Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 13 of 106
Found at i:2075101 original size:17 final size:17
Alignment explanation
Indices: 2075031--2075168 Score: 65
Period size: 17 Copynumber: 7.9 Consensus size: 17
2075021 CAAAATAAAA
*
2075031 AGATAAAT-ATATTAAT
1 AGATAAATAATAATAAT
* *
2075047 AGATAACAAAAAAAATAATT
1 AGAT-A-AATAATAATAA-T
*
2075067 AGATAAATAA-AAGAAAT
1 AGATAAATAATAA-TAAT
2075084 AGATAAATAATAATAAT
1 AGATAAATAATAATAAT
* *
2075101 A-AAAAATAAAAGCAGATAAAT
1 AGATAAAT--AA-TA-AT-AAT
*
2075122 A-ATAAA-AATATTAAT
1 AGATAAATAATAATAAT
2075137 AGATAAA-AATAATAAT
1 AGATAAATAATAATAAT
*
2075153 AAGA-AAATAAAAATAA
1 -AGATAAATAATAATAA
2075169 AAAATATATA
Statistics
Matches: 95, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.04
16 26 0.27
17 29 0.31
18 14 0.15
19 7 0.07
20 7 0.07
21 8 0.08
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (17 bp):
AGATAAATAATAATAAT
Found at i:2075137 original size:39 final size:42
Alignment explanation
Indices: 2075088--2075171 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
2075078 AGAAATAGAT
* *
2075088 AAATAATAATA-AT-AAAA-AATAA-AAGCAGATAAATAATAA
1 AAATAATAATAGATAAAAATAATAATAAGAAAATAAA-AATAA
*
2075127 AAATATTAATAGATAAAAATAATAATAAGAAAATAAAAATAA
1 AAATAATAATAGATAAAAATAATAATAAGAAAATAAAAATAA
2075169 AAA
1 AAA
2075172 ATATATATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 10 0.26
40 2 0.05
41 4 0.11
42 13 0.34
43 9 0.24
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (42 bp):
AAATAATAATAGATAAAAATAATAATAAGAAAATAAAAATAA
Found at i:2075170 original size:5 final size:6
Alignment explanation
Indices: 2075116--2075203 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
2075106 ATAAAAGCAG
*
2075116 ATAAATA ATAAAA ATATTAATA GATAAAA ATAATA ATAAGAAA ATAAAA
1 ATAAA-A ATAAAA ATA--AA-A -ATAAAA ATAAAA AT-A-AAA ATAAAA
* * *
2075165 ATAAAAA ATATATA TTAAATA ATGAAA ATAAAA ATAAAA
1 AT-AAAA ATA-AAA ATAAA-A ATAAAA ATAAAA ATAAAA
2075204 GCCCATTGGG
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
6 30 0.47
7 22 0.34
8 8 0.12
9 1 0.02
10 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:2075692 original size:45 final size:45
Alignment explanation
Indices: 2075643--2075729 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
2075633 GAGATAATAG
* *
2075643 AGGATACAAGTTACTAATAGAAGATGAAATTGTTAGAAGAAATGA
1 AGGATACAAGTTACCAATAGAAGATGAAATTATTAGAAGAAATGA
*
2075688 AGGATACAAGTTCCCAATAGAAGATGAAATTATTAGAAGAAA
1 AGGATACAAGTTACCAATAGAAGATGAAATTATTAGAAGAAA
2075730 GATTTAGAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (45 bp):
AGGATACAAGTTACCAATAGAAGATGAAATTATTAGAAGAAATGA
Found at i:2080464 original size:23 final size:23
Alignment explanation
Indices: 2080438--2080501 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
2080428 AAAGTTATAC
* *
2080438 TTTTTAGAATATGATATTGTATG
1 TTTTAAGAATATGATATTGCATG
2080461 TTTTCAA-AATATGATATTGCATG
1 TTTT-AAGAATATGATATTGCATG
*
2080484 CTTTAAGAATATGATATT
1 TTTTAAGAATATGATATT
2080502 ATGTATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 2 0.06
23 33 0.92
24 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TTTTAAGAATATGATATTGCATG
Found at i:2083549 original size:49 final size:48
Alignment explanation
Indices: 2083484--2083609 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 48
2083474 GAGCCTTTAT
* * * *
2083484 TAAGGGAGTTTTCATTTCAATTTATTTTTAATGTTGTATAGCCTCTGA
1 TAAGGGAGTTTTCATTTCAATTTATTTTTAAAGTAGTAGAGCATCTGA
* *
2083532 TGAGGGTAGTTTTCATTTCAATTTATTTTTAAAGTAGTGGAGCATCTGA
1 TAAGGG-AGTTTTCATTTCAATTTATTTTTAAAGTAGTAGAGCATCTGA
*
2083581 TAAGAGGAGTTTTCATTTTAATTTATTTT
1 TAAG-GGAGTTTTCATTTCAATTTATTTT
2083610 CAAAATTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 5 0.07
49 61 0.90
50 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (48 bp):
TAAGGGAGTTTTCATTTCAATTTATTTTTAAAGTAGTAGAGCATCTGA
Found at i:2083836 original size:49 final size:49
Alignment explanation
Indices: 2083657--2083870 Score: 207
Period size: 49 Copynumber: 4.3 Consensus size: 49
2083647 TATTTTTGTC
* * * * *
2083657 TCAATTTATTTTTAAAAGTTGTGGAGCCTCT-AGTTAGAGGACTTTTCTTT
1 TCAATTTATTTTTAAAA-TTGTGAAGCCTTTGA-TGAGAGGAGTTTTCATT
* * * * ***
2083707 TTAATTTATTTTTAAAGTCGTGATGCCTCAAATGAGAGGAGTTTTCATT
1 TCAATTTATTTTTAAAATTGTGAAGCCTTTGATGAGAGGAGTTTTCATT
2083756 TCAATTTATTTTTAAAATTGTGAAGCCTTTGATGAGAAGG-GTTTTCATT
1 TCAATTTATTTTTAAAATTGTGAAGCCTTTGATGAG-AGGAGTTTTCATT
* * * ** * **
2083805 TCAATTAATTTTTAAAGTTGTGGAGTTTTTGATGTGAGGAGTTTTTGTT
1 TCAATTTATTTTTAAAATTGTGAAGCCTTTGATGAGAGGAGTTTTCATT
2083854 TCAATTTATTTTTAAAA
1 TCAATTTATTTTTAAAA
2083871 ACTTATAGAA
Statistics
Matches: 135, Mismatches: 26, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
48 3 0.02
49 113 0.84
50 19 0.14
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (49 bp):
TCAATTTATTTTTAAAATTGTGAAGCCTTTGATGAGAGGAGTTTTCATT
Found at i:2084308 original size:6 final size:6
Alignment explanation
Indices: 2084297--2084390 Score: 54
Period size: 6 Copynumber: 16.2 Consensus size: 6
2084287 AAACATTTTC
* * * *
2084297 TCATTT TCATTT TCATTT TCAATTT TAATTT TAATTT TAATTT T-AATT
1 TCATTT TCATTT TCATTT TC-ATTT TCATTT TCATTT TCATTT TCATTT
* * * * *
2084345 TCAATT TCTTTT TTATTAT T-ATTC T-ATTT T-ATTT T-AATT TCATTT
1 TCATTT TCATTT TCATT-T TCATTT TCATTT TCATTT TCATTT TCATTT
2084390 T
1 T
2084391 AAAAATAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
5 18 0.24
6 49 0.66
7 7 0.09
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (6 bp):
TCATTT
Found at i:2084358 original size:18 final size:18
Alignment explanation
Indices: 2084299--2084392 Score: 72
Period size: 18 Copynumber: 5.4 Consensus size: 18
2084289 ACATTTTCTC
* *
2084299 ATTTTCATTTTCATTTTCA
1 ATTTTAATTTT-AATTTCA
*
2084318 ATTTTAATTTTAATTTTA
1 ATTTTAATTTTAATTTCA
*
2084336 ATTTTAATTTCAATTTC-
1 ATTTTAATTTTAATTTCA
* * *
2084353 TTTTTTATTATT-A-TTCT
1 ATTTTAATT-TTAATTTCA
2084370 ATTTT-ATTTTAATTTC-
1 ATTTTAATTTTAATTTCA
2084386 ATTTTAA
1 ATTTTAA
2084393 AAATAAATAC
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
15 2 0.03
16 12 0.20
17 16 0.26
18 21 0.34
19 10 0.16
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTAATTTTAATTTCA
Found at i:2088405 original size:66 final size:63
Alignment explanation
Indices: 2088324--2088465 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 63
2088314 AATGGAGTTT
* * * *
2088324 CAATGATTAATTACTGCATTAGAAAACAAAGCAATATAGTAATTGGATTGTTTTAAAAAATAATT
1 CAATGATCAAATACTGCATTAGAAAACAAAGCAATATAGTAATT-GAATG-TTT-AAAAACAATT
2088389 A
63 A
* * * * *
2088390 CAATGATCAAATACTGCATTATAAACCAATGCAATGTAGTAATTGAATGTTTCAAAACAATTA
1 CAATGATCAAATACTGCATTAGAAAACAAAGCAATATAGTAATTGAATGTTTAAAAACAATTA
2088453 CAATGATCAAATA
1 CAATGATCAAATA
2088466 TTGCGTTATA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
63 22 0.33
64 3 0.04
65 4 0.06
66 38 0.57
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (63 bp):
CAATGATCAAATACTGCATTAGAAAACAAAGCAATATAGTAATTGAATGTTTAAAAACAATTA
Found at i:2088487 original size:63 final size:63
Alignment explanation
Indices: 2088380--2088851 Score: 196
Period size: 62 Copynumber: 7.5 Consensus size: 63
2088370 ATTGTTTTAA
* * * *
2088380 AAAATAATTACAATGATCAAATACTGCATTATAAACCAATGCAATGTAGTAATTGAATGTTTC
1 AAAACAATTACAATGATCAAATACTGCATTATAAACCAACGCAATGCAATAATTGAATGTTTC
* * ** * * *
2088443 AAAACAATTACAATGATCAAATATTGCGTTATACAA-TTACGCAATGCAATAATTGATTTTTTT
1 AAAACAATTACAATGATCAAATACTGCATTATA-AACCAACGCAATGCAATAATTGAATGTTTC
* * ** ** * * *
2088506 AAATA-AA-TACAA-GTATCAATTATTGCATTATGAAA-CAAATCAACACACTATTTGATTGTTT
1 AAA-ACAATTACAATG-ATCAAATACTGCATTAT-AAACCAACGCAATGCAATAATTGAATGTTT
*
2088567 G
63 C
* * * * * * * *
2088568 AAAAAAATGAAAAATTATCAATTTCTGCATTATAAACCAATGCAATGCGATAATTGAATGTTTC
1 AAAACAAT-TACAATGATCAAATACTGCATTATAAACCAACGCAATGCAATAATTGAATGTTTC
* * * * * ** * * *
2088632 AAAACAATTATAATTATCAGATACTACGTTATACAA-TTACACAATGCAGTAATT-AAT-TTTT
1 AAAACAATTACAATGATCAAATACTGCATTATA-AACCAACGCAATGCAATAATTGAATGTTTC
** * * * ** * *
2088693 TGAA-ATTTAACCAA-GTATCAATTACTACATTATGAAA-CAAATCAATG-AAGTATTTGATTGT
1 AAAACAATT-A-CAATG-ATCAAATACTGCATTAT-AAACCAACGCAATGCAA-TAATTGAATGT
*
2088754 TTG
61 TTC
** * * * ** * *
2088757 AAAATGA-TAAAATTATCAATTACTGTGTTCTAAACCAATGCAATGCAATAATTGAATGTTTC
1 AAAACAATTACAATGATCAAATACTGCATTATAAACCAACGCAATGCAATAATTGAATGTTTC
* * * *
2088819 AAAACAATTACAATTATTAGATACTACATTATA
1 AAAACAATTACAATGATCAAATACTGCATTATA
2088852 CAATTACGCA
Statistics
Matches: 294, Mismatches: 93, Indels: 44
0.68 0.22 0.10
Matches are distributed among these distances:
60 3 0.01
61 12 0.04
62 114 0.39
63 111 0.38
64 54 0.18
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (63 bp):
AAAACAATTACAATGATCAAATACTGCATTATAAACCAACGCAATGCAATAATTGAATGTTTC
Found at i:2088739 original size:62 final size:60
Alignment explanation
Indices: 2088673--2088946 Score: 149
Period size: 62 Copynumber: 4.4 Consensus size: 60
2088663 TACAATTACA
*
2088673 CAATGCAGTAATTAATTTTTTGAAATTTAACCAAGTATCAATTACTACATTATGAAACAAAT
1 CAATGCAGTAATTGATTTTTTGAAATTTAA-CAAGTATCAATTACTACATTAT-AAACAAAT
* * * * * *** * *
2088735 CAATGAAGTATTTGATTGTTTGAAAATGATAA-AATTATCAATTACTGTGTTCTAAACCAAT
1 CAATGCAGTAATTGATTTTTTG-AAAT-TTAACAAGTATCAATTACTACATTATAAACAAAT
* *** * * * ** *
2088796 GCAATGCAATAATTGAATGTTTCAAAACAATT-ACAATTATTAGA-TACTACATTATACAATTAC
1 -CAATGCAGTAATTG-AT-TTTTTGAA-ATTTAACAAGTATCA-ATTACTACATTATA-AACAAA
*
2088859 G
60 T
* * ***
2088860 CAACGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTACTGTGTTATGAAACAAAT
1 CAATGCAGTAATTGATTTTTTGAAATTTAA-CAAGTATCAATTACTACATTAT-AAACAAAT
* * *
2088922 CAATGCATTATTTGATTGTTTGAAA
1 CAATGCAGTAATTGATTTTTTGAAA
2088947 AAAAATAAAA
Statistics
Matches: 149, Mismatches: 50, Indels: 26
0.66 0.22 0.12
Matches are distributed among these distances:
60 3 0.02
61 14 0.09
62 86 0.58
63 36 0.24
64 10 0.07
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (60 bp):
CAATGCAGTAATTGATTTTTTGAAATTTAACAAGTATCAATTACTACATTATAAACAAAT
Found at i:2089062 original size:188 final size:187
Alignment explanation
Indices: 2088332--2089440 Score: 1160
Period size: 188 Copynumber: 5.9 Consensus size: 187
2088322 TTCAATGATT
* ** * * * * *
2088332 AATTACTGCATTA-GAAAACAAAGCAATATAGTAATTGGATTGTTTTAAAAAATAATTACAATGA
1 AATTACTGCATTATG-AAACAAATCAATGCAAT-ATTTGATTG-TTTGAAAAA-AA-TAAAATTA
* * * * *
2088396 TCAAATACTGCATTATAAACCAATGCAATGTAGTAATTGAATGTTTCAAAACAATTACAATGATC
61 TCAATTACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATC
* * * * * * *
2088461 AAATATTGCGTTATACAATTACGCAATGCAATAATTGATTTTTTTAAA-TAAATACAAGTATC
126 AAATATTGAGTTATACAACTACGAAATGCAGTAATTGATTTTTTGAAATTTAA-CCAAGTATC
* ** *
2088523 AATTATTGCATTATGAAACAAATCAACACACTATTTGATTGTTTGAAAAAAATGAAAAATTATCA
1 AATTACTGCATTATGAAACAAATCAATGCAATATTTGATTGTTTGAAAAAAAT--AAAATTATCA
* * * * *
2088588 ATTTCTGCATTATAAACCAATGCAATGCGATAATTGAATGTTTCAAAACAATTATAATTATCAGA
64 ATTACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAA
* * *
2088653 TACT-ACGTTATACAATTAC-ACAATGCAGTAATTAATTTTTTGAAATTTAACCAAGTATC
129 TATTGA-GTTATACAACTACGA-AATGCAGTAATTGATTTTTTGAAATTTAACCAAGTATC
* **
2088712 AATTACTACATTATGAAACAAATCAATG-AAGTATTTGATTGTTTGAAAATGATAAAATTATCAA
1 AATTACTGCATTATGAAACAAATCAATGCAA-TATTTGATTGTTTGAAAAAAATAAAATTATCAA
** * * * *
2088776 TTACTGTGTTCTAAACCAATGCAATGCAATAATTGAATGTTTCAAAACAATTACAATTATTAGAT
65 TTACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAAT
* * * * * *
2088841 ACT-ACATTATACAATTACGCAACGTAGTAATTGATTTTTTGAAATTTAACCAAGTATC
130 ATTGA-GTTATACAACTACGAAATGCAGTAATTGATTTTTTGAAATTTAACCAAGTATC
** *
2088899 AATTACTGTGTTATGAAACAAATCAATGCATTATTTGATTGTTTGAAAAAAAATAAAATTATCAA
1 AATTACTGCATTATGAAACAAATCAATGCAATATTTGATTGTTTG-AAAAAAATAAAATTATCAA
* * **
2088964 TTATTGCATTATAAACCGATGCAACATAATAATTGAATGTTTCAAAACAATTACAATTATCAAAT
65 TTACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAAT
*
2089029 ATTGAGTTATACAACTACGAAATGTAGTAATTGATTTTTTGAAATTTAACCAAGTATC
130 ATTGAGTTATACAACTACGAAATGCAGTAATTGATTTTTTGAAATTTAACCAAGTATC
* * * * * * * *
2089087 AATTATTGCATTCTAAAAAAAATTAAGGTAATGTTTGATTGTTT---AAAAA-AAAATTATCAAT
1 AATTACTGCATTATGAAACAAATCAATGCAATATTTGATTGTTTGAAAAAAATAAAATTATCAAT
* ** * ** * * * * *
2089148 TATTGTGTTATAAACCAAAGCAACATAGTAATTGACTGTTTCAAAACAATTATAACTATCAACTA
66 TACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATA
* * * ** *
2089213 TTGTGTTATGCAACTAC-ACAATACAACAATTGATTTTTTGAAACTTAACCAAGTATC
131 TTGAGTTATACAACTACGA-AATGCAGTAATTGATTTTTTGAAATTTAACCAAGTATC
* *
2089270 AATTACTGCATTATGAAACAAATCAAAGCAATATTTGATTTTTTGAAGAAAAATAAAATTATCAA
1 AATTACTGCATTATGAAACAAATCAATGCAATATTTGATTGTTTGAA-AAAAATAAAATTATCAA
* * * * * **
2089335 TTACTACATTATAAACTAATGCAACGCAGTAATTGAATATTTCAAAATAATGGCAATTATCAAAT
65 TTACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAAT
* ** *
2089400 ATTGTGTTATACAACTACGTGATGTAGTAATTGATTGTTTT
130 ATTGAGTTATACAACTACGAAATGCAGTAATTGATT-TTTT
2089441 AAAAATTACA
Statistics
Matches: 775, Mismatches: 124, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
182 1 0.00
183 151 0.19
184 5 0.01
187 166 0.21
188 248 0.32
189 167 0.22
190 11 0.01
191 25 0.03
192 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (187 bp):
AATTACTGCATTATGAAACAAATCAATGCAATATTTGATTGTTTGAAAAAAATAAAATTATCAAT
TACTGCATTATAAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATA
TTGAGTTATACAACTACGAAATGCAGTAATTGATTTTTTGAAATTTAACCAAGTATC
Found at i:2089326 original size:371 final size:370
Alignment explanation
Indices: 2088408--2089440 Score: 1258
Period size: 371 Copynumber: 2.8 Consensus size: 370
2088398 AAATACTGCA
**
2088408 TTATAAACCAATGCAATGTAGTAATTGAATGTTTCAAAACAATTACAATGATCAAATATTGCGTT
1 TTATAAACCAATGCAACATAGTAATTGAATGTTTCAAAACAATTACAAT-ATC-AATATTGCGTT
* * * *
2088473 ATACAATTACGCAATGCAATAATTGATTTTTTTAAATAAATACAAGTATCAATTATTGCATTATG
64 ATACAATTACGCAATGCAATAATTGATTTTTTGAAATTAA-CCAAGTATCAATTACTGCATTATG
*
2088538 AAACAAATCAACA-CACTATTTGATTGTTTGAAAAAAATGAAAAATTATCAATT-TCTGCATTAT
128 AAACAAATCAA-AGCAATATTTGATTGTTTGAAAAAAAT--AAAATTATCAATTAT-TGCATTAT
* * * * *
2088601 AAACCAATGCAATGCGATAATTGAATGTTTCAAAACAATTATAATTATCAGATACT-ACGTTATA
189 AAACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATATTGA-GTTATA
* * * *
2088665 CAATTAC-ACAATGCAGTAATTAATTTTTTGAAATTTAACCAAGTATCAATTACTACATTATGAA
253 CAACTACGA-AATGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTACTACATTATAAA
* *
2088729 ACAAATCAATGAAGTATTTGATTGTTTGAAAATGATAAAATTATCAATTACTGTG
317 AAAAATCAAGGAAGTATTTGATTGTTTGAAAA-GATAAAATTATCAATTACTGTG
* * * * *
2088784 TTCTAAACCAATGCAATGCA-A-TAATTGAATGTTTCAAAACAATTACAATTATTAGATACTACA
1 TTATAAACCAATGCAA--CATAGTAATTGAATGTTTCAAAACAATTACAA-TATCA-ATATTGCG
* * * **
2088847 TTATACAATTACGCAACGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTACTGTGTTA
62 TTATACAATTACGCAATGCAATAATTGATTTTTTGAAA-TTAACCAAGTATCAATTACTGCATTA
* *
2088912 TGAAACAAATCAATGCATTATTTGATTGTTTGAAAAAAAATAAAATTATCAATTATTGCATTATA
126 TGAAACAAATCAAAGCAATATTTGATTGTTTG-AAAAAAATAAAATTATCAATTATTGCATTATA
* **
2088977 AACCGATGCAACATAATAATTGAATGTTTCAAAACAATTACAATTATCAAATATTGAGTTATACA
190 AACCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATATTGAGTTATACA
* * *
2089042 ACTACGAAATGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTATTGCATTCTAAAAAA
255 ACTACGAAATGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTACTACATTATAAAAAA
* * *
2089107 AATTAAGGTAA-TGTTTGATTGTTT-AAAA-A-AAAATTATCAATTATTGTG
320 AATCAAGG-AAGTATTTGATTGTTTGAAAAGATAAAATTATCAATTACTGTG
* * * *
2089155 TTATAAACCAAAGCAACATAGTAATTGACTGTTTCAAAACAATTATAACTATCAACTATTGTGTT
1 TTATAAACCAATGCAACATAGTAATTGAATGTTTCAAAACAATTACAA-TATCAA-TATTGCGTT
* * * * *
2089220 ATGCAACTACACAATACAACAATTGATTTTTTGAAACTTAACCAAGTATCAATTACTGCATTATG
64 ATACAATTACGCAATGCAATAATTGATTTTTTGAAA-TTAACCAAGTATCAATTACTGCATTATG
* * *
2089285 AAACAAATCAAAGCAATATTTGATTTTTTGAAGAAAAATAAAATTATCAATTACTACATTATAAA
128 AAACAAATCAAAGCAATATTTGATTGTTTGAA-AAAAATAAAATTATCAATTATTGCATTATAAA
* * * * ** *
2089350 CTAATGCAACGCAGTAATTGAATATTTCAAAATAATGGCAATTATCAAATATTGTGTTATACAAC
192 CCAATGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATATTGAGTTATACAAC
**
2089415 TACGTGATGTAGTAATTGATTGTTTT
257 TACGAAATGTAGTAATTGATT-TTTT
2089441 AAAAATTACA
Statistics
Matches: 565, Mismatches: 76, Indels: 36
0.83 0.11 0.05
Matches are distributed among these distances:
369 2 0.00
370 4 0.01
371 251 0.44
372 5 0.01
374 4 0.01
375 151 0.27
376 135 0.24
377 13 0.02
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (370 bp):
TTATAAACCAATGCAACATAGTAATTGAATGTTTCAAAACAATTACAATATCAATATTGCGTTAT
ACAATTACGCAATGCAATAATTGATTTTTTGAAATTAACCAAGTATCAATTACTGCATTATGAAA
CAAATCAAAGCAATATTTGATTGTTTGAAAAAAATAAAATTATCAATTATTGCATTATAAACCAA
TGCAACGCAATAATTGAATGTTTCAAAACAATTACAATTATCAAATATTGAGTTATACAACTACG
AAATGTAGTAATTGATTTTTTGAAATTTAACCAAGTATCAATTACTACATTATAAAAAAAATCAA
GGAAGTATTTGATTGTTTGAAAAGATAAAATTATCAATTACTGTG
Found at i:2092030 original size:59 final size:58
Alignment explanation
Indices: 2091863--2092071 Score: 262
Period size: 59 Copynumber: 3.5 Consensus size: 58
2091853 ATTTTGATGC
* * *
2091863 TTTATTTAAGAAAAAAATGATACTTTCAACTTTTTTTTCAAAT-ATTTTTTGAAAATGTTTTT
1 TTTATTTAAG-AAAAATTGATACTTT-AAC-TTTTCTTCAAATAATTTTTTG-AAAT-ATTTT
* *
2091925 TTTATTTAAGAAAAATTAATACTTTAAC-TTTCCTCAAATAATTTTTTGAAATATTTT
1 TTTATTTAAGAAAAATTGATACTTTAACTTTTCTTCAAATAATTTTTTGAAATATTTT
* *
2091982 TTTATTTAAGGAAACTTGATACTTTAACTTTTCTTCAAATAACATTTTTTGAAATA-TTT
1 TTTATTTAAGAAAAATTGATACTTTAACTTTTCTTCAAAT-A-ATTTTTTGAAATATTTT
*
2092041 TTTATTTAAGAAAAATTGATACTTCAACTTT
1 TTTATTTAAGAAAAATTGATACTTTAACTTT
2092072 AAAAAAAAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
57 29 0.22
58 23 0.18
59 40 0.31
60 16 0.12
61 13 0.10
62 10 0.08
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (58 bp):
TTTATTTAAGAAAAATTGATACTTTAACTTTTCTTCAAATAATTTTTTGAAATATTTT
Found at i:2092095 original size:58 final size:56
Alignment explanation
Indices: 2091922--2092101 Score: 198
Period size: 57 Copynumber: 3.1 Consensus size: 56
2091912 TGAAAATGTT
* * ** *
2091922 TTTTTTATTTAAGAAAAATTAATACTTTAACTTTCCTCAAATAATTTTTTGAAATA
1 TTTTTTATTTAAGAAAAATTGATACTTTAACTTTACAAAAAAAATTTTTTGAAATA
* * * * *
2091978 TTTTTTTATTTAAGGAAACTTGATACTTTAACTTTTCTTCAAATAACATTTTTTGAAATA
1 -TTTTTTATTTAAGAAAAATTGATACTTTAAC--TT-TACAAAAAAAATTTTTTGAAATA
* *
2092038 TTTTTTATTTAAGAAAAATTGATACTTCAACTTTAAAAAAAAAAAATTTTTTGAAATA
1 TTTTTTATTTAAGAAAAATTGATACTTTAACTTT--ACAAAAAAAATTTTTTGAAATA
2092096 TTTTTT
1 TTTTTT
2092102 TTCGTATACT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
56 1 0.01
57 30 0.29
58 24 0.24
59 30 0.29
60 17 0.17
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (56 bp):
TTTTTTATTTAAGAAAAATTGATACTTTAACTTTACAAAAAAAATTTTTTGAAATA
Found at i:2092102 original size:59 final size:57
Alignment explanation
Indices: 2091906--2092102 Score: 207
Period size: 59 Copynumber: 3.4 Consensus size: 57
2091896 TTTTTCAAAT
* * * ** *
2091906 ATTTTTTGAAAATGTTTTTTTTATTTAAGAAAAATTAATACTTTAACTTTCCTCAAATA
1 ATTTTTTG-AAAT-ATTTTTTTATTTAAGAAAAATTGATACTTTAACTTTACAAAAAAA
* * * * *
2091965 ATTTTTTGAAATATTTTTTTATTTAAGGAAACTTGATACTTTAACTTTTCTTCAAATAAC
1 ATTTTTTGAAATATTTTTTTATTTAAGAAAAATTGATACTTTAAC--TT-TACAAAAAAA
* *
2092025 ATTTTTTGAAATA-TTTTTTATTTAAGAAAAATTGATACTTCAACTTTAAAAAAAAAAA
1 ATTTTTTGAAATATTTTTTTATTTAAGAAAAATTGATACTTTAACTTT--ACAAAAAAA
2092083 ATTTTTTGAAATATTTTTTT
1 ATTTTTTGAAATATTTTTTT
2092103 TCGTATACTT
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
56 1 0.01
57 31 0.27
58 22 0.19
59 44 0.38
60 17 0.15
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (57 bp):
ATTTTTTGAAATATTTTTTTATTTAAGAAAAATTGATACTTTAACTTTACAAAAAAA
Found at i:2094225 original size:22 final size:22
Alignment explanation
Indices: 2094197--2094268 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
2094187 AATTCAAAAT
2094197 ACAATTTGAAACTTAAAGATTC
1 ACAATTTGAAACTTAAAGATTC
** * *
2094219 ACAATTTGAGTC-CAAAGAATC
1 ACAATTTGAAACTTAAAGATTC
*
2094240 ACAATTTTGAAA-TTCAAAGTTTC
1 ACAA-TTTGAAACTT-AAAGATTC
2094263 ACAATT
1 ACAATT
2094269 CAAAGAGTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 11 0.29
22 17 0.45
23 10 0.26
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (22 bp):
ACAATTTGAAACTTAAAGATTC
Found at i:2094351 original size:17 final size:18
Alignment explanation
Indices: 2094329--2094370 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
2094319 TTAGCTTTGC
2094329 AAGAATTTCAAGTTCA-T
1 AAGAATTTCAAGTTCACT
2094346 AAGAATTTCAAGTTCACT
1 AAGAATTTCAAGTTCACT
2094364 -AGAATTT
1 AAGAATTT
2094371 TTAGATTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
AAGAATTTCAAGTTCACT
Found at i:2094618 original size:16 final size:16
Alignment explanation
Indices: 2094577--2094620 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
2094567 AGTTCACAAG
2094577 ATTTTCAGATTTTCAAA
1 ATTTT-AGATTTTCAAA
*
2094594 ATGTTTAGATTTTCAAC
1 AT-TTTAGATTTTCAAA
*
2094611 CTTTTAGATT
1 ATTTTAGATT
2094621 CATAAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 13 0.54
18 3 0.12
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTTAGATTTTCAAA
Found at i:2094776 original size:33 final size:33
Alignment explanation
Indices: 2094725--2094812 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
2094715 TAAAATTGAA
*
2094725 AAGAACTTTAAGATTTGCAAGAA-TGGAGATTGGC
1 AAGAA-TTAAAGATTTGCAAGAACT-GAGATTGGC
* * *
2094759 AAGAATTGAAGATTTGCAAGAACTTAGATTTGC
1 AAGAATTAAAGATTTGCAAGAACTGAGATTGGC
*
2094792 AAGAATTAAAGTTTTGCAAGA
1 AAGAATTAAAGATTTGCAAGA
2094813 TTTTTTGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 42 0.88
34 6 0.12
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (33 bp):
AAGAATTAAAGATTTGCAAGAACTGAGATTGGC
Found at i:2094777 original size:17 final size:17
Alignment explanation
Indices: 2094734--2094812 Score: 92
Period size: 16 Copynumber: 4.8 Consensus size: 17
2094724 AAAGAACTTT
2094734 AAGATTTGCAAGAA-TG
1 AAGATTTGCAAGAATTG
* *
2094750 GAGATTGGCAAGAATTG
1 AAGATTTGCAAGAATTG
2094767 AAGATTTGCAAGAACTT-
1 AAGATTTGCAAGAA-TTG
*
2094784 -AGATTTGCAAGAATTA
1 AAGATTTGCAAGAATTG
*
2094800 AAGTTTTGCAAGA
1 AAGATTTGCAAGA
2094813 TTTTTTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.04
16 25 0.46
17 25 0.46
18 2 0.04
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.28
Consensus pattern (17 bp):
AAGATTTGCAAGAATTG
Found at i:2094931 original size:47 final size:45
Alignment explanation
Indices: 2094847--2095006 Score: 130
Period size: 47 Copynumber: 3.5 Consensus size: 45
2094837 ATTCGAAAAA
* * * * *
2094847 TTCAAAGATTTGCATTC-AAAAAGCATCTAGAGATTCACAACCGAAAT
1 TTCAAAGATTTTCATTCAAAAAAAC-TTTAG-GTTTCACATCC-AAAT
2094894 TTCAAAGATTTTCATTCAAAAAAACTTTAGTGTTTCACATCCAATAT
1 TTCAAAGATTTTCATTCAAAAAAACTTTAG-GTTTCACATCCAA-AT
* * * *
2094941 TTTAAAGGTTCTCATT-AAAAAAATTTTAAGGTTT--CATCCAAAGT
1 TTCAAAGATTTTCATTCAAAAAAACTTT-AGGTTTCACATCCAAA-T
* *
2094985 TTTAAAGATTTTGATTCAAAAA
1 TTCAAAGATTTTCATTCAAAAA
2095007 CTTAGGGGAC
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 21 0.22
45 5 0.05
46 16 0.17
47 46 0.48
48 6 0.06
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (45 bp):
TTCAAAGATTTTCATTCAAAAAAACTTTAGGTTTCACATCCAAAT
Found at i:2094981 original size:44 final size:46
Alignment explanation
Indices: 2094905--2095006 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 46
2094895 TCAAAGATTT
2094905 TCATTCAAAAAAACTTTAGTGTTTCACATCCAATA-TTTTAAAGGTTC
1 TCATTCAAAAAAACTTTAGTGTTT-ACATCCAA-AGTTTTAAAGGTTC
* * *
2094952 TCATT-AAAAAAATTTTAAG-GTTT-CATCCAAAGTTTTAAAGATTT
1 TCATTCAAAAAAACTTT-AGTGTTTACATCCAAAGTTTTAAAGGTTC
*
2094996 TGATTCAAAAA
1 TCATTCAAAAA
2095007 CTTAGGGGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 5 0.10
46 14 0.29
47 7 0.15
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (46 bp):
TCATTCAAAAAAACTTTAGTGTTTACATCCAAAGTTTTAAAGGTTC
Found at i:2095058 original size:21 final size:22
Alignment explanation
Indices: 2095032--2095077 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
2095022 TAAAAAAATT
2095032 TTCAAAAATTCTCATTT-AAAA
1 TTCAAAAATTCTCATTTGAAAA
*
2095053 TTCAAAGATTCTCATTTGAAAA
1 TTCAAAAATTCTCATTTGAAAA
2095075 TTC
1 TTC
2095078 TTAGAGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (22 bp):
TTCAAAAATTCTCATTTGAAAA
Found at i:2096246 original size:24 final size:23
Alignment explanation
Indices: 2096219--2096269 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2096209 TTCAATAGTC
* **
2096219 TTCATTTTTTCTTTTTTTTTTCAT
1 TTCATTTTTT-TTATTTTTCACAT
2096243 TTCATTTTTTTTATTTTTCACAT
1 TTCATTTTTTTTATTTTTCACAT
2096266 TTCA
1 TTCA
2096270 CATTTCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (23 bp):
TTCATTTTTTTTATTTTTCACAT
Found at i:2096304 original size:15 final size:15
Alignment explanation
Indices: 2096286--2096330 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2096276 ACATTTTTTT
*
2096286 ATTTTTTTTTTTTCA
1 ATTTTTTTTATTTCA
**
2096301 ATTTTTCATATTTCA
1 ATTTTTTTTATTTCA
*
2096316 ATTTTTTTCATTTCA
1 ATTTTTTTTATTTCA
2096331 TCCATTATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTTTATTTCA
Found at i:2096308 original size:39 final size:39
Alignment explanation
Indices: 2096242--2096328 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 39
2096232 TTTTTTTTCA
2096242 TTTCATTTTTTTTATTTTTCACATTTCACATTTCACATTTT
1 TTTCA-TTTTTTTATTTTTCACATTTCACATTTCA-ATTTT
*
2096283 TTT-ATTTTTTT-TTTTTCA-ATTTTTCATATTTCAATTTT
1 TTTCATTTTTTTATTTTTCACA--TTTCACATTTCAATTTT
2096321 TTTCATTT
1 TTTCATTT
2096329 CATCCATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
37 1 0.02
38 15 0.36
39 22 0.52
40 1 0.02
41 3 0.07
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (39 bp):
TTTCATTTTTTTATTTTTCACATTTCACATTTCAATTTT
Found at i:2100372 original size:59 final size:60
Alignment explanation
Indices: 2100304--2100642 Score: 307
Period size: 59 Copynumber: 5.7 Consensus size: 60
2100294 AAATTAATGG
*
2100304 TTTCAACTTTTTCCTC-AAATATTTTTTGAAAATATTTTTTTTATTTAAGAAAAATTGTA
1 TTTCAACTTTTTCCTCAAAATATTTTTTGAAAATATTTTTTTTATTTAAGGAAAATTGTA
*
2100363 TTTCAAC-TTTTCCTC-AAATATTTTTTGGAAACAT-TTTTTTTTATTTTAGGAAAA-TG-A
1 TTTCAACTTTTTCCTCAAAATATTTTTT-GAAA-ATATTTTTTTTATTTAAGGAAAATTGTA
*
2100420 TTCCTCAAC-TTTTCCTCAAAATATTTTTTG-AAATATTTTTTTTAATTAAGGAAAATTG-A
1 TT--TCAACTTTTTCCTCAAAATATTTTTTGAAAATATTTTTTTTATTTAAGGAAAATTGTA
* * * * ** *
2100479 TTCTTTAACTTTTT--TCGTAAACATTTTTT-AAAA-ATATGGTTTATTTAAGGAATATT-TA
1 -T-TTCAACTTTTTCCTC-AAAATATTTTTTGAAAATATTTTTTTTATTTAAGGAAAATTGTA
* *
2100537 TACTTCAA-TTTTTTCTCAAAATATTTTTTTGAAATATATATTTTTTTATTTAAGAAAAATTGAT
1 T--TTCAACTTTTTCCTCAAAATA-TTTTTTGAAA-ATAT-TTTTTTTATTTAAGGAAAATTG-T
2100601 A
60 A
* * *
2100602 CTTCAACTTTTT-CTCAAAAAATTTTTTG-AAACATTTTTTTT
1 TTTCAACTTTTTCCTCAAAATATTTTTTGAAAATATTTTTTTT
2100643 GTATAATTTT
Statistics
Matches: 233, Mismatches: 23, Indels: 48
0.77 0.08 0.16
Matches are distributed among these distances:
57 11 0.05
58 71 0.30
59 78 0.33
60 24 0.10
61 4 0.02
62 9 0.04
63 29 0.12
64 5 0.02
65 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.51
Consensus pattern (60 bp):
TTTCAACTTTTTCCTCAAAATATTTTTTGAAAATATTTTTTTTATTTAAGGAAAATTGTA
Found at i:2105023 original size:44 final size:44
Alignment explanation
Indices: 2104981--2105217 Score: 199
Period size: 44 Copynumber: 5.3 Consensus size: 44
2104971 TGAGCCTTTG
* *
2104981 TTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTGTCAAACCTTTG
1 TTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTGTCAAACCTCTA
* * ** * * * *
2105025 CTTAGAAGAGTTTTTTAAATTTTTTAAAATTTGTTAAACCTCTA
1 TTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTGTCAAACCTCTA
** * * * * * *
2105069 TTTAGAGGAGTCTTTCAAAATTTTCAAAAGTTATTAAGCTTCTA
1 TTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTGTCAAACCTCTA
* * *
2105113 TTTAGAGAAGCCTTTT-AAATTTTCAAAAAGTTGTTAAATCTCTA
1 TTTAGAAAAGCCTTTTAAAATTTTC-AAAAGTTGTCAAACCTCTA
* *
2105157 TTTAGAAAAGCCTTTT-AAATTTTCAAAAAGAAGTTGTCAAGCCTCTG
1 TTTAGAAAAGCCTTTTAAAATTTTC---AA-AAGTTGTCAAACCTCTA
*
2105204 TTTAGAAGAGCCTT
1 TTTAGAAAAGCCTT
2105218 GCAAAGTTTC
Statistics
Matches: 156, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
43 8 0.05
44 119 0.76
46 3 0.02
47 26 0.17
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (44 bp):
TTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTGTCAAACCTCTA
Found at i:2105073 original size:88 final size:88
Alignment explanation
Indices: 2104949--2105184 Score: 244
Period size: 88 Copynumber: 2.7 Consensus size: 88
2104939 GGGCAGAATG
* * * * * * *
2104949 TTTTGAATTTTTTAAAAGTTATTGAGCCTTTGTTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTG
1 TTTTAAATTTTTTAAAAGTTGTTAAACCTCTATTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTA
* **
2105014 TCAAACCTT-TGCTTAGA-AGAGTT
66 T-AAACCTTCTACTTAGAGA-AGCC
* ** * *
2105037 TTTTAAATTTTTTAAAATTTGTTAAACCTCTATTTAGAGGAGTCTTTCAAAATTTTCAAAAGTTA
1 TTTTAAATTTTTTAAAAGTTGTTAAACCTCTATTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTA
* * *
2105102 TTAAGCTTCTATTTAGAGAAGCC
66 TAAACCTTCTACTTAGAGAAGCC
** *
2105125 TTTTAAATTTTCAAAAAGTTGTTAAATCTCTATTTAGAAAAGCCTTTT-AAATTTTCAAAA
1 TTTTAAATTTTTTAAAAGTTGTTAAACCTCTATTTAGAAAAGCCTTTTAAAATTTTCAAAA
2105185 AGAAGTTGTC
Statistics
Matches: 120, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
87 17 0.14
88 102 0.85
89 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (88 bp):
TTTTAAATTTTTTAAAAGTTGTTAAACCTCTATTTAGAAAAGCCTTTTAAAATTTTCAAAAGTTA
TAAACCTTCTACTTAGAGAAGCC
Found at i:2105209 original size:47 final size:44
Alignment explanation
Indices: 2104981--2105246 Score: 175
Period size: 44 Copynumber: 6.0 Consensus size: 44
2104971 TGAGCCTTTG
* * *
2104981 TTTAGAAAAGCCTTTTAAAATTTTC-AA-AAGTTGTCAAACCTTTG
1 TTTAGAAAAGCCTTTT-AAATTTTCAAAGAAGTTGT-AAGCCTCTA
* * ** ** * *
2105025 CTTAGAAGAGTTTTTTAAATTTTTTAA-AATTTGTTAAACCTCTA
1 TTTAGAAAAGCCTTTTAAATTTTCAAAGAAGTTG-TAAGCCTCTA
** * * * *
2105069 TTTAGAGGAGTCTTTCAAAATTTTC-AA-AAGTTATTAAGCTTCTA
1 TTTAGAAAAGCCTTT-TAAATTTTCAAAGAAGTT-GTAAGCCTCTA
* **
2105113 TTTAGAGAAGCCTTTTAAATTTTCAAA-AAGTTGTTAAATCTCTA
1 TTTAGAAAAGCCTTTTAAATTTTCAAAGAAGTTG-TAAGCCTCTA
*
2105157 TTTAGAAAAGCCTTTTAAATTTTCAAAAAGAAGTTGTCAAGCCTCTG
1 TTTAGAAAAGCCTTTTAAATTTTC--AAAGAAGTTGT-AAGCCTCTA
* ** * *
2105204 TTTAGAAGAGCCTTGCAAAGTTTCAAAGAAGTTGTGAGCCTCT
1 TTTAGAAAAGCCTTTTAAATTTTCAAAGAAGTTGTAAGCCTCT
2105247 GATTAGAGGA
Statistics
Matches: 179, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
43 15 0.08
44 109 0.61
45 19 0.11
46 4 0.02
47 32 0.18
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.39
Consensus pattern (44 bp):
TTTAGAAAAGCCTTTTAAATTTTCAAAGAAGTTGTAAGCCTCTA
Found at i:2105548 original size:6 final size:6
Alignment explanation
Indices: 2105518--2105576 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
2105508 TTTATTGGAC
* * * *
2105518 TTTAAT TTTAAA TTTAAT GTT-AT TTTAAT TTT--T ATTAAT TTTTAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
2105563 TTT-AT TTTAAT TTT
1 TTTAAT TTTAAT TTT
2105577 TTATCTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.07
5 9 0.21
6 30 0.71
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:2105560 original size:17 final size:17
Alignment explanation
Indices: 2105539--2105577 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2105529 ATTTAATGTT
*
2105539 ATTTTAATTTT-TATTA
1 ATTTTTATTTTATATTA
*
2105555 ATTTTTATTTTATTTTA
1 ATTTTTATTTTATATTA
2105572 ATTTTT
1 ATTTTT
2105578 TATCTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTATATTA
Found at i:2105586 original size:27 final size:27
Alignment explanation
Indices: 2105537--2105593 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
2105527 AAATTTAATG
2105537 TTATTTTAATTTTTATTAATTTT-TATT
1 TTATTTTAATTTTTATT-ATTTTCTATT
2105564 TTATTTTAATTTTTTATCT-TTTTCTATT
1 TTATTTTAA-TTTTTAT-TATTTTCTATT
2105592 TT
1 TT
2105594 CCTTCCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 13 0.48
28 13 0.48
29 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (27 bp):
TTATTTTAATTTTTATTATTTTCTATT
Found at i:2110036 original size:17 final size:17
Alignment explanation
Indices: 2109997--2110040 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2109987 GAAAAAGGAA
2109997 AAAAATAAAAAAATCTAT
1 AAAAAT-AAAAAATCTAT
* *
2110015 -CAAATAAAAAATCTTT
1 AAAAATAAAAAATCTAT
2110031 AAAAATAAAA
1 AAAAATAAAA
2110041 CCCTCCTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATAAAAAATCTAT
Found at i:2118088 original size:3 final size:3
Alignment explanation
Indices: 2118080--2118170 Score: 98
Period size: 3 Copynumber: 31.0 Consensus size: 3
2118070 TACTATTTTA
* * * * * *
2118080 TAT TAT TAT TAT TAT T-G TAG TAT AACT TAT TAC TA- TAG TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
2118123 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2118171 CATCATCATC
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
2 5 0.06
3 71 0.91
4 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2118165 original size:55 final size:55
Alignment explanation
Indices: 2118024--2118166 Score: 166
Period size: 55 Copynumber: 2.6 Consensus size: 55
2118014 GGATAATGAC
* * *
2118024 ATTATATATTCTTATTAGTATTATTATTTGTTACTATAGGATAGTATACTATTTTAT
1 ATTAT-TATTATTATTAGTATTATTACTTATTACTATAGGATAGTATA-TATTTTAT
* * *
2118081 ATTATTATTATTATT-GTAGTATAACTTATTACTATAGTATAGTAT-TATTATTATT
1 ATTATTATTATTATTAGTATTATTACTTATTACTATAGGATAGTATATATT-TTA-T
*
2118136 ATTATTATTATTATTATTATTATTA-TTATTA
1 ATTATTATTATTATTAGTATTATTACTTATTA
2118167 TTATCATCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 4 0.05
54 3 0.04
55 47 0.64
56 15 0.20
57 5 0.07
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (55 bp):
ATTATTATTATTATTAGTATTATTACTTATTACTATAGGATAGTATATATTTTAT
Found at i:2119046 original size:5 final size:5
Alignment explanation
Indices: 2119038--2119135 Score: 76
Period size: 5 Copynumber: 18.6 Consensus size: 5
2119028 AGGTTTTCTT
* * *
2119038 TTTTA TTTTCT TTTTCA TTTCA TTTATT TTTTGA TTTTA -TTTA TTTTA
1 TTTTA TTTT-A TTTT-A TTTTA TTT-TA TTTT-A TTTTA TTTTA TTTTA
2119086 TTTCATGA TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTGTA
1 TTT--T-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA
2119133 TTT
1 TTT
2119136 AGTAATTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
4 12 0.16
5 39 0.51
6 21 0.27
7 1 0.01
8 4 0.05
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:2119068 original size:17 final size:17
Alignment explanation
Indices: 2119048--2119084 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2119038 TTTTATTTTC
2119048 TTTTTCATTTCATTTAT
1 TTTTTCATTTCATTTAT
* *
2119065 TTTTTGATTTTATTTAT
1 TTTTTCATTTCATTTAT
2119082 TTT
1 TTT
2119085 ATTTCATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTCATTTAT
Found at i:2119079 original size:22 final size:21
Alignment explanation
Indices: 2119049--2119129 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 21
2119039 TTTATTTTCT
2119049 TTTTCATTTCATTTATTTTTTGA
1 TTTT-ATTT-ATTTATTTTTTGA
**
2119072 TTTTATTTATTTTATTTCATGA
1 TTTTATTTA-TTTATTTTTTGA
*
2119094 TTTTATTTATTT-TATTTT-A
1 TTTTATTTATTTATTTTTTGA
2119113 TTTTATTTTATTTATTT
1 TTTTA-TTTATTTATTT
2119130 GTATTTAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 6 0.12
20 10 0.20
21 6 0.12
22 23 0.47
23 4 0.08
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTATTTATTTATTTTTTGA
Found at i:2119136 original size:10 final size:9
Alignment explanation
Indices: 2119054--2119136 Score: 73
Period size: 9 Copynumber: 9.1 Consensus size: 9
2119044 TTTCTTTTTC
*
2119054 ATTTCATTT
1 ATTTTATTT
*
2119063 ATTTT-TTG
1 ATTTTATTT
2119071 ATTTTATTT
1 ATTTTATTT
2119080 ATTTTATTT
1 ATTTTATTT
**
2119089 CATGAT-TTT
1 -ATTTTATTT
2119098 A-TTTATTTT
1 ATTTTA-TTT
2119107 ATTTTATTTT
1 ATTTTA-TTT
2119117 ATTTTATTT
1 ATTTTATTT
2119126 ATTTGTATTT
1 ATTT-TATTT
2119136 A
1 A
2119137 GTAATTTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 8 0.13
9 29 0.48
10 23 0.38
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (9 bp):
ATTTTATTT
Found at i:2122805 original size:21 final size:21
Alignment explanation
Indices: 2122767--2122806 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2122757 TTAATGAAAT
*
2122767 ATAAATATTAAAACCAAATCA
1 ATAAATATTAAAAACAAATCA
2122788 ATAAATA-TAATAAACAAAT
1 ATAAATATTAA-AAACAAAT
2122807 TAGTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAATATTAAAAACAAATCA
Found at i:2124479 original size:25 final size:26
Alignment explanation
Indices: 2124439--2124489 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
2124429 GCTTAGACAT
2124439 ACCCTTCAACAAACCACTCAA-AAAC
1 ACCCTTCAACAAACCACTCAACAAAC
* * *
2124464 ACCCTTCAGCATACCATTCAACAAAC
1 ACCCTTCAACAAACCACTCAACAAAC
2124490 CATTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (26 bp):
ACCCTTCAACAAACCACTCAACAAAC
Found at i:2124506 original size:13 final size:12
Alignment explanation
Indices: 2124443--2124496 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
2124433 AGACATACCC
2124443 TTCAACAAACCA
1 TTCAACAAACCA
* * *
2124455 CTCAAAAACACCC
1 TTCAACAA-ACCA
* *
2124468 TTCAGCATACCA
1 TTCAACAAACCA
2124480 TTCAACAAACCA
1 TTCAACAAACCA
2124492 TTCAA
1 TTCAA
2124497 AATGACCATT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
12 24 0.77
13 7 0.23
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (12 bp):
TTCAACAAACCA
Found at i:2124520 original size:37 final size:37
Alignment explanation
Indices: 2124443--2124525 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
2124433 AGACATACCC
* *
2124443 TTCAACAAACCACTCAAAAACACCCTTCAGCATACCA
1 TTCAACAAACCACTCAAAAACACCATTCAGCAAACCA
* ** * *
2124480 TTCAACAAACCATTCAAAATGACCATTTAGCAAACGA
1 TTCAACAAACCACTCAAAAACACCATTCAGCAAACCA
*
2124517 TTCAGCAAA
1 TTCAACAAA
2124526 ACAATATCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.30, G:0.06, T:0.19
Consensus pattern (37 bp):
TTCAACAAACCACTCAAAAACACCATTCAGCAAACCA
Found at i:2125349 original size:186 final size:184
Alignment explanation
Indices: 2125108--2126610 Score: 1315
Period size: 186 Copynumber: 8.2 Consensus size: 184
2125098 TATGTACGTA
* * * *
2125108 AATTAGTAAAGGCATTTATCTAGAATAAACGCCTTCACTAACTGTCTTAAAATTTGAGTTGTGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
* * * * *
2125173 AAATTAAAAGTATTTTTCAGTAAAAGACGCCTTTAATAATCTAAAAAATTTTAAAAAGAAATTAG
66 AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAATTTT-AAAAGAAATTAT
* * *
2125238 TGAAGGCGTTTGTTCTAAAAAAATACCATT-AATAATTATGCACGTAAATTAGAAGG
130 TGAAGGCATTTGTTCTAAAAAAATGCC-TTCAATAATTATGTA-GTAAATTAGAAGG
* * *
2125294 AATTAGTGAAGGCATTTTTCTAGCATAAATGTCTTCACTAAATGTTTTAAAATTTGAGTTGTGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
** * *
2125359 AAATTAAAGGCATTTTTCACTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAA-ACAATTA
66 AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAATTTTAA-AAGA-AATTA
* * * *
2125423 TTGAAGGTATTTGTTCTAAAAAAATACCTTCATTAATTA--T-GT--A-T-GTA--
129 TTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTAGTAAATTAGAAGG
* * ** * **
2125470 AATTAGTGAAGGCATTTTTCTAAAATAAATACCTTCACTAACCGTGTTAAAATTTGAGTTACGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
* * * *
2125535 AAATTGAAGGCGTTTTTCACTAGACGACGCCTTTAATAATC-CTAAAAATTTTAAAAGAAAATTA
66 AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTC-AAAAATTTTAAAAG-AAATTA
* * * * * * *
2125599 GTGAAAGCGTTTATTCTAAAAAAATGCCTTTAATAATTATGTATATAAATTAGAAAG
129 TTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTA-GTAAATTAGAAGG
* ** * * * * * *
2125656 AATTAGTAAAGGTGTTTTTCTAGAATACACGCTTTCACTAAACGTCTTAAAATTTGAGCTGTGGA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
* * * * * *
2125721 AAATTAAAAG-AGTTTTTCACTAAAAGATGCCTTTAGTAATCTAAAAAATAAATTTCAAAGGAAG
66 AAATTAAAGGCA-TTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAAT---TTT-AAAAGAAA
* ** * * * *
2125785 TTATTAAAGGTGTTTGTTATAAAAAAAGGCCTTCACTAATTA--T-GTACA-T---A--
126 TTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTAGTAAATTAGAAGG
** * * * *
2125835 AATTAGTGAAGGCATTTTTCTCA-AATAAACACATTCACT-AATCGTGTTAAAATTTCAATTGTG
1 AATTAGTGAAGGCATTTTTCT-AGAATAAATGCCTTCACTAAAT-GTCTTAAAATTTGAGTTGTG
* * * * * *
2125898 AAAAATTAAAGGCGTTTTTCACT-GAAGATGCATTTAATAATCCCAAAAATTTTAAGAGAAAATT
64 AAAAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAATTTTAAAAG-AAATT
* * * * *
2125962 AGTGAAGGCATTTGTTTTCAAAAAATGCGTTCAATGATTATGTATGTAAATTAGAAGG
128 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTA-GTAAATTAGAAGG
* * * **
2126020 AATTAGTAAAGTCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGGTACGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
* * *
2126085 AAA-T-AAGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTTAAAAGAAAT
66 AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCT---CAA-AAATTTTAAAAGAAAT
* ** * * *
2126148 TATTAAAAACATTTGTTATAAAAAAATGCCTTCACTAATTA--T-GT--A-T-GTA--
127 TATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTAGTAAATTAGAAGG
* * *
2126197 AATTAGTGATGGCATTTTTCTAGAATAAATGCCTTCACT-AATCGTCTTAAAATTTGAGCTATGA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAAT-GTCTTAAAATTTGAGTTGTGA
* * *
2126261 AAAATTGAAGGCATTTTTCATTGAAAA-ACGCCTTTAATAATCTCAAAAATTTTAAGAGGAAATT
65 AAAATTAAAGGCATTTTTCACT-AAAAGACGCCTTTAATAATCTCAAAAATTTTAA-AAGAAATT
* *
2126325 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATTATTATGTACATAAATTA-ATAGG
128 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTA-GTAAATTAGA-AGG
* * ** * * *
2126383 AATTAGTGAAGGCATTGTTCTAGAGTAAACACCTACACTAACTGTCTTAAAATTTGAGTTGTGGA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
* * * * * * * * *
2126448 ATATTGAAGCCATTTTTCACTAGAATATGTCTTTAATAATCCCAAAAATTTTAAGAGAAATTATT
66 AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAATTTTAAAAGAAATTATT
** * * * * * *
2126513 GAAGGTGTTTTTTTTTAGAAAATGCCTTCAATTATTATGTACGTAAATTAGTAGG
131 GAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTA-GTAAATTAGAAGG
*
2126568 AATTAGTGAAGGCGTTATTT-TAGAATAAACT-CCTTCACTAAAT
1 AATTAGTGAAGGCATT-TTTCTAGAATAAA-TGCCTTCACTAAAT
2126611 ACACCATAAA
Statistics
Matches: 1059, Mismatches: 194, Indels: 129
0.77 0.14 0.09
Matches are distributed among these distances:
174 3 0.00
175 49 0.05
176 185 0.17
177 61 0.06
178 29 0.03
179 101 0.10
180 10 0.01
181 2 0.00
182 4 0.00
183 19 0.02
184 20 0.02
185 151 0.14
186 331 0.31
187 41 0.04
188 11 0.01
189 38 0.04
190 4 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (184 bp):
AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGTTGTGAA
AAATTAAAGGCATTTTTCACTAAAAGACGCCTTTAATAATCTCAAAAATTTTAAAAGAAATTATT
GAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTAGTAAATTAGAAGG
Found at i:2125588 original size:176 final size:175
Alignment explanation
Indices: 2125294--2126564 Score: 1004
Period size: 176 Copynumber: 7.0 Consensus size: 175
2125284 AATTAGAAGG
* * * *
2125294 AATTAGTGAAGGCATTTTTCTAGCATAAATGTCTTCACTAAATGTTTTAAAATTTGAGTTGTGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAA
* * *
2125359 AAATTAAAGGCATTTTTCACTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAAACAATTAT
66 AAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCTAAAAATTTTAAGAAA-AATTAT
* *
2125424 TGAAGGTATTTGTTCTAAAAAAATACCTTCATTAATTATGTATGTA
130 TGAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
* * * * **
2125470 AATTAGTGAAGGCATTTTTCTAAAATAAATACCTTCACTAACCGTGTTAAAATTTGAGTTACGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAA
* * * * *
2125535 AAATTGAAGGCGTTTTTCACTAGACGACGCCTTTAATAATCCTAAAAATTTTAAAAGAAAATTAG
66 AAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCTAAAAATTTTAAGA-AAAATTAT
* * * * * *
2125600 TGAAAGCGTTTATTCTAAAAAAATGCCTTTAATAATTATGTATATA
130 TGAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
** * * *
2125646 AATTAGAAAGAATTAGTAAAGGTGTTTTTCTAGAATACACGCTTTCACTAAACGTCTTAAAATTT
1 AATT----AG---T-G--AAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTT
* * * * * *
2125711 GAGCTGTGGAAAATTAAAAG-AGTTTTTCACTAAAAGATGCCTTTAGTAAT-CTAAAAAATAAAT
56 GAGTTGTGAAAAATTAAAGGCA-TTTTTCACTAGAAGACGCCTTTAATAATCCT-AAAAAT---T
* * * ** * * * **
2125774 TTCAA-AGGAAGTTATTAAAGGTGTTTGTTATAAAAAAAGGCCTTCACTAATTATGTACATA
116 TT-AAGA-AAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
** * * * * *
2125835 AATTAGTGAAGGCATTTTTCTCA-AATAAACACATTCACTAATCGTGTTAAAATTTCAATTGTGA
1 AATTAGTGAAGGCATTTTTCT-AGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGA
* * * *
2125899 AAAATTAAAGGCGTTTTTCACT-GAAGATGCATTTAATAATCCCAAAAATTTTAAGAGAAAATTA
65 AAAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCTAAAAATTTTAAGA-AAAATTA
* * * * * *
2125963 GTGAAGGCATTTGTTTTCAAAAAATGCGTTCAATGATTATGTATGTA
129 TTGAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
* *
2126010 AATTAGAAGGAATTAGTAAAGTCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTT
1 AATT---A-G---T-G--AAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTT
* ** * * *
2126075 GAGGTACGAAAAA-T-AAGGCATTTTTCACTAAAAGACGCCTTTAGTAAT-ATAAAAAATAAATT
56 GAGTTGTGAAAAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCT----AA-AAATT
* ** * *
2126137 TTAA-AAGAAATTATTAAAAACATTTGTTATAAAAAAATGCCTTCACTAATTATGTATGTA
116 TTAAGAA-AAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
* * * *
2126197 AATTAGTGATGGCATTTTTCTAGAATAAATGCCTTCACTAATCGTCTTAAAATTTGAGCTATGAA
1 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAA
* * * *
2126262 AAATTGAAGGCATTTTTCA-TTGAAAAACGCCTTTAATAAT-CTCAAAAATTTTAAGAGGAAATT
66 AAATTAAAGGCATTTTTCACTAG-AAGACGCCTTTAATAATCCT-AAAAATTTTAAGA-AAAATT
*
2126325 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATT-ATTATGTACATAAATTAATA
128 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTC-ATTAATTATG----T--A-T-GTA
* * ** *
2126381 GGAATTAGTGAAGGCATTGTTCTAGAGTAAACACCTACACT-AACTGTCTTAAAATTTGAGTTGT
1 --AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAAC-GTCTTAAAATTTGAGTTGT
* * * * * * * * *
2126445 GGAATATTGAAGCCATTTTTCACTAGAATATGTCTTTAATAATCCCAAAAATTTTAAGAGAAATT
63 GAAAAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCTAAAAATTTTAAGAAAAATT
** * * * * *
2126510 ATTGAAGGTGTTTTTTTTTAGAAAATGCCTTCAATT-ATTATGTACGTA
128 ATTGAAGGCATTTGTTCTAAAAAAATGCCTTC-ATTAATTATGTATGTA
2126558 AATTAGT
1 AATTAGT
2126565 AGGAATTAGT
Statistics
Matches: 877, Mismatches: 160, Indels: 117
0.76 0.14 0.10
Matches are distributed among these distances:
174 2 0.00
175 65 0.07
176 194 0.22
177 60 0.07
178 24 0.03
179 95 0.11
180 5 0.01
181 2 0.00
182 3 0.00
183 18 0.02
184 20 0.02
185 94 0.11
186 179 0.20
187 54 0.06
188 9 0.01
189 51 0.06
190 2 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (175 bp):
AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAA
AAATTAAAGGCATTTTTCACTAGAAGACGCCTTTAATAATCCTAAAAATTTTAAGAAAAATTATT
GAAGGCATTTGTTCTAAAAAAATGCCTTCATTAATTATGTATGTA
Found at i:2126238 original size:362 final size:363
Alignment explanation
Indices: 2124996--2126440 Score: 1606
Period size: 362 Copynumber: 4.0 Consensus size: 363
2124986 AGATTATTGG
* * * * *
2124996 AGGCGTTTTTCATTAAAAGACGCCTTTAGTAATCTAAAAAATAAATTTCAAAGGAAATTATTATA
1 AGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTCAAAAGAAATTATTAAA
* ** * *
2125061 GGCATTTGTTATAAAAAAAAAAAAGGCATTTGCTAATTATGTACGTAAATTAGTAAAGGCATTTA
66 GGCATTTGTTAT-----AAAAAAAGGCCTTCACTAATTATGTACGTAAATTAGTGAAGGCATTTT
* * * *
2125126 TCTAGAATAAACGCCTTCACTAA-CTGTCTTAAAATTTGAGTTGTGAAAAATTAAAAGTATTTTT
126 TCTAGAATAAACACCTTCACTAATC-GTCTTAAAATTTGAGTTATGAAAAATTAAAGGCATTTTT
* * ** * *
2125190 CAGTAAAAGACGCCTTTAATAATCTAAAAAATTTTAA-AAAGAAATTAGTGAAGGCGTTTGTTCT
190 CACTAGAAGACGCCTTTAATAATCCCAAAAATTTTAAGAGA-AAATTAGTGAAGGCATTTGTTCT
* * * * *
2125254 AAAAAAATACCATT-AATAATTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGC
254 AAAAAAATGCC-TTCAATAATTATGTACATAAATTAGAAGGAATTAGTAAAGGCATTTTTCTAGA
* * *
2125318 ATAAATGTCTTCACTAAATGTTTTAAAATTTGAGTTGT-GAAAAATTAA
318 ATAAACGCCTTCACTAAATGTCTTAAAATTTGAG--GTCGAAAAA-TAA
** * * *** *
2125366 AGGCATTTTTCACTGGAAGACACCTTTAATAATCCCAAAAAT---TTT-AAGAA-ACAATTATTG
1 AGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTCAA-AAGA-AATTATTA
* * ** * *
2125426 AAGGTATTTGTTCTAAAAAAATACCTTCATTAATTATGTATGTAAATTAGTGAAGGCATTTTTCT
64 AAGGCATTTGTTATAAAAAAAGGCCTTCACTAATTATGTACGTAAATTAGTGAAGGCATTTTTCT
* * * * * * *
2125491 AAAATAAATACCTTCACTAACCGTGTTAAAATTTGAGTTACGAAAAATTGAAGGCGTTTTTCACT
129 AGAATAAACACCTTCACTAATCGTCTTAAAATTTGAGTTATGAAAAATTAAAGGCATTTTTCACT
* * * * * *
2125556 AGACGACGCCTTTAATAATCCTAAAAATTTTAAAAGAAAATTAGTGAAAGCGTTTATTCTAAAAA
194 AGAAGACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTCTAAAAA
* * * ** *
2125621 AATGCCTTTAATAATTATGTATATAAATTAGAAAGAATTAGTAAAGGTGTTTTTCTAGAATACAC
259 AATGCCTTCAATAATTATGTACATAAATTAGAAGGAATTAGTAAAGGCATTTTTCTAGAATAAAC
* * * *
2125686 GCTTTCACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAA
324 GCCTTCACTAAATGTCTTAAAATTTGAG--GTCGAAAAATAA
* * * * *
2125728 AAG-AGTTTTTCACTAAAAGATGCCTTTAGTAATCTAAAAAATAAATTTCAAAGGAAGTTATTAA
1 AGGCA-TTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTCAAAAGAAATTATTAA
** *
2125792 AGGTGTTTGTTATAAAAAAAGGCCTTCACTAATTATGTACATAAATTAGTGAAGGCATTTTTCTC
65 AGGCATTTGTTATAAAAAAAGGCCTTCACTAATTATGTACGTAAATTAGTGAAGGCATTTTTCT-
* * * * * *
2125857 A-AATAAACACATTCACTAATCGTGTTAAAATTTCAATTGTGAAAAATTAAAGGCGTTTTTCACT
129 AGAATAAACACCTTCACTAATCGTCTTAAAATTTGAGTTATGAAAAATTAAAGGCATTTTTCACT
* * * *
2125921 -GAAGATGCATTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTTTCAAAA
194 AGAAGACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTCTAAAAA
* * ** * *
2125985 AATGCGTTCAATGATTATGTATGTAAATTAGAAGGAATTAGTAAAGTCATTTTTCTAGAATAAAT
259 AATGCCTTCAATAATTATGTACATAAATTAGAAGGAATTAGTAAAGGCATTTTTCTAGAATAAAC
2126050 GCCTTCACTAAATGTCTTAAAATTTGAGGTACGAAAAAT-A
324 GCCTTCACTAAATGTCTTAAAATTTGAGGT-CGAAAAATAA
*
2126090 AGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTTAAAAGAAATTATTAAA
1 AGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTCAAAAGAAATTATTAAA
** * * *
2126155 AACATTTGTTATAAAAAAATGCCTTCACTAATTATGTATGTAAATTAGTGATGGCATTTTTCTAG
66 GGCATTTGTTATAAAAAAAGGCCTTCACTAATTATGTACGTAAATTAGTGAAGGCATTTTTCTAG
** * * *
2126220 AATAAATGCCTTCACTAATCGTCTTAAAATTTGAGCTATGAAAAATTGAAGGCATTTTTCA-TTG
131 AATAAACACCTTCACTAATCGTCTTAAAATTTGAGTTATGAAAAATTAAAGGCATTTTTCACTAG
* * * *
2126284 AAAAACGCCTTTAATAATCTCAAAAATTTTAAGAGGAAATTATTGAAGGCATTTGTTCTAAAAAA
196 -AAGACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTCTAAAAAA
* * * *
2126349 ATGCCTTCAATTATTATGTACATAAATTA-ATAGGAATTAGTGAAGGCATTGTTCTAGAGTAAAC
260 ATGCCTTCAATAATTATGTACATAAATTAGA-AGGAATTAGTAAAGGCATTTTTCTAGAATAAAC
* * *
2126413 ACCTACACTAACTGTCTTAAAATTTGAG
324 GCCTTCACTAAATGTCTTAAAATTTGAG
2126441 TTGTGGAATA
Statistics
Matches: 905, Mismatches: 151, Indels: 45
0.82 0.14 0.04
Matches are distributed among these distances:
361 5 0.01
362 430 0.48
363 149 0.16
364 135 0.15
365 123 0.14
366 7 0.01
367 22 0.02
370 34 0.04
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (363 bp):
AGGCATTTTTCACTAAAAGACGCCTTTAGTAATATAAAAAATAAATTTCAAAAGAAATTATTAAA
GGCATTTGTTATAAAAAAAGGCCTTCACTAATTATGTACGTAAATTAGTGAAGGCATTTTTCTAG
AATAAACACCTTCACTAATCGTCTTAAAATTTGAGTTATGAAAAATTAAAGGCATTTTTCACTAG
AAGACGCCTTTAATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTCTAAAAAAA
TGCCTTCAATAATTATGTACATAAATTAGAAGGAATTAGTAAAGGCATTTTTCTAGAATAAACGC
CTTCACTAAATGTCTTAAAATTTGAGGTCGAAAAATAA
Found at i:2133620 original size:21 final size:21
Alignment explanation
Indices: 2133571--2133620 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2133561 AGCAGAAAGA
* *
2133571 GAACAAGAGTGTGCCAAAATT
1 GAACAAGAATGTGCCAAAATG
** *
2133592 GAGGAAGAATGTGCTAAAATG
1 GAACAAGAATGTGCCAAAATG
2133613 GAACAAGA
1 GAACAAGA
2133621 GCATGCAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.16
Consensus pattern (21 bp):
GAACAAGAATGTGCCAAAATG
Found at i:2138012 original size:62 final size:63
Alignment explanation
Indices: 2137896--2138015 Score: 145
Period size: 62 Copynumber: 1.9 Consensus size: 63
2137886 TACCTTTTCC
* * * *
2137896 ACCATAATTGACCAAAAATTATTATAATGCCTTTGATATTTTAATTACAAAAATGCCCCTCCA
1 ACCATAATTGACCAAAAATTACTATAATGCCCTTGATACTATAATTACAAAAATGCCCCTCCA
* * **
2137959 ACCATAATTGGCCAAAGA-TACTATAATGCCCCTT-ATACTATAATTACTTAAATGCCC
1 ACCATAATTGACCAAAAATTACTATAATG-CCCTTGATACTATAATTACAAAAATGCCC
2138016 TTATGAATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 28 0.58
63 20 0.42
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (63 bp):
ACCATAATTGACCAAAAATTACTATAATGCCCTTGATACTATAATTACAAAAATGCCCCTCCA
Found at i:2138333 original size:2 final size:2
Alignment explanation
Indices: 2138324--2138366 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2138314 AATGTGTGTG
2138324 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2138365 TA
1 TA
2138367 CAAGAAGCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2140345 original size:37 final size:37
Alignment explanation
Indices: 2140296--2140380 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
2140286 TATTTGGCAC
2140296 GAGAGATGAAATTTGAAAGGACAACAAAAGTTAATTA
1 GAGAGATGAAATTTGAAAGGACAACAAAAGTTAATTA
2140333 GAGAGATGAAATTTGAAAGGACAACAAAAGTTAATTA
1 GAGAGATGAAATTTGAAAGGACAACAAAAGTTAATTA
2140370 GAGAGATGAAA
1 GAGAGATGAAA
2140381 AGGATTCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.20
Consensus pattern (37 bp):
GAGAGATGAAATTTGAAAGGACAACAAAAGTTAATTA
Found at i:2147626 original size:30 final size:30
Alignment explanation
Indices: 2147592--2147665 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
2147582 ATTCAAATAC
* *
2147592 AAATT-AAATGTTAAGAGTTTATTCGGATGT
1 AAATTAAAAT-TTAAAAATTTATTCGGATGT
*
2147622 AAATTAAAATTTAAAAATTTATTTGGATGT
1 AAATTAAAATTTAAAAATTTATTCGGATGT
2147652 -AA-TAAAATTATAAA
1 AAATTAAAATT-TAAA
2147666 GACTTATCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.18
29 6 0.15
30 22 0.56
31 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.39
Consensus pattern (30 bp):
AAATTAAAATTTAAAAATTTATTCGGATGT
Found at i:2149140 original size:20 final size:20
Alignment explanation
Indices: 2149115--2149154 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2149105 GCAATTTAGA
2149115 AATTTTAGGAAATTTTTTTT
1 AATTTTAGGAAATTTTTTTT
* *
2149135 AATTTTTGGCAATTTTTTTT
1 AATTTTAGGAAATTTTTTTT
2149155 TTGCAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
AATTTTAGGAAATTTTTTTT
Found at i:2151358 original size:45 final size:45
Alignment explanation
Indices: 2151308--2151410 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
2151298 ATCATTTCCA
2151308 TATCATTTCATTCTATGCATCATTTTCATGCTCATGTCTTAACAT
1 TATCATTTCATTCTATGCATCATTTTCATGCTCATGTCTTAACAT
* * * *
2151353 TATCATATCATCCTATGCATCATTTTCGTGCTCATGTTTTAACAT
1 TATCATTTCATTCTATGCATCATTTTCATGCTCATGTCTTAACAT
*
2151398 TATAATTTGCATT
1 TATCATTT-CATT
2151411 ATTTTCATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 47 0.94
46 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (45 bp):
TATCATTTCATTCTATGCATCATTTTCATGCTCATGTCTTAACAT
Found at i:2151510 original size:26 final size:26
Alignment explanation
Indices: 2151481--2151531 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2151471 ATGCATTGCA
* *
2151481 CATAAATCATATCATTTTTGATCATG
1 CATAAAGCATAGCATTTTTGATCATG
*
2151507 CATAAAGCATAGCATTTTTTATCAT
1 CATAAAGCATAGCATTTTTGATCAT
2151532 AATTATGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (26 bp):
CATAAAGCATAGCATTTTTGATCATG
Found at i:2153449 original size:22 final size:23
Alignment explanation
Indices: 2153407--2153451 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2153397 TTTTGTCATC
2153407 TTAGGATTTTTTTCATAGCAATA
1 TTAGGATTTTTTTCATAGCAATA
*
2153430 TTAGGATTTTTTTTAT-GCAATA
1 TTAGGATTTTTTTCATAGCAATA
2153452 GGATTTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (23 bp):
TTAGGATTTTTTTCATAGCAATA
Found at i:2154374 original size:11 final size:11
Alignment explanation
Indices: 2154358--2154404 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
2154348 TGAAGGAATG
2154358 AAAAAAAAG--
1 AAAAAAAAGAA
2154367 AAAAAAAAGAA
1 AAAAAAAAGAA
*
2154378 AAAAAAGAGAA
1 AAAAAAAAGAA
*
2154389 AAAAGAAAGAA
1 AAAAAAAAGAA
2154400 AAAAA
1 AAAAA
2154405 GAAAAATGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 9 0.28
11 23 0.72
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:2154410 original size:9 final size:9
Alignment explanation
Indices: 2154357--2154402 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
2154347 ATGAAGGAAT
2154357 GAAAAAAAA
1 GAAAAAAAA
2154366 GAAAAAAAA
1 GAAAAAAAA
2154375 GAAAAAAAA
1 GAAAAAAAA
*
2154384 GAGAAAAAA
1 GAAAAAAAA
2154393 GAAAGAAAAA
1 GAAA-AAAAA
2154403 AAGAAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 29 0.85
10 5 0.15
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:2155375 original size:42 final size:42
Alignment explanation
Indices: 2155316--2155672 Score: 384
Period size: 42 Copynumber: 8.4 Consensus size: 42
2155306 GTCCAAGAGT
* *
2155316 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGGAGC
1 AATTTAATTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
* *
2155358 AATTTAATTTTTCAAAGTTCTATTGCCTCTATTTTGAGGAGC
1 AATTTAATTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
*
2155400 AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
1 AATTTAATTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
2155442 AATTT-ATTTTTCCAAAAGTTCTGTTGCCTCTATTTAGAGGAGC
1 AATTTAATTTTT-C-AAAGTTCTGTTGCCTCTATTTAGAGGAGC
* * * *
2155485 AATTTATTTTTTCAAAGTTTTGTTGCCTCCATTTAGATGAGC
1 AATTTAATTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
* * *
2155527 AATTTATTTTTTCAAAGTTGTGGTTG-CTGCTATTTAGATGAGC
1 AATTTAATTTTTCAAAGTTCT-GTTGCCT-CTATTTAGAGGAGC
* * * * * *
2155570 -ATTTTATTTTTCTTAGAA-TTGTGGTTGCCTTTGTTTAGGGGAGT
1 AATTTAATTTTTC--A-AAGTTCT-GTTGCCTCTATTTAGAGGAGC
* * * *
2155614 AATTT-ATATTTCCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTAAT-TTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
*
2155656 -ATTTTATTTTTCAAAGT
1 AATTTAATTTTTCAAAGT
2155673 CGTTAAACCT
Statistics
Matches: 275, Mismatches: 27, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
41 18 0.07
42 162 0.59
43 57 0.21
44 26 0.09
45 12 0.04
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.46
Consensus pattern (42 bp):
AATTTAATTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGC
Found at i:2155483 original size:85 final size:84
Alignment explanation
Indices: 2155316--2155672 Score: 434
Period size: 85 Copynumber: 4.2 Consensus size: 84
2155306 GTCCAAGAGT
* *
2155316 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGGAGCAATTTAATTTTT-CAAAGTTCTA
1 AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTT-ATTTTTCCAAAGTTCTG
*
2155380 TTGCCTCTATTTTGAGGAGC
65 TTGCCTCTATTTAGAGGAGC
2155400 AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAAGTTCTG
1 AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCC-AAAGTTCTG
2155465 TTGCCTCTATTTAGAGGAGC
65 TTGCCTCTATTTAGAGGAGC
* * * * *
2155485 AATTTATTTTTTCAAAGTTTTGTTGCCTCCATTTAGATGAGCAATTTATTTTTTCAAAGTTGTGG
1 AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAGTTCT-G
*
2155550 TTG-CTGCTATTTAGATGAGC
65 TTGCCT-CTATTTAGAGGAGC
* * * * * * * * *
2155570 ATTTTATTTTTCTTAGAA-TTGTGGTTGCCTTTGTTTAGGGGAGTAATTTATATTTCCAAAGTTG
1 AATTTATTTTT-TCA-AAGTTCT-GTTGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAGTTC
* *
2155634 TGGTGCCTCTGTTTAGAGGAGC
63 TGTTGCCTCTATTTAGAGGAGC
*
2155656 ATTTTA-TTTTTCAAAGT
1 AATTTATTTTTTCAAAGT
2155673 CGTTAAACCT
Statistics
Matches: 240, Mismatches: 24, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
83 8 0.03
84 59 0.25
85 109 0.45
86 26 0.11
87 38 0.16
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.46
Consensus pattern (84 bp):
AATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAGTTCTGT
TGCCTCTATTTAGAGGAGC
Found at i:2155541 original size:127 final size:128
Alignment explanation
Indices: 2155316--2155672 Score: 436
Period size: 127 Copynumber: 2.8 Consensus size: 128
2155306 GTCCAAGAGT
* * * *
2155316 AATTTATTTTTTC-AAAGTTCTGTTACCTCTATTTAGAGGAGCAATTTAATTTTTCAAAGTTCTA
1 AATTTATTTTTCCAAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTG
*
2155380 TTGCCTCTATTTTGAGGAGCAATTTATTTTTTCAAAGTTCT-GTTGCCT-CTATTTAGAGGAGC
66 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTGGTTG-CTGCTATTTAGAGGAGC
*
2155442 AATTTATTTTTCCAAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTTTG
1 AATTTATTTTTCCAAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTG
* * * *
2155507 TTGCCTCCATTTAGATGAGCAATTTATTTTTTCAAAGTTGTGGTTGCTGCTATTTAGATGAGC
66 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTGGTTGCTGCTATTTAGAGGAGC
* * * * * * * * * * *
2155570 ATTTTATTTTTCTTAGAA-TTGTGGTTGCCTTTGTTTAGGGGAGTAATTTATATTTCCAAAGTTG
1 AATTTATTTTTC-CAAAAGTTCT-GTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTC
* * *
2155634 TGGTGCCTCTGTTTAGAGGAGCATTTTA-TTTTTCAAAGT
64 TGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGT
2155673 CGTTAAACCT
Statistics
Matches: 200, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
126 12 0.06
127 86 0.43
128 42 0.21
129 60 0.30
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.46
Consensus pattern (128 bp):
AATTTATTTTTCCAAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTG
TTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTCTGGTTGCTGCTATTTAGAGGAGC
Found at i:2159746 original size:27 final size:26
Alignment explanation
Indices: 2159697--2159747 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2159687 AATGAAATTT
* *
2159697 AAAATTTATAAAAAATATTAATTTCA
1 AAAAATTATAAAAAATATAAATTTCA
2159723 AAAAATTATAAAAAATAGTAAATTT
1 AAAAATTATAAAAAATA-TAAATTT
2159748 TTTCTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AAAAATTATAAAAAATATAAATTTCA
Found at i:2159855 original size:19 final size:19
Alignment explanation
Indices: 2159790--2159868 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
2159780 TATGCAAATT
* * *
2159790 TTTTAAAATTTCTCAAAAA
1 TTTTAAAAATTATAAAAAA
** * **
2159809 TTAAAAAAATTCTAAAAGT
1 TTTTAAAAATTATAAAAAA
2159828 TTTTGAAAAATTATAAAAAA
1 TTTT-AAAAATTATAAAAAA
* *
2159848 TTTTAAAATTTATAAAGAA
1 TTTTAAAAATTATAAAAAA
2159867 TT
1 TT
2159869 AAAAATATGA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
19 30 0.65
20 16 0.35
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (19 bp):
TTTTAAAAATTATAAAAAA
Found at i:2159868 original size:29 final size:28
Alignment explanation
Indices: 2159790--2159873 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 28
2159780 TATGCAAATT
*
2159790 TTTTAAAATTTCTCAAAAATTAAAAAAA
1 TTTTAAAATTTATCAAAAATTAAAAAAA
* * *
2159818 TTCTAAAAGTTTTTGAAAAATTATAAAAAA
1 TTTTAAAA-TTTATCAAAAATTA-AAAAAA
2159848 TTTTAAAATTTAT-AAAGAATTAAAAA
1 TTTTAAAATTTATCAAA-AATTAAAAA
2159874 TATGAAGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 14 0.29
29 21 0.44
30 13 0.27
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (28 bp):
TTTTAAAATTTATCAAAAATTAAAAAAA
Found at i:2160162 original size:12 final size:12
Alignment explanation
Indices: 2160123--2160170 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
2160113 ATAAAATAAA
*
2160123 ATAAAAAATTTT
1 ATAAAAAATTAT
2160135 CA-AAAAAATTAAAT
1 -ATAAAAAATT--AT
2160149 ATAAAAAATTAT
1 ATAAAAAATTAT
2160161 ATAAAAAATT
1 ATAAAAAATT
2160171 GTAACATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 20 0.65
13 2 0.06
14 9 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAAAAAATTAT
Found at i:2160166 original size:26 final size:25
Alignment explanation
Indices: 2160115--2160170 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
2160105 TAAAAAATAT
*
2160115 AAAA-TAAAATAAAAAATTTTCAAA
1 AAAATTAAAATAAAAAATTATCAAA
2160139 AAAATTAAATATAAAAAATTAT-ATAA
1 AAAATTAAA-ATAAAAAATTATCA-AA
2160165 AAAATT
1 AAAATT
2160171 GTAACATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 5 0.18
26 19 0.68
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAATTAAAATAAAAAATTATCAAA
Found at i:2160449 original size:19 final size:19
Alignment explanation
Indices: 2160427--2160492 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
2160417 GTTCGTAGAG
* *
2160427 TTTTTAGAAATTTTT-TAA
1 TTTTTAAAAATTTTTAAAA
2160445 TTTTTGAAAAATTTTTAAAA
1 TTTTT-AAAAATTTTTAAAA
* * *
2160465 TTTTTAAAAGTTATTAGAA
1 TTTTTAAAAATTTTTAAAA
2160484 TATTTTAAA
1 T-TTTTAAA
2160493 GTTTTTCAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.12
19 21 0.52
20 14 0.35
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATTTTTAAAA
Found at i:2160464 original size:9 final size:9
Alignment explanation
Indices: 2160427--2160498 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
2160417 GTTCGTAGAG
2160427 TTTTTAGAAA
1 TTTTTA-AAA
*
2160437 TTTTT-TAA
1 TTTTTAAAA
2160445 TTTTTGAAAAA
1 TTTTT--AAAA
2160456 TTTTTAAAA
1 TTTTTAAAA
2160465 TTTTTAAAA
1 TTTTTAAAA
* *
2160474 GTTATTAGAA
1 -TTTTTAAAA
*
2160484 TATTTTAAAG
1 T-TTTTAAAA
2160494 TTTTT
1 TTTTT
2160499 CAGAATTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.14
9 18 0.36
10 18 0.36
11 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:2160615 original size:21 final size:20
Alignment explanation
Indices: 2160591--2160710 Score: 88
Period size: 20 Copynumber: 6.0 Consensus size: 20
2160581 ACTTTTTCAT
*
2160591 ATTTTTTTAGATTTTTTTGGA
1 ATTTTTTTAAATTTTTTT-GA
* *
2160612 ATTTTTTTCTAA--TTTTTAA
1 ATTTTTTT-AAATTTTTTTGA
* *
2160631 ATGTTTTTAAATTTATTTGA
1 ATTTTTTTAAATTTTTTTGA
2160651 A-TTTTTTAAATTTTTATTTGA
1 ATTTTTTTAAA-TTTT-TTTGA
*
2160672 A-TTTTTT-AATTTTTTTAA
1 ATTTTTTTAAATTTTTTTGA
* **
2160690 AGTTTTCAAAATTTTTTTGA
1 ATTTTTTTAAATTTTTTTGA
2160710 A
1 A
2160711 AAATTATTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
18 7 0.09
19 24 0.30
20 27 0.34
21 20 0.25
22 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
ATTTTTTTAAATTTTTTTGA
Found at i:2160656 original size:19 final size:20
Alignment explanation
Indices: 2160634--2160710 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 20
2160624 TTTTTAAATG
2160634 TTTTTAAA-TTTATTTGAAT
1 TTTTTAAATTTTATTTGAAT
2160653 TTTTTAAATTTTTATTTGAAT
1 TTTTTAAA-TTTTATTTGAAT
*
2160674 TTTTT-AATTTT-TTTAAAGT
1 TTTTTAAATTTTATTTGAA-T
**
2160693 TTTCAAAATTTT-TTTGAA
1 TTTTTAAATTTTATTTGAA
2160711 AAATTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.10
19 16 0.32
20 13 0.26
21 16 0.32
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTAAATTTTATTTGAAT
Found at i:2160695 original size:10 final size:9
Alignment explanation
Indices: 2160624--2160706 Score: 67
Period size: 10 Copynumber: 8.6 Consensus size: 9
2160614 TTTTTTCTAA
2160624 TTTTTAAAT
1 TTTTTAAAT
2160633 GTTTTTAAAT
1 -TTTTTAAAT
*
2160643 TTATTTGAAT
1 TT-TTTAAAT
2160653 TTTTTAAATTT
1 TTTTTAAA--T
*
2160664 TTATTTGAAT
1 TT-TTTAAAT
*
2160674 TTTTTAATT
1 TTTTTAAAT
2160683 TTTTTAAAGT
1 TTTTTAAA-T
**
2160693 TTTCAAAAT
1 TTTTTAAAT
2160702 TTTTT
1 TTTTT
2160707 TGAAAAATTA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
9 23 0.40
10 27 0.47
11 3 0.05
12 5 0.09
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:2161528 original size:16 final size:18
Alignment explanation
Indices: 2161503--2161535 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2161493 CTTCTGTAAT
2161503 TTTTTCTTA-CAAGATTG
1 TTTTTCTTACCAAGATTG
2161520 TTTTT-TTACCAAGATT
1 TTTTTCTTACCAAGATT
2161536 ATTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTTTCTTACCAAGATTG
Found at i:2164858 original size:40 final size:40
Alignment explanation
Indices: 2164784--2164859 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
2164774 TCAGCTGATA
* * *
2164784 CTCGTGCTGGTAATATATATACATATTTATATATATTATC
1 CTCGTGCTGGTAATATATATACACATATACATATATTATC
2164824 CTCGTGCTGGTAATATATATACACATATACATATAT
1 CTCGTGCTGGTAATATATATACACATATACATATAT
2164860 ACAGAATCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (40 bp):
CTCGTGCTGGTAATATATATACACATATACATATATTATC
Found at i:2168183 original size:2 final size:2
Alignment explanation
Indices: 2168176--2168200 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2168166 GAGTTAAATC
2168176 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2168201 TTATCATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2168545 original size:21 final size:21
Alignment explanation
Indices: 2168468--2168545 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
2168458 TAATTTTAAC
2168468 AATTTTCT-ATAAAATTTTGGT
1 AATTTT-TAATAAAATTTTGGT
** * * *
2168489 AACCTTTGACATAATTTTGGT
1 AATTTTTAATAAAATTTTGGT
* *
2168510 AA-TTATAATATAATTTTGGT
1 AATTTTTAATAAAATTTTGGT
2168530 AATTTTTAATAAAATT
1 AATTTTTAATAAAATT
2168546 GTAACAACCT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 17 0.38
21 28 0.62
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (21 bp):
AATTTTTAATAAAATTTTGGT
Found at i:2168913 original size:44 final size:44
Alignment explanation
Indices: 2168865--2168968 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
2168855 GACAATTAAG
* *
2168865 TTATCATTAATTTA-TAGTTATATCATCAATGATTTACTACTAAA
1 TTATCATTAATTTACT-GTTAAATCACCAATGATTTACTACTAAA
* * * * * *
2168909 TTATCAATGATATACTGTTAAATTACCAATGATTTTCTACTTAA
1 TTATCATTAATTTACTGTTAAATCACCAATGATTTACTACTAAA
*
2168953 TTAACATTAATTTACT
1 TTATCATTAATTTACT
2168969 ACTAATTTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (44 bp):
TTATCATTAATTTACTGTTAAATCACCAATGATTTACTACTAAA
Found at i:2168914 original size:22 final size:22
Alignment explanation
Indices: 2168889--2169101 Score: 128
Period size: 22 Copynumber: 9.7 Consensus size: 22
2168879 TAGTTATATC
2168889 ATCAATGATTTACTACTAAATT
1 ATCAATGATTTACTACTAAATT
* **
2168911 ATCAATGATATACTGTTAAATT
1 ATCAATGATTTACTACTAAATT
* * *
2168933 ACCAATGATTTTCTACTTAATT
1 ATCAATGATTTACTACTAAATT
* * * *
2168955 AACATTAATTTACTACTAATTT
1 ATCAATGATTTACTACTAAATT
* * *
2168977 ATGAATGATTTACTATTAAGTT
1 ATCAATGATTTACTACTAAATT
* *
2168999 AT-AATTGATCTACTACTAAGTT
1 ATCAA-TGATTTACTACTAAATT
* * * *
2169021 ATTAACGATTT-GTTCTAAAGTT
1 ATCAATGATTTACTACTAAA-TT
* * *
2169043 AT-AATTGTTTTACTATTAATTT
1 ATCAA-TGATTTACTACTAAATT
* *
2169065 ATCGATAATTTACTAC-AAAGTT
1 ATCAATGATTTACTACTAAA-TT
* *
2169087 ATCAATAATTAACTA
1 ATCAATGATTTACTA
2169102 ATTTACTATT
Statistics
Matches: 143, Mismatches: 41, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
21 11 0.08
22 125 0.87
23 7 0.05
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (22 bp):
ATCAATGATTTACTACTAAATT
Found at i:2169159 original size:22 final size:22
Alignment explanation
Indices: 2169131--2169194 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
2169121 CTGATTTAAG
2169131 TAATTTACTATTAAGTTATCTA
1 TAATTTACTATTAAGTTATCTA
* *
2169153 TAATTTA-TATCCAAATTAT-TA
1 TAATTTACTAT-TAAGTTATCTA
* *
2169174 AAGATTTACTATTATGTTATC
1 TA-ATTTACTATTAAGTTATC
2169195 ATTGATATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
21 6 0.19
22 23 0.72
23 3 0.09
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATCTA
Found at i:2169159 original size:31 final size:30
Alignment explanation
Indices: 2169070--2169159 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 30
2169060 AATTTATCGA
**
2169070 TAATTTACTACAAAGTTATCAATAA-TTAAC
1 TAATTTACTATTAAGTTATC-ATAATTTAAC
* * *
2169100 TAATTTACTATTAAATTATCACTGATTTAAG
1 TAATTTACTATTAAGTTATCA-TAATTTAAC
2169131 TAATTTACTATTAAGTTATCTATAATTTA
1 TAATTTACTATTAAGTTATC-ATAATTTA
2169160 TATCCAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 19 0.38
31 29 0.58
32 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (30 bp):
TAATTTACTATTAAGTTATCATAATTTAAC
Found at i:2169331 original size:22 final size:21
Alignment explanation
Indices: 2169287--2169354 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
2169277 GTTATTACTA
2169287 ATTTATATTAAATTATCTATG
1 ATTTATATTAAATTATCTATG
*
2169308 ATTTATCATTAAGTTATC-ATTG
1 ATTTAT-ATTAAATTATCTA-TG
*
2169330 ATTAACTATTAAATTAT-TGATG
1 ATTTA-TATTAAATTATCT-ATG
2169352 ATT
1 ATT
2169355 AACTACTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 7 0.18
22 30 0.77
23 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTATATTAAATTATCTATG
Found at i:2169400 original size:46 final size:47
Alignment explanation
Indices: 2169292--2169408 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 47
2169282 TACTAATTTA
*
2169292 TATTAAATTATCT-ATGATTTA-T-C-ATTAAGTTATCATTGATTAAC
1 TATTAAATTAT-TGATGATTAACTACTATTAAGTTATCATTGATTAAC
2169336 TATTAAATTATTGATGATTAACTACTATTAAGTTAT-ATTGA-TATAC
1 TATTAAATTATTGATGATTAACTACTATTAAGTTATCATTGATTA-AC
* * *
2169382 TTTTAAGTT-TTTAGTGATTAACTACTA
1 TATTAAATTATTGA-TGATTAACTACTA
2169409 AATTATTATT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 1 0.02
44 18 0.29
45 6 0.10
46 28 0.44
47 10 0.16
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.48
Consensus pattern (47 bp):
TATTAAATTATTGATGATTAACTACTATTAAGTTATCATTGATTAAC
Found at i:2169421 original size:22 final size:22
Alignment explanation
Indices: 2169321--2169437 Score: 78
Period size: 22 Copynumber: 5.2 Consensus size: 22
2169311 TATCATTAAG
* *
2169321 TTATCATTGATTAACTATTAAA
1 TTATTATTGATTAACTACTAAA
2169343 TTATTGA-TGATTAACTACTATTAA
1 TTATT-ATTGATTAACTACTA--AA
** *
2169367 GTTA-TATTGA-TATACTTTTAAG
1 -TTATTATTGATTA-ACTACTAAA
* *
2169389 TTTTTAGTGATTAACTACTAAA
1 TTATTATTGATTAACTACTAAA
* * *
2169411 TTATTATTGATTCATTACTAAG
1 TTATTATTGATTAACTACTAAA
2169433 TTATT
1 TTATT
2169438 TTTTATGTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
21 2 0.03
22 50 0.69
23 6 0.08
24 11 0.15
25 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.49
Consensus pattern (22 bp):
TTATTATTGATTAACTACTAAA
Found at i:2169578 original size:22 final size:22
Alignment explanation
Indices: 2169525--2169580 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
2169515 GCTATTATTA
* *
2169525 ATTTCTTATTAAGTTATCAATT
1 ATTTATTATTAAGTTACCAATT
* * *
2169547 ATTAACTATTAAGTTACCACTT
1 ATTTATTATTAAGTTACCAATT
*
2169569 ATTTTTTATTAA
1 ATTTATTATTAA
2169581 CCTATAATTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTATTATTAAGTTACCAATT
Found at i:2170698 original size:21 final size:21
Alignment explanation
Indices: 2170627--2170708 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
2170617 TTTTATTGCA
* *
2170627 AAATTATCTCTGATTTATCACT
1 AAATTATTTATGATTTAT-ACT
2170649 AAATTATTTATGATTTACTACT
1 AAATTATTTATGATTTA-TACT
* *
2170671 AAGTTA-TTATTGATTTATATT
1 AAATTATTTA-TGATTTATACT
**
2170692 AAATTATACATGATTTA
1 AAATTATTTATGATTTA
2170709 CGATTCAGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 18 0.36
22 31 0.62
23 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (21 bp):
AAATTATTTATGATTTATACT
Found at i:2170772 original size:21 final size:21
Alignment explanation
Indices: 2170659--2170773 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 21
2170649 AAATTATTTA
* * *
2170659 TGATTTACTACTAAGTTATTAT
1 TGATTTACTATTAAATTA-TAC
2170681 TGATTTA-TATTAAATTATAC
1 TGATTTACTATTAAATTATAC
* * * * *
2170701 ATGATTTACGATTCAGTGAACAC
1 -TGATTTACTATTAAAT-TATAC
* * *
2170724 TGATTAACTATTATACTATTGA-
1 TGATTTACTATTAAATTA-T-AC
2170746 TGATTTACTATTAAATTATAC
1 TGATTTACTATTAAATTATAC
2170767 TGATTTA
1 TGATTTA
2170774 TTTTTAAGTT
Statistics
Matches: 68, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
20 3 0.04
21 24 0.35
22 37 0.54
23 4 0.06
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (21 bp):
TGATTTACTATTAAATTATAC
Found at i:2170823 original size:22 final size:22
Alignment explanation
Indices: 2170798--2170867 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
2170788 ATAATTGATG
*
2170798 ACTAAATTATCAATT-ATTTATT
1 ACTAAATTAT-AATTGATTTACT
*
2170820 ACTAATTTATAATTGATTTACT
1 ACTAAATTATAATTGATTTACT
*
2170842 ACTAAATTAT-TTATGATTTACT
1 ACTAAATTATAAT-TGATTTACT
2170864 ACTA
1 ACTA
2170868 TCAATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.12
22 37 0.88
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
ACTAAATTATAATTGATTTACT
Found at i:2170922 original size:61 final size:61
Alignment explanation
Indices: 2170805--2170922 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
2170795 ATGACTAAAT
* * * *
2170805 TATCAATTATTTATTACTAATTTATAATTGATTTACTACTAAATTATTTATGATTTACTAC
1 TATCAATTAATTATTACTAATTGATAACTGATTTACTACTAAATTATTTATAATTTACTAC
* * *
2170866 TATCAATTAATTATTATTAAATTGA-AACTGATTTACTATTAAGTTA-TTACTAATTTA
1 TATCAATTAATTATTACT-AATTGATAACTGATTTACTACTAAATTATTTA-TAATTTA
2170923 TTGTTAAGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 3 0.06
61 40 0.83
62 5 0.10
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.49
Consensus pattern (61 bp):
TATCAATTAATTATTACTAATTGATAACTGATTTACTACTAAATTATTTATAATTTACTAC
Found at i:2170924 original size:44 final size:44
Alignment explanation
Indices: 2170876--2170970 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
2170866 TATCAATTAA
*
2170876 TTATTATTAAATTGA-AACTGATTTACTATTAAGTTATTACTAAT
1 TTATTATTAAATT-ATAACTAATTTACTATTAAGTTATTACTAAT
* * * * * *
2170920 TTATTGTTAAGTTATTACTAATTTATTGTTAAGTTATTATTAAT
1 TTATTATTAAATTATAACTAATTTACTATTAAGTTATTACTAAT
2170964 TTATTAT
1 TTATTAT
2170971 GAAGTTATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (44 bp):
TTATTATTAAATTATAACTAATTTACTATTAAGTTATTACTAAT
Found at i:2170934 original size:11 final size:11
Alignment explanation
Indices: 2170902--2170978 Score: 82
Period size: 11 Copynumber: 7.0 Consensus size: 11
2170892 ACTGATTTAC
2170902 TATTAAGTTAT
1 TATTAAGTTAT
* *
2170913 TACTAATTTAT
1 TATTAAGTTAT
*
2170924 TGTTAAGTTAT
1 TATTAAGTTAT
* *
2170935 TACTAATTTAT
1 TATTAAGTTAT
*
2170946 TGTTAAGTTAT
1 TATTAAGTTAT
*
2170957 TATTAATTTAT
1 TATTAAGTTAT
*
2170968 TATGAAGTTAT
1 TATTAAGTTAT
2170979 CAATAATTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 51 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.55
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:2170986 original size:22 final size:22
Alignment explanation
Indices: 2170896--2170978 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
2170886 ATTGAAACTG
*
2170896 ATTTACTATTAAGTTATTACTA
1 ATTTATTATTAAGTTATTACTA
*
2170918 ATTTATTGTTAAGTTATTACTA
1 ATTTATTATTAAGTTATTACTA
* *
2170940 ATTTATTGTTAAGTTATTATTA
1 ATTTATTATTAAGTTATTACTA
*
2170962 ATTTATTATGAAGTTAT
1 ATTTATTATTAAGTTAT
2170979 CAATAATTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (22 bp):
ATTTATTATTAAGTTATTACTA
Found at i:2171193 original size:22 final size:22
Alignment explanation
Indices: 2171108--2171194 Score: 90
Period size: 22 Copynumber: 4.0 Consensus size: 22
2171098 TTGTATCATT
2171108 ATTAATTTACTA--AAATTTATC
1 ATTAATTTACTATTAAA-TTATC
* **
2171129 AATT-ATTGACTATTAAATTGGC
1 -ATTAATTTACTATTAAATTATC
* *
2171151 ATTTATTTACTATTAAGTTATC
1 ATTAATTTACTATTAAATTATC
2171173 ATTAATTTACTATTAAATTATC
1 ATTAATTTACTATTAAATTATC
2171195 GATGATTACT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 10 0.19
22 40 0.75
23 3 0.06
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTAATTTACTATTAAATTATC
Found at i:2173543 original size:10 final size:10
Alignment explanation
Indices: 2173528--2173557 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2173518 CATAATTTTA
2173528 AAAATAATAT
1 AAAATAATAT
*
2173538 AAAATAAAAT
1 AAAATAATAT
2173548 AAAATAATAT
1 AAAATAATAT
2173558 GAATTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATAATAT
Found at i:2174754 original size:27 final size:27
Alignment explanation
Indices: 2174724--2174781 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
2174714 CTAATTATAA
* *
2174724 AAAAGTATAATA-ATAAAAAAATTTATT
1 AAAAGTAAAATATAT-AAAAAAGTTATT
* *
2174751 AAAATTAAAATTTATAAAAAAGTTATT
1 AAAAGTAAAATATATAAAAAAGTTATT
2174778 AAAA
1 AAAA
2174782 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAGTAAAATATATAAAAAAGTTATT
Found at i:2176450 original size:11 final size:10
Alignment explanation
Indices: 2176424--2176502 Score: 56
Period size: 10 Copynumber: 7.4 Consensus size: 10
2176414 ATCTTTGTTA
2176424 TATTATAT-T
1 TATTATATAT
2176433 CTATTATAGTAT
1 -TATTATA-TAT
2176445 TATTATCATAT
1 TATTAT-ATAT
2176456 TATTATTAGTAGT
1 TATTA-TA-TA-T
*
2176469 ATATTATATAC
1 -TATTATATAT
2176480 TATTATATCA-
1 TATTATAT-AT
2176490 TATTAT-TAT
1 TATTATATAT
2176499 TATT
1 TATT
2176503 TATTCATTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 19
0.75 0.01 0.24
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 21 0.36
11 17 0.29
12 7 0.12
13 3 0.05
14 5 0.08
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (10 bp):
TATTATATAT
Found at i:2177398 original size:19 final size:20
Alignment explanation
Indices: 2177373--2177420 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2177363 TTATCTTAAT
2177373 TTTTTATTTCATTTT-C-AG
1 TTTTTATTTCATTTTACTAG
*
2177391 TATTTTATTTTATTTTACTAG
1 T-TTTTATTTCATTTTACTAG
2177412 TTTTTATTT
1 TTTTTATTT
2177421 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 9 0.35
21 3 0.12
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTATTTCATTTTACTAG
Found at i:2182323 original size:8 final size:8
Alignment explanation
Indices: 2182263--2182316 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
2182253 GGTGTGCAAA
2182263 AAAAAAAG
1 AAAAAAAG
2182271 AAAAAAAG
1 AAAAAAAG
**
2182279 TGAAAAAG
1 AAAAAAAG
**
2182287 TGAAAAA-
1 AAAAAAAG
*
2182294 AAAGAAAG
1 AAAAAAAG
2182302 AAAAAAAG
1 AAAAAAAG
2182310 AAAAAAA
1 AAAAAAA
2182317 AGGAAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 4 0.10
8 35 0.90
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2183381 original size:17 final size:17
Alignment explanation
Indices: 2183346--2183378 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2183336 TCTTATGAAT
2183346 CTAAAAGTCCTTGCAAA
1 CTAAAAGTCCTTGCAAA
*
2183363 CTAAAA-TCTTTGCAAA
1 CTAAAAGTCCTTGCAAA
2183379 ACTTGGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (17 bp):
CTAAAAGTCCTTGCAAA
Found at i:2183777 original size:121 final size:122
Alignment explanation
Indices: 2183637--2184299 Score: 411
Period size: 120 Copynumber: 5.5 Consensus size: 122
2183627 TAACTTGGGG
* * * *
2183637 TTTCATCCTA-GTCATTCATCTTTGACCT-AGACTCAATTCTGGTTACTTTATCTCTTAGACTTG
1 TTTCATCCTAGGTCATTCATCTTCGACCTCA-ACTCAATCCTAGTCACTTTATCTCTTAGACTTG
* * * *
2183700 TGATTTTATCCTGGTCATCTAATCTCAGCTCAATTTAAATTATTTTTTTGACTCACAA
65 TGATTTCATCCTGGTCATCTAATCTCAGCTCAATCTAGATCATTTTTTTGACTCACAA
* * * * *
2183758 TTTCAT-CTAGGTCATTCATCTTCAACCTCGACTCAATCCTAATCACTTTATCTCTTAAACTAG-
1 TTTCATCCTAGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACTTGT
* ** * * * * * * *
2183821 CAGTTTCATTTTGGTCATTTGATCTCGGCTCAGTCTAGATCA-TTTTTAGACTCGCGA
66 GA-TTTCATCCTGGTCATCTAATCTCAGCTCAATCTAGATCATTTTTTTGACTCACAA
** * * * *
2183878 TTTTGTCCT-GGTCATTCATCTTTGATCTCAACTCGATCCTAGTCACTTTATCTCTTAGACTTAT
1 TTTCATCCTAGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACTTGT
* * * * * * * * *
2183942 GGTTTCGTCTTGATCGT-TCAATCTTAACTTAATCTAGATCATATTTTTGACTCACAA
66 GATTTCATCCTGGTCATCT-AATCTCAGCTCAATCTAGATCATTTTTTTGACTCACAA
* * * ** ** * *
2183999 TTTTAT-CTCGATCATTCATCTTCGACCTCAACTCGTTTTTGGTCACTTTATCTCTTAGACTTGC
1 TTTCATCCTAGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACTTGT
* * * *** * * *
2184063 GATTTTAT-CTCAGTCATCTGATCTCAGCTCAATCTCA-ATCATTTTCAAG-CTTATAG
66 GATTTCATCCT-GGTCATCTAATCTCAGCTCAATCT-AGATCATTTTTTTGACTCACAA
* * * * * **
2184119 TTTCAT-CTCA-ATCATTCTTTTTCGACCTCAACTCGATCCTGGTCACTTTATCTCTTAGACTCA
1 TTTCATCCT-AGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACTTG
** *** * * * * * * * * *
2184182 TGATTTTGTCCCAATCGTTTGATCTCAACTTAGTCTAGATAATTTTCTTGACTCACAG
65 TGATTTCATCCTGGTCATCTAATCTCAGCTCAATCTAGATCATTTTTTTGACTCACAA
** * * * * *
2184240 TTTTGTCCCA--TCATTCATCTTCGACCTCAACTTAGTCTTGGTCACTTTATCTCTTAGACT
1 TTTCATCCTAGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACT
2184300 CACGGCTTTG
Statistics
Matches: 416, Mismatches: 110, Indels: 33
0.74 0.20 0.06
Matches are distributed among these distances:
119 2 0.00
120 230 0.55
121 181 0.44
122 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (122 bp):
TTTCATCCTAGGTCATTCATCTTCGACCTCAACTCAATCCTAGTCACTTTATCTCTTAGACTTGT
GATTTCATCCTGGTCATCTAATCTCAGCTCAATCTAGATCATTTTTTTGACTCACAA
Found at i:2184087 original size:241 final size:239
Alignment explanation
Indices: 2183743--2184299 Score: 561
Period size: 241 Copynumber: 2.3 Consensus size: 239
2183733 TTTAAATTAT
* * * * * * * **
2183743 TTTTTTGACTCACAATTTCATCTAGGTCATTCATCTTCAACCTCGACTCAATCCTAATCACTTTA
1 TTTTTTGACTCACAATTTTATCTCGATCATTCATCTTCGACCTCAACTC-GTCTTGGTCACTTTA
* * ** * * * *
2183808 TCTCTTAAACTAGCAGTTTCATTTTGGTCATTTGATCTCGGCTCAGTCT-AGATCATTTT-TAGA
65 TCTCTTAGACTAGCAGTTTCATCTCAGTCATCTGATCTCAGCTCAATCTCA-ATCATTTTCAAG-
* ** ** *
2183871 CTCGCGA-TTTTGTC-CTGGTCATTCATCTTT-GATCTCAACTCGATCCTAGTCACTTTATCTCT
128 CT-GAGAGTTTCATCTC-AATCATTC-TCTTTCGACCTCAACTCGATCCTAGTCACTTTATCTCT
* * *** * *
2183933 TAGACTTATGGTTTCGTCTTGATCGTTCAATCTTAACTTAATCTAGATCA
190 TAGACTCATGATTTCGTCCCAATCGTTCAATCTCAACTTAATCTAGATAA
*
2183983 TATTTTTGACTCACAATTTTATCTCGATCATTCATCTTCGACCTCAACTCGTTTTTGGTCACTTT
1 T-TTTTTGACTCACAATTTTATCTCGATCATTCATCTTCGACCTCAACTCG-TCTTGGTCACTTT
* *
2184048 ATCTCTTAGACTTGC-GATTTTATCTCAGTCATCTGATCTCAGCTCAATCTCAATCATTTTCAAG
64 ATCTCTTAGACTAGCAG-TTTCATCTCAGTCATCTGATCTCAGCTCAATCTCAATCATTTTCAAG
* * * *
2184112 CTTATAGTTTCATCTCAATCATTCTTTTTCGACCTCAACTCGATCCTGGTCACTTTATCTCTTAG
128 CTGAGAGTTTCATCTCAATCATTCTCTTTCGACCTCAACTCGATCCTAGTCACTTTATCTCTTAG
* ** *
2184177 ACTCATGATTTTGTCCCAATCGTTTGATCTCAACTTAGTCTAGATAA
193 ACTCATGATTTCGTCCCAATCGTTCAATCTCAACTTAATCTAGATAA
* * * *
2184224 TTTTCTTGACTCACAGTTTTGTC-CCATCATTCATCTTCGACCTCAACTTAGTCTTGGTCACTTT
1 TTTT-TTGACTCACAATTTTATCTCGATCATTCATCTTCGACCTCAAC-TCGTCTTGGTCACTTT
2184288 ATCTCTTAGACT
64 ATCTCTTAGACT
2184300 CACGGCTTTG
Statistics
Matches: 261, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
240 57 0.22
241 200 0.77
242 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (239 bp):
TTTTTTGACTCACAATTTTATCTCGATCATTCATCTTCGACCTCAACTCGTCTTGGTCACTTTAT
CTCTTAGACTAGCAGTTTCATCTCAGTCATCTGATCTCAGCTCAATCTCAATCATTTTCAAGCTG
AGAGTTTCATCTCAATCATTCTCTTTCGACCTCAACTCGATCCTAGTCACTTTATCTCTTAGACT
CATGATTTCGTCCCAATCGTTCAATCTCAACTTAATCTAGATAA
Found at i:2184300 original size:120 final size:121
Alignment explanation
Indices: 2183889--2184381 Score: 438
Period size: 120 Copynumber: 4.1 Consensus size: 121
2183879 TTTGTCCTGG
* * * * * * * **
2183889 TCATTCATCTTTGATCTCAACTCGATCCTAGTCACTTTATCTCTTAGACTTATGGTTTCGTCTTG
1 TCATTCATCTTCGACCTCAACTCGATCTTGGTCACTTTATCTCTTAGACTCATGATTTTGTCTCA
** * * *
2183954 ATCGTTCAATCTTAACTTAATCTAGATCATATTT-TTGACTCACAATTTTATCTCGA
66 ATCGTTTGATCTCAACTTAATCTAGATCAT-TTTCTTGACTCACAGTTTTATCTCAA
* * *** *
2184010 TCATTCATCTTCGACCTCAACTCGTTTTTGGTCACTTTATCTCTTAGACTTGCGATTTTATCTCA
1 TCATTCATCTTCGACCTCAACTCGATCTTGGTCACTTTATCTCTTAGACTCATGATTTTGTCTCA
* * * * * ** * * *
2184075 GTCATCTGATCTCAGCTCAATCTCA-ATCATTTTCAAG-CTTATAGTTTCATCTCAA
66 ATCGTTTGATCTCAACTTAATCT-AGATCATTTTCTTGACTCACAGTTTTATCTCAA
* * * *
2184130 TCATTCTTTTTCGACCTCAACTCGATCCTGGTCACTTTATCTCTTAGACTCATGATTTTGTCCCA
1 TCATTCATCTTCGACCTCAACTCGATCTTGGTCACTTTATCTCTTAGACTCATGATTTTGTCTCA
* * * *
2184195 ATCGTTTGATCTCAACTTAGTCTAGATAATTTTCTTGACTCACAGTTTTGTC-CCA
66 ATCGTTTGATCTCAACTTAATCTAGATCATTTTCTTGACTCACAGTTTTATCTCAA
* * **
2184250 TCATTCATCTTCGACCTCAACT-TAGTCTTGGTCACTTTATCTCTTAGACTCACGGCTTTGTCTC
1 TCATTCATCTTCGACCTCAACTCGA-TCTTGGTCACTTTATCTCTTAGACTCATGATTTTGTCTC
* * *** * * * * * * *
2184314 GATCATTTGATCTTGGCTTAATCCAGATCATTTTATTGACTCGCAGTTTCACCTTAG
65 AATCGTTTGATCTCAACTTAATCTAGATCATTTTCTTGACTCACAGTTTTATCTCAA
2184371 TCATTCATCTT
1 TCATTCATCTT
2184382 TAACCTTGAC
Statistics
Matches: 290, Mismatches: 76, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
119 2 0.01
120 193 0.67
121 94 0.32
122 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (121 bp):
TCATTCATCTTCGACCTCAACTCGATCTTGGTCACTTTATCTCTTAGACTCATGATTTTGTCTCA
ATCGTTTGATCTCAACTTAATCTAGATCATTTTCTTGACTCACAGTTTTATCTCAA
Found at i:2185619 original size:18 final size:18
Alignment explanation
Indices: 2185581--2185619 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2185571 ATCGTAGGTT
2185581 TTTCTTTTTTAATTTTCA
1 TTTCTTTTTTAATTTTCA
*
2185599 TTTCATTTTTTGATTTT-A
1 TTTC-TTTTTTAATTTTCA
2185617 TTT
1 TTT
2185620 TTAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTCTTTTTTAATTTTCA
Found at i:2185652 original size:32 final size:31
Alignment explanation
Indices: 2185581--2185671 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 31
2185571 ATCGTAGGTT
* * *
2185581 TTTCTTTTTTAATT-TTCATTTCATTTTTTGA
1 TTTCATTTTTAATTATTTATTT-AATTTTTGA
*
2185612 TTTTATTTTTAATTATTTATCTTAAGTTTTT-A
1 TTTCATTTTTAATTATTTAT-TTAA-TTTTTGA
* *
2185644 TTTCATTTTTAGTTTTTTATTTAATTTT
1 TTTCATTTTTAATTATTTATTTAATTTT
2185672 ACTGGTTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
30 4 0.08
31 16 0.32
32 23 0.46
33 7 0.14
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.71
Consensus pattern (31 bp):
TTTCATTTTTAATTATTTATTTAATTTTTGA
Found at i:2190712 original size:2 final size:2
Alignment explanation
Indices: 2190705--2190732 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2190695 AATAATATTT
2190705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2190733 ATAAGCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2194901 original size:15 final size:16
Alignment explanation
Indices: 2194876--2194905 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2194866 TAATTTTTTG
2194876 AATATAAAAAATAAAT
1 AATATAAAAAATAAAT
2194892 AATA-AAAAAATAAA
1 AATATAAAAAATAAA
2194906 AGCATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AATATAAAAAATAAAT
Found at i:2197932 original size:37 final size:36
Alignment explanation
Indices: 2197880--2197961 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 36
2197870 CCTTGAAACA
* * *
2197880 AATTTTATGTGTAATAATATTAAATAAATATATTTT
1 AATTTTATATATAATAATATTAAATAAAGATATTTT
2197916 AGATTTTATATATAATAATATTAAATAAAGATATTTT
1 A-ATTTTATATATAATAATATTAAATAAAGATATTTT
2197953 AAGTTTTAT
1 AA-TTTTAT
2197962 TTTTTTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
36 2 0.05
37 39 0.95
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (36 bp):
AATTTTATATATAATAATATTAAATAAAGATATTTT
Found at i:2204032 original size:14 final size:14
Alignment explanation
Indices: 2204013--2204041 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2204003 ATGTTCTATG
2204013 TATATAAATATATA
1 TATATAAATATATA
2204027 TATATAAATATATA
1 TATATAAATATATA
2204041 T
1 T
2204042 TTTAAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:2204732 original size:27 final size:23
Alignment explanation
Indices: 2204694--2204748 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 23
2204684 TTTCTTTATA
2204694 TTTTTTGTAACTTCTTTCTTTTGTGTT
1 TTTTTTGTAAC-TCTTT-TTTT-T-TT
*
2204721 TTTTTTTTAACTCTTTTTTTTTT
1 TTTTTTGTAACTCTTTTTTTTTT
2204744 TTTTT
1 TTTTT
2204749 ACCCAAAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 7 0.26
24 1 0.04
25 4 0.15
26 5 0.19
27 10 0.37
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTTTTGTAACTCTTTTTTTTTT
Found at i:2205368 original size:145 final size:145
Alignment explanation
Indices: 2205173--2205438 Score: 392
Period size: 145 Copynumber: 1.8 Consensus size: 145
2205163 TGAAAAAGTC
* * * *
2205173 AAATTACAAAAATACCCTTGTAAAGGTATTTCAGTAATACTACACTTCTCGGGGTACTGCTATGA
1 AAATTACAAAAATACCCCTATAAAGATATTTCAGTAATACTACACTTCTCGGGGTACTACTATGA
*
2205238 TTTTAGATACACCAAAAATTATGAAATATTATAAAATTAAGATCTAGAAA-GTTTCATGAAATTT
66 TTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCT-GAAATGTTTCATGAAATTT
2205302 TGTGCTCAGGAAGACT
130 TGTGCTCAGGAAGACT
* ** **
2205318 AAATTACAAAAATACCCCTATAATGATATTTTGGTAATTTTAC-CTTTCTCGGGGTACTACTATG
1 AAATTACAAAAATACCCCTATAAAGATATTTCAGTAATACTACAC-TTCTCGGGGTACTACTATG
* *
2205382 ATTTTAAATGCACCAAAAATTATTAAATATTATAAAATTAAGATCTGAAATGTTTCA
65 ATTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCTGAAATGTTTCA
2205439 CAAAAATCCA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 5 0.05
145 102 0.95
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (145 bp):
AAATTACAAAAATACCCCTATAAAGATATTTCAGTAATACTACACTTCTCGGGGTACTACTATGA
TTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCTGAAATGTTTCATGAAATTTT
GTGCTCAGGAAGACT
Found at i:2205475 original size:145 final size:145
Alignment explanation
Indices: 2205173--2205502 Score: 355
Period size: 145 Copynumber: 2.3 Consensus size: 145
2205163 TGAAAAAGTC
* * ** ** *
2205173 AAATTACAAAAATACCCTTGTAAAGG-TATTTCAGTAATACTACAC-TTCTCGGGGTACTGCTAT
1 AAATTACAAAAATACCCCTAT-AAGGATATTTTGGTAATTTTAC-CTTTCTCGGGGTACTACTAT
* ** *
2205236 GATTTTAGATACACCAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCATGAAATT
64 GATTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCACAAAAAT
**** *
2205301 TTGTGCTCAGGAAGACT
129 CCAAGCTCAGAAAGACT
*
2205318 AAATTACAAAAATACCCCTATAATGATATTTTGGTAATTTTACCTTTCTCGGGGTACTACTATGA
1 AAATTACAAAAATACCCCTATAAGGATATTTTGGTAATTTTACCTTTCTCGGGGTACTACTATGA
* *
2205383 TTTTAAATGCACCAAAAATTATTAAATATTATAAAATTAAGATCT-GAAATGTTTCACAAAAATC
66 TTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCTAGAAA-GTTTCACAAAAATC
**
2205447 CAAGCTC-GAAAAGGTT
130 CAAGCTCAG-AAAGACT
* ** *
2205463 AATTTA-AGAAAATACCTTTATAAGGGTATTTTGGTAATTT
1 AAATTACA-AAAATACCCCTATAAGGATATTTTGGTAATTT
2205503 AGCCATTCTC
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
144 10 0.06
145 144 0.94
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (145 bp):
AAATTACAAAAATACCCCTATAAGGATATTTTGGTAATTTTACCTTTCTCGGGGTACTACTATGA
TTTTAAATACACCAAAAATTATGAAATATTATAAAATTAAGATCTAGAAAGTTTCACAAAAATCC
AAGCTCAGAAAGACT
Found at i:2206214 original size:39 final size:39
Alignment explanation
Indices: 2206171--2206246 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
2206161 TCTCGAAACT
** *
2206171 TTTGAATGATCCTTTAATTAGAGGCCATAAAACTTTATG
1 TTTGAATGATCCTCCAATCAGAGGCCATAAAACTTTATG
* *
2206210 TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTA
1 TTTGAATGATCCTCCAATCAGAGGCCATAAAACTTTA
2206247 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
TTTGAATGATCCTCCAATCAGAGGCCATAAAACTTTATG
Found at i:2206251 original size:108 final size:109
Alignment explanation
Indices: 2206102--2206316 Score: 299
Period size: 108 Copynumber: 2.0 Consensus size: 109
2206092 TCTCGAAATC
** * *
2206102 TTTGAATGCTCCTCCAATAAGAGGCCATAAAACTTTAAAAATTT-AAAAGGTTTTGCAAATCTCG
1 TTTGAATGCTCCTCCAATAAGAGGCCATAAAACTTTAAAAATTTAAAAACATTTTACAAATCTCA
* * *
2206166 AAACTTTTGAATGATCCTTTA-ATTAGAGGCCATAAAACTTTATG
66 AAACCTTTAAATGAT-CTTTAGATCAGAGGCCATAAAACTTTATG
* *
2206210 TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAAACATTTTACAAATCTCA
1 TTTGAATGCTCCTCCAATAAGAGGCCATAAAACTTTAAAAATTTAAAAACATTTTACAAATCTCA
* * *
2206275 AAACCTTTAAATGCTCTTTAGATCAGAGGCCATGAAATTTTA
66 AAACCTTTAAATGATCTTTAGATCAGAGGCCATAAAACTTTA
2206317 AAAAATTAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 47 0.51
109 46 0.49
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (109 bp):
TTTGAATGCTCCTCCAATAAGAGGCCATAAAACTTTAAAAATTTAAAAACATTTTACAAATCTCA
AAACCTTTAAATGATCTTTAGATCAGAGGCCATAAAACTTTATG
Found at i:2206300 original size:70 final size:70
Alignment explanation
Indices: 2206214--2206378 Score: 201
Period size: 70 Copynumber: 2.4 Consensus size: 70
2206204 TTTATGTTTG
*
2206214 AATGCTCCTCCA-ATCAGAGGCCATGAAACTTTAAAAATTTAAAAA-CATTT-TACAAATCTCAA
1 AATGCTCCT-CAGATCAGAGGCCATGAAACTTTAAAAAATTAAAAATCATTTGT--AAATCTCAA
2206276 AACCTTTA
63 AACCTTTA
* * * *
2206284 AATGCTCTTTAGATCAGAGGCCATGAAATTTTAAAAAATTAAAAATGATTTGTAAATCTCAAAAC
1 AATGCTCCTCAGATCAGAGGCCATGAAACTTTAAAAAATTAAAAATCATTTGTAAATCTCAAAAC
* *
2206349 TTTTG
66 CTTTA
* *
2206354 AATGCTCCTCCGATTAGAGGCCATG
1 AATGCTCCTCAGATCAGAGGCCATG
2206379 TGTAGACACT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 1 0.01
70 75 0.93
71 4 0.05
72 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (70 bp):
AATGCTCCTCAGATCAGAGGCCATGAAACTTTAAAAAATTAAAAATCATTTGTAAATCTCAAAAC
CTTTA
Found at i:2207869 original size:55 final size:52
Alignment explanation
Indices: 2207795--2207947 Score: 188
Period size: 51 Copynumber: 2.9 Consensus size: 52
2207785 TTTTCTTTCC
* *
2207795 AAAAAAAAAAATTT-TAAATAAGCCCAAATTGTGGAAAATTTAGAAATTTTGG
1 AAAAAAAAAAATTTCTAAATAAGCCCAAATGGTAGAAAATTTAGAAATTTT-G
* *
2207847 AAAAAAAAAAGAATTTCTAAATAGGCCCAAATGGTCGAAAATTTA-AAGATTTTG
1 -AAAAAAAAA-AATTTCTAAATAAGCCCAAATGGTAGAAAATTTAGAA-ATTTTG
*
2207901 -AAAAAAAAAATTTCTAAATTAA-CCCAAATGGTAAAAAATTTAGAAAT
1 AAAAAAAAAAATTTCTAAA-TAAGCCCAAATGGTAGAAAATTTAGAAAT
2207948 CTAACAAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
51 30 0.34
52 12 0.13
53 9 0.10
54 8 0.09
55 30 0.34
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.27
Consensus pattern (52 bp):
AAAAAAAAAAATTTCTAAATAAGCCCAAATGGTAGAAAATTTAGAAATTTTG
Found at i:2208605 original size:67 final size:69
Alignment explanation
Indices: 2208492--2208659 Score: 216
Period size: 67 Copynumber: 2.4 Consensus size: 69
2208482 TATTATGACA
* * * *
2208492 CCATGAAACTTTAAAATTTTAAAAATATTTTACAAATCTCGAAACTTTTGAATGGT-CTTCCAAT
1 CCATGAAACTTCAAAA-TTTAAAAATATTTTACAAATATCAAAACTTTTGAATGCTCCTT-CAAT
*
2208556 CAGAGG
64 AAGAGG
* *
2208562 CTATGAAAC-TCAAAATTT-AAAATATTTTACAAATATCAAAACTTTTGAATGCTCCTTTAATAA
1 CCATGAAACTTCAAAATTTAAAAATATTTTACAAATATCAAAACTTTTGAATGCTCCTTCAATAA
2208625 GAGG
66 GAGG
*
2208629 CCATAAAACTTCAAAAATTTAAAAATATTTT
1 CCATGAAACTTC-AAAATTTAAAAATATTTT
2208660 TTAAATGGCT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
67 47 0.55
68 8 0.09
69 12 0.14
70 18 0.21
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (69 bp):
CCATGAAACTTCAAAATTTAAAAATATTTTACAAATATCAAAACTTTTGAATGCTCCTTCAATAA
GAGG
Found at i:2209436 original size:158 final size:158
Alignment explanation
Indices: 2209251--2209571 Score: 597
Period size: 158 Copynumber: 2.0 Consensus size: 158
2209241 AATGTCAATA
* * *
2209251 CAAATGCCAATGTCAATGTGAGTGCTTGATGTAAATACAGGTGACTTTCTTACAATACAAATAAC
1 CAAATGCCAATGTCAATGTGAATGCTTGATGTAAATACAGATGACTTTCTCACAATACAAATAAC
2209316 AATGTTCCTTTCATGTAAATGCCCTACAAATACCTTTTCTTAGGATGAAGATGTCATGATGCAAA
66 AATGTTCCTTTCATGTAAATGCCCTACAAATACCTTTTCTTAGGATGAAGATGTCATGATGCAAA
2209381 TGCAAACTTCTTTCTTATGGTGCAAATG
131 TGCAAACTTCTTTCTTATGGTGCAAATG
*
2209409 CAAATGTCAATGTCAATGTGAATGCTTGATGTAAATACAGATGACTTTCTCACAATACAAATAAC
1 CAAATGCCAATGTCAATGTGAATGCTTGATGTAAATACAGATGACTTTCTCACAATACAAATAAC
*
2209474 AATGTTCCTTTCATGTAAATGCCCTACAAATACCTTTTCTTAGGATGCAGATGTCATGATGCAAA
66 AATGTTCCTTTCATGTAAATGCCCTACAAATACCTTTTCTTAGGATGAAGATGTCATGATGCAAA
2209539 TGCAAACTTCTTTCTTATGGTGCAAATG
131 TGCAAACTTCTTTCTTATGGTGCAAATG
2209567 CAAAT
1 CAAAT
2209572 ACCTCGATTA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (158 bp):
CAAATGCCAATGTCAATGTGAATGCTTGATGTAAATACAGATGACTTTCTCACAATACAAATAAC
AATGTTCCTTTCATGTAAATGCCCTACAAATACCTTTTCTTAGGATGAAGATGTCATGATGCAAA
TGCAAACTTCTTTCTTATGGTGCAAATG
Found at i:2209619 original size:21 final size:21
Alignment explanation
Indices: 2209593--2209684 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
2209583 GATGCAAATA
2209593 CAAATGCAAATACAAGTGATG
1 CAAATGCAAATACAAGTGATG
* *** *
2209614 CAAATGTAAATATCTTTCTTATG
1 CAAATGCAAATA-C-AAGTGATG
* *
2209637 ---ATGCAGATGCAAGTGATG
1 CAAATGCAAATACAAGTGATG
*
2209655 CAAATGCAAATGCAAGTGATG
1 CAAATGCAAATACAAGTGATG
*
2209676 TAAATGCAA
1 CAAATGCAA
2209685 TTTTCATAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
18 4 0.08
19 1 0.02
20 6 0.12
21 36 0.69
22 1 0.02
23 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (21 bp):
CAAATGCAAATACAAGTGATG
Found at i:2209759 original size:32 final size:32
Alignment explanation
Indices: 2209718--2209834 Score: 92
Period size: 32 Copynumber: 3.4 Consensus size: 32
2209708 ATGCAAATAT
2209718 AAATGTCTTTTTATTGATACAGAGCTAAATGC
1 AAATGTCTTTTTATTGATACAGAGCTAAATGC
*
2209750 AAATGTCTTTTTCA-TGATACAAATGCAAGTGATGTAAATGC
1 AAATGTCTTTTT-ATTGATAC--A-G--A--G--CTAAATGC
* * * *
2209791 AAGTATCTTTTTATTGATGCAGAGCTGAATGC
1 AAATGTCTTTTTATTGATACAGAGCTAAATGC
2209823 AAATGTCTTTTT
1 AAATGTCTTTTT
2209835 TATGATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
32 34 0.52
33 1 0.02
34 2 0.03
35 1 0.02
36 1 0.02
37 1 0.02
38 1 0.02
39 2 0.03
40 1 0.02
41 22 0.33
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
AAATGTCTTTTTATTGATACAGAGCTAAATGC
Found at i:2209762 original size:73 final size:73
Alignment explanation
Indices: 2209685--2209849 Score: 233
Period size: 73 Copynumber: 2.3 Consensus size: 73
2209675 GTAAATGCAA
* * *
2209685 TTTTCATAATGCAAATGCAAGTGATGCAAATATAAATGTCTTTTTATTGATACAGAGCTAAATGC
1 TTTTCATGATGCAAATGCAAGTGATGCAAATACAAATATCTTTTTATTGATACAGAGCTAAATGC
2209750 AAATGTCT
66 AAATGTCT
* * * * * *
2209758 TTTTCATGATACAAATGCAAGTGATGTAAATGCAAGTATCTTTTTATTGATGCAGAGCTGAATGC
1 TTTTCATGATGCAAATGCAAGTGATGCAAATACAAATATCTTTTTATTGATACAGAGCTAAATGC
2209823 AAATGTCT
66 AAATGTCT
*
2209831 TTTTTATGATGC-AATGCAA
1 TTTTCATGATGCAAATGCAA
2209850 AGGTCTTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 7 0.09
73 74 0.91
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (73 bp):
TTTTCATGATGCAAATGCAAGTGATGCAAATACAAATATCTTTTTATTGATACAGAGCTAAATGC
AAATGTCT
Done.