Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 50
Found at i:1916640 original size:5 final size:4
Alignment explanation
Indices: 1916612--1916976 Score: 99
Period size: 4 Copynumber: 85.0 Consensus size: 4
1916602 TAGGTAATAA
1916612 AAAT AAAT AAAAT GAAGA- AAAT AAGAT AAAT AAAAT AAA- AAAT AAAT
1 AAAT AAAT -AAAT -AA-AT AAAT AA-AT AAAT -AAAT AAAT AAAT AAAT
* *
1916659 GAAAT AAAGAT AAAG AAAA AAAT AAA- AAAT AAAT AAAAT AAAGAT AAA-
1 -AAAT -AA-AT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AA-AT AAAT
* * * *
1916707 AAAGT AATAT AAAGA AAAT AAAAA AAAC AAAT AAAAT AAAGA AAAT AAA-
1 AAA-T AA-AT AAA-T AAAT -AAAT AAAT AAAT -AAAT AAA-T AAAT AAAT
* *
1916756 AAAT AAAG ATAA- AGAT AGAGA- AAAT AAAT AAAT AAAT AAAT AAAGAT
1 AAAT AAAT A-AAT AAAT A-A-AT AAAT AAAT AAAT AAAT AAAT -AA-AT
* * * * *
1916803 AAA- AAAA AAAA AAAT AAA- AAAC AAAT AAAAT AAAGA AAAT AAA- AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA-T AAAT AAAT AAAT
* * *
1916850 AAAT AAAAT AAAGA AAAT AAGGT AAAG AAA- ATAAT AAAAT AAA- AAAT
1 AAAT -AAAT AAA-T AAAT AA-AT AAAT AAAT A-AAT -AAAT AAAT AAAT
* * * *
1916897 AAGAT AAAA ACAAT AAAA AAAC AAAT GAAAT AAAGAT AAAGA AAAT AAA-
1 AA-AT AAAT A-AAT AAAT AAAT AAAT -AAAT -AA-AT AAA-T AAAT AAAT
* *
1916946 AAAT AAAT GAAAG AAAGA AAAT AAGAT AAAT
1 AAAT AAAT -AAAT AAA-T AAAT AA-AT AAAT
1916977 TAAAACGTGA
Statistics
Matches: 278, Mismatches: 36, Indels: 94
0.68 0.09 0.23
Matches are distributed among these distances:
3 31 0.11
4 131 0.47
5 104 0.37
6 12 0.04
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (4 bp):
AAAT
Found at i:1916963 original size:100 final size:101
Alignment explanation
Indices: 1916629--1916975 Score: 308
Period size: 100 Copynumber: 3.5 Consensus size: 101
1916619 TAAAATGAAG
* * * *
1916629 AAAAT-AAGATAAATAAAATAAAAAATAAATGAAATAAAGATAA-AGAAA-AAAATAAA-AAATA
1 AAAATAAAGA-AAATAAAA-AACAAATAAAAGAAAGAAA-ATAAGATAAAGAAAATAAATAAATA
* * * *
1916690 AATAAAATAAAGATAAAAAAGTAATATAAAGAAAATA-AAA-
63 AAT-AAATAAAGATAAAAAA--AAAAAAAATAAAAAACAAAT
* * * * *
1916730 AAAACAAATAAAAT-AAAGA-AAATAAAA-AATA-AAGATAAAGATAGAGAAAATAAATAAATAA
1 AAAATAAAGAAAATAAAAAACAAATAAAAGAA-AGAAAAT-AAGATAAAGAAAATAAATAAATAA
1916791 ATAAATAAAGATAAAAAAAAAAAAAATAAAAAACAAAT
64 ATAAATAAAGATAAAAAAAAAAAAAATAAAAAACAAAT
* *
1916829 AAAATAAAGAAAATAAAAAACAAATAAAATAAAGAAAATAAGGTAAAGAAAAT-AATAAAATAAA
1 AAAATAAAGAAAATAAAAAACAAATAAAAGAAAGAAAATAAGATAAAGAAAATAAAT-AAATAAA
* * **
1916893 -AAAT-AAGATAAAAACAATAAAAAA-ACAAATGAAAT
65 TAAATAAAGATAAAAA-AAAAAAAAATAAAAAACAAAT
* *
1916928 AAAGATAAAGAAAATAAAAAATAAATGAAAGAAAGAAAATAAGATAAA
1 AAA-ATAAAGAAAATAAAAAACAAATAAAAGAAAGAAAATAAGATAAA
1916976 TTAAAACGTG
Statistics
Matches: 206, Mismatches: 25, Indels: 31
0.79 0.10 0.12
Matches are distributed among these distances:
96 2 0.01
97 17 0.08
98 14 0.07
99 58 0.28
100 70 0.34
101 36 0.17
102 9 0.04
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (101 bp):
AAAATAAAGAAAATAAAAAACAAATAAAAGAAAGAAAATAAGATAAAGAAAATAAATAAATAAAT
AAATAAAGATAAAAAAAAAAAAAATAAAAAACAAAT
Found at i:1919575 original size:7 final size:7
Alignment explanation
Indices: 1919563--1919626 Score: 73
Period size: 7 Copynumber: 9.7 Consensus size: 7
1919553 CCTTATTTTC
1919563 TTTTCTT
1 TTTTCTT
1919570 TTTTCTT
1 TTTTCTT
1919577 TTTTCTT
1 TTTTCTT
* *
1919584 TTTCCTG
1 TTTTCTT
1919591 TTTTC-T
1 TTTTCTT
1919597 TTTTC--
1 TTTTCTT
1919602 TTTTCTT
1 TTTTCTT
1919609 TTTTCTT
1 TTTTCTT
*
1919616 TTCT-TT
1 TTTTCTT
1919622 TTTTC
1 TTTTC
1919627 AATTTAGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.10
6 10 0.21
7 33 0.69
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:1919575 original size:12 final size:12
Alignment explanation
Indices: 1919558--1919624 Score: 82
Period size: 12 Copynumber: 5.3 Consensus size: 12
1919548 ACCCACCTTA
1919558 TTTTCTTTTCTT
1 TTTTCTTTTCTT
1919570 TTTTCTTTTTTCTT
1 TTTTC--TTTTCTT
*
1919584 TTTCCTGTTT-TCT
1 TTTTCT-TTTCT-T
1919597 TTTTCTTTTCTT
1 TTTTCTTTTCTT
1919609 TTTTCTTTTCTT
1 TTTTCTTTTCTT
1919621 TTTT
1 TTTT
1919625 TCAATTTAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
12 27 0.56
13 10 0.21
14 11 0.23
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:1923737 original size:108 final size:109
Alignment explanation
Indices: 1923536--1923754 Score: 386
Period size: 108 Copynumber: 2.0 Consensus size: 109
1923526 TCTTCATCAT
*
1923536 TTTCTGTGATTACGACATTGATACTCAAGTCTTTAAGAGCTGAACTGATCTAACTTTGATATAGG
1 TTTCTGTGATTACGACATTGATACTCAAGTCTTTAAGAGCTGAACAGATCTAACTTTGATATAGG
1923601 AAGGACGAGATTAATCATTCCTTATAGTAGTTTTCCAAATCCTC
66 AAGGACGAGATTAATCATTCCTTATAGTAGTTTTCCAAATCCTC
* *
1923645 TTTCTGTG-TTACGACATTGATACTCAGGTCTTTTAGAGCTGAACAGATCTAACTTTGATATAGG
1 TTTCTGTGATTACGACATTGATACTCAAGTCTTTAAGAGCTGAACAGATCTAACTTTGATATAGG
* *
1923709 AAGGATGAGATTAATCATTCCTTGTAGTAGTTTTCCAAATCCTC
66 AAGGACGAGATTAATCATTCCTTATAGTAGTTTTCCAAATCCTC
1923753 TT
1 TT
1923755 CCAGTCTTGG
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
108 97 0.92
109 8 0.08
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (109 bp):
TTTCTGTGATTACGACATTGATACTCAAGTCTTTAAGAGCTGAACAGATCTAACTTTGATATAGG
AAGGACGAGATTAATCATTCCTTATAGTAGTTTTCCAAATCCTC
Found at i:1926796 original size:12 final size:13
Alignment explanation
Indices: 1926766--1926800 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1926756 TAAAAACATA
1926766 GAAAAATAAGCAT
1 GAAAAATAAGCAT
1926779 GAAAAATAAGCAT
1 GAAAAATAAGCAT
*
1926792 TAAAAATAA
1 GAAAAATAA
1926801 AATGCAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (13 bp):
GAAAAATAAGCAT
Found at i:1926797 original size:14 final size:13
Alignment explanation
Indices: 1926762--1926800 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1926752 AATGTAAAAA
1926762 CATAGAAAAATAAG
1 CATA-AAAAATAAG
*
1926776 CATGAAAAATAAG
1 CATAAAAAATAAG
*
1926789 CATTAAAAATAA
1 CATAAAAAATAA
1926801 AATGCAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (13 bp):
CATAAAAAATAAG
Found at i:1929419 original size:13 final size:13
Alignment explanation
Indices: 1929401--1929430 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1929391 CTTAAAAAAC
1929401 GGGTTTGGAGCTT
1 GGGTTTGGAGCTT
1929414 GGGTTTGGAGCTT
1 GGGTTTGGAGCTT
1929427 GGGT
1 GGGT
1929431 ATAGAGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.50, T:0.37
Consensus pattern (13 bp):
GGGTTTGGAGCTT
Found at i:1930195 original size:17 final size:17
Alignment explanation
Indices: 1930168--1930230 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
1930158 ATTTAGACAA
*
1930168 AAAATAAATAAAAATATT
1 AAAA-AAATAAAAACATT
*
1930186 AAAAAAATAAAAACATG
1 AAAAAAATAAAAACATT
*
1930203 AAAAAACATAAAAACCTT
1 AAAAAA-ATAAAAACATT
*
1930221 AAAGAAATAA
1 AAAAAAATAA
1930231 CTAAATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 21 0.54
18 18 0.46
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAACATT
Found at i:1930327 original size:5 final size:5
Alignment explanation
Indices: 1930283--1930673 Score: 141
Period size: 5 Copynumber: 80.4 Consensus size: 5
1930273 AAAAAAAAGT
* * * *
1930283 AATAA AAGT-A AATAA AAT-G AAGAA AATAA GAT-A AAGAA AATAA AA-AA
1 AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
1930330 AAAACA AATAA AATAA AAT-A AATAA AATAA GAT-A AATAA AAT-A AA-AA
1 AATA-A AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* ** *
1930377 AAT-A AATGA AATAA AA-AA TAA-AA AAT-A AAGGA AAT-A AAGAA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA
* * * *
1930423 GATAA AGA-AA ATAAAA AATAA AATAA AGAT-A GAT-A AAGAA AATAA
1 AATAA A-ATAA A-ATAA AATAA AATAA A-ATAA AATAA AATAA AATAA
* * * *
1930468 AAAACA AATAA AATAA AGA-AA ATAAAA AATGA AATAA AACAA AGA-AA
1 AATA-A AATAA AATAA A-ATAA A-ATAA AATAA AATAA AATAA A-ATAA
* * * *
1930515 AATAAAA AATAA GATAA CAT-A AA-GA AATAA AAAACA AATAA AAT-A
1 AAT--AA AATAA AATAA AATAA AATAA AATAA AATA-A AATAA AATAA
* * * * *
1930560 AAGAA AATAA AAAACA AATAA AAT-A AAGAA AATAA TAT-A AAGAA AATAA
1 AATAA AATAA AATA-A AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* * * * * * *
1930609 AAAATA AATGA AATAA AGTTA AAGAA AAT-A AA-AA AATGA AAT-A AAGAA
1 AATA-A AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
1930657 AATAA GATAA ATTAA AA
1 AATAA AATAA AATAA AA
1930674 CGAAAAGGGA
Statistics
Matches: 285, Mismatches: 64, Indels: 74
0.67 0.15 0.17
Matches are distributed among these distances:
4 63 0.22
5 186 0.65
6 31 0.11
7 5 0.02
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:1930342 original size:10 final size:10
Alignment explanation
Indices: 1930283--1930673 Score: 141
Period size: 9 Copynumber: 40.2 Consensus size: 10
1930273 AAAAAAAAGT
1930283 AATAAAAGT-A
1 AATAAAA-TAA
*
1930293 AATAAAAT-G
1 AATAAAATAA
*
1930302 AAGAAAATAA
1 AATAAAATAA
* *
1930312 GAT-AAAGAA
1 AATAAAATAA
1930321 AATAAAA-AA
1 AATAAAATAA
*
1930330 AAAACAAATAA
1 AATA-AAATAA
1930341 AATAAAAT-A
1 AATAAAATAA
1930350 AATAAAATAA
1 AATAAAATAA
*
1930360 GAT-AAATAA
1 AATAAAATAA
1930369 AAT-AAA-AA
1 AATAAAATAA
*
1930377 AAT-AAATGA
1 AATAAAATAA
1930386 AATAAAA-AA
1 AATAAAATAA
1930395 TAA-AAAAT-A
1 -AATAAAATAA
**
1930404 AAGGAAAT-A
1 AATAAAATAA
*
1930413 AAGAAAATAA
1 AATAAAATAA
*
1930423 GATAAAGA-AA
1 AATAAA-ATAA
*
1930433 ATAAAAAATAA
1 A-ATAAAATAA
1930444 AATAAAGAT-A
1 AATAAA-ATAA
* *
1930454 GAT-AAAGAA
1 AATAAAATAA
*
1930463 AATAAAAAACA
1 AATAAAATA-A
1930474 AATAAAATAA
1 AATAAAATAA
*
1930484 AGA-AAATAAAA
1 A-ATAAA-ATAA
*
1930495 AATGAAATAA
1 AATAAAATAA
*
1930505 AACAAAGA-AA
1 AATAAA-ATAA
1930515 AATAAAAAATAA
1 AAT--AAAATAA
* *
1930527 GATAACAT-A
1 AATAAAATAA
*
1930536 AA-GAAATAA
1 AATAAAATAA
*
1930545 AAAACAAATAA
1 AATA-AAATAA
*
1930556 AAT-AAAGAA
1 AATAAAATAA
*
1930565 AATAAAAAACA
1 AATAAAATA-A
1930576 AATAAAAT-A
1 AATAAAATAA
*
1930585 AAGAAAATAA
1 AATAAAATAA
* *
1930595 TAT-AAAGAA
1 AATAAAATAA
*
1930604 AATAAAAAATA
1 AATAAAATA-A
*
1930615 AATGAAATAA
1 AATAAAATAA
* * *
1930625 AGTTAAAGAA
1 AATAAAATAA
1930635 AAT-AAA-AA
1 AATAAAATAA
*
1930643 AATGAAAT-A
1 AATAAAATAA
*
1930652 AAGAAAATAA
1 AATAAAATAA
* *
1930662 GATAAATTAA
1 AATAAAATAA
1930672 AA
1 AA
1930674 CGAAAAGGGA
Statistics
Matches: 286, Mismatches: 59, Indels: 72
0.69 0.14 0.17
Matches are distributed among these distances:
8 19 0.07
9 108 0.38
10 95 0.33
11 57 0.20
12 7 0.02
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (10 bp):
AATAAAATAA
Found at i:1930602 original size:172 final size:164
Alignment explanation
Indices: 1930287--1930661 Score: 447
Period size: 172 Copynumber: 2.2 Consensus size: 164
1930277 AAAAGTAATA
* * * *
1930287 AAAG-TAAATAAAATGAAGAAAATAAGATAAAGAAAATAAAAAAAAAACAAATAAAATAAAATAA
1 AAAGATAAAGAAAAT-AAAAAAATAAAATAAAGAAAATAAAAAAAAAACAAACAAAATAAAATAA
* * * * *
1930351 ATAAAATAAGATAAATAAAATAAAAAAATAAATGAAATAAAAAATAAAAAATAAAGGAAATAAAG
65 ATAAAATAAGATAAATAAAAAAAAAAAACAAATAAAATAAAAAATAAAAAACAAAGAAAATAAAG
1930416 AAAATAAGATAAAGAAAATAAAAAATAAAAT-AAAG
130 AAAATAAGATAAAGAAAATAAAAAAT-AAATGAAAG
*
1930451 ATAGATAAAGAAAATAAAAAACAAATAAAATAAAGAAAATAAAAAATGAAATA-AAACAAAGA-A
1 AAAGATAAAGAAAAT--AAAA-AAATAAAATAAAGAAAATAAAAAA--AAA-ACAAACAAA-ATA
1930514 AAAT-AA-AAAATAAGATAACATAAAGAAATAAAAAACAAATAAAATAAAGAAAATAAAAAACAA
59 AAATAAATAAAATAAGATAA-ATAAA-AAA-AAAAAACAAATAAAAT-AA-AAAATAAAAAACAA
* * *
1930577 ATAAAATAAAGAAAATAATATAAAGAAAATAAAAAATAAATGAAAT
119 AGAAAATAAAGAAAATAAGATAAAGAAAATAAAAAATAAATGAAAG
* *
1930623 AAAGTTAAAGAAAATAAAAAAATGAAATAAAGAAAATAA
1 AAAGATAAAGAAAATAAAAAAATAAAATAAAGAAAATAA
1930662 GATAAATTAA
Statistics
Matches: 181, Mismatches: 17, Indels: 21
0.83 0.08 0.10
Matches are distributed among these distances:
164 3 0.02
165 9 0.05
166 3 0.02
167 35 0.19
168 7 0.04
169 35 0.19
170 20 0.11
171 6 0.03
172 63 0.35
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (164 bp):
AAAGATAAAGAAAATAAAAAAATAAAATAAAGAAAATAAAAAAAAAACAAACAAAATAAAATAAA
TAAAATAAGATAAATAAAAAAAAAAAACAAATAAAATAAAAAATAAAAAACAAAGAAAATAAAGA
AAATAAGATAAAGAAAATAAAAAATAAATGAAAG
Found at i:1930645 original size:39 final size:39
Alignment explanation
Indices: 1930305--1930645 Score: 188
Period size: 39 Copynumber: 8.7 Consensus size: 39
1930295 TAAAATGAAG
*
1930305 AAAAT-AAGATAAAGAAAATAAA-AAAA-AAACAAATAAAAT
1 AAAATAAAGA-AAAGAAAATAAAGAAAATAAA-AAA-CAAAT
* * * * *
1930344 AAAATAAATAAAATAAGATAAATAAAATAAAAAAATAAAT
1 AAAATAAAGAAAAGAAAATAAAGAAAAT-AAAAAACAAAT
* * * *
1930384 GAAATAAA-AAATAAAAAATAAAGGAAAT-AAAGA-AAAT
1 AAAATAAAGAAA-AGAAAATAAAGAAAATAAAAAACAAAT
* * * * *
1930421 AAGATAAAGAAAA-TAAA-AAATAAAATAAAGATAGATAAAG
1 AAAATAAAGAAAAGAAAATAAAGAAAATAAA-A-A-ACAAAT
* * *
1930461 AAAATAAAAAACAAATAAAATAAAGAAAATAAAAAATGAAAT
1 AAAAT-AAAGA-AAAGAAAATAAAGAAAATAAAAAA-CAAAT
* * * *
1930503 AAAACAAAGAAAA-ATAAA-AAATAAGATAACATAAAGAAAT
1 AAAATAAAGAAAAGA-AAATAAAGAAAATAA-A-AAACAAAT
* *
1930543 -AAA-AAA-CAAATAAAATAAAGAAAATAAAAAACAAAT
1 AAAATAAAGAAAAGAAAATAAAGAAAATAAAAAACAAAT
* * *
1930579 AAAATAAAGAAAATAATATAAAGAAAATAAAAAATAAAT
1 AAAATAAAGAAAAGAAAATAAAGAAAATAAAAAACAAAT
* *
1930618 GAAATAAAGTTAAAGAAAATAAA-AAAAT
1 AAAATAAAG-AAAAGAAAATAAAGAAAAT
1930646 GAAATAAAGA
Statistics
Matches: 239, Mismatches: 38, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
35 7 0.03
36 12 0.05
37 22 0.09
38 23 0.10
39 72 0.30
40 59 0.25
41 15 0.06
42 14 0.06
43 4 0.02
44 11 0.05
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (39 bp):
AAAATAAAGAAAAGAAAATAAAGAAAATAAAAAACAAAT
Found at i:1930659 original size:9 final size:9
Alignment explanation
Indices: 1930313--1930661 Score: 145
Period size: 9 Copynumber: 42.4 Consensus size: 9
1930303 AGAAAATAAG
1930313 ATAAAGAAA
1 ATAAAGAAA
1930322 ATAAA-AAA
1 ATAAAGAAA
*
1930330 A-AAA-CAA
1 ATAAAGAAA
*
1930337 ATAAAATAAA
1 AT-AAAGAAA
*
1930347 ATAAATAAA
1 ATAAAGAAA
1930356 AT-AAG---
1 ATAAAGAAA
*
1930361 ATAAATAAA
1 ATAAAGAAA
1930370 ATAAA-AAA
1 ATAAAGAAA
1930378 ATAAATG-AA
1 ATAAA-GAAA
1930387 AT-AA-AAA
1 ATAAAGAAA
1930394 AT-AA-AAA
1 ATAAAGAAA
*
1930401 ATAAAGGAA
1 ATAAAGAAA
1930410 ATAAAGAAA
1 ATAAAGAAA
1930419 AT-AAGATAA
1 ATAAAGA-AA
*
1930428 AGAAA-ATAA
1 ATAAAGA-AA
*
1930437 A-AAATAAA
1 ATAAAGAAA
*
1930445 ATAAAGATAG
1 ATAAAGA-AA
1930455 ATAAAGAAA
1 ATAAAGAAA
1930464 AT-AA-AAA
1 ATAAAGAAA
* *
1930471 ACAAATAAA
1 ATAAAGAAA
1930480 ATAAAGAAA
1 ATAAAGAAA
1930489 AT-AA-AAA
1 ATAAAGAAA
*
1930496 ATGAAATAAA
1 AT-AAAGAAA
*
1930506 ACAAAGAAA
1 ATAAAGAAA
1930515 A-ATAA-AAA
1 ATA-AAGAAA
1930523 AT-AAGATAA
1 ATAAAGA-AA
1930532 CATAAAG-AA
1 -ATAAAGAAA
1930541 AT-AA-AAA
1 ATAAAGAAA
* *
1930548 ACAAATAAA
1 ATAAAGAAA
1930557 ATAAAGAAA
1 ATAAAGAAA
1930566 AT-AA-AAA
1 ATAAAGAAA
* *
1930573 ACAAATAAA
1 ATAAAGAAA
1930582 ATAAAGAAA
1 ATAAAGAAA
*
1930591 AT----AAT
1 ATAAAGAAA
1930596 ATAAAGAAA
1 ATAAAGAAA
1930605 AT-AA-AAA
1 ATAAAGAAA
1930612 ATAAATG-AA
1 ATAAA-GAAA
1930621 ATAAAG---
1 ATAAAGAAA
*
1930627 TTAAAGAAA
1 ATAAAGAAA
1930636 ATAAA-AAA
1 ATAAAGAAA
1930644 AT---G-AA
1 ATAAAGAAA
1930649 ATAAAGAAA
1 ATAAAGAAA
1930658 ATAA
1 ATAA
1930662 GATAAATTAA
Statistics
Matches: 267, Mismatches: 25, Indels: 96
0.69 0.06 0.25
Matches are distributed among these distances:
5 10 0.04
6 7 0.03
7 42 0.16
8 59 0.22
9 126 0.47
10 20 0.07
11 3 0.01
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (9 bp):
ATAAAGAAA
Found at i:1940449 original size:20 final size:20
Alignment explanation
Indices: 1940424--1940477 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1940414 TTACAAAGGG
*
1940424 ATGTACCGATACACTCCTGT
1 ATGTACCGATACACTCCTAT
1940444 ATGTACCGATACACTCCTAT
1 ATGTACCGATACACTCCTAT
*
1940464 ATGTATCGATACAC
1 ATGTACCGATACAC
1940478 CTCATATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTACCGATACACTCCTAT
Found at i:1945600 original size:50 final size:48
Alignment explanation
Indices: 1945524--1945624 Score: 168
Period size: 50 Copynumber: 2.1 Consensus size: 48
1945514 ATAAGATCTC
1945524 TATGAACACATGACTGATGTTGATGTACCTGAAGCATTTATATTAATTACT
1 TATGAACACATGACTGATGTTGATGTACCTGAAGCATTT-TATT-A-TACT
1945575 TATGAACACATGA-TGATGTTGATGTACCTGAAGCATTTTATTATACT
1 TATGAACACATGACTGATGTTGATGTACCTGAAGCATTTTATTATACT
1945622 TAT
1 TAT
1945625 CATTTTATCC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
47 7 0.14
48 1 0.02
49 4 0.08
50 25 0.50
51 13 0.26
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (48 bp):
TATGAACACATGACTGATGTTGATGTACCTGAAGCATTTTATTATACT
Found at i:1950949 original size:39 final size:39
Alignment explanation
Indices: 1950893--1951049 Score: 215
Period size: 39 Copynumber: 4.0 Consensus size: 39
1950883 ACTGCTTTCC
* **
1950893 GCAGGCTCCTCGGCTTTGTGCTTAGGGTAAGTCCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
* * * *
1950932 GTAGGCTCATCTGCTTTGTGCTCAAGGTAAGTCCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
* * *
1950971 GCAGGCTCCTCTGCTTTGTGCACAGGATAAGACCTTATT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
*
1951010 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTTCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
1951049 G
1 G
1951050 GGTGTACAGG
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (39 bp):
GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
Found at i:1953291 original size:39 final size:39
Alignment explanation
Indices: 1953248--1953341 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
1953238 TTATCCTATG
* *
1953248 CACAAAGCAGATGAGTC-TACAATAAAGACTTACCCTGAA
1 CACAAAGCAGAGGAG-CATACAATAAAGACTTACCCTCAA
* * *
1953287 CACAAAGCAGAGGAGCATGCACTAAGGACTTACCCTCAA
1 CACAAAGCAGAGGAGCATACAATAAAGACTTACCCTCAA
*
1953326 CACAAAGCCGAGGAGC
1 CACAAAGCAGAGGAGC
1953342 CTATGGAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (39 bp):
CACAAAGCAGAGGAGCATACAATAAAGACTTACCCTCAA
Found at i:1955704 original size:134 final size:131
Alignment explanation
Indices: 1955510--1958351 Score: 2409
Period size: 134 Copynumber: 21.3 Consensus size: 131
1955500 TTGTTAATTA
* * * * *
1955510 ATTCCTCTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTATCATTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
*
1955575 CAAATCTTGAAAGATGGAGATTTGTTCTGCTTCTTCTGAAGGGAATATCTGATCTAGGGAGTTTG
66 CAAATCTTGAAAGA-GGAGATTTGTTCTGCTTCTTCTGAAGGGAATATCT-ATCTGGGGAG-TTG
*
1955640 ATCT
128 ATCC
* * * * *
1955644 ATTCCACTTTCACTCAGAGAAGATTGAATCGAGGTAGATTTGTTCCACTGTTACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * *
1955709 CAAATCTTGAAGGAGAGG-GATATGGTATGCTTCTTCCTG-AGGGAAAATCATATCTGGGGGAGT
66 CAAATCTTGAA--AGAGGAGATTTGTTCTGCTTCTT-CTGAAGGGAATATC-TATCT-GGGGAGT
1955772 TGATCC
126 TGATCC
* * * * *
1955778 ATTCCACTGTCACTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTATCACTCATGCAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * * * * *
1955843 CAAATCATGAAAGATAGTGATATGTTCCGCATT-ATAT-AGAGGGAATAT-TAGTTCTGGGGACG
66 CAAATCTTGAAAGA-GGAGATTTGTTCTGC-TTCTTCTGA-AGGGAATATCTA--TCTGGGGA-G
*
1955905 TCGATCC
125 TTGATCC
* * * * *
1955912 ATTTCACTGTTACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * *
1955977 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCGGAAGGGAATATCATATCTGGGGATGTTG
66 CAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGAAGGGAATATC-TATCTGGGGA-GTTG
*
1956042 ATCA
128 ATCC
* ** * * * *
1956046 ATTCCACTGTCAATCAGGGAAGATTGAATAAAGACATACTAT-TTCCATTGTCACTCAAGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACT-TGTTCCACTGTCACTCAGGGAATA
* * ** * * *
1956110 TCAAATATTGAAAGA-GATGATATGTTCTATTTTTTTCTGGAGGGAATATCATATATGGGGACGT
65 TCAAATCTTGAAAGAGGA-GATTTGTTCT-GCTTCTTCTGAAGGGAATATC-TATCTGGGGA-GT
1956174 TGATCC
126 TGATCC
* * * *
1956180 ATTCCACTGTCACACAGGGAAGATTGAATCAAGGCAAACTTATTCCACTGTCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * ** *
1956245 CAAATCTTGAAAGA-GATGATATGTTCTGCTTTTTCT-AGAGGGAATATCATAAATGAGGATGTT
66 CAAATCTTGAAAGAGGA-GATTTGTTCTGCTTCTTCTGA-AGGGAATATC-TATCTGGGGA-GTT
1956308 GAGT-C
127 GA-TCC
* ** * * *
1956313 ATTCCACTGTCACCCAGGGAAGATTGAATAAAGGTATACTTGTTCCAC-GATCACTCAGTGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTG-TCACTCAGGGAATA
* * *
1956377 TCAAATCTTGAAAGATAGG-GATTTGTT-TCGCTTCTTTTGGAGGGAATATCAAATCTGGGGGAG
65 TCAAATCTTGAAAG--AGGAGATTTGTTCT-GCTTCTTCTGAAGGGAATATC-TATCT-GGGGAG
*
1956440 TTAATCC
125 TTGATCC
* * *
1956447 ATTCCACTGTTACTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCA-TGCAGGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACT-CAGGGAATA
* ** * * * *
1956511 CCAAATCTACAAAGAGAGGGATTTTTTCTGCTTCTT-T-AGGAGGAATATCAGATCTGGGGATGT
65 TCAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGAAG-GGAATATC-TATCTGGGGA-GT
1956574 TGATCC
126 TGATCC
* * * * *
1956580 ATTCCACTGTCAGTTAGGGAAGATTGAATCGAGGCAGACTTGTTACACTCTCACTCAGGAAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
** * *
1956645 CAAATCTTGAAAATGAGG-GATTTGTTCCACTGTC-ACT-CAGGGAATATCATATCTGGGGAGTT
66 CAAATCTTG-AAA-GAGGAGATTTGTTCTGCT-TCTTCTGAAGGGAATATC-TATCTGGGGAGTT
*
1956707 GATCT
127 GATCC
* * * *
1956712 ATTCCACTGTCACTCAAGGAAGATTGAATCGAGTCAGACTTGTTTCACTATCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * * * *
1956777 CAAATCTTTAAAAAGAGG-GATCTGTTCCGCTTCTTCTGGATGGAATATCATATCTGGTGATGTT
66 CAAATC-TT-GAAAGAGGAGATTTGTTCTGCTTCTTCTGAAGGGAATATC-TATCTGGGGA-GTT
*
1956841 AATCC
127 GATCC
* * * * * * ** *
1956846 CTTTCACTGTCACCCAAGGATGATTGAATCGAGGCAGACTTATTATACTCTCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * *
1956911 TAAATCTTGAAATAGAGAGATTTGTT-TCGTTTCTTCTGGAGGGAATATCATATCTGGGGACGTT
66 CAAATCTTGAAAGAG-GAGATTTGTTCT-GCTTCTTCTGAAGGGAATATC-TATCTGGGGA-GTT
*
1956975 GATCT
127 GATCC
* * * *
1956980 ATTCCACTGTCACTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCATTGTCACTTAAGG-ATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * ** *
1957044 CAAATCTTGAAAGA-GAGGGTTCTTTTCTATTTCTTCT-AGAGGGAATATCATATATGGGGACGT
66 CAAATCTTGAAAGAGGA-GATT-TGTTCTGCTTCTTCTGA-AGGGAATATC-TATCTGGGGA-GT
1957107 TGAT-C
126 TGATCC
* * * * * *
1957112 ATTTCCATTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTACACTATCACGCAGGAAATA
1 A-TTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATA
* * **
1957177 TCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTCTTCT-AGAGGGAATATCATATATGACGATGT
65 TCAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGA-AGGGAATATC-TATCTGGGGA-GT
*
1957241 GGATCC
126 TGATCC
* * * * ***
1957247 ATTACACTGTCACTCACGGG-AGATTGAATCGAGGTAAACTTGTTCTACTGTCACTCAATAAATA
1 ATTCCACTGTCACTCA-GGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATA
* * *
1957311 TCAAATCTTTAAGGAGCGAGATTTATT-TCGCTTCTTCTTG-AGGGAATATCATATCTGGGGAGG
65 TCAAATCTTGAAAGAG-GAGATTTGTTCT-GCTTCTTC-TGAAGGGAATATC-TATCTGGGGA-G
1957374 TTGATCC
125 TTGATCC
* ** * * * * *
1957381 ATTCCACTATCACTCAATGAATATTGAATCGAGGTAGACTTATTCCACTTTTACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * *
1957446 CAAATATTGAAAGA-GAGATATATGTTCCGTTTCTTCT-AGAGGGAATATCATATCTTTGGGAGT
66 CAAATCTTGAAAGAGGAGAT-T-TGTTCTGCTTCTTCTGA-AGGGAATATC-TATC-TGGGGAGT
1957509 TGATCC
126 TGATCC
* * * * *
1957515 ATTCCACTGTCACTCAGGAAAGATTGAATCGAGCCAGACTTATTCCACTATCACTAAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * * *
1957580 CAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTTCT-AGAGGGAATAT-TAGATCTAGGGACGT
66 CAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGA-AGGGAATATCT--ATCTGGGGA-GT
1957643 TGATCC
126 TGATCC
* * * *
1957649 ATTCCACTGTCACTCAAGAAAGATTGAATCGAGGCAGACATGTTCCACTGTTACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * *** * * *
1957714 CAAATCTTGAATGAGAGAGATATGTTCCATTTCTTTTGGAGGGAATATCAGATCTGGGGGAGTTG
66 CAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGAAGGGAATATC-TATCT-GGGGAGTTG
1957779 ATCC
128 ATCC
* * * ** * *
1957783 ATTCAACTATCACTCAGGGAATATTGAATCGAGATAGACTTGTTCCACTGTCACGCAGAGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
* * *
1957848 CAAATCTTGAAAGAGAGGGATTTGTTCTGTTTCTTCTGAAGGG-------A---GGGGATGTGGA
66 CAAATCTTGAAAGAG-GAGATTTGTTCTGCTTCTTCTGAAGGGAATATCTATCTGGGGA-GTTGA
1957903 TCC
129 TCC
* * * * *
1957906 ATTCCACTGTCACTCAGGGAATATTGAAT-TAGGGAAGATTTGTTCCACTGTCACTTAGGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGA-GGCAGACTTGTTCCACTGTCACTCAGGGAATA
**** * * * *
1957970 TCAAATCTTGAAAGA-GATGGATCAACTCCGCTTCTTTTGGAGGGAATATCAGATCTGGGGACGT
65 TCAAATCTTGAAAGAGGA--GATTTGTTCTGCTTCTTCTGAAGGGAATATC-TATCTGGGGA-GT
*
1958034 GGATCC
126 TGATCC
* * * * *
1958040 ATTCCATTATCACTCAGGGAAGATTGAATCGAGGTAGACTTATTCCATTGTCAC-CTAGGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTC-AGGGAATA
* * * * * * *
1958104 TCAACTCTTGAAAGA-GATGGATCTATTTTGCTTCTTATGGAGGGAATCTCAGATAT-TGGGGAG
65 TCAAATCTTGAAAGAGGA--GATTTGTTCTGCTTCTTCTGAAGGGAATATC---TATCTGGGGAG
1958167 TTGATCC
125 TTGATCC
* * *
1958174 ATTCCACTGTCACTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCATTGTC-TTACAGGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACT-CAGGGAATA
* * * **
1958238 TAAAATCTTGAAAAAGAGG-GATTTGTTTTGCTTCTTCTGGAGGGAATATAAGATCTGGGGGAGT
65 TCAAATCTTG--AAAGAGGAGATTTGTTCTGCTTCTTCTGAAGGGAATAT-CTATCT-GGGGAGT
1958302 TGATCC
126 TGATCC
* * * * *
1958308 ATTCAACTGTCACTTAGGGAAGATTGAATCAAGCCATACTTGTT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTT
1958352 TCTCTTATCT
Statistics
Matches: 2244, Mismatches: 356, Indels: 216
0.80 0.13 0.08
Matches are distributed among these distances:
121 1 0.00
122 6 0.00
123 92 0.04
126 1 0.00
131 5 0.00
132 120 0.05
133 375 0.17
134 1574 0.70
135 50 0.02
136 19 0.01
137 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (131 bp):
ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATAT
CAAATCTTGAAAGAGGAGATTTGTTCTGCTTCTTCTGAAGGGAATATCTATCTGGGGAGTTGATC
C
Found at i:1955961 original size:268 final size:266
Alignment explanation
Indices: 1955455--1958337 Score: 2704
Period size: 268 Copynumber: 10.8 Consensus size: 266
1955445 GGAATATGAT
* * * * * * * * * ** *
1955455 GAGGGACATGTTCTGTTTTTTATTGAGGAAAAATCATATTTGGGGTTGTTAATTAATTCCTCTGT
1 GAGGGATATGTTCTGCTTCTT-CTGAGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGT
* * *
1955520 CACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTATCATTCAGGGAATATCAAATCTTGA
65 CACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGA
* * * * * *
1955585 AAGATG-GAGATTTGTTCTGCTTCTTCTGAAGGGAATATC-TGATCTAGGGAGTTTGATCTATTC
130 AAGA-GAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCAT-ATCTGGGGAG-TTGATCCATTC
* * * * * *
1955648 CACTTTCACTCAGAGAAGATTGAATCGAGGTAGATTTGTTCCACTGTTACTCAGGGAATATCAAA
192 CACTGTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAA
*
1955713 TCTTGAAGGA
257 TCTTGAAAGA
* * *
1955723 GAGGGATATGGTATGCTTCTTCCTGAGGGAAAATCATATCTGGGGGA-GTTGATCCATTCCACTG
1 GAGGGATATGTTCTGCTTCTT-CTGAGGGAATATCATATCT-GGGGATGTTGATCCATTCCACTG
* * * *
1955787 TCACTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTATCACTCATGCAATATCAAATCATG
64 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTG
* * * * * *
1955852 AAAGATAGTGATATGTTCCGCATT-ATATAGAGGGAATATTAGT-TCTGGGGACGTCGATCCATT
129 AAAGAGAGTGATATGTTCCGC-TTCTTCTGGAGGGAATATCA-TATCTGGGGA-GTTGATCCATT
* *
1955915 TCACTGTTACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAA
191 CCACTGTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAA
1955980 ATCTTGAAAGA
256 ATCTTGAAAGA
* * * *
1955991 GAGGGATTTGTTCCGCTTCTTCGGAAGGGAATATCATATCTGGGGATGTTGATCAATTCCACTGT
1 GAGGGATATGTTCTGCTTCTTCTG-AGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGT
* * * * * * * *
1956056 CAATCAGGGAAGATTGAAT-AAAGACATACTAT-TTCCATTGTCACTCAAGGAATATCAAATATT
65 CACTCAGGGAAGATTGAATCGAGGA-AGACT-TGTTCCACTATCACTCAGGGAATATCAAATCTT
*** * *
1956119 GAAAGAGA-TGATATGTTCTATTTTTTTCTGGAGGGAATATCATATATGGGGACGTTGATCCATT
128 GAAAGAGAGTGATATGTTC-CGCTTCTTCTGGAGGGAATATCATATCTGGGGA-GTTGATCCATT
* * * *
1956183 CCACTGTCACACAGGGAAGATTGAAT-CAAGGCAAACTTATTCCACTGTCACTCAGGGAATATCA
191 CCACTGTCACTCAGGGAAGATTGAATCCAA-GTAGACTTGTTCCACTGTCACTCAGGGAATATCA
1956247 AATCTTGAAAGA
255 AATCTTGAAAGA
* * ** *
1956259 GA-TGATATGTTCTGCTTTTTCTAGAGGGAATATCATAAATGAGGATGTTGAGT-CATTCCACTG
1 GAGGGATATGTTCTGCTTCTTCT-GAGGGAATATCATATCTGGGGATGTTGA-TCCATTCCACTG
* ** * * * *
1956322 TCACCCAGGGAAGATTGAATAAAGGTATACTTGTTCCACGATCACTCAGTGAATATCAAATCTTG
64 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTG
* * * * * * *
1956387 AAAGATAGGGATTTGTTTCGCTTCTTTTGGAGGGAATATCAAATCTGGGGGAGTTAATCCATTCC
129 AAAGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCT-GGGGAGTTGATCCATTCC
* * * * * * *
1956452 ACTGTTACTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCA-TGCAGGGAATACCAAA
193 ACTGTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACT-CAGGGAATATCAAA
**
1956516 TCTACAAAGA
257 TCTTGAAAGA
* * *
1956526 GAGGGATTTTTTCTGCTTCTT-T-AGGAGGAATATCAGATCTGGGGATGTTGATCCATTCCACTG
1 GAGGGATATGTTCTGCTTCTTCTGA-G-GGAATATCATATCTGGGGATGTTGATCCATTCCACTG
* * * * * *
1956589 TCAGTTAGGGAAGATTGAATCGAGGCAGACTTGTTACACTCTCACTCAGGAAATATCAAATCTTG
64 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTG
* * * * * *
1956654 AAA-ATGAGGGATTTGTTCCACTGTC-ACT-CAGGGAATATCATATCTGGGGAGTTGATCTATTC
129 AAAGA-GAGTGATATGTTCCGCT-TCTTCTGGAGGGAATATCATATCTGGGGAGTTGATCCATTC
* * * *
1956716 CACTGTCACTCAAGGAAGATTGAAT-CGAGTCAGACTTGTTTCACTATCACTCAGGGAATATCAA
192 CACTGTCACTCAGGGAAGATTGAATCCAAGT-AGACTTGTTCCACTGTCACTCAGGGAATATCAA
* *
1956780 ATCTTTAAAAA
256 ATCTTGAAAGA
* * * * * * *
1956791 GAGGGATCTGTTCCGCTTCTTCTGGATGGAATATCATATCTGGTGATGTTAATCCCTTTCACTGT
1 GAGGGATATGTTCTGCTTCTTCT-GAGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGT
* * * * * ** * *
1956856 CACCCAAGGATGATTGAATCGAGGCAGACTTATTATACTCTCACTCAGGGAATATTAAATCTTGA
65 CACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGA
* * * * * *
1956921 AATAGAGAGATTTGTTTCGTTTCTTCTGGAGGGAATATCATATCTGGGGACGTTGATCTATTCCA
130 AAGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGA-GTTGATCCATTCCA
* * * * * * *
1956986 CTGTCACTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCATTGTCACTTAAGG-ATATCAAATC
194 CTGTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATC
1957050 TTGAAAGA
259 TTGAAAGA
* * * ** * * *
1957058 GAGGGTTCTTTTCTATTTCTTCTAGAGGGAATATCATATATGGGGACGTTGAT-CATTTCCATTG
1 GAGGGATATGTTCTGCTTCTTCT-GAGGGAATATCATATCTGGGGATGTTGATCCA-TTCCACTG
* * *
1957122 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTACACTATCACGCAGGAAATATCAAATCTTG
64 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTG
* * * * * ** * *
1957187 AAAGAGAGGGATTTGTTCTGCTTCTTCTAGAGGGAATATCATATATGACGATGTGGATCCATTAC
129 AAAGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGA-GTTGATCCATTCC
* * * * ***
1957252 ACTGTCACTCACGGG-AGATTGAATCGAGGTAAACTTGTTCTACTGTCACTCAATAAATATCAAA
193 ACTGTCACTCA-GGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAA
* *
1957316 TCTTTAAGGA
257 TCTTGAAAGA
* * *
1957326 GCGAGATTTAT-TTC-GCTTCTTCTTGAGGGAATATCATATCTGGGGAGGTTGATCCATTCCACT
1 GAGGGA--TATGTTCTGCTTCTTC-TGAGGGAATATCATATCTGGGGATGTTGATCCATTCCACT
* ** * * * * * *
1957389 ATCACTCAATGAATATTGAATCGAGGTAGACTTATTCCACTTTTACTCAGGGAATATCAAATATT
63 GTCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTT
* * *
1957454 GAAAGAGAGAT-ATATGTTCCGTTTCTTCTAGAGGGAATATCATATCTTTGGGAGTTGATCCATT
128 GAAAGAGAG-TGATATGTTCCGCTTCTTCTGGAGGGAATATCATATC-TGGGGAGTTGATCCATT
* * * * * *
1957518 CCACTGTCACTCAGGAAAGATTGAAT-CGAGCCAGACTTATTCCACTATCACTAAGGGAATATCA
191 CCACTGTCACTCAGGGAAGATTGAATCCAAG-TAGACTTGTTCCACTGTCACTCAGGGAATATCA
1957582 AATCTTGAAAGA
255 AATCTTGAAAGA
* * * * *
1957594 GAGGGATATGTTCCGCTTCTTCTAGAGGGAATATTAGATCTAGGGACGTTGATCCATTCCACTGT
1 GAGGGATATGTTCTGCTTCTTCT-GAGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGT
* * * * * *
1957659 CACTCAAGAAAGATTGAATCGAGGCAGACATGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
65 CACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGA
* * ** * * *
1957724 ATGAGAGAGATATGTTCCATTTCTTTTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCAA
130 AAGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCT-GGGGAGTTGATCCATTCCA
* * * * *
1957789 CTATCACTCAGGGAATATTGAAT-CGAGATAGACTTGTTCCACTGTCACGCAGAGAATATCAAAT
194 CTGTCACTCAGGGAAGATTGAATCCAAG-TAGACTTGTTCCACTGTCACTCAGGGAATATCAAAT
1957853 CTTGAAAGA
258 CTTGAAAGA
* * *
1957862 GAGGGATTTGTTCTGTTTCTTCTGAAGGG--------A---GGGGATGTGGATCCATTCCACTGT
1 GAGGGATATGTTCTGCTTCTTCTG-AGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGT
* * * * *
1957916 CACTCAGGGAATATTGAAT-TAGGGAAGATTTGTTCCACTGTCACTTAGGGAATATCAAATCTTG
65 CACTCAGGGAAGATTGAATCGA-GGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTG
** * * *
1957980 AAAGAGA-TGGATCA-ACTCCGCTTCTTTTGGAGGGAATATCAGATCTGGGGACGTGGATCCATT
129 AAAGAGAGT-GAT-ATGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGA-GTTGATCCATT
* * * * * *
1958043 CCATTATCACTCAGGGAAGATTGAATCGAGGTAGACTTATTCCATTGTCAC-CTAGGGAATATCA
191 CCACTGTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTC-AGGGAATATCA
*
1958107 ACTCTTGAAAGA
255 AATCTTGAAAGA
* * * * * *
1958119 GATGGATCTATTTTGCTTCTTATGGAGGGAATCTCAGATAT-TGGGGA-GTTGATCCATTCCACT
1 GAGGGATATGTTCTGCTTCTTCT-GAGGGAATATC--ATATCTGGGGATGTTGATCCATTCCACT
* * * * * *
1958182 GTCACTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCATTGTC-TTACAGGGAATATAAAATCT
63 GTCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACT-CAGGGAATATCAAATCT
* * * ** * *
1958246 TGAAAAAGAGGGATTTGTTTTGCTTCTTCTGGAGGGAATATAAGATCTGGGGGAGTTGATCCATT
127 TGAAAGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCT-GGGGAGTTGATCCATT
* *
1958311 CAACTGTCACTTAGGGAAGATTGAATC
191 CCACTGTCACTCAGGGAAGATTGAATC
1958338 AAGCCATACT
Statistics
Matches: 2154, Mismatches: 382, Indels: 158
0.80 0.14 0.06
Matches are distributed among these distances:
256 7 0.00
257 204 0.09
258 3 0.00
260 1 0.00
264 1 0.00
265 95 0.04
266 132 0.06
267 574 0.27
268 1105 0.51
269 29 0.01
270 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (266 bp):
GAGGGATATGTTCTGCTTCTTCTGAGGGAATATCATATCTGGGGATGTTGATCCATTCCACTGTC
ACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGAA
AGAGAGTGATATGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGAGTTGATCCATTCCACT
GTCACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT
GAAAGA
Found at i:1957615 original size:402 final size:401
Alignment explanation
Indices: 1955510--1958351 Score: 2788
Period size: 402 Copynumber: 7.1 Consensus size: 401
1955500 TTGTTAATTA
* * * *
1955510 ATTCCTCTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTATCATTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
* * * *
1955575 CAAATCTTGAAAGATG-GAGATTTGTTCTGCTTCTTCTGAAGGGAATATC-TGATCTAGGGA-GT
66 CAAATCTTGAAAGA-GAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCAT-ATCTGGGGATG-
* * * * * *
1955637 TTGATCTATTCCACTTTCACTCAGAGAAGATTGAATCGAGGTAGATTTGTTCCACTGTTACTCAG
128 TTGATCCATTCCACTGTCACTCAG-GGAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * ** * *
1955702 GGAATATCAAATCTTGAAGGAGAGGGATATGGTAT-GCTTCTTCCT-GAGGGAAAATCATATCTG
192 GGAATATCAAATCTTGAAAGAGAGAGAT-TTATTTCGCTTCTT-CTGGAGGGAATATCATATCTG
* * *
1955765 GGG-GAGTTGATCCATTCCACTGTCACTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTAT
255 GGGAG-GTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTT
* * * * * * * * *
1955829 CACTCATGCAATATCAAATCATGAAAGATAG-TGATATGTTCCGCATT-ATATAGAGGGAATATT
319 CACTCAGGGAATATCAAATCTTGAAAGAGAGAT-ATATGTTCTG-TTTCTTCTAGAGGGAATATC
*
1955892 AGT-TCTGGGGACGTCGATCC
382 A-TATCTGGGGACGTTGATCC
* * * * * *
1955912 ATTTCACTGTTACTCAGGGAAGATTGAATCCAAGTAGACTTGTTCCACTGTCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
1955977 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTC-GGAAGGGAATATCATATCTGGGGATGTT
66 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGG-AGGGAATATCATATCTGGGGATGTT
* * ** * * * *
1956041 GATCAATTCCACTGTCAATCAGGGAAGATTGAATAAAGACATACTAT-TTCCATTGTCACTCAAG
130 GATCCATTCCACTGTCACTCAGGG-AGATTGAATCGAGGCAGACT-TGTTCCACTGTCACTCAGG
* * *
1956105 GAATATCAAATATTGAAAGAGATGATATGTTCTATTT---TT-TTCTGGAGGGAATATCATATAT
193 GAATATCAAATCTTGAAAGAGA-GAGA--TT-TATTTCGCTTCTTCTGGAGGGAATATCATATCT
* * * * * *
1956166 GGGGACGTTGATCCATTCCACTGTCACACAGGGAAGATTGAATCAAGGCAAACTTATTCCACTGT
254 GGGGAGGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTT
1956231 CACTCAGGGAATATCAAATCTTG-AA-AGAGATGATATGTTCTGCTTT-TTCTAGAGGGAATATC
319 CACTCAGGGAATATCAAATCTTGAAAGAGAGAT-ATATGTTCTG-TTTCTTCTAGAGGGAATATC
** * *
1956293 ATAAATGAGGATGTTGAGT-C
382 ATATCTGGGGACGTTGA-TCC
* ** * * * *
1956313 ATTCCACTGTCACCCAGGGAAGATTGAATAAAGGTATACTTGTTCCACGATCACTCAGTGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
* * * *
1956378 CAAATCTTGAAAGATAGGGATTTGTTTCGCTTCTTTTGGAGGGAATATCAAATCTGGGGGA-GTT
66 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCT-GGGGATGTT
* * * *
1956442 AATCCATTCCACTGTTACTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCA-TGCAGG
130 GATCCATTCCACTGTCACTCA-GGGAGATTGAATCGAGGCAGACTTGTTCCACTGTCACT-CAGG
* ** * *
1956506 GAATACCAAATCTACAAAGAGAGGGATTT-TTTCTGCTTCTT-TAGGA-GGAATATCAGATCTGG
193 GAATATCAAATCTTGAAAGAGAGAGATTTATTTC-GCTTCTTCT-GGAGGGAATATCATATCTGG
* * * * *
1956568 GGATGTTGATCCATTCCACTGTCAGTTAGGGAAGATTGAATCGAGGCAGACTTGTTACACTCTCA
256 GGAGGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCA
* * ** * * *
1956633 CTCAGGAAATATCAAATCTTGAAAATGAGGGAT-T-TGTTCCACTGTC-ACT-CAGGGAATATCA
321 CTCAGGGAATATCAAATCTTG-AAA-GAGAGATATATGTT-CTGTTTCTTCTAGAGGGAATATCA
*
1956694 TATCTGGGGA-GTTGATCT
383 TATCTGGGGACGTTGATCC
* * *
1956712 ATTCCACTGTCACTCAAGGAAGATTGAATCGAGTCAGACTTGTTTCACTATCACTCAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
* * * * * *
1956777 CAAATCTTTAAAAAGAGGGATCTGTTCCGCTTCTTCTGGATGGAATATCATATCTGGTGATGTTA
66 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGATGTTG
* * * * * ** *
1956842 ATCCCTTTCACTGTCACCCAAGGATGATTGAATCGAGGCAGACTTATTATACTCTCACTCAGGGA
131 ATCCATTCCACTGTCACTCAGGGA-GATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGA
* * * * *
1956907 ATATTAAATCTTGAAATAGAGAGATTTGTTTCGTTTCTTCTGGAGGGAATATCATATCTGGGGAC
195 ATATCAAATCTTGAAAGAGAGAGATTTATTTCGCTTCTTCTGGAGGGAATATCATATCTGGGGAG
* * *
1956972 GTTGATCTATTCCACTGTCACTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCA-TTGTCACTT
260 GTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTT-TCACTC
* * * * * *
1957036 AAGG-ATATCAAATCTTGAAAGAGAGGGT-TCTTTTCTATTTCTTCTAGAGGGAATATCATATAT
324 AGGGAATATCAAATCTTGAAAGAGA-GATATATGTTCTGTTTCTTCTAGAGGGAATATCATATCT
1957099 GGGGACGTTGAT-C
388 GGGGACGTTGATCC
* * * * *
1957112 ATTTCCATTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTACACTATCACGCAGGAAATA
1 A-TTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATA
* * * ** *
1957177 TCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTCTTCTAGAGGGAATATCATATATGACGATGTG
65 TCAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGATGTT
* * * * ***
1957242 GATCCATTACACTGTCACTCACGGGAGATTGAATCGAGGTAAACTTGTTCTACTGTCACTCAATA
130 GATCCATTCCACTGTCACTCA-GGGAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGG
* * * *
1957307 AATATCAAATCTTTAAGGAGCGAGATTTATTTCGCTTCTTCTTGAGGGAATATCATATCTGGGGA
194 AATATCAAATCTTGAAAGAGAGAGATTTATTTCGCTTCTTCTGGAGGGAATATCATATCTGGGGA
* ** * * * *
1957372 GGTTGATCCATTCCACTATCACTCAATGAATATTGAATCGAGGTAGACTTATTCCACTTTTACTC
259 GGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCACTC
* *
1957437 AGGGAATATCAAATATTGAAAGAGAGATATATGTTCCGTTTCTTCTAGAGGGAATATCATATCTT
324 AGGGAATATCAAATCTTGAAAGAGAGATATATGTTCTGTTTCTTCTAGAGGGAATATCATATC-T
*
1957502 TGGGA-GTTGATCC
388 GGGGACGTTGATCC
* * * *
1957515 ATTCCACTGTCACTCAGGAAAGATTGAATCGAGCCAGACTTATTCCACTATCACTAAGGGAATAT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
* * * * * *
1957580 CAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTTCTAGAGGGAATATTAGATCTAGGGACGTTG
66 CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGATGTTG
** * *
1957645 ATCCATTCCACTGTCACTCAAGAAAGATTGAATCGAGGCAGACATGTTCCACTGTTACTCAGGGA
131 ATCCATTCCACTGTCACTC-AGGGAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGA
* * * * ** * *
1957710 ATATCAAATCTTGAATGAGAGAGATATGTTCCATTTCTTTTGGAGGGAATATCAGATCTGGGG-G
195 ATATCAAATCTTGAAAGAGAGAGATTTATTTCGCTTCTTCTGGAGGGAATATCATATCTGGGGAG
* * * ** * *
1957774 AGTTGATCCATTCAACTATCACTCAGGGAATATTGAATCGAGATAGACTTGTTCCACTGTCACGC
260 -GTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCACTC
* ** *
1957839 AGAGAATATCAAATCTTGAAAGAGAGGGATTTGTTCTGTTTCTTCT-GAAGGG--------A---
324 AGGGAATATCAAATCTTGAAAGAGAGATATATGTTCTGTTTCTTCTAG-AGGGAATATCATATCT
* *
1957892 GGGGATGTGGATCC
388 GGGGACGTTGATCC
* * * * * *
1957906 ATTCCACTGTCACTCAGGGAATATTGAAT-TAGGGAAGATTTGTTCCACTGTCACTTAGGGAATA
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGA-GGCAGACTTGTTCCACTATCACTCAGGGAATA
* **** * * * *
1957970 TCAAATCTTGAAAGAGATGGATCAACTCCGCTTCTTTTGGAGGGAATATCAGATCTGGGGACGTG
65 TCAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGATGTT
* * * * *
1958035 GATCCATTCCATTATCACTCAGGGAAGATTGAATCGAGGTAGACTTATTCCATTGTCAC-CTAGG
130 GATCCATTCCACTGTCACTCAGGG-AGATTGAATCGAGGCAGACTTGTTCCACTGTCACTC-AGG
* * * * *
1958099 GAATATCAACTCTTGAAAGAGATG-GATCTATTTTGCTTCTTATGGAGGGAATCTCAGATAT-TG
193 GAATATCAAATCTTGAAAGAGA-GAGATTTATTTCGCTTCTTCTGGAGGGAATATC--ATATCTG
*
1958162 GGGA-GTTGATCCATTCCACTGTCACTTAGGGAAGATTGAATCGAGGCAGACTTGTTCCA-TTGT
255 GGGAGGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTT-T
* * * ** * * * * *
1958225 C-TTACAGGGAATATAAAATCTTGAAAAAGAGGGATTTGTTTTGCTTCTTCTGGAGGGAATATAA
319 CACT-CAGGGAATATCAAATCTTGAAAGAGAGATATATGTTCTGTTTCTTCTAGAGGGAATATCA
*
1958289 GATCTGGGGGA-GTTGATCC
383 TATCT-GGGGACGTTGATCC
* * * * *
1958308 ATTCAACTGTCACTTAGGGAAGATTGAATCAAGCCATACTTGTT
1 ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTT
1958352 TCTCTTATCT
Statistics
Matches: 2019, Mismatches: 342, Indels: 158
0.80 0.14 0.06
Matches are distributed among these distances:
390 9 0.00
391 305 0.15
392 7 0.00
393 3 0.00
394 1 0.00
396 3 0.00
397 4 0.00
398 19 0.01
399 211 0.10
400 221 0.11
401 509 0.25
402 697 0.35
403 21 0.01
404 6 0.00
405 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (401 bp):
ATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAGGGAATAT
CAAATCTTGAAAGAGAGGGATTTGTTCCGCTTCTTCTGGAGGGAATATCATATCTGGGGATGTTG
ATCCATTCCACTGTCACTCAGGGAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAA
TATCAAATCTTGAAAGAGAGAGATTTATTTCGCTTCTTCTGGAGGGAATATCATATCTGGGGAGG
TTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTCACTCAG
GGAATATCAAATCTTGAAAGAGAGATATATGTTCTGTTTCTTCTAGAGGGAATATCATATCTGGG
GACGTTGATCC
Found at i:1959408 original size:2 final size:2
Alignment explanation
Indices: 1959401--1959441 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1959391 AGCTTTATTG
*
1959401 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1959442 TGCTTTCGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1964923 original size:28 final size:29
Alignment explanation
Indices: 1964840--1964923 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
1964830 TACAAGGAAT
* *
1964840 AAATAAA-TAAATAAAACATGGAGCTAAATTA
1 AAATAAATTAAA-AAAACAT--AGTTGAATTA
** *
1964871 AAATAAATTAAAATTACATGGTTGAATTA
1 AAATAAATTAAAAAAACATAGTTGAATTA
*
1964900 AAATAAA-TAAAAAAACATATTTGA
1 AAATAAATTAAAAAAACATAGTTGA
1964924 GGTTCAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 13 0.30
29 14 0.33
31 12 0.28
32 4 0.09
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (29 bp):
AAATAAATTAAAAAAACATAGTTGAATTA
Found at i:1966223 original size:3 final size:3
Alignment explanation
Indices: 1966215--1966288 Score: 76
Period size: 3 Copynumber: 23.3 Consensus size: 3
1966205 TGGATCTGTA
* **
1966215 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAGT ATT TTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT
*
1966262 AAAT AAT AAT AAT AAT ATCT AAT AAT A
1 -AAT AAT AAT AAT AAT A-AT AAT AAT A
1966289 TTTAAACTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
3 53 0.87
4 8 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1966293 original size:30 final size:30
Alignment explanation
Indices: 1966233--1966294 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1966223 TAATAATAAT
*
1966233 AATAATAATAATAATATATAAGTATTTTTA
1 AATAATAATAATAATATATAAGTATATTTA
*
1966263 AATAATAATAATAATATCTAA-TAATATTTA
1 AATAATAATAATAATATATAAGT-ATATTTA
1966293 AA
1 AA
1966295 CTTTGGGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
AATAATAATAATAATATATAAGTATATTTA
Found at i:1968337 original size:23 final size:23
Alignment explanation
Indices: 1968302--1968353 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
1968292 ATCAAGTACA
*
1968302 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
1968325 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
1968348 ATAATA
1 ATAATA
1968354 AATTAGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1968360 original size:23 final size:23
Alignment explanation
Indices: 1968302--1968360 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1968292 ATCAAGTACA
*
1968302 ATAATATATTAGGTAGCGCTTAT
1 ATAATAAATTAGGTAGCGCTTAT
*
1968325 ATAATGTAA-TAGGTAGCGCTTAT
1 ATAAT-AAATTAGGTAGCGCTTAT
1968348 ATAATAAATTAGG
1 ATAATAAATTAGG
1968361 CATTTAACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.06
23 28 0.90
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (23 bp):
ATAATAAATTAGGTAGCGCTTAT
Found at i:1968420 original size:87 final size:87
Alignment explanation
Indices: 1968274--1968436 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
1968264 AATGTTATAT
* *
1968274 CATTTAACCGGAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAAAAGGT
1968339 AGCGCTTATATAATAAATTAGG
66 AGCGCTTATATAATAAATTAGG
*
1968361 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAAAAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAAAAGGT
1968426 AGCGCTTATAT
66 AGCGCTTATAT
1968437 TGACATATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAAAAGGT
AGCGCTTATATAATAAATTAGG
Found at i:1968760 original size:21 final size:21
Alignment explanation
Indices: 1968734--1968786 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1968724 TGTTTTCGGG
1968734 ATCGATACTTTTTATAAATGT
1 ATCGATACTTTTTATAAATGT
1968755 ATCGATACTTTTTATAAATGT
1 ATCGATACTTTTTATAAATGT
*
1968776 ATCGACACTTT
1 ATCGATACTTT
1968787 ATGGTTGCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.45
Consensus pattern (21 bp):
ATCGATACTTTTTATAAATGT
Found at i:1969108 original size:199 final size:198
Alignment explanation
Indices: 1968755--1969180 Score: 542
Period size: 200 Copynumber: 2.1 Consensus size: 198
1968745 TTATAAATGT
* *
1968755 ATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGAC
1 ATCGATAC-TTTTATAAATGTATCG--ACTTTATGGTTGCACCCTTTGTGGCATTCATCCTGGAC
* * * *
1968820 TAAAAGTATCGACATAAATTTAGCAAGTGTCGATACTTTATGCTGACCTATTTTATCATAAAACC
63 TAAAAGTATCGACACAAATTCAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAAACC
*
1968885 GGTATATTTATATCGGTTACATTGTAAATGTACCTAATACATTTATAATTATTGGTTTCGATG-T
128 GGTATATTTATACCGGTTACATTGTAAATGTACCTAATACA-TTATAATTATTGGTTTCGATGTT
1968949 TTTTGGG
192 TTTTGGG
*
1968956 ATCGATACTTTTAATAAATGTATCGACTTTATGCG-TGCACATCGTTTGT-GCATTCATCCTGGA
1 ATCGATACTTTT-ATAAATGTATCGACTTTATG-GTTGCAC--CCTTTGTGGCATTCATCCTGGA
* * * *
1969019 C-AATAAGTATCGACACAAATTCCA-CAAGTGTCGATACATTATGTTGACCTGTTTTCTAAT-TA
62 CTAA-AAGTATCGACACAAATT-CAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAA
* * * * *
1969081 ACTGGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATG
125 ACCGGTATATTTATACCGGTTACATTGTAAATGTACCTAATACATTATAATTATTGGTTTCGATG
1969146 TTTTTTGGG
190 TTTTTTGGG
*
1969155 -TCGATACTTGTATAAAATGTATCGAC
1 ATCGATACTTTTAT-AAATGTATCGAC
1969181 ACATATTTAG
Statistics
Matches: 199, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
197 2 0.01
198 42 0.21
199 63 0.32
200 66 0.33
201 26 0.13
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (198 bp):
ATCGATACTTTTATAAATGTATCGACTTTATGGTTGCACCCTTTGTGGCATTCATCCTGGACTAA
AAGTATCGACACAAATTCAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATGTACCTAATACATTATAATTATTGGTTTCGATGTTTTTT
GGG
Found at i:1969175 original size:198 final size:199
Alignment explanation
Indices: 1968755--1969180 Score: 535
Period size: 199 Copynumber: 2.1 Consensus size: 199
1968745 TTATAAATGT
* * * * *
1968755 ATCGATACTTTTTATAAATGTATCGACACTTTATG-GTTGCAC-CCTTTTTGGCATTCATTCTGG
1 ATCGATACTTGTAATAAATGTATCG--ACTTTATGCG-TGCACATC-GTTTGGCATTCATCCTGG
* * * *
1968818 ACTAAAAGTATCGACATAAATTTAGCAAGTGTCGATACTTTATGCTGACCTATTTTATCATAAAA
62 ACTAAAAGTATCGACACAAATTCAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAAA
*
1968883 CCGGTATATTTATATCGGTTACATTGTAAATGTACCTAATACATTTATAATTATTGGTTTCGATG
127 CCGGTATATTTATACCGGTTACATTGTAAATGTACCTAATACATTTATAATTATTGGTTTCGATG
1968948 TTTTTGGG
192 TTTTTGGG
*
1968956 ATCGATACTTTTAATAAATGTATCGACTTTATGCGTGCACATCGTTTGTGCATTCATCCTGGAC-
1 ATCGATACTTGTAATAAATGTATCGACTTTATGCGTGCACATCGTTTG-GCATTCATCCTGGACT
* * * *
1969020 AATAAGTATCGACACAAATTCCA-CAAGTGTCGATACATTATGTTGACCTGTTTTCTAAT-TAAC
65 AA-AAGTATCGACACAAATT-CAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAAAC
* * * * *
1969083 TGGTATATTTATACCGGTTACATTGTTAATTTACCTATTACA-TTATAATTATTGGTTTTGATGT
128 CGGTATATTTATACCGGTTACATTGTAAATGTACCTAATACATTTATAATTATTGGTTTCGATG-
1969147 TTTTTGGG
192 TTTTTGGG
1969155 -TCGATACTTGT-ATAAAATGTATCGAC
1 ATCGATACTTGTAAT-AAATGTATCGAC
1969181 ACATATTTAG
Statistics
Matches: 199, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
197 2 0.01
198 42 0.21
199 67 0.34
200 63 0.32
201 25 0.13
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (199 bp):
ATCGATACTTGTAATAAATGTATCGACTTTATGCGTGCACATCGTTTGGCATTCATCCTGGACTA
AAAGTATCGACACAAATTCAGCAAGTGTCGATACATTATGCTGACCTATTTTATAATAAAACCGG
TATATTTATACCGGTTACATTGTAAATGTACCTAATACATTTATAATTATTGGTTTCGATGTTTT
TGGG
Found at i:1971839 original size:200 final size:198
Alignment explanation
Indices: 1971488--1971956 Score: 654
Period size: 200 Copynumber: 2.3 Consensus size: 198
1971478 CATATATCGT
* * * *
1971488 AAGTATCGA-ATCAAAATAAAAAAGTGTCGCTACATATTGTAGACCTATTCTCTTATAAAA-CGG
1 AAGTATCGACA-CAAAAT-AAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGG
* *
1971551 TATATTTATACCGGTTATATTAAAAAATTACCTATTACGTTATAATTATGGGTTTCAATGTTTTT
64 TATATTTATACCAGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTT
* ** * *
1971616 GGGATCGAAACTTTTTCAAAATGTATTGACACTTTGTGCATTCACCCTTTTTGGCATTCATTCTG
129 GGGATCGAAACTCTTTCAAAATGTATCAAAACTTTGTGCATTCACCCTTTTTGGCATCCATTCTG
1971681 GACATA
194 GACA-A
*
1971687 AAGTATCGACACAATAATAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGAT
1 AAGTATCGACACAA-AATAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
1971752 ATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
65 ATATTTATACCAGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTG
* * * *
1971817 GGATCGACACTCTTTGAAAATGTATCAAAACTTTGTGCGTTCATCCTTTTTGGCATCCATTCTGG
130 GGATCGAAACTCTTTCAAAATGTATCAAAACTTTGTGCATTCACCCTTTTTGGCATCCATTCTGG
1971882 ACAA
195 ACAA
* * * * * *
1971886 AATGTATCGACACAAATTTATATAGTGTTGATACATGTTATAGACCCATTCTCTCATAAAACTGG
1 AA-GTATCGACACAAA-ATAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGG
1971951 TATATT
64 TATATT
1971957 ACCTATTACA
Statistics
Matches: 240, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
199 54 0.22
200 186 0.77
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (198 bp):
AAGTATCGACACAAAATAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
TATTTATACCAGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGG
GATCGAAACTCTTTCAAAATGTATCAAAACTTTGTGCATTCACCCTTTTTGGCATCCATTCTGGA
CAA
Found at i:1972073 original size:177 final size:176
Alignment explanation
Indices: 1971777--1972131 Score: 518
Period size: 177 Copynumber: 2.0 Consensus size: 176
1971767 ATATTACAAA
* **
1971777 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTCTTTGAAAATGTAT
1 ATTACCTATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACTCTTTGAAAATGTAT
* * * * *
1971842 CAAAACTTTGTGCGTTCATCCTTTTTGGCATCCATTCTGGACAAAATGTATCGACACAA-ATTTA
66 CAAAACTTTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAATGTATCGACACAATA-TTA
* * *
1971906 TATAGTGTTGATACATGTTATAGACCCATTCTCTCATAAAACTGGTAT
130 -AAAGTGTCGATACATGTTATAGACCCATTCTCTCATAAAACCGGTAT
1971954 ATTACCTATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACAC-CTTTTGAAAATGTA
1 ATTACCTATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACTC-TTTGAAAATGTA
* *
1972018 TCGATACTTTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAAAT-TATCGACACAATATT
65 TCAAAACTTTATGCGTTCACCCATTTTGGCATCCATTATGG-AAAAAATGTATCGACACAATATT
**
1972082 AAAAGTGTCGATACATGTTATAGACTTATTCTCTCATAAAACCGGTAT
129 AAAAGTGTCGATACATGTTATAGACCCATTCTCTCATAAAACCGGTAT
1972130 AT
1 AT
1972132 ATATACCGGT
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
176 45 0.28
177 108 0.68
178 7 0.04
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (176 bp):
ATTACCTATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACTCTTTGAAAATGTAT
CAAAACTTTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAATGTATCGACACAATATTAA
AAGTGTCGATACATGTTATAGACCCATTCTCTCATAAAACCGGTAT
Found at i:1972294 original size:80 final size:81
Alignment explanation
Indices: 1972160--1972310 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 81
1972150 AAAATTACCT
* *
1972160 ATTACATTATAATTATGGGGTTTCGATATTTTTGGGATCAACACTTTTAATAAATGTATCGAAAC
1 ATTACATTATAATTATGGGGTTTCGATATTTCTGGGATCAACACTTTTAATAAATGGATCGAAAC
1972225 TTTATGCGTGCAACCA
66 TTTATGCGTGCAACCA
* * * * * * *
1972241 ATTACATTATACTTAT-GGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACAC
1 ATTACATTATAATTATGGGGTTTCGATATTTCTGGGATCAACACTTTTAATAAATGGATCGAAAC
1972305 TTTATG
66 TTTATG
1972311 GTTGCACCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 46 0.75
81 15 0.25
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (81 bp):
ATTACATTATAATTATGGGGTTTCGATATTTCTGGGATCAACACTTTTAATAAATGGATCGAAAC
TTTATGCGTGCAACCA
Found at i:1972495 original size:280 final size:280
Alignment explanation
Indices: 1971961--1972510 Score: 743
Period size: 280 Copynumber: 2.0 Consensus size: 280
1971951 TATATTACCT
* *
1971961 ATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACCTTTTGAAAATGTATCGATACT
1 ATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACCTTTTGAAAATGGATCGACACT
* *
1972026 TTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAAATTATCGACACAATATTAAAAGTGTC
66 TTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAAAGTATCGACACAAAATTAAAAGTGTC
* * *
1972091 GATACATGTTATAGACTTATTCTCTCATAAAACCGGTATATATATACCGGTTATATTACAAAATT
131 GATACATGTTATAGACCTATTCTCTCATAAAACCGGTAAATATATACCGGTTACATTACAAAATT
* *
1972156 ACCTATTACATTATAATTATGGGGTTTCGATATTTTTGGGATCAACACTTTTAATAAATGTATCG
196 ACCTATTACATTATAATTATGGGGTTTCGATATTTATGGGATCAACACTTTTAATAAATGGATCG
1972221 AAACTTTATGCGTGCAACCA
261 AAACTTTATGCGTGCAACCA
* ** * * *
1972241 ATTACATTATACTTATGGGTTTTGATG-TTTCTGGGATCGATA-CTTTTTATAAATGGATCGACA
1 ATTACATTATAATTATGGGTTTCAATGTTTTC-AGGATCGACACCTTTTGA-AAATGGATCGACA
* * ** *
1972304 CTTTATG-GTTGCA-CCATTTTTGGCATTCATTCTGGATCAAAAGTATCGACATAAAATTAAAAA
64 CTTTATGCGTT-CACCCA-TTTTGGCATCCATTATGGAAAAAAAGTATCGACACAAAATT-AAAA
* * *
1972367 GTTTCGATACATGTTATAGACCTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGA-
126 GTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTAAATATATACCGGTTACATT-AC
* * * * *
1972431 AAAATTACCTATTACATTATACTTAT-GGGTTTCGATGTTTATGGGATTAATACTTTTTATAAAT
190 AAAATTACCTATTACATTATAATTATGGGGTTTCGATATTTATGGGATCAACACTTTTAATAAAT
*
1972495 GGATCGACACTTTATG
255 GGATCGAAACTTTATG
1972511 ATTGCACCCT
Statistics
Matches: 235, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
279 16 0.07
280 133 0.57
281 85 0.36
282 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (280 bp):
ATTACATTATAATTATGGGTTTCAATGTTTTCAGGATCGACACCTTTTGAAAATGGATCGACACT
TTATGCGTTCACCCATTTTGGCATCCATTATGGAAAAAAAGTATCGACACAAAATTAAAAGTGTC
GATACATGTTATAGACCTATTCTCTCATAAAACCGGTAAATATATACCGGTTACATTACAAAATT
ACCTATTACATTATAATTATGGGGTTTCGATATTTATGGGATCAACACTTTTAATAAATGGATCG
AAACTTTATGCGTGCAACCA
Found at i:1973065 original size:200 final size:200
Alignment explanation
Indices: 1972241--1976299 Score: 6429
Period size: 200 Copynumber: 20.3 Consensus size: 200
1972231 CGTGCAACCA
*
1972241 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* * * *
1972306 TTATGGTTGCACCATTTTTGGCATTCATTCTGGATCAAAAGTATCGACATAAAATTAAAAAGTTT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1972371 CGATACATGTTATAGACCTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1972436 TACCT
196 TACCT
* **
1972441 ATTACATTATACTTATGGGTTTCGATGTTTATGGGATTAATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* * * * *
1972506 TTATGATTGCACCCTTTTTGGGATTCATTCTAGACCAAAAAGTGTCGAGACAAAATTAAAAAGTG
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACC-AAAAGTATCGACACAAAATTAAAAAGTG
* * * * *
1972571 TCGATACATGTTGTAAACCTATTATCTCATAAAATCGATATATTTATACCGGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1972636 TTACCT
195 TTACCT
* *
1972642 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAACGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* *
1972707 TTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * * *
1972771 CGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACAGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1972836 TACCT
196 TACCT
* * *
1972841 ATTACATTATACTTATGGGTTTCGATGTTTCTAGAATCGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* * * **
1972906 TTATGGTTTCACCCTTTTTTGG-ATTCATTCTAGACCAAAAGTATCGAGACTGAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * *
1972970 TTGATACATGTTGTAGACCTATTATCTCGTAAAACCGTTATATTTATACCGGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1973035 TTACCT
195 TTACCT
* *
1973041 ATTACATTATACTTATGAGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
*
1973106 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAATTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * *
1973171 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTAAATTTATACTGGTTGCATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1973236 TACCT
196 TACCT
* **
1973241 ATTACATTATACTTATGGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
** *
1973306 TTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAGAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * * *
1973371 CGATACATGTTGTAAACCTATTATCTCGTAAAACCGATATATTTATACCAGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1973436 TACCT
196 TACCT
*
1973441 ATTACATTAAACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* *
1973506 TTATGGTTGCACCCGTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1973570 CGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
*
1973635 TTCCT
196 TACCT
* * *
1973640 ATTACATTATACTTATGGGTTTCGATGTTTATGGGATTGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
** * *
1973705 TTATGGTTTTACCCTTTTTTGG-ATTTATTCTGGACCAAAAGTATCGAGACAAAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * **
1973769 TCGATACATGTTGTAGACCTATTATCTCGTATAACATGTATATTTATA-CGGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
*
1973833 TTATCT
195 TTACCT
* * *
1973839 ATTACATTATACTTATAGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATTTG-CAC
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGA-TCGACAC
*
1973903 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAAATTAAAAAGTG
65 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * *
1973968 TCGATACATGTTGTAGACCTATTCTCTCGTAAAGCCAGTATATTTATACCGGTTAAATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1974033 TTACCT
195 TTACCT
* **
1974039 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
**
1974104 TTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAAAG-GT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG-
* * * * * *
1974168 TTGATACATGTTGTAGACCAATTCTCTCGTAAAACCAGTATATTTATACTGGTTACTTTGAAAAT
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1974233 TTACCT
195 TTACCT
* *
1974239 ATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* *
1974304 TTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * * *
1974368 CGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTATATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1974433 TACCT
196 TACCT
*
1974438 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* * * *
1974503 TTATGGTTTCACCCTTTTTTGG-ATTCATTATGGACCAAAAGTATCGAGACAGAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * * *
1974567 TTGATACATGTTGTAGACCTATTATCTTGTAAAACCGGTATATTTATACTGGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1974632 TTACCT
195 TTACCT
*
1974638 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1974703 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1974768 CGATACATGTTGTAGACCAATTCTCTCGTAAAGCCGGTATATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1974833 TACCT
196 TACCT
* **
1974838 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* ** *
1974903 TTATGGTTGCACCCTTTTTAGCATTCATTCTGTTCCAAAAGTATCGACACAAAACTAAAAAG-GT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG-
* ** *
1974967 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAATATATTTATACCGGTTACATTGAAAAT
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1975032 TTACCT
195 TTACCT
* *
1975038 ATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* **
1975103 TTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GGGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * * *
1975167 CGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTACATTGAAAAAA
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1975232 TACCT
196 TACCT
** *
1975237 ATTACATTCGACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* * * *
1975302 TTATGGTTTCACCCTTTTTTTG-ATTCATTCTGGACCAAAAGTATCGAGACAGAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* *
1975366 TTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1975431 TTACCT
195 TTACCT
*
1975437 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1975502 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
*
1975567 CGATACATGTTGTAGACCAATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1975632 TACCT
196 TACCT
*
1975637 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
* *
1975702 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAAATTAAAAAGTAT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1975767 CGATAAATGTTGTAGACCTATTCTCTCGTAAAACTGGTATATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
1975832 TACCT
196 TACCT
* **
1975837 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
**
1975902 TTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAAAG-GT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG-
* * *
1975966 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAGTATATTTATACCGGTTACATTGAAAAT
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1976031 TTACCT
195 TTACCT
* *
1976037 ATTACATTATACTTATGGGTTTCGATGTTTATGGGAT-GTATACTTTTTATAAATAGATCGACAC
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCG-ATACTTTTTATAAATGGATCGACAC
*
1976101 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAATG
65 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * * **
1976166 TCGATACATGTTGTAGACCTA-TCTCTCCTAAAACCGATAAATTTATACTAGTTACATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
1976230 TTACCT
195 TTACCT
* * *
1976236 ATTACATTATACTTATGGGTTTCGATGTTTCTAGGATCGATACCTTTTATATATGGATCGACAC
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACAC
1976300 ATATGCTTAC
Statistics
Matches: 3530, Mismatches: 305, Indels: 49
0.91 0.08 0.01
Matches are distributed among these distances:
198 7 0.00
199 987 0.28
200 2355 0.67
201 181 0.05
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (200 bp):
ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
TACCT
Found at i:1973664 original size:599 final size:600
Alignment explanation
Indices: 1972241--1976299 Score: 6422
Period size: 599 Copynumber: 6.8 Consensus size: 600
1972231 CGTGCAACCA
* *
1972241 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
* * *
1972306 TTATGGTTGCACCATTTTTGGCATTCATTCTGGATCAAAAGTATCGACATAAAATTAAAAAGT-T
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1972370 TCGATACATGTTATAGACCTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGAAAAA
131 T-GATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
* **
1972435 TTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATTAATACTTTTTATAAATGGATC
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATC
* * * * *
1972500 GACACTTTATGATTGCACCCTTTTTGGGATTCATTCTAGACCAAAAAGTGTCGAGACAAAATTAA
260 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACC-AAAAGTATCGACACAAAATTAA
* * * * *
1972565 AAAGTGTCGATACATGTTGTAAACCTATTATCTCATAAAATCGATATATTTATACCGGTTACATT
324 AAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATT
*
1972630 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAA
389 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAA
** * *
1972695 CGGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAA
454 TAGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAA
* * * *
1972759 ATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACAGTT
519 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTT
1972824 ACATTGAAAAATTACCT
584 ACATTGAAAAATTACCT
* *
1972841 ATTACATTATACTTATGGGTTTCGATGTTTCTAGAATCGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
* * * **
1972906 TTATGGTTTCACCCTTTTTTGG-ATTCATTCTAGACCAAAAGTATCGAGACTGAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* *
1972970 TTGATACATGTTGTAGACCTATTATCTCGTAAAACCGTTATATTTATACCGGTTACATTGAAAAA
130 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
* *
1973035 TTACCTATTACATTATACTTATGAGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATC
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATC
1973100 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
260 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
* * * *
1973165 AATTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTAAATTTATACTGGTTGCATTG
325 AAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
*
1973230 AAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGATCGATACTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* **
1973295 ATATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAA
455 AGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAA
* * * * *
1973360 TTAAAGAGTGTCGATACATGTTGTAAACCTATTATCTCGTAAAACCGATATATTTATACCAGTTA
520 TTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTA
1973425 CATTGAAAAATTACCT
585 CATTGAAAAATTACCT
* *
1973441 ATTACATTAAACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
* *
1973506 TTATGGTTGCACCCGTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * *
1973570 CGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGAAAAAT
131 TGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
* * * *
1973635 TTCCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATTGATACTTTTTATAAATAGATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCG
** * *
1973700 ACACTTTATGGTTTTACCCTTTTTTGG-ATTTATTCTGGACCAAAAGTATCGAGACAAAATTAAA
261 ACACTTTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
* * **
1973764 AAGTGTCGATACATGTTGTAGACCTATTATCTCGTATAACATGTATATTTATA-CGGTTACATTG
325 AAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
* * *
1973828 AAAAATTATCTATTACATTATACTTATAGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* * *
1973893 GGATTTG-CACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAA
455 AGA-TCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAA
* *
1973957 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAGCCAGTATATTTATACCGGTT
519 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTT
*
1974022 AAATTGAAAAATTACCT
584 ACATTGAAAAATTACCT
* *
1974039 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
**
1974104 TTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAAAG-GT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG-
* * * * *
1974168 TTGATACATGTTGTAGACCAATTCTCTCGTAAAACCAGTATATTTATACTGGTTACTTTGAAAAT
130 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
* *
1974233 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAAATGGATC
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATC
* *
1974298 GACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAATTAAA
260 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
* * * *
1974362 AAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTATATTG
325 AAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
1974427 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* * * *
1974492 AGATCGACACTTTATGGTTTCACCCTTTTTTGG-ATTCATTATGGACCAAAAGTATCGAGACAGA
455 AGATCGACACTTTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAA
* * * *
1974556 ATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTTGTAAAACCGGTATATTTATACTGGTT
519 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTT
1974621 ACATTGAAAAATTACCT
584 ACATTGAAAAATTACCT
* *
1974638 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
1974703 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * *
1974768 CGATACATGTTGTAGACCAATTCTCTCGTAAAGCCGGTATATTTATACCGGTTACATTGAAAAAT
131 TGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
* **
1974833 TACCTATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCG
* ** *
1974898 ACACTTTATGGTTGCACCCTTTTTAGCATTCATTCTGTTCCAAAAGTATCGACACAAAACTAAAA
261 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAA
* **
1974963 AG-GTTTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAATATATTTATACCGGTTACATTG
326 AGTG-TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
* * *
1975027 AAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* * **
1975092 GGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GGGACACAAAA
455 AGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAA
* * *
1975156 TTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTA
520 TTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTA
*
1975221 CATTGAAAAAATACCT
585 CATTGAAAAATTACCT
**
1975237 ATTACATTCGACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
* * * *
1975302 TTATGGTTTCACCCTTTTTTTG-ATTCATTCTGGACCAAAAGTATCGAGACAGAATTAAAAAGTG
66 TTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
*
1975366 TTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
130 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
*
1975431 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATC
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATC
1975496 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
260 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAA
*
1975561 AAGTGTCGATACATGTTGTAGACCAATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
325 AAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTG
*
1975626 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* *
1975691 GGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAAA
455 AGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAA
* * *
1975756 TTAAAAAGTATCGATAAATGTTGTAGACCTATTCTCTCGTAAAACTGGTATATTTATACCGGTTA
520 TTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTA
1975821 CATTGAAAAATTACCT
585 CATTGAAAAATTACCT
* *
1975837 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
**
1975902 TTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAAAG-GT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG-
* *
1975966 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAGTATATTTATACCGGTTACATTGAAAAT
130 TTGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
* *
1976031 TTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGAT-GTATACTTTTTATAAATAGAT
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCG-ATACTTTTTATAAATGGAT
1976095 CGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAA
259 CGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAA
* * * * **
1976160 AAAATGTCGATACATGTTGTAGACCTA-TCTCTCCTAAAACCGATAAATTTATACTAGTTACATT
324 AAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATT
* * *
1976224 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTAGGATCGATACCTTTTATATA
389 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAA
*
1976289 TGGATCGACAC
454 TAGATCGACAC
1976300 ATATGCTTAC
Statistics
Matches: 3169, Mismatches: 268, Indels: 45
0.91 0.08 0.01
Matches are distributed among these distances:
598 370 0.12
599 1747 0.55
600 1043 0.33
601 9 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (600 bp):
ATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATAGATCGACACT
TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
TGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCG
ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAA
AGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATA
GATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAAT
TAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTAC
ATTGAAAAATTACCT
Found at i:1973779 original size:799 final size:799
Alignment explanation
Indices: 1972241--1976299 Score: 6817
Period size: 799 Copynumber: 5.1 Consensus size: 799
1972231 CGTGCAACCA
* *
1972241 ATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
* * * *
1972306 TTATGGTTGCACCATTTTTGGCATTCATTCTGGATCAAAAGTATCGACATAAAATTAAAAAGTTT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1972371 CGATACATGTTATAGACCTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
* ** **
1972436 TACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATTAATACTTTTTATAAATGGATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
* * * * *
1972501 ACACTTTATGATTGCACCCTTTTTGGGATTCATTCTAG-ACCAAAAAGTGTCGAGACAAAATTAA
261 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCT-GTTCC-AAAAGTATCGACACAAAATTAA
* * * *
1972565 AAAGTGTCGATACATGTTGTAAACCTATTATCTCATAAAATCGATATATTTATACCGGTTACATT
324 AAAGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGATATATTTATACCGGTTACATT
1972630 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAA
389 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAA
*
1972695 CGGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAA
454 TGGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAA
*
1972760 TTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACAGTTA
519 TTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTA
* *
1972825 CATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTAGAATCGATACTTTTTA
584 CATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTA
*
1972890 TAAATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTAGACCAAAAGTATCGAGA
649 TAAATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTGGACCAAAAGTATCGAGA
* *
1972955 CTGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGTTATATTTATACC
714 CAGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACC
1973020 GGTTACATTGAAAAATTACCT
779 GGTTACATTGAAAAATTACCT
*
1973041 ATTACATTATACTTATGAGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
*
1973106 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAATTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* * *
1973171 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTAAATTTATACTGGTTGCATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
*
1973236 TACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATATATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
*
1973301 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAG
261 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAA
* * *
1973366 AGTGTCGATACATGTTGTAAACCTATTATCTCGTAAAACCGATATATTTATACCAGTTACATTGA
326 AGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGATATATTTATACCGGTTACATTGA
* *
1973431 AAAATTACCTATTACATTAAACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATG
391 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAATG
* *
1973496 GATCGACACTTTATGGTTGCACCCGTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAATT
456 GATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAATT
*
1973561 AAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATACCGGTTACA
521 AAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTACA
* * *
1973626 TTGAAAAATTTCCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATTGATACTTTTTATA
586 TTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATA
* *
1973691 AATAGATCGACACTTTATGGTTTTACCCTTTTTTGGATTTATTCTGGACCAAAAGTATCGAGACA
651 AATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTGGACCAAAAGTATCGAGACA
* * * **
1973756 AAATTAAAAAGTGTCGATACATGTTGTAGACCTATTATCTCGTATAACATGTATATTTATA-CGG
716 GAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCGG
*
1973820 TTACATTGAAAAATTATCT
781 TTACATTGAAAAATTACCT
* *
1973839 ATTACATTATACTTATAGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATTTG-CAC
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGA-TCGACAC
*
1973903 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAAATTAAAAAGTG
65 TTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTG
* * *
1973968 TCGATACATGTTGTAGACCTATTCTCTCGTAAAGCCAGTATATTTATACCGGTTAAATTGAAAAA
130 TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAA
*
1974033 TTACCTATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATC
195 TTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATC
1974098 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAA
260 GACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAA
* * * *
1974163 AAG-GTTTGATACATGTTGTAGACCAATTCTCTCGTAAAACC-AGTATATTTATACTGGTTACTT
325 AAGTG-TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGA-TATATTTATACCGGTTACAT
* *
1974226 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAA
388 TGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAA
1974291 ATGGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAA
453 ATGGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAA
1974356 ATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTT
518 ATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTT
*
1974421 ATATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTT
583 ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTT
*
1974486 ATAAATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTATGGACCAAAAGTATCGAG
648 ATAAATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTGGACCAAAAGTATCGAG
*
1974551 ACAGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTTGTAAAACCGGTATATTTATAC
713 ACAGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATAC
*
1974616 TGGTTACATTGAAAAATTACCT
778 CGGTTACATTGAAAAATTACCT
1974638 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1974703 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
* *
1974768 CGATACATGTTGTAGACCAATTCTCTCGTAAAGCCGGTATATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
*
1974833 TACCTATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
* *
1974898 ACACTTTATGGTTGCACCCTTTTTAGCATTCATTCTGTTCCAAAAGTATCGACACAAAACTAAAA
261 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAA
* *
1974963 AG-GTTTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAATATATTTATACCGGTTACATTG
326 AGTG-TCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGATATATTTATACCGGTTACATTG
* *
1975027 AAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTCGGATCGATATTTTTTATAAAT
390 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAAT
*
1975092 GGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGGGACACAAAAT
455 GGATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAAT
1975157 TAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTAC
520 TAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTAC
* **
1975222 ATTGAAAAAATACCTATTACATTCGACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTAT
585 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTAT
*
1975287 AAATAGATCGACACTTTATGGTTTCACCCTTTTTTTGATTCATTCTGGACCAAAAGTATCGAGAC
650 AAATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTGGACCAAAAGTATCGAGAC
1975352 AGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCG
715 AGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCG
1975417 GTTACATTGAAAAATTACCT
780 GTTACATTGAAAAATTACCT
1975437 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1 ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
1975502 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
66 TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
*
1975567 CGATACATGTTGTAGACCAATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
131 CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
* **
1975632 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCG
196 TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
** *
1975697 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAACGTATCGACACAAAATTAAAA
261 ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAA
* * * *
1975762 AGTATCGATAAATGTTGTAGACCTATTCTCTCGTAAAACTGGTATATTTATACCGGTTACATTGA
326 AGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGATATATTTATACCGGTTACATTGA
* * *
1975827 AAAATTACCTATTACATTATACTTATGGGTTTTGATGTTTCTGGGATCGATACTTTTTATAAATA
391 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAATG
* * ** *
1975892 TATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAAT
456 GATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGT-GCGACACAAAAT
* * * * *
1975957 TAAAAAG-GTTTGATACATGTTGTAGACCTATTCTCTCGTAAAACCAGTATATTTATACCGGTTA
520 TAAAAAGTG-TCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTA
* *
1976021 CATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGAT-GTATACTTTTT
584 CATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCG-ATACTTTTT
*
1976085 ATAAATAGATCGACACTTTATGGTTGCACCC-TTTTTGGCATTCATTCTGGACCAAAAGTATCGA
648 ATAAATAGATCGACACTTTATGGTTTCACCCTTTTTTGG-ATTCATTCTGGACCAAAAGTATCGA
* * * * * * * *
1976149 CACAAAATTAAAAAATGTCGATACATGTTGTAGACCTA-TCTCTCCTAAAACCGATAAATTTATA
712 GACAGAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATA
**
1976213 CTAGTTACATTGAAAAATTACCT
777 CCGGTTACATTGAAAAATTACCT
* *
1976236 ATTACATTATACTTATGGGTTTCGATGTTTCTAG-GATCGATACCTTTTATATATGGATCGACAC
1 ATTACATTATACTTATGGGTTTCGATGTTTCT-GTGATCGATACTTTTTATAAATGGATCGACAC
1976300 ATATGCTTAC
Statistics
Matches: 3083, Mismatches: 163, Indels: 27
0.94 0.05 0.01
Matches are distributed among these distances:
797 2 0.00
798 751 0.24
799 1836 0.60
800 494 0.16
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (799 bp):
ATTACATTATACTTATGGGTTTCGATGTTTCTGTGATCGATACTTTTTATAAATGGATCGACACT
TTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAGTGT
CGATACATGTTGTAGACCTATTCTCTCGTAAAACCGGTATATTTATACCGGTTACATTGAAAAAT
TACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATATATCG
ACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGTTCCAAAAGTATCGACACAAAATTAAAA
AGTGTCGATACATGTTGTAGACCTATTCTCTCGTAAAACCGATATATTTATACCGGTTACATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAATG
GATCGACACTTTATGGTTACACCCTTTTTGGCATTCATTCTGGACCAAAAGTGCGACACAAAATT
AAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCGTAAAACCGGTAAATTTATAACGGTTACA
TTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATA
AATAGATCGACACTTTATGGTTTCACCCTTTTTTGGATTCATTCTGGACCAAAAGTATCGAGACA
GAATTAAAAAGTGTTGATACATGTTGTAGACCTATTATCTCGTAAAACCGGTATATTTATACCGG
TTACATTGAAAAATTACCT
Found at i:1976565 original size:19 final size:19
Alignment explanation
Indices: 1976541--1976589 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1976531 TTACATTCAC
1976541 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1976560 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
1976579 ATACAACATTA
1 ATACAAAATTA
1976590 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1976921 original size:19 final size:19
Alignment explanation
Indices: 1976897--1976940 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1976887 TTACATCCAC
1976897 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1976916 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1976935 ATACAA
1 ATACAA
1976941 CAATAACCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1977095 original size:356 final size:356
Alignment explanation
Indices: 1976442--1977156 Score: 1340
Period size: 356 Copynumber: 2.0 Consensus size: 356
1976432 ACAACAATCT
*
1976442 CCATATATCGTACGTATCAACATGACTCTTAATGTGTATAAGAAACATGTACAACAATCTACTGC
1 CCATATATCGTACGTATCAACATGACTCTTAATGTGTATAAGAAACATGTACAACAACCTACTGC
* *
1976507 TAACTTTTCTCATCTCATACGTAATTACATTCACATACAAAATTATAAATCGTATACAAAATTAT
66 TAACTTTTCTCATCTCATACATAATTACATCCACATACAAAATTATAAATCGTATACAAAATTAT
*
1976572 AAATCTTATACAACATTAACCCTACATTTACATCATTGCATCCTTTTATTATTCTTGTGTATCAT
131 AAATCTTATACAACAATAACCCTACATTTACATCATTGCATCCTTTTATTATTCTTGTGTATCAT
*
1976637 GGCAGCTTTTGTTATCTCCTGTCTTCGTTGATTTTGATTGTGGCTTACGAGATCGTTTAATATTG
196 GGCAGCTTTTGTTATCTCATGTCTTCGTTGATTTTGATTGTGGCTTACGAGATCGTTTAATATTG
*
1976702 GTGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCAGAACATTAAGTATTGTAAACCAC
261 GCGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCAGAACATTAAGTATTGTAAACCAC
1976767 AACATTCAATCTACGACTTTTAACAATTTTA
326 AACATTCAATCTACGACTTTTAACAATTTTA
*
1976798 CCATATATCGTACGTATCAACATGACTCTTATTGTGTATAAGAAACATGTACAACAACCTACTGC
1 CCATATATCGTACGTATCAACATGACTCTTAATGTGTATAAGAAACATGTACAACAACCTACTGC
1976863 TAACTTTTCTCATCTCATACATAATTACATCCACATACAAAATTATAAATCGTATACAAAATTAT
66 TAACTTTTCTCATCTCATACATAATTACATCCACATACAAAATTATAAATCGTATACAAAATTAT
*
1976928 AAATCTTATACAACAATAACCCTACATTTACATCATTGCATCCTTTTGTTATTCTTGTGTATCAT
131 AAATCTTATACAACAATAACCCTACATTTACATCATTGCATCCTTTTATTATTCTTGTGTATCAT
*
1976993 GGCAGCTTTTGTTATCTCATGTCTTCGTTGATTTTGATTGTGGCTTACTAGATCGTTTAATATTG
196 GGCAGCTTTTGTTATCTCATGTCTTCGTTGATTTTGATTGTGGCTTACGAGATCGTTTAATATTG
*
1977058 GCGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCAGAACGTTAAGTATTGTAAACCAC
261 GCGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCAGAACATTAAGTATTGTAAACCAC
1977123 AACATTCAATCTACGACTTTTAACAATTTTA
326 AACATTCAATCTACGACTTTTAACAATTTTA
1977154 CCA
1 CCA
1977157 CAAACGAATT
Statistics
Matches: 349, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
356 349 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (356 bp):
CCATATATCGTACGTATCAACATGACTCTTAATGTGTATAAGAAACATGTACAACAACCTACTGC
TAACTTTTCTCATCTCATACATAATTACATCCACATACAAAATTATAAATCGTATACAAAATTAT
AAATCTTATACAACAATAACCCTACATTTACATCATTGCATCCTTTTATTATTCTTGTGTATCAT
GGCAGCTTTTGTTATCTCATGTCTTCGTTGATTTTGATTGTGGCTTACGAGATCGTTTAATATTG
GCGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCAGAACATTAAGTATTGTAAACCAC
AACATTCAATCTACGACTTTTAACAATTTTA
Found at i:1978533 original size:21 final size:21
Alignment explanation
Indices: 1978509--1978549 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1978499 CCTCCTCATT
1978509 TCTTCCATCTTTTCTTCTTCC
1 TCTTCCATCTTTTCTTCTTCC
*
1978530 TCTTCCCTCTTTTCTTCTTC
1 TCTTCCATCTTTTCTTCTTC
1978550 ATATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (21 bp):
TCTTCCATCTTTTCTTCTTCC
Found at i:1978824 original size:21 final size:21
Alignment explanation
Indices: 1978799--1978840 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1978789 CCCCTTATTC
1978799 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1978820 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1978841 TTTGATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1990764 original size:22 final size:22
Alignment explanation
Indices: 1990737--1990778 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1990727 ATTGTAATTT
*
1990737 TTTATTAAATGAATATTTTATA
1 TTTATTAAATGAATAATTTATA
* *
1990759 TTTATTTAATTAATAATTTA
1 TTTATTAAATGAATAATTTA
1990779 ACAAGTGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTAAATGAATAATTTATA
Found at i:1993158 original size:17 final size:17
Alignment explanation
Indices: 1993132--1993237 Score: 71
Period size: 17 Copynumber: 6.5 Consensus size: 17
1993122 AAAATAAAAC
1993132 AAAAGAAATAGTACAGT
1 AAAAGAAATAGTACAGT
*
1993149 AAAAGTAATA--ACAGT
1 AAAAGAAATAGTACAGT
* *
1993164 AAATGAAATAGTACAAT
1 AAAAGAAATAGTACAGT
* *
1993181 -ATAGAAATAACT-CAGT
1 AAAAGAAAT-AGTACAGT
* *
1993197 AAAAG-AATCAGTATAAT
1 AAAAGAAAT-AGTACAGT
* *
1993214 -AAAGATATAGTACAAT
1 AAAAGAAATAGTACAGT
1993230 AAAAGAAA
1 AAAAGAAA
1993238 AGATACATGA
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
15 13 0.20
16 25 0.38
17 28 0.42
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (17 bp):
AAAAGAAATAGTACAGT
Found at i:1999868 original size:3 final size:3
Alignment explanation
Indices: 1999825--1999849 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1999815 ACAGTAGGCA
1999825 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1999850 TAGACCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1999927 original size:26 final size:26
Alignment explanation
Indices: 1999862--1999927 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
1999852 GACCATAGTC
*
1999862 AATAATAATTATTGTAGTAATAATGAT
1 AATAATAA-TATTATAGTAATAATGAT
*
1999889 AAT-ATGATAATTATAAGTAA-AATGAT
1 AATAATAAT-ATTAT-AGTAATAATGAT
*
1999915 ATTAATAATATTA
1 AATAATAATATTA
1999928 ACTAAACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
25 1 0.03
26 19 0.59
27 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (26 bp):
AATAATAATATTATAGTAATAATGAT
Found at i:2000447 original size:16 final size:17
Alignment explanation
Indices: 2000426--2000458 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2000416 GACTTAAGCT
*
2000426 AAAAA-TCTTGAACTCA
1 AAAAATTCTTAAACTCA
2000442 AAAAATTCTTAAACTCA
1 AAAAATTCTTAAACTCA
2000459 CTCGGTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAATTCTTAAACTCA
Found at i:2002243 original size:3 final size:3
Alignment explanation
Indices: 2002235--2002318 Score: 138
Period size: 3 Copynumber: 28.7 Consensus size: 3
2002225 TCTTGCCTTT
2002235 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2002281 TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
2002319 CAGGCATAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.08
3 68 0.88
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2002419 original size:17 final size:18
Alignment explanation
Indices: 2002397--2002430 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2002387 ATATAATTAC
2002397 AAATAATAT-TATTTTAA
1 AAATAATATCTATTTTAA
2002414 AAATAATATCTATTTTA
1 AAATAATATCTATTTTA
2002431 GTACGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATATCTATTTTAA
Found at i:2006798 original size:24 final size:25
Alignment explanation
Indices: 2006770--2006816 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2006760 TTTCTGTCAA
*
2006770 TTTAGAGTTT-AGGGTATTTTGGCC
1 TTTAGAGTTTAAGGGCATTTTGGCC
*
2006794 TTTAGGGTTTAAGGGCATTTTGG
1 TTTAGAGTTTAAGGGCATTTTGG
2006817 ACATTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.17, C:0.06, G:0.32, T:0.45
Consensus pattern (25 bp):
TTTAGAGTTTAAGGGCATTTTGGCC
Found at i:2007929 original size:64 final size:65
Alignment explanation
Indices: 2007876--2008035 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 65
2007866 CGGTGCACCA
*
2007876 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2007940 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2008005 AGAATGCATCGGTGCATGGAATGCATTCGAT
1 AGTGTGCATCGATGCATGAAATGCATTCGAT
2008036 ATTTCAATTA
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 29 0.35
65 53 0.65
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2008539 original size:2 final size:2
Alignment explanation
Indices: 2008528--2008570 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2008518 TAGCCAATTG
2008528 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2008569 AT
1 AT
2008571 TAGGCTGCTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2015417 original size:64 final size:64
Alignment explanation
Indices: 2015364--2015527 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
2015354 CGGTGCACCA
*
2015364 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2015428 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2015493 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
2015528 CAATTAATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2015516 original size:17 final size:19
Alignment explanation
Indices: 2015478--2015524 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2015468 ATATTCAGAG
2015478 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
2015497 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
2015514 TGCATTCGATG
1 TGCA-TCGATG
2015525 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:2015547 original size:65 final size:62
Alignment explanation
Indices: 2015368--2015574 Score: 204
Period size: 65 Copynumber: 3.2 Consensus size: 62
2015358 GCACCAAGTG
* *
2015368 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
2015432 -
62 A
* *
2015432 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
2015496 A
62 A
* * * * *
2015497 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
2015562 TGCATCGGTGCAT
1 TGCATCGATGCAT
2015575 CACCTCAAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
63 3 0.02
64 35 0.29
65 77 0.63
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:2015767 original size:20 final size:21
Alignment explanation
Indices: 2015744--2015783 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2015734 GAATCGAATA
2015744 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
2015764 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
2015784 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:2018106 original size:3 final size:3
Alignment explanation
Indices: 2018098--2018198 Score: 188
Period size: 3 Copynumber: 34.3 Consensus size: 3
2018088 GAACTTGAAT
2018098 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2018146 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2018192 TTA TTA T
1 TTA TTA T
2018199 ATATCGTTGT
Statistics
Matches: 96, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.04
3 92 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2019949 original size:23 final size:23
Alignment explanation
Indices: 2019917--2019963 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2019907 ATATTTTACA
2019917 TATATCAACTTAAAAAATATTTT
1 TATATCAACTTAAAAAATATTTT
* **
2019940 TATATTAACTTATTAAATATTTT
1 TATATCAACTTAAAAAATATTTT
2019963 T
1 T
2019964 TTTTATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATCAACTTAAAAAATATTTT
Found at i:2020011 original size:21 final size:19
Alignment explanation
Indices: 2019977--2020031 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
2019967 TATTATTAAC
2019977 TTATTTAAAA-ATATTCATT
1 TTATTTAAAATATATT-ATT
2019996 TTCATTTAAAATATA-TATT
1 TT-ATTTAAAATATATTATT
*
2020015 TTATGTTAAAATGTATT
1 TTAT-TTAAAATATATT
2020032 TAAAACTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 16 0.52
20 10 0.32
21 3 0.10
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
TTATTTAAAATATATTATT
Found at i:2020229 original size:31 final size:31
Alignment explanation
Indices: 2020157--2020216 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2020147 ACATCTCAAG
*
2020157 TAAATTAAAACGAAAGTGACTATATCTTAAT
1 TAAATTAAAACGAAAGTGACCATATCTTAAT
*
2020188 TAAATAAAAACGAAAGTGACCATATCTTA
1 TAAATTAAAACGAAAGTGACCATATCTTA
2020217 TGTATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (31 bp):
TAAATTAAAACGAAAGTGACCATATCTTAAT
Found at i:2023812 original size:2 final size:2
Alignment explanation
Indices: 2023805--2023839 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2023795 AGTGATGGTT
2023805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2023840 TGGTTGCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2027543 original size:25 final size:25
Alignment explanation
Indices: 2027515--2027568 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2027505 CAAAAATATA
* *
2027515 ATAAAA-AAATAAAAAATAGAACGAG
1 ATAAAATAAA-AAAAAATAAAACAAG
*
2027540 ATAAAATAAAATAAAATAAAACAAG
1 ATAAAATAAAAAAAAATAAAACAAG
2027565 ATAA
1 ATAA
2027569 TAAGGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (25 bp):
ATAAAATAAAAAAAAATAAAACAAG
Found at i:2028366 original size:16 final size:16
Alignment explanation
Indices: 2028345--2028380 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2028335 GCGGATAGTG
*
2028345 GTTAGCAGTTAGAAAT
1 GTTAGCAGTTAGAAAA
*
2028361 GTTAGCTGTTAGAAAA
1 GTTAGCAGTTAGAAAA
2028377 GTTA
1 GTTA
2028381 ACGGTTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (16 bp):
GTTAGCAGTTAGAAAA
Found at i:2029117 original size:139 final size:138
Alignment explanation
Indices: 2028813--2029261 Score: 519
Period size: 139 Copynumber: 3.3 Consensus size: 138
2028803 TGATCAATCT
** ** ** * ** *
2028813 GGATAATTTAAAGATAACACAATTCCTTCACGTTGAGGAAGTCT-AGTTAATTGAGGACGACACT
1 GGATAATTTGGAGATAACACGGTTCCTTCGTGTTGAGGAAATCTGA-TTACCTGAGGATGACACT
** ** * *
2028877 TCTCCTTCATGTTGAGGAGATTTGGTCGGTGGATGACAT-TT-CTTGGTGATGAGGACGTCTAGC
65 GATCCTTCGCGTTGAGGAGATCTGGTCGGTGGATGACATGTTCCTTCGTGATGAGGACGTCTAGC
*
2028940 CGTCTTTAG
130 CATCTTTAG
* * * *
2028949 GAATAATTTGGAGATAACACGGTTCCTTCGTGTTGAGGAAGTCTGATTGCCTGAGGATGATACTG
1 GGATAATTTGGAGATAACACGGTTCCTTCGTGTTGAGGAAATCTGATTACCTGAGGATGACACTG
* * *
2029014 TTCCTTTGCGTTGAGGAGATCTGGTCAGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTAGC
66 ATCCTTCGCGTTGAGGAGATCTGGTCGGTGGATGACA-TGTTCCTTCGTGATGAGGACGTCTAGC
*
2029079 CTTCTTTAG
130 CATCTTTAG
* * * * *
2029088 GGATAATTTGGATAAAACACGGTTCCTTCGTGATGTGGAAATCTGATTACCTGGGGATGACACTG
1 GGATAATTTGGAGATAACACGGTTCCTTCGTGTTGAGGAAATCTGATTACCTGAGGATGACACTG
* * *
2029153 ATCCTTCGCGTTGAGGAGATCTGGTCGGTGGACGACAATGTTCCTTCGTGATGAAGAGGTCTAGC
66 ATCCTTCGCGTTGAGGAGATCTGGTCGGTGGATGAC-ATGTTCCTTCGTGATGAGGACGTCTAGC
2029218 CATCTTTA-
130 CATCTTTAG
* * *
2029226 GGATAATTTGAAGATAACATGGTTCCTTCGCGTTGA
1 GGATAATTTGGAGATAACACGGTTCCTTCGTGTTGA
2029262 ATGAGTCTGG
Statistics
Matches: 264, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
136 81 0.31
137 2 0.01
138 31 0.12
139 149 0.56
140 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (138 bp):
GGATAATTTGGAGATAACACGGTTCCTTCGTGTTGAGGAAATCTGATTACCTGAGGATGACACTG
ATCCTTCGCGTTGAGGAGATCTGGTCGGTGGATGACATGTTCCTTCGTGATGAGGACGTCTAGCC
ATCTTTAG
Found at i:2029574 original size:36 final size:36
Alignment explanation
Indices: 2029533--2029601 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
2029523 ATGTTTCAAG
* * * *
2029533 GGAAAATTATCTCTAGCGAGATGAAATTTGTTTTGA
1 GGAAAATAATATCAAGCGAGATCAAATTTGTTTTGA
*
2029569 GGAAAATAATATCAAGCGAGATCAATTTTGTTT
1 GGAAAATAATATCAAGCGAGATCAAATTTGTTT
2029602 CAAATGAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (36 bp):
GGAAAATAATATCAAGCGAGATCAAATTTGTTTTGA
Found at i:2029617 original size:102 final size:100
Alignment explanation
Indices: 2029484--2029669 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 100
2029474 TATCTCAGGT
* * *
2029484 GAGATAAATTTTTGTTTCGAGTGAAACATTTCAAAATTTATGTTTCAAGGGAAAATTATCTCTAG
1 GAGATAAATTTTTGTTTCAAATGAAACATTTCAAAATTTATGTTTCAA-GGAAAATTATCTCAAG
*
2029549 CGAGATGAAATTTGTTTTGAGGAAAATAATATCAAGC
65 CGAGA-CAAATTTGTTTTGAGGAAAATAATATCAAGC
* * * *
2029586 GAGATCAA-TTTTGTTTCAAATGAAACAATTTCAAAATTTGTGTTTCGAGGAAAATTGTCTCAAG
1 GAGATAAATTTTTGTTTCAAATGAAAC-ATTTCAAAATTTATGTTTCAAGGAAAATTATCTCAAG
2029650 CGAGACAAATTTGTTTTGAG
65 CGAGACAAATTTGTTTTGAG
2029670 ATAAACAATC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
100 14 0.19
101 35 0.47
102 26 0.35
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (100 bp):
GAGATAAATTTTTGTTTCAAATGAAACATTTCAAAATTTATGTTTCAAGGAAAATTATCTCAAGC
GAGACAAATTTGTTTTGAGGAAAATAATATCAAGC
Found at i:2029706 original size:65 final size:65
Alignment explanation
Indices: 2029637--2029815 Score: 209
Period size: 67 Copynumber: 2.7 Consensus size: 65
2029627 GTTTCGAGGA
*
2029637 AAATTGTCTCAAGCGAGAC-AAATTTGTTTTGAGATAAACAATCTCAAAGGCTTATGCTTCAAAA
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTAGAGA-AAACAATCTCAAAGGCTTATGCTTCAAAA
2029701 G
65 G
* ** * * ** *
2029702 AAATTATCTCAAATGAGACGAAACTTTGTTTAGAGAGAAACAATCTCAAAGGTTTATTTTTCAAG
1 AAATTGTCTCAAGCGAGAC-AAAATTTGTTTAGAGA-AAACAATCTCAAAGGCTTATGCTTCAAA
2029767 AG
64 AG
* *
2029769 AAACTGTCTCAAGCGAGACAAAATTTATTTCA-AGAAAACAATCTCAA
1 AAATTGTCTCAAGCGAGACAAAATTTGTTT-AGAGAAAACAATCTCAA
2029816 GTAAGATCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 28 0.29
66 12 0.13
67 55 0.58
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (65 bp):
AAATTGTCTCAAGCGAGACAAAATTTGTTTAGAGAAAACAATCTCAAAGGCTTATGCTTCAAAAG
Found at i:2030110 original size:33 final size:33
Alignment explanation
Indices: 2030072--2030135 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2030062 GAAGGAAACT
2030072 ATCTCAAGCGAGA-CGAAGTTTGTTTCAAAAAAA
1 ATCTCAAGCGAGATC-AAGTTTGTTTCAAAAAAA
* *
2030105 ATCTCAAGTGAGATCAATTTTGTTTCAAAAA
1 ATCTCAAGCGAGATCAAGTTTGTTTCAAAAA
2030136 TTTCAAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
ATCTCAAGCGAGATCAAGTTTGTTTCAAAAAAA
Found at i:2033227 original size:10 final size:10
Alignment explanation
Indices: 2033193--2033227 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2033183 TGGATGGGTT
2033193 TTTTTCTTTG
1 TTTTTCTTTG
2033203 -TTTTCTTTTG
1 TTTTTC-TTTG
2033213 TTTTTCTTTG
1 TTTTTCTTTG
2033223 TTTTT
1 TTTTT
2033228 TTCTTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:2033235 original size:13 final size:12
Alignment explanation
Indices: 2033192--2033249 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
2033182 TTGGATGGGT
2033192 TTTTTTC-TTTG
1 TTTTTTCTTTTG
2033203 --TTTTCTTTTG
1 TTTTTTCTTTTG
2033213 -TTTTTC-TTTG
1 TTTTTTCTTTTG
2033223 TTTTTTTCTTTTG
1 -TTTTTTCTTTTG
2033236 ATTTTTTCTCTTTG
1 -TTTTTTCT-TTTG
2033250 CTTTAATTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 5 0.12
12 6 0.15
13 12 0.30
14 4 0.10
ACGTcount: A:0.02, C:0.10, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTTG
Found at i:2035643 original size:24 final size:24
Alignment explanation
Indices: 2035616--2035689 Score: 139
Period size: 24 Copynumber: 3.1 Consensus size: 24
2035606 ACGGATCGAG
2035616 TTCAATTCGAGAGGATACATTCCC
1 TTCAATTCGAGAGGATACATTCCC
2035640 TTCAATTCGAGAGGATACATTCCC
1 TTCAATTCGAGAGGATACATTCCC
*
2035664 TTAAATTCGAGAGGATACATTCCC
1 TTCAATTCGAGAGGATACATTCCC
2035688 TT
1 TT
2035690 GTGTCCATAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (24 bp):
TTCAATTCGAGAGGATACATTCCC
Found at i:2037651 original size:4 final size:4
Alignment explanation
Indices: 2037642--2037676 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
2037632 TTCGAACATA
2037642 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2037677 AATTAGCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2039216 original size:120 final size:121
Alignment explanation
Indices: 2038987--2039222 Score: 393
Period size: 120 Copynumber: 2.0 Consensus size: 121
2038977 TATGATTGAA
* *
2038987 GTTGTTGTTGATATAAAGTATATTATGCTGGAATATATCTAAGGTCTAGGATTTATTATTTTATG
1 GTTGTGGTTGATATAAAGTATATTATGCTGGAATATAACTAAGGTCTAGGATTTATTATTTTATG
*
2039052 ATTTAAGGTTATTTGATTAAAATTGTAGGGTTTAGTTTTTTGTTGGAGTAATGGTT
66 ATTTAAGGTTATTTGATTAAAATTGTAGGGTTTAGTTTTGTGTTGGAGTAATGGTT
* * * *
2039108 GTTGTGGTTGATATAAAGTATATTATGTTGGAATATAACTAAGGTTTAGGGTTTGTTA-TTTATG
1 GTTGTGGTTGATATAAAGTATATTATGCTGGAATATAACTAAGGTCTAGGATTTATTATTTTATG
*
2039172 TTTTAAGGTTATTTGATTAAAATTGTAGGGTTTAGTTTTGTGTTGGAGTAA
66 ATTTAAGGTTATTTGATTAAAATTGTAGGGTTTAGTTTTGTGTTGGAGTAA
2039223 AAAAAATTTA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
120 55 0.51
121 52 0.49
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (121 bp):
GTTGTGGTTGATATAAAGTATATTATGCTGGAATATAACTAAGGTCTAGGATTTATTATTTTATG
ATTTAAGGTTATTTGATTAAAATTGTAGGGTTTAGTTTTGTGTTGGAGTAATGGTT
Found at i:2039664 original size:7 final size:7
Alignment explanation
Indices: 2039654--2039687 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
2039644 AAGCACCAAG
*
2039654 AGAATAA
1 AGAACAA
2039661 AGAACAA
1 AGAACAA
2039668 AGAACAA
1 AGAACAA
2039675 AGAACAAA
1 AGAAC-AA
2039683 AGAAC
1 AGAAC
2039688 TAGAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.03
Consensus pattern (7 bp):
AGAACAA
Found at i:2051525 original size:32 final size:34
Alignment explanation
Indices: 2051483--2051564 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 34
2051473 TTGTTATTCA
*
2051483 AATATTATTTATA-TAATT-TTATAAATTAAAAT
1 AATATAATTTATATTAATTATTATAAATTAAAAT
**
2051515 AATATAATTTATATTAATTAATTATTCATTAAAAT
1 AATATAATTTATATTAATT-ATTATAAATTAAAAT
2051550 AA-A-AATATTATATTA
1 AATATAAT-TTATATTA
2051565 TTAAAATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 12 0.28
33 8 0.19
34 9 0.21
35 14 0.33
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (34 bp):
AATATAATTTATATTAATTATTATAAATTAAAAT
Found at i:2052414 original size:22 final size:23
Alignment explanation
Indices: 2052389--2052431 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2052379 TTAAAAATAA
*
2052389 AAATTATCATTATTA-TAATATT
1 AAATTATCATAATTATTAATATT
*
2052411 AAATTATGATAATTATTAATA
1 AAATTATCATAATTATTAATA
2052432 AATATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATTATCATAATTATTAATATT
Found at i:2052422 original size:16 final size:17
Alignment explanation
Indices: 2052397--2052429 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2052387 AAAAATTATC
*
2052397 ATTATTATAA-TATTAA
1 ATTATGATAATTATTAA
2052413 ATTATGATAATTATTAA
1 ATTATGATAATTATTAA
2052430 TAAATATATT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTATGATAATTATTAA
Found at i:2056530 original size:12 final size:12
Alignment explanation
Indices: 2056513--2056537 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2056503 AAAAATATAG
2056513 TCCTTTAAACCT
1 TCCTTTAAACCT
2056525 TCCTTTAAACCT
1 TCCTTTAAACCT
2056537 T
1 T
2056538 ATACCAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TCCTTTAAACCT
Found at i:2063800 original size:12 final size:13
Alignment explanation
Indices: 2063783--2063811 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2063773 TCATATATTA
2063783 TATATATTTTT-T
1 TATATATTTTTAT
2063795 TATATATTTTTAT
1 TATATATTTTTAT
2063808 TATA
1 TATA
2063812 ATCTATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATATTTTTAT
Found at i:2067814 original size:21 final size:21
Alignment explanation
Indices: 2067790--2067844 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
2067780 GTATAAAGGT
*
2067790 AGTACTGATACTCGTGAAATG
1 AGTACCGATACTCGTGAAATG
2067811 AGTACCGATACTCGTGAAATG
1 AGTACCGATACTCGTGAAATG
2067832 AGTACCGATACTC
1 AGTACCGATACTC
2067845 CATGTTCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (21 bp):
AGTACCGATACTCGTGAAATG
Found at i:2074266 original size:243 final size:245
Alignment explanation
Indices: 2073823--2074336 Score: 678
Period size: 243 Copynumber: 2.1 Consensus size: 245
2073813 TCGGATATGA
*
2073823 TTTTTTTAAGTGTGATATTCGGGTCGGGTTCGGGTTTAGGGGTGAAAAAAATAAGATCGACCCGA
1 TTTTTTTAAGTGTGATATTC--GT---GTTCGGGTTTAGGGGTGAAAAAAATAAGACCGACCCGA
* * *
2073888 AAATATATATAATTTAGGTCAGGTTGGATTAAGTCACTGTTTTTATTAAATAGAAATAATTTTTT
61 AAATATATATAATTCAGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTT
** * * * *
2073953 ATTACTTCGGGTCGGGTTAGATTTCTAATTTATATATTCAGGTCGGTTCGGATGAAATTTTATCT
126 ATTAAGTCGGGTCGGGTGAGATTTCTAATTCATATATTCAGGTCGGTTCGAATGAAACTTTATCT
* * *
2074018 TGTTCGGCTCGGATTGGGTTTTTTAAGTATGATATTCGGGTCGAGTCGGGTCAGG
191 TGTTCGGCTCGGATTGAGTTTTTTAAGTATGATATTCGGATCGAATCGGGTCAGG
**
2074073 TTTTTTTAAGTGTGATATTCGT-TTCGGGTTTA-GGGTGAAAAAAATCGGACCGACCCGAAAATA
1 TTTTTTTAAGTGTGATATTCGTGTTCGGGTTTAGGGGTGAAAAAAATAAGACCGACCCGAAAATA
* * *
2074136 TATATAATTCGGGTCGGGTCGGATTACGTCACTGTTTTTATTAAATAAAAATAATTTTATT-TTA
66 TATATAATTCAGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTT-TTATTA
* * * *
2074200 AGTCGTGTCGGGTCGA-ATTTCTAATTCATATATTCGGGTCGGGTT-TAATGAAACTTTATTTTG
130 AGTCGGGTCGGGT-GAGATTTCTAATTCATATATTCAGGTC-GGTTCGAATGAAACTTTATCTTG
* * * *
2074263 TTCGGGTCGGGTTGAGTTTTTTAAGTGTGATATTCGGATCGAATCGGGTCGGG
193 TTCGGCTCGGATTGAGTTTTTTAAGTATGATATTCGGATCGAATCGGGTCAGG
*
2074316 TTTTTTTAAGTATGATATTCG
1 TTTTTTTAAGTGTGATATTCG
2074337 GGTCATGTCG
Statistics
Matches: 234, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
243 195 0.83
244 17 0.07
248 2 0.01
250 20 0.09
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (245 bp):
TTTTTTTAAGTGTGATATTCGTGTTCGGGTTTAGGGGTGAAAAAAATAAGACCGACCCGAAAATA
TATATAATTCAGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTAA
GTCGGGTCGGGTGAGATTTCTAATTCATATATTCAGGTCGGTTCGAATGAAACTTTATCTTGTTC
GGCTCGGATTGAGTTTTTTAAGTATGATATTCGGATCGAATCGGGTCAGG
Found at i:2076240 original size:43 final size:44
Alignment explanation
Indices: 2076193--2076355 Score: 204
Period size: 44 Copynumber: 3.7 Consensus size: 44
2076183 TATTGAACGA
*
2076193 GATGATGTTGATCAAACTCCTTATGTGATGGAATCGAGTGAAA-
1 GATGATGCTGATCAAACTCCTTATGTGATGGAATCGAGTGAAAC
* *
2076236 GATGATGCTGATCCAACTTCTTATGTGATGGAATCGAGTGAAAC
1 GATGATGCTGATCAAACTCCTTATGTGATGGAATCGAGTGAAAC
* * ** *
2076280 GATGATGCTGATCAAACTTCTTATGTTG-TGGAATCAAACGAAAT
1 GATGATGCTGATCAAACTCCTTATG-TGATGGAATCGAGTGAAAC
* * *
2076324 GGTGATGTTGATCCAACTCCTTATGTGATGGA
1 GATGATGCTGATCAAACTCCTTATGTGATGGA
2076356 TGAGCCAAGT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
43 42 0.40
44 61 0.58
45 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
GATGATGCTGATCAAACTCCTTATGTGATGGAATCGAGTGAAAC
Found at i:2076297 original size:87 final size:88
Alignment explanation
Indices: 2076193--2076355 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 88
2076183 TATTGAACGA
* * ** *
2076193 GATGATGTTGATCAAACTCCTTATG-TGATGGAATCGAGTGAAA-GATGATGCTGATCCAACTTC
1 GATGATGCTGATCAAACTCCTTATGTTG-TGGAATCAAACGAAATGATGATGCTGATCCAACTCC
2076256 TTATGTGATGGAATCGAGTGAAAC
65 TTATGTGATGGAATCGAGTGAAAC
* * *
2076280 GATGATGCTGATCAAACTTCTTATGTTGTGGAATCAAACGAAATGGTGATGTTGATCCAACTCCT
1 GATGATGCTGATCAAACTCCTTATGTTGTGGAATCAAACGAAATGATGATGCTGATCCAACTCCT
2076345 TATGTGATGGA
66 TATGTGATGGA
2076356 TGAGCCAAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
87 35 0.53
88 31 0.47
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (88 bp):
GATGATGCTGATCAAACTCCTTATGTTGTGGAATCAAACGAAATGATGATGCTGATCCAACTCCT
TATGTGATGGAATCGAGTGAAAC
Found at i:2076532 original size:24 final size:24
Alignment explanation
Indices: 2076501--2076568 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
2076491 AGGGGAGCAA
2076501 GTTGTTTAAAATTGAAATAAATAT
1 GTTGTTTAAAATTGAAATAAATAT
2076525 GTTGTTTAAAATTGAAATAAATAT
1 GTTGTTTAAAATTGAAATAAATAT
* *
2076549 GGTCTTTAAAATTG-AATAAA
1 GTTGTTTAAAATTGAAATAAA
2076569 CCATGAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
23 6 0.14
24 36 0.86
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (24 bp):
GTTGTTTAAAATTGAAATAAATAT
Found at i:2079654 original size:18 final size:19
Alignment explanation
Indices: 2079609--2079657 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
2079599 TAATTAAGGT
2079609 AGTATCGATACTCTAGGCTG
1 AGTATCGATACTCTA-GCTG
*
2079629 ACTATCGATACT-T-GCTTG
1 AGTATCGATACTCTAGC-TG
2079647 AGTATCGATAC
1 AGTATCGATAC
2079658 CAAATTTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
19 1 0.04
20 11 0.42
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (19 bp):
AGTATCGATACTCTAGCTG
Found at i:2085709 original size:19 final size:19
Alignment explanation
Indices: 2085658--2085714 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
2085648 TTAAAAGAAA
2085658 AAAACTAAATTATGAA-AAA-
1 AAAAC-AAATTA-GAATAAAT
*
2085677 AAAA-AAATCA-AATAAAT
1 AAAACAAATTAGAATAAAT
2085694 AAAACAAATTAGAATAAAT
1 AAAACAAATTAGAATAAAT
2085713 AA
1 AA
2085715 GTATAACGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 9 0.28
18 5 0.16
19 13 0.41
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (19 bp):
AAAACAAATTAGAATAAAT
Found at i:2087772 original size:30 final size:32
Alignment explanation
Indices: 2087738--2087805 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
2087728 ATAGTTTTTA
2087738 TATTTTATAGT-AAT-ATAATTATATAAATAT
1 TATTTTATAGTAAATAATAATTATATAAATAT
* * * *
2087768 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATAGT-AAATAATAATTATATAAATAT
2087801 TATTT
1 TATTT
2087806 ATTTACATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 9 0.29
32 3 0.10
33 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TATTTTATAGTAAATAATAATTATATAAATAT
Found at i:2089599 original size:21 final size:21
Alignment explanation
Indices: 2089575--2089644 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
2089565 CTCTGGGGTC
2089575 TATGCCAAGCCCACTAGTTTA
1 TATGCCAAGCCCACTAGTTTA
* * **
2089596 TATGCC-ATCTCCTCTAGGGTA
1 TATGCCAAGC-CCACTAGTTTA
*
2089617 TATTCCAAGCCCACTAGTTTA
1 TATGCCAAGCCCACTAGTTTA
2089638 TATGCCA
1 TATGCCA
2089645 TCTCTGCAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (21 bp):
TATGCCAAGCCCACTAGTTTA
Found at i:2089601 original size:42 final size:42
Alignment explanation
Indices: 2089555--2089648 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
2089545 TCCAGTTAAG
* *
2089555 ATGCCATCTCCTCTGGGGTCTATGCCAAGCCCACTAGTTTAT
1 ATGCCATCTCCTCTAGGGTATATGCCAAGCCCACTAGTTTAT
*
2089597 ATGCCATCTCCTCTAGGGTATATTCCAAGCCCACTAGTTTAT
1 ATGCCATCTCCTCTAGGGTATATGCCAAGCCCACTAGTTTAT
2089639 ATGCCATCTC
1 ATGCCATCTC
2089649 TGCAGGGTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATCTCCTCTAGGGTATATGCCAAGCCCACTAGTTTAT
Found at i:2089664 original size:42 final size:42
Alignment explanation
Indices: 2089555--2089670 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
2089545 TCCAGTTAAG
* *
2089555 ATGCCATCTCCTCTGGGGT-CTATGCCAAGCCCACTAGTTTAT
1 ATGCCATCTCCTCTAGGGTAC-ATTCCAAGCCCACTAGTTTAT
*
2089597 ATGCCATCTCCTCTAGGGTATATTCCAAGCCCACTAGTTTAT
1 ATGCCATCTCCTCTAGGGTACATTCCAAGCCCACTAGTTTAT
*
2089639 ATGCCATCT-CTGC-AGGGTTACATTCCTAGCCC
1 ATGCCATCTCCT-CTAGGG-TACATTCCAAGCCC
2089671 TCATGGCTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
41 6 0.09
42 60 0.91
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATCTCCTCTAGGGTACATTCCAAGCCCACTAGTTTAT
Found at i:2089720 original size:21 final size:21
Alignment explanation
Indices: 2089650--2089720 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
2089640 TGCCATCTCT
2089650 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
* * * *
2089671 TCATGGCTACATTTCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
*
2089692 GCCA-GGTTACATGCCTAGCCC
1 G-CAGGGTTACATTCCTAGCCC
2089713 GCAGGGTT
1 GCAGGGTT
2089721 TTATGACACC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.25
Consensus pattern (21 bp):
GCAGGGTTACATTCCTAGCCC
Found at i:2090271 original size:34 final size:34
Alignment explanation
Indices: 2090228--2090300 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
2090218 TTAAATGTTT
*
2090228 TTAATATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
2090262 TTAAAATACAAATTATGGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
2090296 TTAAA
1 TTAAA
2090301 TTCAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:2090427 original size:14 final size:14
Alignment explanation
Indices: 2090408--2090438 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2090398 TTTTATCCTT
2090408 AACATATACATTAA
1 AACATATACATTAA
2090422 AACATATACATTAA
1 AACATATACATTAA
2090436 AAC
1 AAC
2090439 CAACTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:2090608 original size:63 final size:63
Alignment explanation
Indices: 2090507--2090631 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
2090497 AAATGTCACG
* * *
2090507 ACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAGTATATTCAAACA
1 ACCAACTTATCACTTAAAATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAACA
* * *
2090570 ACCAA-TTGATCACTTAAAATTTATTTAATTTATTCATAACATTTTATCCAATTTATTCAAAC
1 ACCAACTT-ATCACTTAAAATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAAC
2090632 TTAAAATAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 2 0.04
63 53 0.96
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (63 bp):
ACCAACTTATCACTTAAAATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAACA
Found at i:2091094 original size:117 final size:117
Alignment explanation
Indices: 2090887--2091237 Score: 522
Period size: 117 Copynumber: 3.0 Consensus size: 117
2090877 AAAAATAATA
* * *
2090887 GGTACTGATATGAATAGTGCCCCCGAGGGACATGAGTGGCATAATAGGGTAATGATAACATATTC
1 GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTC
* * *
2090952 TCTGACAAAATAATCAAAGGCGCGCCCCTGGGAACCCACCTTTACCACTTTG
66 TCTGACAAAATAAACAAAGGCGCGCCCCCGGGAACCCACCTTCACCACTTTG
* *
2091004 GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAGTAGGGCAATGATAACATATTC
1 GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTC
* * * *
2091069 TCTGACAAAATAAACGAAGGTGCGCCCCCGGGAACGCGCCTTCACCACTTTG
66 TCTGACAAAATAAACAAAGGCGCGCCCCCGGGAACCCACCTTCACCACTTTG
*
2091121 GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAATAGGGAAATAATAACATATTC
1 GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTC
*** * * * *
2091186 TCTGACAAAATAATTGAGGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTG
66 TCTGACAAAATAAACAAAGGCGCGCCCCCGGGAACCCACCTTCACCACTTTG
2091238 CCAATTCCTC
Statistics
Matches: 215, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 215 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (117 bp):
GGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTC
TCTGACAAAATAAACAAAGGCGCGCCCCCGGGAACCCACCTTCACCACTTTG
Found at i:2097901 original size:20 final size:20
Alignment explanation
Indices: 2097878--2097958 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
2097868 TGAAACATGA
2097878 TTTTATCTCACTAGAGATAG
1 TTTTATCTCACTAGAGATAG
* *
2097898 TTTT-TCCTCACTCGAGACAG
1 TTTTAT-CTCACTAGAGATAG
* * *
2097918 -TTTCTCTCGA-AATAGA-A-
1 TTTTATCTC-ACTAGAGATAG
2097935 TTTTATCTCACTAGAGATAG
1 TTTTATCTCACTAGAGATAG
2097955 TTTT
1 TTTT
2097959 CCTAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
17 1 0.02
18 12 0.26
19 11 0.24
20 22 0.48
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTTATCTCACTAGAGATAG
Found at i:2097904 original size:75 final size:75
Alignment explanation
Indices: 2097707--2097907 Score: 222
Period size: 75 Copynumber: 2.6 Consensus size: 75
2097697 AGAGGATAAT
* *
2097707 TTTCCCTTGAAACAAAAGTTTTATCTCACTTGAGATAGTTTTTTTTCCTCAAAAACAATTTTCGT
1 TTTCTCTTGAAACAAAA-TTTTATCTCACTAGAGATAG---TTTTTCCTCAAAAACAATTTTCGT
* * * **
2097772 TTCATTTGAGATGG
62 CTCACTCGAGACAG
* * * * * * *
2097786 TTTCTCTTGAAACAAAATTTTATCTCACTAAAGTTAATATTTCCTCAAAAATATTTTTTGTCTCA
1 TTTCTCTTGAAACAAAATTTTATCTCACTAGAGATAGTTTTTCCTCAAAAACAATTTTCGTCTCA
2097851 CTCGAGACAG
66 CTCGAGACAG
**
2097861 TTTCTCTTGAAACATGATTTTATCTCACTAGAGATAGTTTTTCCTCA
1 TTTCTCTTGAAACAAAATTTTATCTCACTAGAGATAGTTTTTCCTCA
2097908 CTCGAGACAG
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
75 70 0.69
78 16 0.16
79 16 0.16
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.42
Consensus pattern (75 bp):
TTTCTCTTGAAACAAAATTTTATCTCACTAGAGATAGTTTTTCCTCAAAAACAATTTTCGTCTCA
CTCGAGACAG
Found at i:2097938 original size:57 final size:57
Alignment explanation
Indices: 2097847--2097958 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
2097837 TATTTTTTGT
*
2097847 CTCACTCGAGACAGTTTCTCTTGAAACATGATTTTATCTCACTAGAGATAGTTTTTC
1 CTCACTCGAGACAGTTTCTCTCGAAACATGATTTTATCTCACTAGAGATAGTTTTTC
*
2097904 CTCACTCGAGACAGTTTCTCTCGAAATA-GAATTTTATCTCACTAGAGATAGTTTT
1 CTCACTCGAGACAGTTTCTCTCGAAACATG-ATTTTATCTCACTAGAGATAGTTTT
2097959 CCTAAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
56 1 0.02
57 51 0.98
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (57 bp):
CTCACTCGAGACAGTTTCTCTCGAAACATGATTTTATCTCACTAGAGATAGTTTTTC
Found at i:2097957 original size:37 final size:36
Alignment explanation
Indices: 2097904--2098079 Score: 112
Period size: 37 Copynumber: 4.9 Consensus size: 36
2097894 ATAGTTTTTC
*
2097904 CTCACTCGAGACAGTTTCTCTCGAAATAGAATTTTAT
1 CTCACTCGAGATAGTTTCTCTCGAAATA-AATTTTAT
* * * ** **
2097941 CTCACTAGAGATAGTTT-TC-CTAAAAAAAAAATCGT
1 CTCACTCGAGATAGTTTCTCTC-GAAATAAATTTTAT
* *
2097976 CTCACTCGAGATAGTTTCAT-TCAAAACAAAGTTTTAT
1 CTCACTCGAGATAGTTTC-TCTCGAAATAAA-TTTTAT
* * * * *
2098013 CTCACTTGAGATATTTTCCCTTGAGAAT---TTTCAT
1 CTCACTCGAGATAGTTTCTCTCGA-AATAAATTTTAT
* *
2098047 CTCACTTGAGATAGTTTCACTCGAAATAAATTT
1 CTCACTCGAGATAGTTTCTCTCGAAATAAATTT
2098080 CCATTTCCCT
Statistics
Matches: 105, Mismatches: 24, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
33 3 0.03
34 26 0.25
35 21 0.20
36 16 0.15
37 37 0.35
38 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
CTCACTCGAGATAGTTTCTCTCGAAATAAATTTTAT
Found at i:2098190 original size:35 final size:35
Alignment explanation
Indices: 2098150--2098253 Score: 97
Period size: 35 Copynumber: 2.9 Consensus size: 35
2098140 AAATGAAAAT
* *
2098150 TTCATCTCTCTTGAGATATTTTCCCTTCAAAATTC-
1 TTCATCTCACTTGAGATATTTTCCCTTCAAAA-CCA
* *
2098185 TTCATCTCACTCT-AGACAGTTTCCC-TCAAAACCAAAA
1 TTCATCTCACT-TGAGATATTTTCCCTTCAAAACC---A
*
2098222 TTCATCTCACTTGAGATATTTTTCCTTCAAAA
1 TTCATCTCACTTGAGATATTTTCCCTTCAAAA
2098254 ACTTTTCACC
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
33 1 0.02
34 6 0.11
35 20 0.36
36 2 0.04
37 20 0.36
38 6 0.11
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (35 bp):
TTCATCTCACTTGAGATATTTTCCCTTCAAAACCA
Found at i:2098194 original size:72 final size:71
Alignment explanation
Indices: 2097904--2098271 Score: 303
Period size: 71 Copynumber: 5.1 Consensus size: 71
2097894 ATAGTTTTTC
* * * * **
2097904 CTCACTCGAGACAGTTTCTCTCGAAATAGAATTTTATCTCACTAGAGATAGTTTT-CCTAAAAAA
1 CTCACTCGAGACAGTTTCACTCGAAATAAAATTTCATCTCACTTGAGATA-TTTTCCCT-TCAAA
*** *
2097968 AAAATCGT
64 ATTTTCAT
* * * * * * * *
2097976 CTCACTCGAGATAGTTTCATTCAAAACAAAGTTTTATCTCACTTGAGATATTTTCCCTTGAGAAT
1 CTCACTCGAGACAGTTTCACTCGAAATAAAATTTCATCTCACTTGAGATATTTTCCCTTCAAAAT
2098041 TTTCAT
66 TTTCAT
* * * * * *
2098047 CTCACTTGAGATAGTTTCACTCGAAAT-AAATTTCCATTTCCCTTGAGATATTTTCCCTTTAAAT
1 CTCACTCGAGACAGTTTCACTCGAAATAAAATTT-CATCTCACTTGAGATATTTTCCCTTCAAAA
**
2098111 TTTTTGT
65 TTTTCAT
* * * *
2098118 CTCACTCGAGACA-ATTCTCTTGAAATGAAAATTTCATCTCTCTTGAGATATTTTCCCTTCAAAA
1 CTCACTCGAGACAGTTTCACTCGAAAT-AAAATTTCATCTCACTTGAGATATTTTCCCTTCAAAA
2098182 TTCTTCAT
65 TT-TTCAT
* * * * *
2098190 CTCACTCTAGACAGTTTCCCTCAAAACCAAAA-TTCATCTCACTTGAGATATTTTTCCTTCAAAA
1 CTCACTCGAGACAGTTTCACTCGAAA-TAAAATTTCATCTCACTTGAGATATTTTCCCTTC-AAA
*
2098254 ACTTTTCAC
64 A-TTTTCAT
*
2098263 CCCACTCGA
1 CTCACTCGA
2098272 AATAACTTGC
Statistics
Matches: 237, Mismatches: 50, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
70 15 0.06
71 101 0.43
72 92 0.39
73 27 0.11
74 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (71 bp):
CTCACTCGAGACAGTTTCACTCGAAATAAAATTTCATCTCACTTGAGATATTTTCCCTTCAAAAT
TTTCAT
Found at i:2099165 original size:19 final size:17
Alignment explanation
Indices: 2099129--2099161 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2099119 ATTTATGTAG
2099129 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
*
2099146 TTTTTGAAAACATATA
1 TTTTTGAAAATATATA
2099162 TAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTTTGAAAATATATAA
Found at i:2099208 original size:20 final size:21
Alignment explanation
Indices: 2099163--2099209 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
2099153 AAACATATAT
2099163 AATA-TATATAATTTTTGAAA
1 AATATTATATAATTTTTGAAA
*
2099183 ACATATTATATAGTTTTTG-AA
1 A-ATATTATATAATTTTTGAAA
2099204 AATATT
1 AATATT
2099210 TTAGAACTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
AATATTATATAATTTTTGAAA
Found at i:2102588 original size:238 final size:236
Alignment explanation
Indices: 2102191--2102648 Score: 562
Period size: 238 Copynumber: 1.9 Consensus size: 236
2102181 GATGATAAGT
* *
2102191 TATCTTTCAACAAAGGTTTTAAGTTAAATTTCAACTTCATAACGAAGGATATTTAAAGAAAACCC
1 TATCTTTCAACAAAGGTTTTAAGTCAAATTTCAACTTCATAACGAAAGATATTTAAAGAAAACCC
* * * * * * *
2102256 AAGATCGCCTGTGATTTAGCTTAACTCAGCGATAATGAGCTGCTTTCCAGCCCAGATTTCAACTT
66 AAGATCGACTATGATTTAGCTTAACTCAACGACAAGGAACTACTTTCCAGCCCAGATTTCAACTT
* * *** * *
2102321 AGCTTTCAATTTCACGGTGAAGGATATCAAGCTCAAGTT-GCTTAGGATCGACTTAACT-AGCGA
131 AGATTTCAACTTCACGACAAAGGATATCAAGCTCAAGTTATC-CAGGATCGACTTAACTCA-CGA
* *
2102384 TGAAGAAGTCATTCACAACATAGCTTAACTCAAAAATAAGGAGC
194 TGAAG-AGTCATCCACAACATAGATTAACTCAAAAATAAGGAGC
* * * *
2102428 TATCTTTTAACAAAGGTTTTCAAGTCAAATTTCAACTTCATGACGAAATATATTTGAAGAAAACC
1 TATCTTTCAACAAAGGTTTT-AAGTCAAATTTCAACTTCATAACGAAAGATATTTAAAGAAAACC
* * ** *
2102493 CAAGATCGACTATGATTTAGCTTAACTCAATGACGAGGAACTAC-TTCCTAGCCCAGATTTTGAG
65 CAAGATCGACTATGATTTAGCTTAACTCAACGACAAGGAACTACTTTCC-AGCCCAGATTTCAAC
* * **
2102557 TTAGATTTCAACTTCACTACAAATGATATCAAGCTTGAGTTATCCAGGATCGACTTAACTCACGA
129 TTAGATTTCAACTTCACGACAAAGGATATCAAGCTCAAGTTATCCAGGATCGACTTAACTCACGA
*
2102622 TGAAGAGTCATCCACAACCTAGATTAA
194 TGAAGAGTCATCCACAACATAGATTAA
2102649 TACAACAACA
Statistics
Matches: 185, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
237 42 0.23
238 141 0.76
239 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (236 bp):
TATCTTTCAACAAAGGTTTTAAGTCAAATTTCAACTTCATAACGAAAGATATTTAAAGAAAACCC
AAGATCGACTATGATTTAGCTTAACTCAACGACAAGGAACTACTTTCCAGCCCAGATTTCAACTT
AGATTTCAACTTCACGACAAAGGATATCAAGCTCAAGTTATCCAGGATCGACTTAACTCACGATG
AAGAGTCATCCACAACATAGATTAACTCAAAAATAAGGAGC
Found at i:2103076 original size:225 final size:224
Alignment explanation
Indices: 2102662--2103489 Score: 764
Period size: 225 Copynumber: 3.7 Consensus size: 224
2102652 AACAACAAAT
* * *
2102662 AGCTAGCTTT-TAGTTGAAGTTTTCATGCTAAGTTTCAACTTCACGACGAAGTATACTTGACC-C
1 AGCTAG-TTTCTAGTTGAAGTTTTCA-GCCAAGTTTCAACTTCACGACGAAGGATACTTGACCTG
* *
2102725 AAACACACATTCAGAACTGACTGCAATTT-GTCTTAACTCAGCGACGAGGAGCCATCTTCCAGTC
64 GAA-ACACATTCAGAACTGACTGCAATTTGGT-TTAACTCAGCGACGATGAGCCATCTTCCAGTC
* * * * * **
2102789 AGATCTTTTCAAAGTCAATTTCAACTCCATAAT-AGAGGATATTGTGTTTGAAAGTTAATTCAGA
127 AAATCTTTTCAAAGTCAACTTCAACTCCACAATGA-AGGATGTTGGGTTTGAAAGCCAATTCAGA
* * *
2102853 ATCAACTACAATCTAGCTTAACTCGGGGGCGAGG
191 ATCAACTACAATCTAACTTAACTCAGCGGCGAGG
* * *
2102887 AGCTAGTATT-TAGTTGAAGCTTTCAGGCCAAGTTTCAACTTCACGGCGAATGATACTTGACCTG
1 AGCTAGT-TTCTAGTTGAAGTTTTCA-GCCAAGTTTCAACTTCACGACGAAGGATACTTGACCTG
* * * * *
2102951 GAAATACATTTAGAATTGACTACAATTTGGTTTAACTCAGCGGA-GATGAGCCATCTTCTAGTCA
64 GAAACACATTCAGAACTGACTGCAATTTGGTTTAACTCAGC-GACGATGAGCCATCTTCCAGTCA
* * *
2103015 AATCTTTTCGAAGTCAACTTCAACTTCACAATGAAGGATGTTGGGTTCG-AAGACCAATTCAGAA
128 AATCTTTTCAAAGTCAACTTCAACTCCACAATGAAGGATGTTGGGTTTGAAAG-CCAATTCAGAA
* * * * *
2103079 TCATCTATAGTCTAACTTAACTCAGTGGCGATG
192 TCAACTACAATCTAACTTAACTCAGCGGCGAGG
*
2103112 AGCTAGTTTCTAGTT-AATTTTTTCTAGCCAAGTTTCAACTTCACGACGAAGGATACTTGA-CTC
1 AGCTAGTTTCTAGTTGAA-GTTTTC-AGCCAAGTTTCAACTTCACGACGAAGGATACTTGACCT-
* * * * ** * ** * *
2103175 GGAAGCACATTCAGAACAGATTGCAATTCGACTTAAGTCAGTAATGATAAGCCA-CATTCCAGTC
63 GGAAACACATTCAGAACTGACTGCAATTTGGTTTAACTCAGCGACGATGAGCCATC-TTCCAGTC
* * ** *
2103239 AAATCTTTTCAAAGCCAGCTTCAACTCCACGACGGAA-GATGTTGGGTTTGAAAGCCAATTCAAA
127 AAATCTTTTCAAAGTCAACTTCAACTCCAC-AATGAAGGATGTTGGGTTTGAAAGCCAATTCAGA
* * *
2103303 ATCGACTACAATCTAACTTAGCTCAGCGGTGAGG
191 ATCAACTACAATCTAACTTAACTCAGCGGCGAGG
* * ** * *
2103337 AGCTAGTTTCCAGTTGAAGTTTTCAAGCCAAGTTTCAATTTCACGGTGAAGGATACTTG-GCTCA
1 AGCTAGTTTCTAGTTGAAGTTTTC-AGCCAAGTTTCAACTTCACGACGAAGGATACTTGACCT-G
** * * * * * * * * * *
2103401 GATGCACATTCATAAATGACTGCAATTTAGCTTAACTCAACTG-TGAGGTGTCATCTTCCAGTTA
64 GAAACACATTCAGAACTGACTGCAATTTGGTTTAACTCAGC-GACGATGAGCCATCTTCCAGTCA
* * *
2103465 AGTATTTTCGAAGTCAACTTCAACT
128 AATCTTTTCAAAGTCAACTTCAACT
2103490 TCACGATGGA
Statistics
Matches: 490, Mismatches: 95, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
224 12 0.02
225 460 0.94
226 18 0.04
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (224 bp):
AGCTAGTTTCTAGTTGAAGTTTTCAGCCAAGTTTCAACTTCACGACGAAGGATACTTGACCTGGA
AACACATTCAGAACTGACTGCAATTTGGTTTAACTCAGCGACGATGAGCCATCTTCCAGTCAAAT
CTTTTCAAAGTCAACTTCAACTCCACAATGAAGGATGTTGGGTTTGAAAGCCAATTCAGAATCAA
CTACAATCTAACTTAACTCAGCGGCGAGG
Found at i:2104020 original size:12 final size:12
Alignment explanation
Indices: 2103984--2104020 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2103974 TCATTATTAC
2103984 ATATAT-TATTT
1 ATATATATATTT
*
2103995 AT-TATATATAT
1 ATATATATATTT
2104006 ATATATATATTT
1 ATATATATATTT
2104018 ATA
1 ATA
2104021 AATTATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 3 0.14
11 8 0.36
12 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATATATATTT
Found at i:2104027 original size:23 final size:23
Alignment explanation
Indices: 2103984--2104043 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
2103974 TCATTATTAC
*
2103984 ATATAT-TATTTAT-TATATATA
1 ATATATATATTTATAAATATATA
2104005 TATATATATATTTATAAAT-TATA
1 -ATATATATATTTATAAATATATA
2104028 ATA-ATTAGTATTTATA
1 ATATA-TA-TATTTATA
2104044 TTGATACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 1 0.03
22 11 0.33
23 19 0.58
24 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATATATATTTATAAATATATA
Found at i:2105496 original size:22 final size:22
Alignment explanation
Indices: 2105470--2105513 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2105460 TTACTTTTAT
2105470 TAAATTAACAAGTTTTTAGGTG
1 TAAATTAACAAGTTTTTAGGTG
2105492 TAAATTAACAAGTTTTTAGGTG
1 TAAATTAACAAGTTTTTAGGTG
2105514 ATACAGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (22 bp):
TAAATTAACAAGTTTTTAGGTG
Found at i:2111427 original size:15 final size:16
Alignment explanation
Indices: 2111407--2111436 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2111397 GAGAGAGGAA
2111407 TTTTAAAA-AAAATAT
1 TTTTAAAATAAAATAT
2111422 TTTTAAAATAAAATA
1 TTTTAAAATAAAATA
2111437 ATTTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTAAAATAAAATAT
Found at i:2111977 original size:13 final size:14
Alignment explanation
Indices: 2111959--2111989 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2111949 CAAGTTTTCA
2111959 TAATATT-TTTATT
1 TAATATTATTTATT
2111972 TAATATTATTTATT
1 TAATATTATTTATT
2111986 TAAT
1 TAAT
2111990 TATTCAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TAATATTATTTATT
Found at i:2115481 original size:17 final size:17
Alignment explanation
Indices: 2115451--2115486 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2115441 ACCCACCAAC
2115451 TTGATCCTTATCTTGTT
1 TTGATCCTTATCTTGTT
* *
2115468 TTGATTCTTTTCTTGTT
1 TTGATCCTTATCTTGTT
2115485 TT
1 TT
2115487 CTAAATGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.14, G:0.11, T:0.67
Consensus pattern (17 bp):
TTGATCCTTATCTTGTT
Found at i:2133846 original size:16 final size:17
Alignment explanation
Indices: 2133833--2133867 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2133823 ATTTATTTCA
2133833 TTTCATT-CTTATTTAT
1 TTTCATTACTTATTTAT
2133849 TTTCATTACTTATATTAT
1 TTTCATTACTTAT-TTAT
2133867 T
1 T
2133868 ATCCTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCATTACTTATTTAT
Found at i:2138962 original size:18 final size:18
Alignment explanation
Indices: 2138939--2138975 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2138929 GTAAGTTCCA
2138939 AAACGATCAA-AGAGTAAG
1 AAACGATCAAGAGA-TAAG
2138957 AAACGATCAAGAGATAAG
1 AAACGATCAAGAGATAAG
2138975 A
1 A
2138976 GATCGGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.57, C:0.11, G:0.22, T:0.11
Consensus pattern (18 bp):
AAACGATCAAGAGATAAG
Found at i:2140137 original size:22 final size:22
Alignment explanation
Indices: 2140106--2140148 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2140096 GTCGAGGGTT
2140106 ACATAGGTCCTTCGGG-ACATAA
1 ACATAGGTCCTT-GGGTACATAA
*
2140128 ACATATGTCCTTGGGTACATA
1 ACATAGGTCCTTGGGTACATA
2140149 CATGAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (22 bp):
ACATAGGTCCTTGGGTACATAA
Found at i:2143260 original size:16 final size:16
Alignment explanation
Indices: 2143239--2143284 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 16
2143229 ATATAATTGT
2143239 TCAAAGAGTATCGATA
1 TCAAAGAGTATCGATA
2143255 TCAAAGAGTAGTATCGATA
1 TC-AA-AG-AGTATCGATA
2143274 TCAAAGGAGTA
1 TCAAA-GAGTA
2143285 GTATCGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.08
17 7 0.27
18 5 0.19
19 12 0.46
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (16 bp):
TCAAAGAGTATCGATA
Found at i:2143269 original size:19 final size:20
Alignment explanation
Indices: 2143245--2143293 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
2143235 TTGTTCAAAG
2143245 AGTATCGATATCAAA-GAGT
1 AGTATCGATATCAAAGGAGT
2143264 AGTATCGATATCAAAGGAGT
1 AGTATCGATATCAAAGGAGT
2143284 AGTATCGATA
1 AGTATCGATA
2143294 CTGGGATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (20 bp):
AGTATCGATATCAAAGGAGT
Found at i:2144797 original size:20 final size:21
Alignment explanation
Indices: 2144751--2144810 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
2144741 AGTCGAGGGT
*
2144751 TACATAGGTCATTCAGGACATA
1 TACATAGGTCATTCGGGACA-A
2144773 TACATAGGTCATTCGGGAC-A
1 TACATAGGTCATTCGGGACAA
2144793 TACATAAGGTC-TTCGGGA
1 TACAT-AGGTCATTCGGGA
2144811 AAATTTCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 13 0.36
21 5 0.14
22 18 0.50
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (21 bp):
TACATAGGTCATTCGGGACAA
Found at i:2148972 original size:24 final size:25
Alignment explanation
Indices: 2148940--2148997 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
2148930 ACGACCGAAA
* * *
2148940 ATATGATAAAAGATAG-AAGAAAAC
1 ATATTATAAAAGACAGAAAAAAAAC
2148964 ATATTAT-AAAGACAGAAAAAAAAC
1 ATATTATAAAAGACAGAAAAAAAAC
2148988 ATATTATAAA
1 ATATTATAAA
2148998 CAAAAGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.24
24 20 0.69
25 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (25 bp):
ATATTATAAAAGACAGAAAAAAAAC
Found at i:2149009 original size:24 final size:22
Alignment explanation
Indices: 2148959--2149021 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
2148949 AAGATAGAAG
*
2148959 AAAACATATTATAAAGACAGAAAA
1 AAAACATATTAT-AA-ACAAAAAA
2148983 AAAACATATTATAAACAAAAGAGA
1 AAAACATATTATAAACAAAA-A-A
* *
2149007 AAAACGTATCATAAA
1 AAAACATATTATAAA
2149022 ATTAGAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 26 0.76
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.17
Consensus pattern (22 bp):
AAAACATATTATAAACAAAAAA
Done.