 Copynumber: 3.6 Consensus size: 31
2455001 AGGGTCGAGG
2455011 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2455042 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2455073 GTTTACCTATGTACTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
** *
2455104 AATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
2455122 AAATCTATGG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2455131 original size:62 final size:62
Alignment explanation
Indices: 2455011--2455135 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 62
2455001 AGGGTCGAGG
* ** * **
2455011 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTACTTCGGGACATATGGACTAATTACCTAGGTTCTTCGAAACATATGGACT
2455073 GTTTACCTATGTACTTCGGGACATATGGACTAATTACCTAGGTTCTTCGAAATC-TATGGACT
1 GTTTACCTATGTACTTCGGGACATATGGACTAATTACCTAGGTTCTTCGAAA-CATATGGACT
2455135 G
1 G
2455136 GTCCTTCGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 55 0.98
63 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (62 bp):
GTTTACCTATGTACTTCGGGACATATGGACTAATTACCTAGGTTCTTCGAAACATATGGACT
Found at i:2457233 original size:21 final size:21
Alignment explanation
Indices: 2457207--2457251 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2457197 GATTTCTGGG
* *
2457207 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2457228 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2457249 CAA
1 CAA
2457252 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2457860 original size:18 final size:18
Alignment explanation
Indices: 2457837--2457871 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2457827 CTAGGAGATT
2457837 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
2457855 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
2457872 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:2458816 original size:23 final size:22
Alignment explanation
Indices: 2458756--2458823 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
2458746 TTATGGACAT
2458756 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2458778 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2458800 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
2458823 A
1 A
2458824 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2461923 original size:21 final size:21
Alignment explanation
Indices: 2461897--2461941 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2461887 GATTTCTGGG
* *
2461897 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2461918 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2461939 CAA
1 CAA
2461942 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2462550 original size:18 final size:18
Alignment explanation
Indices: 2462527--2462561 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2462517 CTAGGAGATT
2462527 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
2462545 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
2462562 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:2463502 original size:23 final size:22
Alignment explanation
Indices: 2463442--2463509 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
2463432 TTATGGACAT
2463442 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2463464 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2463486 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
2463509 A
1 A
2463510 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2467977 original size:14 final size:14
Alignment explanation
Indices: 2467958--2467985 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2467948 TATAATATGG
2467958 TTTTGAAAACATAT
1 TTTTGAAAACATAT
2467972 TTTTGAAAACATAT
1 TTTTGAAAACATAT
2467986 AATATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTTGAAAACATAT
Found at i:2467984 original size:37 final size:36
Alignment explanation
Indices: 2467885--2468098 Score: 198
Period size: 37 Copynumber: 6.0 Consensus size: 36
2467875 ATAGTATAGT
2467885 TTTTG-AAA-ATATTTTTGAAAACATATAATATATAAT-
1 TTTTGAAAACATATTTTTGAAAACATAT-ATA-AT-ATG
*
2467921 TTTTAGAAAACA-GTTTTTGAAAACATATATAATATGG
1 TTTT-GAAAACATATTTTTGAAAACATATATAATAT-G
2467958 TTTTGAAAACATATTTTTGAAAACATATA-ATATATAG
1 TTTTGAAAACATATTTTTGAAAACATATATA-ATAT-G
* **
2467995 TTTT-AAAAAACGGTTTTTGAAAA-AGTATATAATATAG
1 TTTTGAAAACA-TATTTTTGAAAACA-TATATAATAT-G
*
2468032 TTTTGAAAATATA-TTTTGAAAACATATAT-ATA-G
1 TTTTGAAAACATATTTTTGAAAACATATATAATATG
* *
2468065 TTTTTAAAAC-GATTTTTGAAAACATATATAATAT
1 TTTTGAAAACATATTTTTGAAAACATATATAATAT
2468099 TTATAATTTT
Statistics
Matches: 151, Mismatches: 12, Indels: 31
0.78 0.06 0.16
Matches are distributed among these distances:
32 1 0.01
33 25 0.17
34 3 0.02
35 5 0.03
36 34 0.23
37 58 0.38
38 24 0.16
39 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (36 bp):
TTTTGAAAACATATTTTTGAAAACATATATAATATG
Found at i:2468017 original size:74 final size:73
Alignment explanation
Indices: 2467879--2468098 Score: 292
Period size: 74 Copynumber: 3.0 Consensus size: 73
2467869 TAATAGATAG
* * *
2467879 TATAGTTTTTG-AAAATATTTTTGAAAACATATAATATATAATTTTTAGAAAACAGTTTTTGAAA
1 TATAG-TTTTGAAAAATATTTTTGAAAACATATAATATAT-AGTTTTAAAAAACGGTTTTTGAAA
2467943 ACATATATAA
64 ACATATATAA
*
2467953 TATGGTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTAAAAAACGGTTTTTGAAAA
1 TATAGTTTTGAAAA-ATATTTTTGAAAACATATAATATATAGTTTTAAAAAACGGTTTTTGAAAA
2468018 -AGTATATAA
65 CA-TATATAA
* *
2468027 TATAGTTTTG-AAAATATATTTTGAAAAC--AT-ATATATAGTTTT-TAAAACGATTTTTGAAAA
1 TATAGTTTTGAAAAATAT-TTTTGAAAACATATAATATATAGTTTTAAAAAACGGTTTTTGAAAA
2468087 CATATATAA
65 CATATATAA
2468096 TAT
1 TAT
2468099 TTATAATTTT
Statistics
Matches: 134, Mismatches: 7, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
69 26 0.19
70 13 0.10
71 2 0.01
72 4 0.03
73 19 0.14
74 45 0.34
75 25 0.19
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (73 bp):
TATAGTTTTGAAAAATATTTTTGAAAACATATAATATATAGTTTTAAAAAACGGTTTTTGAAAAC
ATATATAA
Found at i:2468050 original size:13 final size:13
Alignment explanation
Indices: 2468025--2468058 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2468015 AAAAGTATAT
2468025 AATATAGTTTTGAA
1 AATATA-TTTTGAA
2468039 AATATATTTTGAA
1 AATATATTTTGAA
*
2468052 AACATAT
1 AATATAT
2468059 ATATAGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (13 bp):
AATATATTTTGAA
Found at i:2468092 original size:31 final size:29
Alignment explanation
Indices: 2468026--2468137 Score: 91
Period size: 33 Copynumber: 3.6 Consensus size: 29
2468016 AAAGTATATA
*
2468026 ATATAGTTTTGAAAATATATTTTGAAAACATAT
1 ATATAGTTTTTAAAA-AT-TTTTGAAAAC--AT
2468059 ATATAGTTTTTAAAACGATTTTTGAAAACAT
1 ATATAGTTTTTAAAA--ATTTTTGAAAACAT
* * *
2468090 ATATAATATTT-ATAATTTTTGAAAACATATT
1 ATATAGTTTTTAAAAATTTTTGAAAAC--A-T
*
2468121 ATATAGTTTTTGAAAAT
1 ATATAGTTTTTAAAAAT
2468138 ATAATATATG
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 12 0.18
30 3 0.05
31 21 0.32
32 4 0.06
33 24 0.36
34 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (29 bp):
ATATAGTTTTTAAAAATTTTTGAAAACAT
Found at i:2468130 original size:22 final size:22
Alignment explanation
Indices: 2468095--2468146 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
2468085 AACATATATA
2468095 ATATT-TATAATTTTTGAAAAC
1 ATATTATATAATTTTTGAAAAC
* *
2468116 ATATTATATAGTTTTTGAAAAT
1 ATATTATATAATTTTTGAAAAC
*
2468138 ATAATATAT
1 ATATTATAT
2468147 GTTATATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (22 bp):
ATATTATATAATTTTTGAAAAC
Found at i:2468151 original size:29 final size:26
Alignment explanation
Indices: 2468119--2468171 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
2468109 TGAAAACATA
2468119 TTATATAGTTTTTGAAAATATAATATATG
1 TTATATAGTTTTT--AAATA-AATATATG
2468148 TTATATAGTTTTTAAATAAATATA
1 TTATATAGTTTTTAAATAAATATA
2468172 GTGTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 5 0.21
29 13 0.54
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TTATATAGTTTTTAAATAAATATATG
Found at i:2468231 original size:31 final size:33
Alignment explanation
Indices: 2468181--2468252 Score: 123
Period size: 31 Copynumber: 2.3 Consensus size: 33
2468171 AGTGTACTTA
2468181 TTATATTATATATATATTAGATTATATTATTAT
1 TTATATTATATATATATTAGATTATATTATTAT
2468214 TTATATT-TAT-TATATTAGATTATATTATTAT
1 TTATATTATATATATATTAGATTATATTATTAT
2468245 TTAT-TTAT
1 TTATATTAT
2468253 TTAATTTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 2 0.05
31 26 0.68
32 3 0.08
33 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (33 bp):
TTATATTATATATATATTAGATTATATTATTAT
Found at i:2468244 original size:21 final size:20
Alignment explanation
Indices: 2468180--2468249 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
2468170 TAGTGTACTT
2468180 ATTATATTA-TATATATATTA
1 ATTATATTATTAT-TATATTA
*
2468200 GATTATATTATTATTTATATTT
1 -ATTATATTATTA-TTATATTA
*
2468222 ATTATATTA-GATTATATT-
1 ATTATATTATTATTATATTA
2468240 ATTAT-TTATT
1 ATTATATTATT
2468250 TATTTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 7 0.16
20 1 0.02
21 18 0.42
22 8 0.19
23 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
ATTATATTATTATTATATTA
Found at i:2477277 original size:17 final size:17
Alignment explanation
Indices: 2477236--2477307 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
2477226 ATTCATGCAT
2477236 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
2477253 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
2477271 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* * *
2477288 ATAGTTTATTTATTAAA
1 CTAGTTCATTAATTAAA
2477305 CTA
1 CTA
2477308 ACTCTTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:2478819 original size:20 final size:20
Alignment explanation
Indices: 2478794--2478837 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2478784 CCAGGTTAGT
*
2478794 AAAAAATTAAAAAAAAAACA
1 AAAAAATGAAAAAAAAAACA
* *
2478814 AAAAAATGAAAAAAGAAAGA
1 AAAAAATGAAAAAAAAAACA
2478834 AAAA
1 AAAA
2478838 TTTTAAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAATGAAAAAAAAAACA
Found at i:2479194 original size:21 final size:21
Alignment explanation
Indices: 2479165--2479207 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2479155 TTTCTTTGGA
*
2479165 TTGTATTGGTGAGATTTTTTT
1 TTGTATTGGTGAGATTTATTT
* *
2479186 TTGTGTTGGTGAGGTTTATTT
1 TTGTATTGGTGAGATTTATTT
2479207 T
1 T
2479208 CATCTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (21 bp):
TTGTATTGGTGAGATTTATTT
Found at i:2481318 original size:24 final size:24
Alignment explanation
Indices: 2481291--2481344 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2481281 CACCATTGCT
*
2481291 CATATAATTTACACCGAAGTGCCA
1 CATAGAATTTACACCGAAGTGCCA
* * *
2481315 CATAGATTTTGCACTGAAGTGCCA
1 CATAGAATTTACACCGAAGTGCCA
*
2481339 CGTAGA
1 CATAGA
2481345 TTTGTCCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (24 bp):
CATAGAATTTACACCGAAGTGCCA
Found at i:2481408 original size:25 final size:23
Alignment explanation
Indices: 2481336--2481416 Score: 101
Period size: 23 Copynumber: 3.4 Consensus size: 23
2481326 CACTGAAGTG
2481336 CCACGTAG-ATTTGTCCCGAAGGA
1 CCACGTAGAATTT-TCCCGAAGGA
*
2481359 CTACGTAGAATTTTCCCGAAGGA
1 CCACGTAGAATTTTCCCGAAGGA
*
2481382 CCACGTAGAAATTTATCCCGAATGA
1 CCACGTAG-AATTT-TCCCGAAGGA
*
2481407 CCGCGTAGAA
1 CCACGTAGAA
2481417 CCCTCGACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 24 0.47
24 11 0.22
25 16 0.31
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CCACGTAGAATTTTCCCGAAGGA
Found at i:2484242 original size:21 final size:21
Alignment explanation
Indices: 2484218--2484271 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
2484208 CTAAGAGGAA
2484218 ACCGATTCCCCCCAAGGGGGT
1 ACCGATTCCCCCCAAGGGGGT
2484239 ACCGATTCCCCCCAAGGGGGT
1 ACCGATTCCCCCCAAGGGGGT
2484260 ACCGATTCCCCC
1 ACCGATTCCCCC
2484272 TGAATGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.15
Consensus pattern (21 bp):
ACCGATTCCCCCCAAGGGGGT
Found at i:2491779 original size:25 final size:26
Alignment explanation
Indices: 2491745--2491801 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
2491735 AACAAAAAGG
* *
2491745 GGGATAAGTGTTCAATGTTTT-CAAT
1 GGGAGAAGTGTTCAATGTTTTAAAAT
2491770 GGGAGAAGTGTTCAATGTTTTAAAAT
1 GGGAGAAGTGTTCAATGTTTTAAAAT
2491796 GGGAGA
1 GGGAGA
2491802 TGTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (26 bp):
GGGAGAAGTGTTCAATGTTTTAAAAT
Found at i:2491806 original size:17 final size:17
Alignment explanation
Indices: 2491784--2491818 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2491774 GAAGTGTTCA
*
2491784 ATGTTTTAAAATGGGAG
1 ATGTTTTAAAATAGGAG
2491801 ATGTTTTAAAATAGGAG
1 ATGTTTTAAAATAGGAG
2491818 A
1 A
2491819 AGTGTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (17 bp):
ATGTTTTAAAATAGGAG
Found at i:2491826 original size:17 final size:17
Alignment explanation
Indices: 2491789--2491827 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2491779 GTTCAATGTT
* * *
2491789 TTAAAATGGGAGATGTT
1 TTAAAATAGGAGAAGTG
2491806 TTAAAATAGGAGAAGTG
1 TTAAAATAGGAGAAGTG
2491823 TTAAA
1 TTAAA
2491828 GTAAGGGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.31
Consensus pattern (17 bp):
TTAAAATAGGAGAAGTG
Found at i:2493408 original size:14 final size:14
Alignment explanation
Indices: 2493391--2493418 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2493381 AAATCTAAAA
2493391 TTAGTATTCTAACT
1 TTAGTATTCTAACT
2493405 TTAGTATTCTAACT
1 TTAGTATTCTAACT
2493419 CATAGCTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAGTATTCTAACT
Found at i:2499807 original size:17 final size:17
Alignment explanation
Indices: 2499785--2499817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2499775 AGTGTTCAAA
*
2499785 GTTTTAAAATGGGAGAT
1 GTTTTAAAATAGGAGAT
2499802 GTTTTAAAATAGGAGA
1 GTTTTAAAATAGGAGA
2499818 AGTGTTAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (17 bp):
GTTTTAAAATAGGAGAT
Found at i:2507456 original size:25 final size:25
Alignment explanation
Indices: 2507422--2507483 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
2507412 AACAAAAAGG
2507422 GGGAGAAGTGTTCAATGTTTTAAAT
1 GGGAGAAGTGTTCAATGTTTTAAAT
2507447 GGGAGAAGTGTTCAATGTTTTAAAT
1 GGGAGAAGTGTTCAATGTTTTAAAT
2507472 GGGAGAAGTGTT
1 GGGAGAAGTGTT
2507484 AGAAGTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (25 bp):
GGGAGAAGTGTTCAATGTTTTAAAT
Found at i:2509202 original size:104 final size:103
Alignment explanation
Indices: 2508976--2509194 Score: 330
Period size: 104 Copynumber: 2.1 Consensus size: 103
2508966 GTCGAGGGTC
*
2508976 TATGTGGTCCTTCGGGACATATATTTATTCTTTGGAACATGTGTGAAGTCAGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCAGGTGAGACACATAC
* * *
2509041 TTGATCCCTAGTATGTTTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* * ***
2509079 TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTTTTGGAGACACATA
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCAGGT-GAGACACATA
* *
2509144 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2509183 TATGTGGTCCTT
1 TATGTGGTCCTT
2509195 ATGGACATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 48 0.47
104 55 0.53
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCAGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2509278 original size:23 final size:23
Alignment explanation
Indices: 2509210--2509270 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2509200 CATTATTATA
*
2509210 TGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
2509233 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
2509256 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
2509271 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:2525738 original size:98 final size:97
Alignment explanation
Indices: 2525565--2525760 Score: 351
Period size: 98 Copynumber: 2.0 Consensus size: 97
2525555 GAGATTATTC
2525565 TCTTCTTAAGTCCTGGTGACTTTTTATCGACTTAGCAAGTATTTTATACTTGTGGCGTCACCCCT
1 TCTTCTTAAGTCCTGGTGACTTTTTATCGACTTAGCAAGTATTTTATACTTGTGGCGTCACCCCT
2525630 TTCTTTCATCTTGATACTTCTGGTTCCTAGTTCA
66 TTCTTTCATCTTGATAC-T-TGGTTCCTAGTTCA
2525664 TCTTCTTAAGTCCTGGTGACTTTTTATCGAC-TAGCAAGTATTTTATACTTGTGGCGTCAACCCC
1 TCTTCTTAAGTCCTGGTGACTTTTTATCGACTTAGCAAGTATTTTATACTTGTGGCGTC-ACCCC
2525728 -TTCTTTCATCTTGATACTTGGTTCCTAGTTCA
65 TTTCTTTCATCTTGATACTTGGTTCCTAGTTCA
2525760 T
1 T
2525761 GCGTTTTGAC
Statistics
Matches: 96, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
96 15 0.16
97 1 0.01
98 44 0.46
99 36 0.38
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (97 bp):
TCTTCTTAAGTCCTGGTGACTTTTTATCGACTTAGCAAGTATTTTATACTTGTGGCGTCACCCCT
TTCTTTCATCTTGATACTTGGTTCCTAGTTCA
Found at i:2526079 original size:25 final size:25
Alignment explanation
Indices: 2526043--2526100 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
2526033 CATCGACTGA
*
2526043 GCCTCGCGCCTCAGAGCCTTGCACC
1 GCCTCGCTCCTCAGAGCCTTGCACC
2526068 GCCTCGCTCCTCAGAGCCTTGCACC
1 GCCTCGCTCCTCAGAGCCTTGCACC
2526093 GCCTCGCT
1 GCCTCGCT
2526101 GAGCCTAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.10, C:0.48, G:0.22, T:0.19
Consensus pattern (25 bp):
GCCTCGCTCCTCAGAGCCTTGCACC
Found at i:2526106 original size:20 final size:22
Alignment explanation
Indices: 2526049--2526106 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 22
2526039 CTGAGCCTCG
2526049 CGCCTCAGAGCCTTGCACCGCCT
1 CGCCT-AGAGCCTTGCACCGCCT
2526072 CGCTCCTCAGAGCCTTGCACCGCCT
1 CG--CCT-AGAGCCTTGCACCGCCT
2526097 CG-CT-GAGCCT
1 CGCCTAGAGCCT
2526107 AGGTGCGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 6 0.18
22 2 0.06
23 2 0.06
25 23 0.70
ACGTcount: A:0.12, C:0.47, G:0.22, T:0.19
Consensus pattern (22 bp):
CGCCTAGAGCCTTGCACCGCCT
Found at i:2527324 original size:6 final size:6
Alignment explanation
Indices: 2527313--2527337 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2527303 AATCCCGGAA
2527313 TCTCCT TCTCCT TCTCCT TCTCCT T
1 TCTCCT TCTCCT TCTCCT TCTCCT T
2527338 TAAAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTCCT
Found at i:2530097 original size:59 final size:59
Alignment explanation
Indices: 2530033--2530152 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 59
2530023 ATATATATAT
* * * *
2530033 ATATATATTTGAAGTTAACATAATAAGAAAATATAATTTTAAGTTAATAA-AAGAATAAA
1 ATATATATTTAAAGTCAACATAAGAAGAAAATATAATTTTAAGTTAA-AATAAAAATAAA
* * * *
2530092 ATATATTTTTAAAGTCAAGATAAGAATAAAATATATTTTTAAGTTAAAATAAAAATAAA
1 ATATATATTTAAAGTCAACATAAGAAGAAAATATAATTTTAAGTTAAAATAAAAATAAA
2530151 AT
1 AT
2530153 CTATTTAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 2 0.04
59 50 0.96
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (59 bp):
ATATATATTTAAAGTCAACATAAGAAGAAAATATAATTTTAAGTTAAAATAAAAATAAA
Found at i:2530157 original size:29 final size:29
Alignment explanation
Indices: 2530033--2530158 Score: 137
Period size: 29 Copynumber: 4.3 Consensus size: 29
2530023 ATATATATAT
* * * *
2530033 ATATATATTTGAAGTTAACATAATAAGAAA
1 ATATAT-TTTTAAGTTAAAATAAGAATAAA
*
2530063 ATATAATTTTAAGTTAATAA-AAGAATAAA
1 ATATATTTTTAAGTTAA-AATAAGAATAAA
* *
2530092 ATATATTTTTAAAGTCAAGATAAGAATAAA
1 ATATATTTTT-AAGTTAAAATAAGAATAAA
*
2530122 ATATATTTTTAAGTTAAAATAAAAATAAA
1 ATATATTTTTAAGTTAAAATAAGAATAAA
*
2530151 ATCTATTT
1 ATATATTT
2530159 AATAAGTTGA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
29 50 0.62
30 31 0.38
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (29 bp):
ATATATTTTTAAGTTAAAATAAGAATAAA
Found at i:2530171 original size:29 final size:29
Alignment explanation
Indices: 2530035--2530185 Score: 114
Period size: 29 Copynumber: 5.2 Consensus size: 29
2530025 ATATATATAT
* * * *
2530035 ATATATTT-GAAGTTAACATAATAAGAAA
1 ATATATTTATAAGTTAAAATAAAAATAAA
*
2530063 ATATAATTT-TAAGTTAATAA-AAGAATAAA
1 ATAT-ATTTATAAGTTAA-AATAAAAATAAA
* * * *
2530092 ATATATTTTTAAAGTCAAGATAAGAATAAA
1 ATATATTTAT-AAGTTAAAATAAAAATAAA
*
2530122 ATATATTTTTAAGTTAAAATAAAAATAAA
1 ATATATTTATAAGTTAAAATAAAAATAAA
* *
2530151 ATCTATTTAATAAGTT-GAATAAAACA-AAA
1 ATATATTT-ATAAGTTAAAATAAAA-ATAAA
2530180 ATATAT
1 ATATAT
2530186 AGTTTTAAAC
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.08
29 62 0.60
30 33 0.32
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (29 bp):
ATATATTTATAAGTTAAAATAAAAATAAA
Found at i:2534799 original size:31 final size:31
Alignment explanation
Indices: 2534687--2534811 Score: 171
Period size: 31 Copynumber: 4.0 Consensus size: 31
2534677 AGGGTCGAGG
* *
2534687 GTTTACCTATGTTCTTCGGGACATATGGAAT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
2534718 GTTTACCTATGTTCTTC-GAGACATATGGGCT
1 GTTTACCTATGTTCTTCGGA-ACATATGGACT
2534749 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* * * *
2534780 GATTACCTAGGTTCTTCGGAACCTATAGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
2534811 G
1 G
2534812 GTCATTCGGG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.01
31 81 0.96
32 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:2535129 original size:16 final size:17
Alignment explanation
Indices: 2535084--2535131 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
2535074 TATATGATGT
*
2535084 GTATTAATGATAAATAT
1 GTATTAATGATAAATAG
*
2535101 ATGATTAAATGATAAA-AG
1 GT-ATT-AATGATAAATAG
2535119 GTATTAATGATAA
1 GTATTAATGATAA
2535132 TAAGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 8 0.31
17 4 0.15
18 5 0.19
19 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (17 bp):
GTATTAATGATAAATAG
Found at i:2535140 original size:35 final size:33
Alignment explanation
Indices: 2535084--2535148 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
2535074 TATATGATGT
*
2535084 GTATTAATGATAAATATATGATTAAATGATAAAAG
1 GTATTAATGATAAATAGATGA-T-AATGATAAAAG
2535119 GTATTAATGAT-AATAAGATGATAATGATAA
1 GTATTAATGATAAAT-AGATGATAATGATAA
2535149 GGAAGAGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 8 0.29
34 4 0.14
35 16 0.57
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (33 bp):
GTATTAATGATAAATAGATGATAATGATAAAAG
Found at i:2535159 original size:18 final size:17
Alignment explanation
Indices: 2535123--2535161 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2535113 TAAAAGGTAT
* *
2535123 TAATGATAATAAGATGA
1 TAATGATAAGAAGAGGA
2535140 TAATGATAAGGAAGAGGA
1 TAATGATAA-GAAGAGGA
2535158 TAAT
1 TAAT
2535162 CATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (17 bp):
TAATGATAAGAAGAGGA
Found at i:2535657 original size:21 final size:21
Alignment explanation
Indices: 2535631--2535672 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2535621 TCGAAGTTAT
*
2535631 ATGCATCGGTGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
2535652 ATGCATCGATGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
2535673 GGTTACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
ATGCATCGATGCACTGTAGCA
Found at i:2541052 original size:20 final size:20
Alignment explanation
Indices: 2541029--2541077 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
2541019 GTCAGTATCG
2541029 ATATTGTTCTTCAAGTACCA
1 ATATTGTTCTTCAAGTACCA
2541049 ATATTGTTCTTCAAGTACCA
1 ATATTGTTCTTCAAGTACCA
2541069 ATATTGTTC
1 ATATTGTTC
2541078 ATGCAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (20 bp):
ATATTGTTCTTCAAGTACCA
Found at i:2541687 original size:2 final size:2
Alignment explanation
Indices: 2541680--2541715 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2541670 AATTTCTTTA
2541680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2541716 TAAGCCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2544935 original size:23 final size:22
Alignment explanation
Indices: 2544892--2544984 Score: 105
Period size: 23 Copynumber: 4.1 Consensus size: 22
2544882 CATCGAAGTG
* *
2544892 CCACATAGAATGTCCCAAAGGA
1 CCACATAGAATATCCCGAAGGA
*
2544914 CCACATATATATATCCCGAAGGA
1 CCACATAGA-ATATCCCGAAGGA
* *
2544937 CCACGTAGAAAAGTCCCGAAGGA
1 CCACATAGAATA-TCCCGAAGGA
*
2544960 CCACATAGAATTGTCCCGAAGGA
1 CCACATAGAA-TATCCCGAAGGA
2544983 CC
1 CC
2544985 GCGTAGAACC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 10 0.17
23 49 0.83
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (22 bp):
CCACATAGAATATCCCGAAGGA
Found at i:2544959 original size:46 final size:46
Alignment explanation
Indices: 2544903--2544992 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
2544893 CACATAGAAT
*
2544903 GTCCCAAAGGACCACATA-TATATATCCCGAAGGACCACGTAGAAAA
1 GTCCCAAAGGACCACATAGAAT-TATCCCGAAGGACCACGTAGAAAA
* * *
2544949 GTCCCGAAGGACCACATAGAATTGTCCCGAAGGACCGCGTAGAA
1 GTCCCAAAGGACCACATAGAATTATCCCGAAGGACCACGTAGAA
2544993 CCCTCGACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (46 bp):
GTCCCAAAGGACCACATAGAATTATCCCGAAGGACCACGTAGAAAA
Found at i:2544991 original size:23 final size:23
Alignment explanation
Indices: 2544927--2544992 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
2544917 CATATATATA
2544927 TCCCGAAGGACCACGTAGAAAAG
1 TCCCGAAGGACCACGTAGAAAAG
* **
2544950 TCCCGAAGGACCACATAGAATTG
1 TCCCGAAGGACCACGTAGAAAAG
*
2544973 TCCCGAAGGACCGCGTAGAA
1 TCCCGAAGGACCACGTAGAA
2544993 CCCTCGACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.27, G:0.26, T:0.12
Consensus pattern (23 bp):
TCCCGAAGGACCACGTAGAAAAG
Found at i:2549664 original size:16 final size:16
Alignment explanation
Indices: 2549643--2549683 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
2549633 AAATGTCTAC
2549643 GGTCTTGTGTCATGGA
1 GGTCTTGTGTCATGGA
*
2549659 GGTCTTATGTCATGGA
1 GGTCTTGTGTCATGGA
2549675 GGTCATTGT
1 GGTC-TTGT
2549684 ACATGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (16 bp):
GGTCTTGTGTCATGGA
Found at i:2550315 original size:25 final size:25
Alignment explanation
Indices: 2550277--2550330 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
2550267 GTATTTCGTT
* *
2550277 AGATGAAATAAGTGTGTTGTGTAAG
1 AGATGAAAGAAGTGTGTTGTGTAAA
*
2550302 AGATGAAAGGAGTGTGTTGTGTAAA
1 AGATGAAAGAAGTGTGTTGTGTAAA
2550327 AGAT
1 AGAT
2550331 TGAACATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (25 bp):
AGATGAAAGAAGTGTGTTGTGTAAA
Found at i:2550619 original size:82 final size:82
Alignment explanation
Indices: 2550482--2550854 Score: 518
Period size: 82 Copynumber: 4.6 Consensus size: 82
2550472 CATTTGCTTT
* * *
2550482 TCAGATAAACTTAAAAATTTTAGAGAGACAGAG-ATGTTACACTATTCATGTCCTTTGCTTTTCA
1 TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAAT-CTACACTATTCACGTCCTTTGCTTTTCA
2550546 TTGACATTTCACATCAAC
65 TTGACATTTCACATCAAC
* * * * * *
2550564 TCAGATAAAATGAAAATTTTTAGAGAGTGAGAGAGTCTATACTATTCACGTCCTTTGCTTTTCAT
1 TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAATCTACACTATTCACGTCCTTTGCTTTTCAT
*
2550629 TGACATTTCACATTAAC
66 TGACATTTCACATCAAC
* * * *
2550646 TCAGATAAACTTAAAAAATTTATAGAGTCAGAGAATCTACACTATTCACGTCATTTACTTTTCAT
1 TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAATCTACACTATTCACGTCCTTTGCTTTTCAT
2550711 TGACATTTCACATCAAC
66 TGACATTTCACATCAAC
* * *
2550728 TCAGATAAACTTGAAAATTTTAGAGAGTCAAAGAATCTATACTATTCACGTCCTTTGC-TTTCAT
1 TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAATCTACACTATTCACGTCCTTTGCTTTTCAT
*
2550792 TGACATTTCACATTAAC
66 TGACATTTCACATCAAC
* * * *
2550809 TCAGAT-AAGTTAAAATTTTTAGAGAGTCAGAAAATCTACATTATTC
1 TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAATCTACACTATTC
2550855 TACCAAAATA
Statistics
Matches: 254, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
80 33 0.13
81 28 0.11
82 192 0.76
83 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (82 bp):
TCAGATAAACTTAAAAATTTTAGAGAGTCAGAGAATCTACACTATTCACGTCCTTTGCTTTTCAT
TGACATTTCACATCAAC
Found at i:2557842 original size:35 final size:35
Alignment explanation
Indices: 2557788--2557950 Score: 159
Period size: 35 Copynumber: 4.7 Consensus size: 35
2557778 AATAACTGTA
* * *
2557788 ACTGATGTGCATTATCTGAATACAACTCAAGACTC
1 ACTGTTGTGCATTATCTGAATGCAACTCATGACTC
* * *
2557823 AATGTTGTGCATTAACTGAATGCGACT-ATTGACTC
1 ACTGTTGTGCATTATCTGAATGCAACTCA-TGACTC
*
2557858 ACT-TCTGTGCATTATCTGAATGCACCTCATGACTC
1 ACTGT-TGTGCATTATCTGAATGCAACTCATGACTC
* * **
2557893 ACTGTTGTGTACTATCTGAATGTGACTCATGACTC
1 ACTGTTGTGCATTATCTGAATGCAACTCATGACTC
** * *
2557928 ACTACTGTGAATTATATGAATGC
1 ACTGTTGTGCATTATCTGAATGC
2557951 GACTTATTGC
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
34 2 0.02
35 99 0.96
36 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (35 bp):
ACTGTTGTGCATTATCTGAATGCAACTCATGACTC
Found at i:2557912 original size:70 final size:70
Alignment explanation
Indices: 2557793--2557950 Score: 201
Period size: 70 Copynumber: 2.3 Consensus size: 70
2557783 CTGTAACTGA
* *
2557793 TGTGCATTATCTGAATACAACTCAAGACTCAATGTTGTGCATTAACTGAATGCGACT-ATTGACT
1 TGTGCATTATCTGAATGCAACTCAAGACTCAATGTTGTGCACTAACTGAATGCGACTCA-TGACT
*
2557857 CACTTC
65 CACTAC
* * * * * *
2557863 TGTGCATTATCTGAATGCACCTCATGACTCACTGTTGTGTACTATCTGAATGTGACTCATGACTC
1 TGTGCATTATCTGAATGCAACTCAAGACTCAATGTTGTGCACTAACTGAATGCGACTCATGACTC
2557928 ACTAC
66 ACTAC
* *
2557933 TGTGAATTATATGAATGC
1 TGTGCATTATCTGAATGC
2557951 GACTTATTGC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
70 75 0.99
71 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (70 bp):
TGTGCATTATCTGAATGCAACTCAAGACTCAATGTTGTGCACTAACTGAATGCGACTCATGACTC
ACTAC
Found at i:2564751 original size:20 final size:20
Alignment explanation
Indices: 2564726--2564771 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
2564716 ATTATATCAT
2564726 TATATTTATATTATATA-TAA
1 TATATTTATATTATATAGT-A
*
2564746 TATATTTATATTGTATAGTA
1 TATATTTATATTATATAGTA
2564766 TATATT
1 TATATT
2564772 ATGTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TATATTTATATTATATAGTA
Found at i:2564897 original size:20 final size:19
Alignment explanation
Indices: 2564872--2564960 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 19
2564862 CATTATACCG
*
2564872 TTATATATATTATATTTATA
1 TTATATAT-TTATATATATA
2564892 TTATATAATATTATATATATA
1 TTATAT-AT-TTATATATATA
*
2564913 -TATATATTTATATATAGTG
1 TTATATATTTATATATA-TA
*
2564932 TTATATATTTAT-TATATG
1 TTATATATTTATATATATA
2564950 TTAT-TATTTAT
1 TTATATATTTAT
2564961 CATTTTTTGC
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.11
18 15 0.23
19 7 0.11
20 22 0.34
21 13 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATATATTTATATATATA
Found at i:2564898 original size:18 final size:17
Alignment explanation
Indices: 2564873--2564960 Score: 83
Period size: 18 Copynumber: 5.1 Consensus size: 17
2564863 ATTATACCGT
2564873 TATATATATTATATTTA
1 TATATATATTATATTTA
*
2564890 TAT-TATATAATA-TTA
1 TATATATATTATATTTA
2564905 TATATATATATATATTTA
1 TATATATAT-TATATTTA
*
2564923 TATATAGTGTTATATATT-
1 TATATA-TATTATAT-TTA
*
2564941 TATTATATGTTATTATTTA
1 TA-TATATATTA-TATTTA
2564960 T
1 T
2564961 CATTTTTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
15 6 0.10
16 13 0.22
17 6 0.10
18 23 0.38
19 12 0.20
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TATATATATTATATTTA
Found at i:2564906 original size:30 final size:30
Alignment explanation
Indices: 2564872--2564948 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
2564862 CATTATACCG
2564872 TTATATATATTATAT-TTATATTATATAATA
1 TTATATATATTATATATTATA-TATATAATA
* *
2564902 TTATATATATATATATATT-TATATATAGTG
1 TTATATATAT-TATATATTATATATATAATA
2564932 TTATATAT-TTATTATAT
1 TTATATATATTA-TATAT
2564949 GTTATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.05
29 6 0.14
30 25 0.60
31 7 0.17
32 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TTATATATATTATATATTATATATATAATA
Found at i:2564939 original size:2 final size:2
Alignment explanation
Indices: 2564873--2564928 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
2564863 ATTATACCGT
*
2564873 TA TA TA TA T- TA TA TT TA TA T- TA TA TA -A TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2564911 TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2564929 GTGTTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2564954 original size:10 final size:9
Alignment explanation
Indices: 2564872--2564956 Score: 55
Period size: 10 Copynumber: 8.4 Consensus size: 9
2564862 CATTATACCG
*
2564872 TTATATATA
1 TTATATTTA
2564881 TTATATTTATA
1 TTATA-TT-TA
*
2564892 TTATATAATA
1 TTATAT-TTA
2564902 TTATATATATA
1 TTATAT-T-TA
2564913 TATATATTTA
1 T-TATATTTA
2564923 TATATAGTGTTA
1 T-TATA-T-TTA
2564935 -TATATTTA
1 TTATATTTA
2564943 TTATATGTTA
1 TTATAT-TTA
2564953 TTAT
1 TTAT
2564957 TTATCATTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.05
9 11 0.17
10 30 0.47
11 12 0.19
12 8 0.12
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (9 bp):
TTATATTTA
Found at i:2578343 original size:16 final size:16
Alignment explanation
Indices: 2578322--2578352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2578312 TCGTCCGACT
2578322 TTGTTTATATGATATA
1 TTGTTTATATGATATA
*
2578338 TTGTTTATATTATAT
1 TTGTTTATATGATAT
2578353 TATATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
TTGTTTATATGATATA
Found at i:2578373 original size:5 final size:5
Alignment explanation
Indices: 2578365--2578440 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
2578355 TATTATATTA
2578365 TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG
1 TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG
2578415 TGTTG TGTTG TGTTG TGTTG TGTTG T
1 TGTTG TGTTG TGTTG TGTTG TGTTG T
2578441 ATTATATTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (5 bp):
TGTTG
Found at i:2578448 original size:5 final size:5
Alignment explanation
Indices: 2578440--2578526 Score: 70
Period size: 5 Copynumber: 16.0 Consensus size: 5
2578430 TGTTGTGTTG
2578440 TATTA TATTA TATTA TATTA TATTA TATTTA TATTA TATGT- TATT- TATGTGA
1 TATTA TATTA TATTA TATTA TATTA TA-TTA TATTA TAT-TA TATTA TAT-T-A
*
2578492 CTTATGTA TATTA TATCTA TATATG TATTA TATTA
1 --TAT-TA TATTA TAT-TA TAT-TA TATTA TATTA
2578527 CATATTTATA
Statistics
Matches: 71, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.06
5 43 0.61
6 18 0.25
8 1 0.01
9 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:2578473 original size:16 final size:16
Alignment explanation
Indices: 2578440--2578487 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
2578430 TGTTGTGTTG
2578440 TATTATATTATA-TTA
1 TATTATATTATATTTA
2578455 TATTATATTATATTTA
1 TATTATATTATATTTA
2578471 TATTATATGT-TATTTA
1 TATTATAT-TATATTTA
2578487 T
1 T
2578488 GTGACTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.39
16 18 0.58
17 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATATTATATTTA
Found at i:2578616 original size:23 final size:21
Alignment explanation
Indices: 2578440--2578630 Score: 85
Period size: 23 Copynumber: 8.8 Consensus size: 21
2578430 TGTTGTGTTG
2578440 TATTATATTA-TATTATA-TTA
1 TATTATA-TAGTATTATATTTA
2578460 TATTATATTTA-TATTATATGTTA
1 TATTATA--TAGTATTATAT-TTA
* *
2578483 T-TTATGTGACTTATGTATA-TTA
1 TATTATAT-A-GTAT-TATATTTA
*
2578505 TATCTATATATGTATTATATTACA
1 TAT-TATATA-GTATTATATT-TA
* *
2578529 TATT-TATAATA-TATACTTA
1 TATTATATAGTATTATATTTA
* * *
2578548 CATTATATAGTGTGTATACATTA
1 TATTATATAGTAT-TATA-TTTA
* *
2578571 TACCGT-TAT-CTATTATATTTA
1 TA--TTATATAGTATTATATTTA
2578592 TATTATATAGTATTATATATATA
1 TATTATATAGTATTATAT-T-TA
2578615 TATTATATAGTATTAT
1 TATTATATAGTATTAT
2578631 GCATTTATTA
Statistics
Matches: 131, Mismatches: 19, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.04
20 21 0.16
21 26 0.20
22 25 0.19
23 38 0.29
24 15 0.11
25 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (21 bp):
TATTATATAGTATTATATTTA
Found at i:2578623 original size:13 final size:13
Alignment explanation
Indices: 2578440--2578623 Score: 64
Period size: 13 Copynumber: 13.7 Consensus size: 13
2578430 TGTTGTGTTG
2578440 TATTATATTATATTA
1 TATTATA-TATA-TA
2578455 TATTATAT-TATA
1 TATTATATATATA
2578467 T-TTATAT-TATA
1 TATTATATATATA
* *
2578478 TGTTAT-T-TATG
1 TATTATATATATA
*
2578489 TGACTTATGTATAT-
1 T-A-TTATATATATA
* *
2578503 TATATCTATATATG
1 TAT-TATATATATA
*
2578517 TATTATAT-TACA
1 TATTATATATATA
2578529 TATT-TATAATATA
1 TATTATAT-ATATA
*
2578542 TACTTACAT-TATA
1 TA-TTATATATATA
* *
2578555 TAGTGTGTATACATTA
1 TA-T-TATATATA-TA
*
2578571 TACCGTTATCTAT-TA
1 TA---TTATATATATA
2578586 TATTTATATTATATA
1 TA-TTATA-TATATA
2578601 GTATTATATATATA
1 -TATTATATATATA
2578615 TATTATATA
1 TATTATATA
2578624 GTATTATGCA
Statistics
Matches: 132, Mismatches: 18, Indels: 40
0.69 0.09 0.21
Matches are distributed among these distances:
11 19 0.14
12 14 0.11
13 43 0.33
14 20 0.15
15 24 0.18
16 6 0.05
17 4 0.03
18 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (13 bp):
TATTATATATATA
Found at i:2578639 original size:21 final size:23
Alignment explanation
Indices: 2578590--2578651 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
2578580 CTATTATATT
*
2578590 TATATTATATAGTATTATATATA
1 TATATTATATAGTATTATACATA
*
2578613 TATATTATATAGTATTATGCAT-
1 TATATTATATAGTATTATACATA
2578635 T-TATTATAT-GTTATTAT
1 TATATTATATAG-TATTAT
2578652 TTATCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
22 1 0.03
23 20 0.56
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (23 bp):
TATATTATATAGTATTATACATA
Found at i:2585518 original size:29 final size:29
Alignment explanation
Indices: 2585469--2585570 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
2585459 CTTAGTAAAA
** * *
2585469 TAAAGGACTAAATAGTA-AAAATAGAAATT
1 TAAAGGACTAAA-AAAACAAAACAGAAACT
* *
2585498 TACAGGACTAAAACAACAAAACAGAAACT
1 TAAAGGACTAAAAAAACAAAACAGAAACT
*
2585527 TAAAGGATTAAAAAAACAAAAACAGAAAC-
1 TAAAGGACTAAAAAAAC-AAAACAGAAACT
2585556 TAAAGGGACTAAAAA
1 TAAA-GGACTAAAAA
2585571 CATAAATATC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.03
29 39 0.64
30 20 0.33
ACGTcount: A:0.62, C:0.11, G:0.13, T:0.15
Consensus pattern (29 bp):
TAAAGGACTAAAAAAACAAAACAGAAACT
Found at i:2585551 original size:30 final size:30
Alignment explanation
Indices: 2585485--2585570 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 30
2585475 ACTAAATAGT
* * * *
2585485 AAAAATAGAAATTTACAGGACTAAAACAAC
1 AAAAACAGAAACTTAAAGGACTAAAAAAAC
*
2585515 -AAAACAGAAACTTAAAGGATTAAAAAAAC
1 AAAAACAGAAACTTAAAGGACTAAAAAAAC
2585544 AAAAACAGAAAC-TAAAGGGACTAAAAA
1 AAAAACAGAAACTTAAA-GGACTAAAAA
2585571 CATAAATATC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 28 0.58
30 20 0.42
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.13
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAGGACTAAAAAAAC
Found at i:2586789 original size:3 final size:3
Alignment explanation
Indices: 2586783--2586853 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
2586773 TCATTTAAAT
** ** *
2586783 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* *
2586829 ATA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2586854 TACAAAAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:2586810 original size:24 final size:25
Alignment explanation
Indices: 2586777--2586843 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
2586767 TTTTTTTCAT
*
2586777 TTAAATTTATTATTATTATTA-AAA
1 TTAAAATTATTATTATTATTATAAA
2586801 TTAAAATTATTATTATTATTATTAAA
1 TTAAAATTATTATTATTATTA-TAAA
*
2586827 -TAATATTATTA-TATTAT
1 TTAAAATTATTATTATTAT
2586844 AATTATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 26 0.67
25 10 0.26
26 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAAATTATTATTATTATTATAAA
Found at i:2586851 original size:27 final size:26
Alignment explanation
Indices: 2586783--2586848 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
2586773 TCATTTAAAT
2586783 TTATTATTATTATTAAAATTAAAATTA
1 TTATTATTATTATT-AAATTAAAATTA
*
2586810 TTATTATTATTATTAAA-TAATATTA
1 TTATTATTATTATTAAATTAAAATTA
*
2586835 TTA-TATTATAATTA
1 TTATTATTATTATTA
2586849 TTATTTACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 10 0.27
25 10 0.27
26 3 0.08
27 14 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTATTATTATTAAATTAAAATTA
Found at i:2586898 original size:25 final size:26
Alignment explanation
Indices: 2586861--2586913 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
2586851 ATTTACAAAA
* * *
2586861 AGTTACAACCAAA-CTGGACCGGCCC
1 AGTTACAAACAAACCAGAACCGGCCC
2586886 AGTTACAAACAAACCAGAACCGGCCC
1 AGTTACAAACAAACCAGAACCGGCCC
2586912 AG
1 AG
2586914 ACCAACCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.38, C:0.34, G:0.19, T:0.09
Consensus pattern (26 bp):
AGTTACAAACAAACCAGAACCGGCCC
Found at i:2595254 original size:114 final size:114
Alignment explanation
Indices: 2595054--2595260 Score: 324
Period size: 114 Copynumber: 1.8 Consensus size: 114
2595044 ATAGTAGAAT
* * * *
2595054 AAGACTCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCA
1 AAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCA
* *
2595119 AAATCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAAAAATAAG
66 AAACCAATCATTGGAATTGAAAGATGAATTTGCTCATAGTAAAAATAAG
* *
2595168 AAGACCCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCA
1 AAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCA
* *
2595233 GAACCGATCATTGGAATTGAAAGATGAA
66 AAACCAATCATTGGAATTGAAAGATGAA
2595261 CTACATGATC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (114 bp):
AAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCA
AAACCAATCATTGGAATTGAAAGATGAATTTGCTCATAGTAAAAATAAG
Found at i:2597356 original size:54 final size:54
Alignment explanation
Indices: 2597281--2597437 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
2597271 CATCAATCCC
* * * * *
2597281 AGCAGAAGCCACATGAGAGGATGAATATGTTGTCAAATATTTTACGAACATCTG
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
* *
2597335 AGCAGAAACTACAGGAAAGGATAAATGTGTTGTCAAATGTTTTACGAACATCTG
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
* ***
2597389 AGCAGAAGCCACAGGAAAGGATGAATGCACTGTCAAATGTTTTACGAAC
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
2597438 CTGCTATTCT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (54 bp):
AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
Found at i:2597836 original size:22 final size:22
Alignment explanation
Indices: 2597805--2597859 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2597795 ATCTACACTC
*
2597805 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
2597827 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
2597849 TTCAAAGATGA
1 TTCAAAGATGA
2597860 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:2598619 original size:76 final size:76
Alignment explanation
Indices: 2598537--2599255 Score: 1307
Period size: 76 Copynumber: 9.5 Consensus size: 76
2598527 CTATTTCCCA
2598537 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598602 AGCCTTCGGGT
66 AGCCTTCGGGT
*
2598613 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598677 AGCCTTCGGGT
66 AGCCTTCGGGT
2598688 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598753 AGCCTTCGGGT
66 AGCCTTCGGGT
2598764 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598829 AGCCTTCGGGT
66 AGCCTTCGGGT
2598840 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598904 AGCCTTCGGGT
66 AGCCTTCGGGT
2598915 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2598980 AGCATTCGGGT
66 AGCCTTCGGGT
* *
2598991 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
2599056 AAACCTTAGGGT
65 AAGCCTTCGGGT
*
2599068 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2599133 AGCCTTAGGGT
66 AGCCTTCGGGT
2599144 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
2599209 AAACCTTCGGGT
65 AAGCCTTCGGGT
* *
2599221 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
2599256 CATTTCGAGG
Statistics
Matches: 624, Mismatches: 15, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
75 149 0.24
76 359 0.58
77 116 0.19
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:2598811 original size:151 final size:152
Alignment explanation
Indices: 2598537--2599255 Score: 1307
Period size: 151 Copynumber: 4.7 Consensus size: 152
2598527 CTATTTCCCA
2598537 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598602 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2598666 AATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
2598688 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598753 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
2598818 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
2598840 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598904 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2598969 GATGTTTTCAAAGCATTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
* *
2598991 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* * *
2599056 AAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2599121 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTCGGGT
2599144 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* * *
2599209 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
2599256 CATTTCGAGG
Statistics
Matches: 551, Mismatches: 14, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
151 273 0.50
152 87 0.16
153 191 0.35
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGT
Found at i:2598932 original size:227 final size:227
Alignment explanation
Indices: 2598537--2599255 Score: 1312
Period size: 227 Copynumber: 3.2 Consensus size: 227
2598527 CTATTTCCCA
2598537 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2598602 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTA
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
2598667 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
2598732 GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
196 GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
2598764 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2598829 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
2598894 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
*
2598959 GGAGCTTTTTGATGTTTTCAAAGCATTCGGGT
196 GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* *
2598991 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* * *
2599056 AAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTT
*
2599121 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
129 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
2599186 CGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGT
194 CGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGT
* *
2599221 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
2599256 CATTTCGAGG
Statistics
Matches: 477, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
227 286 0.60
228 59 0.12
229 88 0.18
230 44 0.09
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (227 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:2599388 original size:3 final size:3
Alignment explanation
Indices: 2599382--2599449 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
2599372 TCATTTAAAT
** *
2599382 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
2599428 TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
2599450 TACAAACAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2599414 original size:24 final size:25
Alignment explanation
Indices: 2599382--2599444 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 25
2599372 TCATTTAAAT
2599382 TTATTATTATTATTAAA-ATTATTA
1 TTATTATTATTATTAAATATTATTA
2599406 TTATTATTATTATTAAATATTATTA
1 TTATTATTATTATTAAATATTATTA
*
2599431 TTA-TATTATAATTA
1 TTATTATTATTATTA
2599445 TTATTTACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 27 0.73
25 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATTATTATTAAATATTATTA
Found at i:2599504 original size:26 final size:26
Alignment explanation
Indices: 2599456--2599508 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2599446 TATTTACAAA
* *
2599456 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
*
2599482 CAGTTACAAACAAACCAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
2599508 C
1 C
2599509 GGACCAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.34, G:0.17, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:2600755 original size:18 final size:18
Alignment explanation
Indices: 2600732--2600790 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2600722 TTGTTTAAAT
2600732 ATATTTTAATTTTATATA
1 ATATTTTAATTTTATATA
*
2600750 ATATTTTAATTAGTAT-TA
1 ATATTTTAATT-TTATATA
* *
2600768 TTATTTTATTTTTA-ATA
1 ATATTTTAATTTTATATA
2600785 TATATT
1 -ATATT
2600791 ATTTGATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.12
18 26 0.79
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATATTTTAATTTTATATA
Found at i:2600804 original size:24 final size:24
Alignment explanation
Indices: 2600743--2600805 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
2600733 TATTTTAATT
*
2600743 TTATATAATATTTTAATTAGTATTA
1 TTATATTA-ATTTTAATTAGTATTA
* *
2600768 TTATTTTATTTTTAATATA-TATTA
1 TTATATTAATTTTAAT-TAGTATTA
2600792 TT-TGATTAATTTTA
1 TTAT-ATTAATTTTA
2600806 TAAATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 22 0.71
25 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATATTAATTTTAATTAGTATTA
Found at i:2601871 original size:11 final size:12
Alignment explanation
Indices: 2601855--2601923 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
2601845 GCTGCACAAA
2601855 AATTATAAT-GT
1 AATTATAATAGT
2601866 AATTATAATAGT
1 AATTATAATAGT
2601878 AA-TAGTAATAGT
1 AATTA-TAATAGT
*
2601890 AA-TAGTAATAAT
1 AATTA-TAATAGT
* *
2601902 AATAATAATAAT
1 AATTATAATAGT
*
2601914 AATAATAATA
1 AATTATAATA
2601924 ATAAATAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
11 11 0.21
12 41 0.77
13 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (12 bp):
AATTATAATAGT
Found at i:2601903 original size:3 final size:3
Alignment explanation
Indices: 2601865--2601927 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
2601855 AATTATAATG
* * * * *
2601865 TAA TTA TAA TAG TAA TAG TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2601913 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
2601928 ATAGAATATC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2601935 original size:18 final size:18
Alignment explanation
Indices: 2601865--2601927 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
2601855 AATTATAATG
* *
2601865 TAATTATAATAGTAATAG
1 TAATAATAATAGTAATAA
*
2601883 TAATAGTAATAGTAATAA
1 TAATAATAATAGTAATAA
*
2601901 TAATAATAATAATAATAA
1 TAATAATAATAGTAATAA
2601919 TAATAATAA
1 TAATAATAA
2601928 ATAGAATATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
TAATAATAATAGTAATAA
Found at i:2604693 original size:28 final size:28
Alignment explanation
Indices: 2604661--2604717 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2604651 TTCTCTGATT
2604661 ACATTATGTTGTAGAG-CAAATGCTTGAA
1 ACATTATGTTGTAGAGTC-AATGCTTGAA
* *
2604689 ACATTATGTTGTCGAGTCAGTGCTTGAA
1 ACATTATGTTGTAGAGTCAATGCTTGAA
2604717 A
1 A
2604718 ATAAAGGCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (28 bp):
ACATTATGTTGTAGAGTCAATGCTTGAA
Found at i:2606274 original size:42 final size:42
Alignment explanation
Indices: 2606210--2606497 Score: 308
Period size: 42 Copynumber: 6.8 Consensus size: 42
2606200 AAAGTTCTTT
* *
2606210 ATCTGTAGCGGCATTTTTGGAACAAATGCCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAATGCCGCAAAAGGTCAG
* * *
2606252 ATCTATAGCAGCGTTTTTGGAACAAATGCCGCAAAAGATTGAG
1 ATCTATAGCGGCGTTTTTGGAACAAATGCCGCAAAAG-GTCAG
** * * *
2606295 ATCTATAGCGGTTTTTTTGGAAC-AATCGCTGCAAAAAGTCAA
1 ATCTATAGCGGCGTTTTTGGAACAAAT-GCCGCAAAAGGTCAG
* * *
2606337 ATCTATAGCGTCGTTTTTGGAACAAACGCCGTAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAATGCCGCAAAAGGTCAG
* * * * *
2606379 ATCTATAGCGGCGTTTTTGGATACAAACGCTGTAAAAAGTTAG
1 ATCTATAGCGGCGTTTTTGGA-ACAAATGCCGCAAAAGGTCAG
* * * * * *
2606422 GTCTATAGCGACGATTTTGTAACAAACGTCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAATGCCGCAAAAGGTCAG
2606464 ATCTATAGCGGCGTTTTTTGGATACAAATGCCGC
1 ATCTATAGCGGCG-TTTTTGGA-ACAAATGCCGC
2606498 TAATTACCTT
Statistics
Matches: 200, Mismatches: 40, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
42 117 0.58
43 74 0.37
44 9 0.05
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAATGCCGCAAAAGGTCAG
Found at i:2606341 original size:85 final size:85
Alignment explanation
Indices: 2606190--2606490 Score: 331
Period size: 85 Copynumber: 3.5 Consensus size: 85
2606180 TGAGAATAAA
* ** * * * *
2606190 AAACGCCGCAAAAGTTCTTTATCTGTAGCGGCATTTTTGGA-ACAAAT-GCCGCAAAAGGTCAGA
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCTTTTTTGGATAC-AATCGCTGCAAAAAGTCAGA
2606253 TCTATAGC-AGCGTTTTTGGAAC
64 TCTATAGCGA-CGTTTTTGGAAC
* * * * *
2606275 AAATGCCGCAAAAGATTGAGATCTATAGCGGTTTTTTTGGA-ACAATCGCTGCAAAAAGTCAAAT
1 AAACGCCGCAAAAG-GTCAGATCTATAGCGGCTTTTTTGGATACAATCGCTGCAAAAAGTCAGAT
*
2606339 CTATAGCGTCGTTTTTGGAAC
65 CTATAGCGACGTTTTTGGAAC
* * * * * *
2606360 AAACGCCGTAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCTGTAAAAAGTTAGGTC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCTTTTTTGGATACAATCGCTGCAAAAAGTCAGATC
* *
2606425 TATAGCGACGATTTTGTAAC
66 TATAGCGACGTTTTTGGAAC
*
2606445 AAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTGGATACAA
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGC-TTTTTTGGATACAA
2606491 ATGCCGCTAA
Statistics
Matches: 183, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
84 25 0.14
85 143 0.78
86 15 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCTTTTTTGGATACAATCGCTGCAAAAAGTCAGATC
TATAGCGACGTTTTTGGAAC
Found at i:2606446 original size:127 final size:128
Alignment explanation
Indices: 2606210--2606497 Score: 343
Period size: 127 Copynumber: 2.3 Consensus size: 128
2606200 AAAGTTCTTT
* *
2606210 ATCTGTAGCGGC-ATTTTTGGAACAAATGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTTGGAACAAATGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGAA
* * **** *
2606274 CAAATGCCGCAAAAGATTGAGATCTATAGCGGTTTTTTTGGAACAATCG-CTGCAAAAAGTCAA
66 CAAACGCCGAAAAAGATTGAGATCTATAGCGACGATTTTGGAACAAACGTC-GCAAAAAGTCAA
* * * *
2606337 ATCTATAGCGTCG-TTTTTGGAACAAACGCCGTAAAAGGTCAGATCTATAGCGGCGTTTTTGGAT
1 ATCTATAGCGGCGTTTTTTGGAACAAATGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGA-
* * * * *
2606401 ACAAACGCTGTAAAAAG-TT-AGGTCTATAGCGACGATTTTGTAACAAACGTCGCAAAAGGTCAG
65 ACAAACGCCG-AAAAAGATTGAGATCTATAGCGACGATTTTGGAACAAACGTCGCAAAAAGTCAA
2606464 ATCTATAGCGGCGTTTTTTGGATACAAATGCCGC
1 ATCTATAGCGGCGTTTTTTGGA-ACAAATGCCGC
2606498 TAATTACCTT
Statistics
Matches: 135, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
127 102 0.76
128 19 0.14
129 14 0.10
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (128 bp):
ATCTATAGCGGCGTTTTTTGGAACAAATGCCGCAAAAGGTCAGATCTATAGCAGCGTTTTTGGAA
CAAACGCCGAAAAAGATTGAGATCTATAGCGACGATTTTGGAACAAACGTCGCAAAAAGTCAA
Found at i:2615530 original size:11 final size:11
Alignment explanation
Indices: 2615492--2615534 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2615482 TTGAAATCAA
*
2615492 GTTTTCATTAG
1 GTTTTCTTTAG
2615503 GTTTTCTTTAAG
1 GTTTTCTTT-AG
* *
2615515 TTTTTCTTTTG
1 GTTTTCTTTAG
2615526 GTTTTCTTT
1 GTTTTCTTT
2615535 CAATTATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (11 bp):
GTTTTCTTTAG
Found at i:2619178 original size:82 final size:81
Alignment explanation
Indices: 2619068--2619425 Score: 306
Period size: 82 Copynumber: 4.3 Consensus size: 81
2619058 GTTCGTGAGA
*** *
2619068 AAAAAATGCCACTATAGGTGAACCCTATTACAATGTTTGTATAAAAACACCG-TGAAAGTACTAA
1 AAAAAA-GCCACTATAGGTGAA-CCTATTACGGCGTTTGTATAAAAACGCCGCT-AAAGTACTAA
* **
2619132 TCTGTTGCGGTGTTTACTG
63 TCTGTTACGACGTTTACTG
* **
2619151 AAAAAAGCCACTATAGGTGAACTCTATTATC-GCGTTTGTATAAAAATGCCGCTAAAGTTTTAAT
1 AAAAAAGCCACTATAGGTGAAC-CTATTA-CGGCGTTTGTATAAAAACGCCGCTAAAGTACTAAT
** *
2619215 CTGTTATAACGTTTATTG
64 CTGTTACGACGTTTACTG
* * ** *
2619233 AAAAAATGTCACTATAGGTGAACCTTATTGCGGCGTTTACATAAAAACGCCGCTTAAGTACTAAT
1 AAAAAA-GCCACTATAGGTGAACC-TATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTAAT
* *
2619298 ATGTTACGACGTTTATTG
64 CTGTTACGACGTTTACTG
* * * * * * * * *
2619316 AAAAATGCCACTATAGATGGACCTATTGCGGTGTTTGTATAGAAACGCCGGTGAAGTACTACTCT
1 AAAAAAGCCACTATAGGTGAACCTATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCT
* * * *
2619381 GTTGCGGCGTTTTTCTA
66 GTTACGACG-TTTACTG
* *
2619398 AAAAAAGACACTATAGATGAACCCTATT
1 AAAAAAGCCACTATAGGTGAA-CCTATT
2619426 GTGGTGTTTA
Statistics
Matches: 224, Mismatches: 43, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
81 42 0.19
82 102 0.46
83 80 0.36
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (81 bp):
AAAAAAGCCACTATAGGTGAACCTATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTAATCT
GTTACGACGTTTACTG
Found at i:2620363 original size:22 final size:22
Alignment explanation
Indices: 2620338--2620386 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
2620328 TTAAAGAACC
2620338 TAGGCAATTAAACCTAAAAATG
1 TAGGCAATTAAACCTAAAAATG
2620360 TAGGCAATTAAACCTAAAAATG
1 TAGGCAATTAAACCTAAAAATG
2620382 TAGGC
1 TAGGC
2620387 TCTAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.22
Consensus pattern (22 bp):
TAGGCAATTAAACCTAAAAATG
Found at i:2620620 original size:141 final size:139
Alignment explanation
Indices: 2620365--2621114 Score: 567
Period size: 139 Copynumber: 5.4 Consensus size: 139
2620355 AAATGTAGGC
* * * ** * *
2620365 AATTAAACCTAAAAATGTAGGCTCTAATATTAATCCAAATCATTTTTAATAAATCAT-TGAGTCG
1 AATTAAACCTAAAAA-GGAGGCTCTAATATTAATCCTAATCAATTTTAACCAATTATGTGATTC-
* * * ** ** * * * **
2620429 AGA-AGTCAAAATTGGAACCTCGAGCATCAGCGAAAACCAAATAAAAAATTCTCTTAAATAAAAG
64 AAATAATTAAAA-TGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCACCTAAATTTAAG
*
2620493 GACTCATTATGA
128 GACTCAATATGA
*** * * *
2620505 AATTAAACCTAAAAAGGATTTTCTAAAAATATTAA-CTTAATCAATTTTAACCAATTCTTTGATT
1 AATTAAACCTAAAAAGGAGGCTCT---AATATTAATCCTAATCAATTTTAACCAATTATGTGATT
*
2620569 CAAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATTCACCTAAATTTAA-
63 CAAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCACCTAAATTTAAG
*
2620633 G-CTCTAAAATTGA
128 GACTC-AATA-TGA
* * ** ** *
2620646 AATTAAGCTTAAAGTGGAGGCTCTAATATTAATCCTAATCAATTTTAATTAATTATGTGATTCGA
1 AATTAAACCTAAAAAGGAGGCTCTAATATTAATCCTAATCAATTTTAACCAATTATGTGATTCAA
* * * *
2620711 ATAATTAAAATGGAACCTTGGGCAAAAGCGAGGACCAAATTAAAAATTCCCCTAAATTTAAGGAG
66 ATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCACCTAAATTTAAGGAC
*
2620776 T-AAGTGTGA
131 TCAA-TATGA
** * * * * * * *
2620785 AATTAAACCTAAAGTGGAGGCTCTAGTTATCAA-CCTAATTAATTTCAATCAATTATGTGATCCG
1 AATTAAACCTAAAAAGGAGGCTCTA-ATATTAATCCTAATCAATTTTAACCAATTATGTGATTCA
* * * *
2620849 AATAATTAAAATGAAACCTTGAGCAAAAGCAATGG-CCAAATT-AAAATTCCCCTAAATTTAAGG
65 AATAATTAAAATGGAACCTCGAGCAAAAGCGA-GGACCAAATTAAAAATTCACCTAAATTTAAGG
* *
2620912 AC-CAGGT-TTA
129 ACTCA-ATATGA
* * * * *** **
2620922 AAGTTAAGCCTAAAATGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATAAAATTTG
1 AA-TTAAACCTAAAAAGGAGGCTCTAATATTAATCCTAATCAATTTTAACCAATTATGTGATTCA
* * * * * * *
2620987 AATAATGAAAATGAAACCTCGAGCAAAAGCAAGGA-C--ACTAAGAATTCGCTTAAATTTAAGGA
65 AATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCACCTAAATTTAAGGA
*
2621049 CT-AAAATTGA
130 CTCAATA-TGA
* ** * * *
2621059 AATTAAGCCTAAAGTGGAGGCTCTAATATTTATCCTAATAAATTTTAATCAATTAT
1 AATTAAACCTAAAAAGGAGGCTCTAATATTAATCCTAATCAATTTTAACCAATTAT
2621115 AAAATTATTC
Statistics
Matches: 505, Mismatches: 83, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
135 2 0.00
136 72 0.14
137 16 0.03
138 108 0.21
139 182 0.36
140 26 0.05
141 80 0.16
142 19 0.04
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (139 bp):
AATTAAACCTAAAAAGGAGGCTCTAATATTAATCCTAATCAATTTTAACCAATTATGTGATTCAA
ATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCACCTAAATTTAAGGAC
TCAATATGA
Found at i:2620971 original size:277 final size:275
Alignment explanation
Indices: 2620571--2621114 Score: 675
Period size: 277 Copynumber: 2.0 Consensus size: 275
2620561 CTTTGATTCA
* * *
2620571 AATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAATTAAGAATTCACCTAAATTTAAGCT
1 AATAATTAAAATGAAACCTCGAGCAAAAGCAAGGACCAAATTAAGAATTCACCTAAATTTAAGCA
* * *
2620636 CTAAAATTGAAATTAAGCTTAAAGTGGAGGCTCTAATATTAATCCTAATCAATTTTAATTAATTA
66 CTAAAATTGAAATTAAGCCTAAAATGGAGGCTCTAATATTAATCCTAATCAATTTTAATCAATTA
*** * * * * * *
2620701 TGTGATTCGAATAATTAAAATGGAACCTTGGGCAAAAGCGAGGACCAAATTAAAAATTCCCCTAA
131 TAAAATTCGAATAATGAAAATGAAACCTCGAGCAAAAGCAAGGA-C--ACTAAAAATTCCCCTAA
* * * *
2620766 ATTTAAGGAGT-AAGTGTGAAATTAAACCTAAAGTGGAGGCTCTAGT-TATCAACCTAATTAATT
193 ATTTAAGGACTAAAAT-TGAAATTAAACCTAAAGTGGAGGCTCTAATAT-TCAACCTAATAAATT
2620829 TCAATCAATTATGTGATCCG
256 TCAATCAATTATGTGATCCG
* * *
2620849 AATAATTAAAATGAAACCTTGAGCAAAAGCAATGG-CCAAATTAA-AATTCCCCTAAATTTAAGG
1 AATAATTAAAATGAAACCTCGAGCAAAAGCAA-GGACCAAATTAAGAATTCACCTAAATTTAAGC
* ** * *
2620912 AC-CAGGTTTAAAGTTAAGCCTAAAATGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAAT
65 ACTAAAATTGAAA-TTAAGCCTAAAATGGAGGCTCTAATATTAATCCTAATCAATTTTAATCAAT
* * * *
2620976 TATAAAATTTGAATAATGAAAATGAAACCTCGAGCAAAAGCAAGGACACTAAGAATTCGCTTAAA
129 TATAAAATTCGAATAATGAAAATGAAACCTCGAGCAAAAGCAAGGACACTAAAAATTCCCCTAAA
* * * *
2621041 TTTAAGGACTAAAATTGAAATTAAGCCTAAAGTGGAGGCTCTAATATTTATCCTAATAAATTTTA
194 TTTAAGGACTAAAATTGAAATTAAACCTAAAGTGGAGGCTCTAATATTCAACCTAATAAATTTCA
2621106 ATCAATTAT
259 ATCAATTAT
2621115 AAAATTATTC
Statistics
Matches: 227, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
274 74 0.33
275 4 0.02
276 7 0.03
277 102 0.45
278 38 0.17
279 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (275 bp):
AATAATTAAAATGAAACCTCGAGCAAAAGCAAGGACCAAATTAAGAATTCACCTAAATTTAAGCA
CTAAAATTGAAATTAAGCCTAAAATGGAGGCTCTAATATTAATCCTAATCAATTTTAATCAATTA
TAAAATTCGAATAATGAAAATGAAACCTCGAGCAAAAGCAAGGACACTAAAAATTCCCCTAAATT
TAAGGACTAAAATTGAAATTAAACCTAAAGTGGAGGCTCTAATATTCAACCTAATAAATTTCAAT
CAATTATGTGATCCG
Found at i:2620973 original size:138 final size:139
Alignment explanation
Indices: 2620532--2621114 Score: 689
Period size: 139 Copynumber: 4.2 Consensus size: 139
2620522 ATTTTCTAAA
* * * * * *
2620532 AATATTAA-CTTAATCAATTTTAACCAATTCTTTGATTCAAATAATTAAAATGGAACCTCGAGCA
1 AATATTAATCCTAATCAATTTTAATCAATTATGTGATTCGAATAATTAAAATGAAACCTCGAGCA
* * ** *
2620596 AAAGCGAGGACCAAATTAAGAATTCACCTAAATTTAAGCTCTAAAATTGAAATTAAGCTTAAAGT
66 AAAGCAAGGACCAAATTAAGAATTCCCCTAAATTTAAGGACTAAAATTGAAATTAAGCCTAAAGT
2620661 GGAGGCTCT
131 GGAGGCTCT
* * * *
2620670 AATATTAATCCTAATCAATTTTAATTAATTATGTGATTCGAATAATTAAAATGGAACCTTGGGCA
1 AATATTAATCCTAATCAATTTTAATCAATTATGTGATTCGAATAATTAAAATGAAACCTCGAGCA
* * * * *
2620735 AAAGCGAGGACCAAATTAAAAATTCCCCTAAATTTAAGGAGT-AAGTGTGAAATTAAACCTAAAG
66 AAAGCAAGGACCAAATTAAGAATTCCCCTAAATTTAAGGACTAAAAT-TGAAATTAAGCCTAAAG
2620799 TGGAGGCTCT
130 TGGAGGCTCT
* * * * * *
2620809 AGTTATCAA-CCTAATTAATTTCAATCAATTATGTGATCCGAATAATTAAAATGAAACCTTGAGC
1 A-ATATTAATCCTAATCAATTTTAATCAATTATGTGATTCGAATAATTAAAATGAAACCTCGAGC
* ** *
2620873 AAAAGCAATGG-CCAAATTAA-AATTCCCCTAAATTTAAGGAC-CAGGTTTAAAGTTAAGCCTAA
65 AAAAGCAA-GGACCAAATTAAGAATTCCCCTAAATTTAAGGACTAAAATTGAAA-TTAAGCCTAA
*
2620935 AATGGAGGCTCT
128 AGTGGAGGCTCT
* *** * *
2620947 AATATTAATCCTAATTAATTTTAATCAATTATAAAATTTGAATAATGAAAATGAAACCTCGAGCA
1 AATATTAATCCTAATCAATTTTAATCAATTATGTGATTCGAATAATTAAAATGAAACCTCGAGCA
* * *
2621012 AAAGCAAGGA-C--ACTAAGAATTCGCTTAAATTTAAGGACTAAAATTGAAATTAAGCCTAAAGT
66 AAAGCAAGGACCAAATTAAGAATTCCCCTAAATTTAAGGACTAAAATTGAAATTAAGCCTAAAGT
2621074 GGAGGCTCT
131 GGAGGCTCT
* *
2621083 AATATTTATCCTAATAAATTTTAATCAATTAT
1 AATATTAATCCTAATCAATTTTAATCAATTAT
2621115 AAAATTATTC
Statistics
Matches: 385, Mismatches: 50, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
135 4 0.01
136 70 0.18
137 18 0.05
138 110 0.29
139 176 0.46
140 7 0.02
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (139 bp):
AATATTAATCCTAATCAATTTTAATCAATTATGTGATTCGAATAATTAAAATGAAACCTCGAGCA
AAAGCAAGGACCAAATTAAGAATTCCCCTAAATTTAAGGACTAAAATTGAAATTAAGCCTAAAGT
GGAGGCTCT
Found at i:2623151 original size:15 final size:15
Alignment explanation
Indices: 2623131--2623183 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
2623121 TTTAAGGCAT
2623131 AAATTAAATAACAAA
1 AAATTAAATAACAAA
*
2623146 AAATTAAATAGCAAA
1 AAATTAAATAACAAA
*
2623161 AATTTAAATAA-AAA
1 AAATTAAATAACAAA
2623175 AAATTAAAT
1 AAATTAAAT
2623184 CAATCGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.32
15 23 0.68
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATTAAATAACAAA
Found at i:2624979 original size:3 final size:3
Alignment explanation
Indices: 2624971--2625050 Score: 110
Period size: 3 Copynumber: 27.0 Consensus size: 3
2624961 GACTTATGTA
* *
2624971 AAT AAT AAT AAT AAT AAT AAC AA- GAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2625017 AAT AAT AAT AAT AAAT AAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
2625051 GGTAAAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 3 0.04
3 63 0.91
4 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2625000 original size:17 final size:17
Alignment explanation
Indices: 2624971--2625050 Score: 112
Period size: 17 Copynumber: 4.8 Consensus size: 17
2624961 GACTTATGTA
2624971 AATAATAATAATAATAAT
1 AATAAT-ATAATAATAAT
* *
2624989 AACAAGATAATAATAAT
1 AATAATATAATAATAAT
2625006 AATAATATAATAATAAT
1 AATAATATAATAATAAT
2625023 AATAATA-AATAATAAT
1 AATAATATAATAATAAT
2625039 AA-AA-ATAATAAT
1 AATAATATAATAAT
2625051 GGTAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
14 1 0.02
15 8 0.14
16 11 0.19
17 33 0.58
18 4 0.07
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
AATAATATAATAATAAT
Found at i:2625000 original size:20 final size:19
Alignment explanation
Indices: 2624969--2625049 Score: 119
Period size: 20 Copynumber: 4.2 Consensus size: 19
2624959 TGGACTTATG
2624969 TAAATAATAATAATAATAA
1 TAAATAATAATAATAATAA
2624988 TAACA-AGATAATAATAATAA
1 TAA-ATA-ATAATAATAATAA
2625008 TAATATAATAATAATAATAA
1 TAA-ATAATAATAATAATAA
*
2625028 TAAATAATAATAAAAATAA
1 TAAATAATAATAATAATAA
2625047 TAA
1 TAA
2625050 TGGTAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
19 22 0.39
20 34 0.60
21 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (19 bp):
TAAATAATAATAATAATAA
Found at i:2625191 original size:18 final size:18
Alignment explanation
Indices: 2625168--2625231 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
2625158 ACAAATTCTT
2625168 CTCGTTATGAACTTTTCG
1 CTCGTTATGAACTTTTCG
*
2625186 CTCGTTATAAACTTTTCG
1 CTCGTTATGAACTTTTCG
*
2625204 CTCGTTATGAACTTTTCA
1 CTCGTTATGAACTTTTCG
2625222 CTCGTT-TGAA
1 CTCGTTATGAA
2625232 TGAGATCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
17 4 0.09
18 39 0.91
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (18 bp):
CTCGTTATGAACTTTTCG
Found at i:2625267 original size:27 final size:27
Alignment explanation
Indices: 2625225--2625276 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2625215 CTTTTCACTC
2625225 GTTTGAATGAGATCCTTCCACTGTATT
1 GTTTGAATGAGATCCTTCCACTGTATT
*
2625252 GTTTGAATGAGCTCCTTCCACTGTA
1 GTTTGAATGAGATCCTTCCACTGTA
2625277 AACATTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
GTTTGAATGAGATCCTTCCACTGTATT
Done.