Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 21
Found at i:930895 original size:39 final size:40
Alignment explanation
Indices: 930816--930898 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
930806 TGGTCCTTTA
* * * *
930816 ATTTAAATTTTCTTTTAATTATTTTAATTTATTTTTATTT
1 ATTTAAATTTTATTTTAATTATTTCAATTTAATTTGATTT
*
930856 ATTTAATTTTTATTTT-ATTATTTCACA-TTAATTTGATTT
1 ATTTAAATTTTATTTTAATTATTTCA-ATTTAATTTGATTT
930895 ATTT
1 ATTT
930899 TTAGGTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 22 0.59
40 15 0.41
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (40 bp):
ATTTAAATTTTATTTTAATTATTTCAATTTAATTTGATTT
Found at i:931374 original size:18 final size:17
Alignment explanation
Indices: 931335--931377 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
931325 GTAGGATTTT
931335 TTATTTTATTTTCATTA
1 TTATTTTATTTTCATTA
*
931352 TTATTTTGATTTTTATT-
1 TTATTTT-ATTTTCATTA
931369 TCTATTTTA
1 T-TATTTTA
931378 CTAACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTATTTTCATTA
Found at i:933224 original size:452 final size:452
Alignment explanation
Indices: 932380--933285 Score: 1812
Period size: 452 Copynumber: 2.0 Consensus size: 452
932370 ACGGTTTGGA
932380 TCAATGCCTCAAAAATTTCATGCATCATGCATTTTTGCATATTTTTCTTTTCATTTTCATCCAAA
1 TCAATGCCTCAAAAATTTCATGCATCATGCATTTTTGCATATTTTTCTTTTCATTTTCATCCAAA
932445 TTAACTGACAGAAGATGTCTTATGAAAAAGGAAAAAACACTAGACACACTTATCAAGCACTGGAC
66 TTAACTGACAGAAGATGTCTTATGAAAAAGGAAAAAACACTAGACACACTTATCAAGCACTGGAC
932510 ACACCTCATCCTGACAATACCCATGCAAAGAAAAAGAAGATGGAAGAAAAGATTGCCCAACTTGA
131 ACACCTCATCCTGACAATACCCATGCAAAGAAAAAGAAGATGGAAGAAAAGATTGCCCAACTTGA
932575 GGAAAACATGCTAAGACTGCAAAAGGAGCTTGAGGAGAAAATAAGGTAGAATCAACAAAATATTG
196 GGAAAACATGCTAAGACTGCAAAAGGAGCTTGAGGAGAAAATAAGGTAGAATCAACAAAATATTG
932640 GATTCTATCACTAGGAACCAAGATTCATGGGTTGACCAGATTGTTGTCAGATTGTCTAGCCTGAA
261 GATTCTATCACTAGGAACCAAGATTCATGGGTTGACCAGATTGTTGTCAGATTGTCTAGCCTGAA
932705 TCAATTAAATTCTCATGGGGCAGGGTCATCCGAAGGGGTGGTTATACCACCTACTTCGCAGTTAG
326 TCAATTAAATTCTCATGGGGCAGGGTCATCCGAAGGGGTGGTTATACCACCTACTTCGCAGTTAG
932770 TTATTTCACCTGGAATCTTACAAGGACTTCAAGGGGACTCGTCTACTGCAAAAGCACAAGCT
391 TTATTTCACCTGGAATCTTACAAGGACTTCAAGGGGACTCGTCTACTGCAAAAGCACAAGCT
932832 TCAATGCCTCAAAAATTTCATGCATCATGCATTTTTGCATATTTTTCTTTTCATTTTCATCCAAA
1 TCAATGCCTCAAAAATTTCATGCATCATGCATTTTTGCATATTTTTCTTTTCATTTTCATCCAAA
932897 TTAACTGACAGAAGATGTCTTATGAAAAAGGAAAAAACACTAGACACACTTATCAAGCACTGGAC
66 TTAACTGACAGAAGATGTCTTATGAAAAAGGAAAAAACACTAGACACACTTATCAAGCACTGGAC
932962 ACACCTCATCCTGACAATACCCATGCAAAGAAAAAGAAGATGGAAGAAAAGATTGCCCAACTTGA
131 ACACCTCATCCTGACAATACCCATGCAAAGAAAAAGAAGATGGAAGAAAAGATTGCCCAACTTGA
933027 GGAAAACATGCTAAGACTGCAAAAGGAGCTTGAGGAGAAAATAAGGTAGAATCAACAAAATATTG
196 GGAAAACATGCTAAGACTGCAAAAGGAGCTTGAGGAGAAAATAAGGTAGAATCAACAAAATATTG
933092 GATTCTATCACTAGGAACCAAGATTCATGGGTTGACCAGATTGTTGTCAGATTGTCTAGCCTGAA
261 GATTCTATCACTAGGAACCAAGATTCATGGGTTGACCAGATTGTTGTCAGATTGTCTAGCCTGAA
933157 TCAATTAAATTCTCATGGGGCAGGGTCATCCGAAGGGGTGGTTATACCACCTACTTCGCAGTTAG
326 TCAATTAAATTCTCATGGGGCAGGGTCATCCGAAGGGGTGGTTATACCACCTACTTCGCAGTTAG
933222 TTATTTCACCTGGAATCTTACAAGGACTTCAAGGGGACTCGTCTACTGCAAAAGCACAAGCT
391 TTATTTCACCTGGAATCTTACAAGGACTTCAAGGGGACTCGTCTACTGCAAAAGCACAAGCT
933284 TC
1 TC
933286 TGTAACCAAC
Statistics
Matches: 454, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
452 454 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (452 bp):
TCAATGCCTCAAAAATTTCATGCATCATGCATTTTTGCATATTTTTCTTTTCATTTTCATCCAAA
TTAACTGACAGAAGATGTCTTATGAAAAAGGAAAAAACACTAGACACACTTATCAAGCACTGGAC
ACACCTCATCCTGACAATACCCATGCAAAGAAAAAGAAGATGGAAGAAAAGATTGCCCAACTTGA
GGAAAACATGCTAAGACTGCAAAAGGAGCTTGAGGAGAAAATAAGGTAGAATCAACAAAATATTG
GATTCTATCACTAGGAACCAAGATTCATGGGTTGACCAGATTGTTGTCAGATTGTCTAGCCTGAA
TCAATTAAATTCTCATGGGGCAGGGTCATCCGAAGGGGTGGTTATACCACCTACTTCGCAGTTAG
TTATTTCACCTGGAATCTTACAAGGACTTCAAGGGGACTCGTCTACTGCAAAAGCACAAGCT
Found at i:938516 original size:7 final size:6
Alignment explanation
Indices: 938507--939014 Score: 92
Period size: 7 Copynumber: 77.0 Consensus size: 6
938497 TAATATACAC
*
938507 TATATT CTATATAT TAT-TT TATATT GTATATT ATAGTATT TATA-T AATATGT
1 TATATT -TATAT-T TATATT TATATT -TATATT -TA-TATT TATATT TATAT-T
* * * * * *
938559 GATATA TATTATA TAGTATT ATATATAT TATA-A TATATAA TATAATA
1 TATATT TA-TATT TA-TATT -TATAT-T TATATT TATAT-T TAT-ATT
* * *
938606 TAGTATT CTATA-T TATATAT TATATT ATAGTATA TATCTAT TATATA
1 TA-TATT -TATATT TATAT-T TATATT -TA-TATT TATAT-T TATATT
* * *
938653 TATATA TATATAT TATATAT TAT-TA TATATT ATAGTATT ATATTATA
1 TATATT TATAT-T TATAT-T TATATT TATATT -TA-TATT -TA-TATT
*
938700 TATATGT TATAATAT TATA-T TATATT ATGTATAT TATATAT TATATAT
1 TATAT-T TAT-AT-T TATATT TATATT -TATAT-T TATAT-T TATAT-T
* * * *
938748 TATAGTG TATA-T TATAGT TATATT ATATATAT TTTA-T TACAATTAT
1 TATA-TT TATATT TATATT TATATT -TATAT-T TATATT TA-TA-T-T
* * * * * *
938794 TATAGT TATGTT ATATATA TATATA TATATA TATAGTG TATATT TATA-T
1 TATATT TATATT -TATATT TATATT TATATT TATA-TT TATATT TATATT
* *
938843 TATATAG TATATT TATTATT ATATATT ATATAGT TATA-- TATATT ATATATTAT
1 TATAT-T TATATT TA-TATT -TATATT -TATATT TATATT TATATT -TATA-T-T
* * *
938896 TATATT TAGTATT ATATATT ATATAGT TACATTT TATATAT TATATAC
1 TATATT TA-TATT -TATATT -TATATT TATA-TT TATAT-T TATAT-T
938944 TAGTA-T TATA-T TATAATAT TATTATGT TATATTAT TATTATT TAT-TT
1 TA-TATT TATATT TAT-AT-T TA-TAT-T TATA-T-T TA-TATT TATATT
*
938991 TATATAT TATA-T TATATT TTTATT
1 TATAT-T TATATT TATATT TATATT
939015 AATTTTATTT
Statistics
Matches: 391, Mismatches: 49, Indels: 123
0.69 0.09 0.22
Matches are distributed among these distances:
4 4 0.01
5 51 0.13
6 84 0.21
7 185 0.47
8 60 0.15
9 7 0.02
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (6 bp):
TATATT
Found at i:938541 original size:5 final size:5
Alignment explanation
Indices: 938507--939008 Score: 246
Period size: 5 Copynumber: 100.2 Consensus size: 5
938497 TAATATACAC
* * * *
938507 TATAT TCTA- TATAT TATTT TATATT GTATAT TATAG TAT-T TATAT AATAT
1 TATAT TATAT TATAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT
* *
938557 GTGATA- TATAT TATA- TAGTAT TATA- TATAT TATAA TATAT AATAT
1 -T-ATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
* * * *
938602 AATA- TAGTAT TCTA- TAT-T ATATAT TATAT TATAG TATAT ATCTAT
1 TATAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT -TATAT
938647 TATA- TATA- TATAT ATATAT TATA- TATTAT TATA- TAT-T ATAGTAT
1 TATAT TATAT TATAT -TATAT TATAT TA-TAT TATAT TATAT -TA-TAT
* *
938691 TATAT TATA- TATAT GT-TAT AATAT TATAT TATAT TAT-G TATAT TATA-
1 TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
938738 TAT-T ATATAT TATAGT GTATAT TATAGT TATAT TATA- TATAT TTTAT
1 TATAT -TATAT TATA-T -TATAT TATA-T TATAT TATAT TATAT TATAT
* * *
938785 TACAA T-TAT TATAGT TATGT TATA- TATA- TATAT ATATAT ATATAGT
1 TATAT TATAT TATA-T TATAT TATAT TATAT TATAT -TATAT -TATA-T
*
938831 GTATATT TATAT TATAT AGTATAT T-TAT TAT-T ATATAT TATA- TA-GT
1 -TATA-T TATAT TATAT --TATAT TATAT TATAT -TATAT TATAT TATAT
938877 TATA- TATAT TATA- TATTAT TATATT TAGTAT TATA- TAT-T ATATAGT
1 TATAT TATAT TATAT TA-TAT TATA-T TA-TAT TATAT TATAT -TATA-T
* * * *
938923 TACAT TTTA- TATAT TATAT ACTAGTAT TATAT TATAA TATTAT TATGT
1 TATAT TATAT TATAT TATAT --TA-TAT TATAT TATAT TA-TAT TATAT
938971 TATAT TATTAT TAT-T TAT-T T-TA- TATAT TATAT TATAT T
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT T
939009 TTTATTAATT
Statistics
Matches: 390, Mismatches: 42, Indels: 130
0.69 0.07 0.23
Matches are distributed among these distances:
3 2 0.01
4 84 0.22
5 203 0.52
6 70 0.18
7 28 0.07
8 3 0.01
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:938556 original size:19 final size:18
Alignment explanation
Indices: 938534--939022 Score: 196
Period size: 19 Copynumber: 26.4 Consensus size: 18
938524 TTTATATTGT
938534 ATATTATAGTATTTATATA
1 ATATTATA-TATTTATATA
938553 ATATGTGATATATATTATATA
1 ATAT-T-ATATAT-TTATATA
* *
938574 GTATTATATATAT-TATA
1 ATATTATATATTTATATA
*
938591 ATA-TATA-ATATAATATA
1 ATATTATATAT-TTATATA
* * *
938608 GTATTCTATATTATATATT
1 ATATTATATATT-TATATA
938627 ATATTATAGTA--TATAT-
1 ATATTATA-TATTTATATA
* *
938643 CTATTATATATATATATA
1 ATATTATATATTTATATA
938661 TATATTATATA-TTAT-TA
1 -ATATTATATATTTATATA
938678 TATATTATAGTA-TTATAT-
1 -ATATTATA-TATTTATATA
*
938696 -TA-TATATATGT-TATA
1 ATATTATATATTTATATA
*
938711 ATATTATATTATATTATGT-
1 ATATTATA-TAT-TTATATA
*
938730 ATATTATATATTATATATT
1 ATATTATATATT-TATATA
* * *
938749 ATAGTGTATA-TTATAGTT
1 ATATTATATATTTATA-TA
*
938767 ATATTATATATATTTTATTA
1 ATATTATATAT-TTATA-TA
* * *
938787 CA-ATTATTATAGTTATGTT
1 -ATATTA-TATATTTATATA
*
938806 ATATATATATATATATATA
1 ATAT-TATATATTTATATA
* * *
938825 TATAGTGTATATTTATATT
1 -ATATTATATATTTATATA
938844 ATA-TAGTATATTTATTATTA
1 ATATTA-TATATTTA-TA-TA
*
938864 TATATTATATAGTTATAT-
1 -ATATTATATATTTATATA
938882 ATATTATATATTATTATATTTA
1 ATATTATATA-T-TTATA--TA
*
938904 GTATTATATATTATATAGTTA
1 ATATTATATATT-TATA--TA
*
938925 CATTTTATATA-TTATATA
1 -ATATTATATATTTATATA
* * *
938943 CTAGTAT-TATAT-TATA
1 ATATTATATATTTATATA
938959 ATATTAT-TATGTTATATTA
1 ATATTATATAT-TTATA-TA
* *
938978 TTATTATTTATTTTATATA
1 ATATTATATA-TTTATATA
*
938997 TTATATTATATTTTTAT-TA
1 --ATATTATATATTTATATA
*
939016 ATTTTAT
1 ATATTAT
939023 TTTCAGATTT
Statistics
Matches: 361, Mismatches: 57, Indels: 106
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.01
15 9 0.02
16 29 0.08
17 65 0.18
18 51 0.14
19 91 0.25
20 46 0.13
21 46 0.13
22 19 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (18 bp):
ATATTATATATTTATATA
Found at i:938936 original size:2 final size:2
Alignment explanation
Indices: 938533--938920 Score: 204
Period size: 2 Copynumber: 211.0 Consensus size: 2
938523 TTTTATATTG
* *
938533 TA TA T- TA TA GTA TT TA TA TA -A TA TG TGA TA TA TA T- TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
938574 GTA T- TA TA TA TA T- TA TA -A TA TA TA -A TA TA -A TA TA GTA T-
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
938612 TC TA TA T- TA TA TA T- TA TA T- TA TA GTA TA TA TC TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
938651 TA TA TA TA TA TA TA T- TA TA TA T- TA T- TA TA TA T- TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
938690 T- TA TA T- TA TA TA TA TG T- TA TA -A TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
938725 TA TG TA TA T- TA TA TA T- TA TA TA T- TA TA GTG TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
938764 GT- TA TA T- TA TA TA TA T- TT TA T- TA CA -A T- TA T- TA TA GT-
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
938800 TA TG T- TA TA TA TA TA TA TA TA TA TA TA TA GTG TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
938842 T- TA TA TA GTA TA TT TA T- TA T- TA TA TA T- TA TA TA GT- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
938881 TA TA T- TA TA TA T- TA T- TA TA TT TA GTA T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
938919 TA
1 TA
938921 GTTACATTTT
Statistics
Matches: 303, Mismatches: 23, Indels: 120
0.68 0.05 0.27
Matches are distributed among these distances:
1 47 0.16
2 236 0.78
3 20 0.07
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (2 bp):
TA
Found at i:939025 original size:15 final size:16
Alignment explanation
Indices: 938614--939025 Score: 113
Period size: 16 Copynumber: 24.8 Consensus size: 16
938604 TATAGTATTC
*
938614 TATATTATATATTATAT
1 TATATTATAT-TTTTAT
* * *
938631 TATAGTATATATCTAT
1 TATATTATATTTTTAT
* *
938647 TATA-TATATATATA-
1 TATATTATATTTTTAT
938661 TATATTATATATTATTA-
1 TATATTATAT-TT-TTAT
*
938678 TATATTATAGTATTATAT
1 TATATTATA-T-TTTTAT
*
938696 TATA-TATA-TGTTAT
1 TATATTATATTTTTAT
*
938710 AATATTATATTATATTAT
1 TATATTATATT-T-TTAT
*
938728 GTATATTATA-TATTA-
1 -TATATTATATTTTTAT
* *
938743 TATATTATAGTGTATAT
1 TATATTATA-TTTTTAT
*
938760 TATAGTTATA-TTATA-
1 TATA-TTATATTTTTAT
* *
938775 TATATTTTATTACAATTAT
1 TATATTATATT---TTTAT
* *
938794 TATAGT-TA-TGTTA-
1 TATATTATATTTTTAT
* *
938807 TATATATATATATATAT
1 TATAT-TATATTTTTAT
*
938824 ATATAGTGTATATTTATAT
1 -TATA-T-TATATTTTTAT
938843 TATATAGTATATTTATTATT
1 TATAT--TATATTT-TTA-T
**
938863 ATATATTATATAGTTAT
1 -TATATTATATTTTTAT
*
938880 ATATATTATA-TATTAT
1 -TATATTATATTTTTAT
*
938896 TATATTTAGTATTATATAT
1 TATA-TTA-TATT-TTTAT
*
938915 TATA-TAGTTACATTTTA-
1 TATATTA--TA-TTTTTAT
**
938932 TATATTATATACTAGTAT
1 TATATTATAT--TTTTAT
* *
938950 TATATTATAATATTAT
1 TATATTATATTTTTAT
* *
938966 TATGTTATATTATTAT
1 TATATTATATTTTTAT
938982 TAT-TTAT-TTTATATAT
1 TATATTATATTT-T-TAT
938998 TATATTATATTTTTAT
1 TATATTATATTTTTAT
*
939014 TA-ATTTTATTTT
1 TATATTATATTTT
939026 CAGATTTCTT
Statistics
Matches: 305, Mismatches: 47, Indels: 88
0.69 0.11 0.20
Matches are distributed among these distances:
13 4 0.01
14 30 0.10
15 43 0.14
16 63 0.21
17 59 0.19
18 61 0.20
19 39 0.13
20 1 0.00
21 5 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (16 bp):
TATATTATATTTTTAT
Found at i:940190 original size:11 final size:12
Alignment explanation
Indices: 940166--940219 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 12
940156 ATTTTTTTCT
*
940166 TTTAATTCTTTTA
1 TTTAATT-TATTA
940179 TTTAATTT-TTA
1 TTTAATTTATTA
940190 TTT-ATTTATT-
1 TTTAATTTATTA
*
940200 TTTATTTTATTA
1 TTTAATTTATTA
940212 TTTCAATT
1 TTT-AATT
940220 AATTTGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 7 0.20
11 14 0.40
12 4 0.11
13 10 0.29
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTAATTTATTA
Found at i:940190 original size:33 final size:34
Alignment explanation
Indices: 940153--940233 Score: 85
Period size: 33 Copynumber: 2.3 Consensus size: 34
940143 GTGCTTTTAA
* *
940153 TTTATTTTTTTCTTTTAATTCTT-TTATTT-AATT
1 TTTATTTATTTATTTTAATT-TTATTATTTCAATT
*
940186 TTTATTTATTTATTTTTATTTTATTATTTCAATT
1 TTTATTTATTTATTTTAATTTTATTATTTCAATT
940220 AATTTGATTTATTT
1 --TTT-ATTTATTT
940234 TTAGGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.05
33 23 0.57
34 4 0.10
36 3 0.08
37 8 0.20
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (34 bp):
TTTATTTATTTATTTTAATTTTATTATTTCAATT
Found at i:940208 original size:15 final size:15
Alignment explanation
Indices: 940174--940214 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
940164 CTTTTAATTC
940174 TTTTATTTAATTTTTA
1 TTTTATTT-ATTTTTA
940190 -TTTATTTATTTTTA
1 TTTTATTTATTTTTA
940204 TTTTA-TTATTT
1 TTTTATTTATTT
940215 CAATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:940723 original size:17 final size:17
Alignment explanation
Indices: 940679--940725 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
940669 GCTTGGTTGC
*
940679 TTGATTCTCACTAATGG
1 TTGATTCTCATTAATGG
*
940696 TTGATTCTCATTGATGG
1 TTGATTCTCATTAATGG
940713 TTGATTCTCATTA
1 TTGATTCTCATTA
940726 GGCCAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (17 bp):
TTGATTCTCATTAATGG
Found at i:940817 original size:11 final size:11
Alignment explanation
Indices: 940801--940826 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
940791 AAACACAATT
940801 AAAAACAACTC
1 AAAAACAACTC
940812 AAAAACAACTC
1 AAAAACAACTC
940823 AAAA
1 AAAA
940827 GAATTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAACAACTC
Found at i:941668 original size:25 final size:24
Alignment explanation
Indices: 941640--941696 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
941630 TTGTTCGGAA
941640 TTTTTTTTTCACTCTTTGC-TTTTTC
1 TTTTTTTTT-ACT-TTTGCTTTTTTC
* *
941665 TTTTGTTGTTACTTTTTCTTTTTTC
1 TTTT-TTTTTACTTTTGCTTTTTTC
941690 TTTTTTT
1 TTTTTTT
941697 CAATCATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.22
25 17 0.63
26 4 0.15
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTACTTTTGCTTTTTTC
Found at i:942949 original size:16 final size:17
Alignment explanation
Indices: 942911--942951 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
942901 ACACTGTTTA
942911 TATTATCAATTTTGATAT
1 TATTAT-AATTTTGATAT
*
942929 T-TTATAATTTT-ATTT
1 TATTATAATTTTGATAT
942944 TATTATAA
1 TATTATAA
942952 AATATTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 4 0.19
18 1 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTATAATTTTGATAT
Found at i:943438 original size:28 final size:28
Alignment explanation
Indices: 943392--943465 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
943382 TATCTTTTTA
* *
943392 GTCAAAATAGTTACCTAAAGTATTATAT
1 GTCAAAATAGGTACCTAAAGTATTATAC
* *
943420 GTCAAAATAGGTACTTAAAGTATTTTAC
1 GTCAAAATAGGTACCTAAAGTATTATAC
943448 GTCAAAATAGGTACCTAA
1 GTCAAAATAGGTACCTAA
943466 GGCATTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (28 bp):
GTCAAAATAGGTACCTAAAGTATTATAC
Found at i:943590 original size:28 final size:28
Alignment explanation
Indices: 943552--943623 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
943542 TGAAAAAATT
* ** *
943552 AAAATACTTTAAGTATTTATTTTGACCA
1 AAAATATTTTAAGTACCTATTTTGACAA
*
943580 AAAATATTTTAGGTACCTATTTTGACAA
1 AAAATATTTTAAGTACCTATTTTGACAA
943608 AAAATATTTTAAGTAC
1 AAAATATTTTAAGTAC
943624 TGAAATGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (28 bp):
AAAATATTTTAAGTACCTATTTTGACAA
Found at i:945946 original size:24 final size:24
Alignment explanation
Indices: 945914--945962 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
945904 ATCAATATGG
945914 ATGTAAAATAAGGACATAATTAAA
1 ATGTAAAATAAGGACATAATTAAA
945938 ATGTAAAATAAGGACATAATTAAA
1 ATGTAAAATAAGGACATAATTAAA
945962 A
1 A
945963 CATAATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (24 bp):
ATGTAAAATAAGGACATAATTAAA
Found at i:946121 original size:39 final size:39
Alignment explanation
Indices: 946067--946145 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
946057 TCTTCACTTA
*
946067 ATAAGGATATAAAAATTCATTATTACATGACCCCTGTAT
1 ATAAGGATATAAAAATTCATTATTACATGACCCCTATAT
*
946106 ATAAGGATATAAAAATTCATTATTACTTGACCCCTATAT
1 ATAAGGATATAAAAATTCATTATTACATGACCCCTATAT
946145 A
1 A
946146 AAATTTGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (39 bp):
ATAAGGATATAAAAATTCATTATTACATGACCCCTATAT
Found at i:948436 original size:42 final size:42
Alignment explanation
Indices: 948388--948473 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
948378 TATTTGTTGA
*
948388 GATGCATAACCTATCCGATGTTATTAAGTCATCAAGAAATGT
1 GATGCATAACATATCCGATGTTATTAAGTCATCAAGAAATGT
*
948430 GATGCATAACATATCCGATGTTCTTAAGTCATCAAGAAATGT
1 GATGCATAACATATCCGATGTTATTAAGTCATCAAGAAATGT
948472 GA
1 GA
948474 CCGGAAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (42 bp):
GATGCATAACATATCCGATGTTATTAAGTCATCAAGAAATGT
Found at i:951219 original size:908 final size:912
Alignment explanation
Indices: 947652--951348 Score: 6670
Period size: 913 Copynumber: 4.0 Consensus size: 912
947642 AAATGAAGTC
*
947652 GCGAGAAGTACATGATGATTCCAGCGAAGATAAAGAAACCAATGAACCAATTTTGGATGACAATG
1 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
*
947717 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAGCACCGTATAATATA
66 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
947782 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATA-TTTTAATATAAAAAATAATT
131 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
*
947846 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGTAGCTTGAAAGGGAAA
196 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
*
947911 GCAATTGACAGAGGAAGAGTGGCCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
261 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
947976 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
326 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
*
948041 TATGTGTTTATTTTATTCTAA-TTCTTTTTAAATTGTAGAGAACATAAGCAAAAAAAATTTCACG
391 TATGTGTTTATTTTATTCTAATTTTTTTTTAAATTGTAGAGAACATAAG-AAAAAAAATTTCACG
948105 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
455 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
*
948170 TGTAAATATTATGTTCAATAAGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
520 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
948235 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
585 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
*
948300 GCAGTACCAATTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
650 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
948365 GTTGTTATTGAGTTATTTGTTGAGATGCATAACCTATCCGATGTTATTAAGTCATCAAGAAATGT
715 GTTGTTATTGAGTTATTTGTTGAGATGCAT-A---A--C------A-T-A-TC--C---------
948430 GATGCATAACATATCCGATGTTCTTAAGTCATCAAGAAATGTGACCGGAAATTCATCTCAAATGG
754 GATG-------T-T-C------C-TAAGTCATCAAGAAATGTGACCGGAAATTCATCTCAAATGG
*
948495 CTTTCGGAAGTGAGGTTAAGGACCCAACATATAGAGCGATAAACAATTTTATGGCGCTATTGGAA
803 CTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAAACAATTTTATGGCGCTATTGGAA
948560 AGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTATGAG
868 AGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTATGAG
948605 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
1 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
948670 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
66 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
948735 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
131 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
948800 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
196 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
948865 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
261 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
948930 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
326 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
* * *
948995 TATGTGTTTATTTTATTCTATTTTTTTTTTAAATTGTAGAGAACATAAATAAAAAAAAATTCACG
391 TATGTGTTTATTTTATTCTAATTTTTTTTTAAATTGTAGAGAACAT-AAGAAAAAAAATTTCACG
*
949060 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCAAAGTTGTTTTTCATTCTGAAAGACT
455 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
949125 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
520 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
949190 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
585 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
949255 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
650 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
*
949320 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCTTAAGTCATCAAGAAATGT
715 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTCATCAAGAAATGT
949385 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
780 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
949450 ACAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTAT
845 ACAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTAT
949515 GAG
910 GAG
949518 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
1 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
949583 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
66 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
949648 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
131 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
949713 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
196 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
949778 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
261 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
949843 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
326 CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
* *
949908 TATGTGTTTATTTTATTCTATTTTTTTTTTTAAATTGTAGAGAACATAAGCAAAAAAATTTCACG
391 TATGTGTTTATTTTATTCTA-ATTTTTTTTTAAATTGTAGAGAACATAAGAAAAAAAATTTCACG
*
949973 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACA
455 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
950038 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
520 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
*
950103 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATATT
585 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
*
950168 GCAGTACCAGTTGAAGAATATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
650 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
950233 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTCATCAAGAAATGT
715 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTCATCAAGAAATGT
950298 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
780 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
* *
950363 ACAATTTTTTGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGAGACATCCGCACCAGCATAGTAT
845 ACAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTAT
950428 GAG
910 GAG
950431 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
1 GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
950496 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
66 ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
950561 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
131 TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
950626 CTCAACTGTATATTTGTATGAG-ATTGGTTATAGAGG-AGCAATTGAAGGAGCTTGAAAGGGAAA
196 CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
*
950689 GCAATTGACAGAGGAAGAGTGA-CGAAATATTTTTCATCCAAATCAAGGTGTTAAGAAGATA-TA
261 GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTT-AGAAGATACGA
950752 TCAAGTAAGTGTGAAGAATTTTTA-TTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATAT
325 TCAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATAT
950816 GTATGTGTTTATTTTATTCTAATTTTTTTTTAAATTGTAGAGAACATAAGAAAAAAAATTTCACG
390 GTATGTGTTTATTTTATTCTAATTTTTTTTTAAATTGTAGAGAACATAAGAAAAAAAATTTCACG
950881 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
455 ATTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACT
* * *
950946 TATACATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATACGATAGAAAGAAAAA
520 TGTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAA
951011 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
585 TTTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTT
* *
951076 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACACAGACAATAAATATT
650 GCAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATT
*
951141 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTTATCAAGAAATGT
715 GTTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTCATCAAGAAATGT
951206 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
780 GACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAA
* *
951271 ACAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCAACAACATAGTAT
845 ACAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTAT
951336 GAG
910 GAG
951339 GCGAGAAGTA
1 GCGAGAAGTA
951349 TGCATCATTC
Statistics
Matches: 2700, Mismatches: 39, Indels: 55
0.97 0.01 0.02
Matches are distributed among these distances:
908 497 0.18
909 61 0.02
910 55 0.02
911 57 0.02
912 14 0.01
913 1243 0.46
914 26 0.01
920 1 0.00
921 1 0.00
922 1 0.00
929 4 0.00
938 1 0.00
940 2 0.00
941 1 0.00
942 1 0.00
943 1 0.00
949 1 0.00
951 1 0.00
953 172 0.06
954 234 0.09
955 324 0.12
956 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (912 bp):
GCGAGAAGTACATGATGATTCCAGCGAAGATGAAGAAACCAATGAACCAATTTTGGATGACAATG
ACAATTTTTGTGGTGGTAGTGTACCTGATTTGGCCATAGATGAAGTTTCAACACCGTATAATATA
TTTGATTTTATAAGATTTGATTCCTGCAGAATTGATATAATATATTTTTAATATAAAAAATAATT
CTCAACTGTATATTTGTATGAGAATTGGTTATAGAGGAAGCAATTGAAGGAGCTTGAAAGGGAAA
GCAATTGACAGAGGAAGAGTGACCGAAATATTTTTCATCCAAATCAAGGTGTTAGAAGATACGAT
CAAGTAAGTGTGAAGAATTTTTATTTGAAGTATTTTACGATCAGTAATTTTTATCATAGTATATG
TATGTGTTTATTTTATTCTAATTTTTTTTTAAATTGTAGAGAACATAAGAAAAAAAATTTCACGA
TTGTCCATTATAATGGATATATTATAAAAAATGACATCGAAGTTGTTTTTCATTCTGAAAGACTT
GTAAATATTATGTTCAATAGGAACATCACATTTGTAGAAATGAAGCATATGATAGAAAGAAAAAT
TTGAGCTATCATTGATGGTTTGAGGTGCATATTTATGGTATGTCCCAATCTAGTTAGATATGTTG
CAGTACCAGTTGAAGAAGATGATGATTTTGGAACAATGATTGGAATACAAAGTCAATAAATATTG
TTGTTATTGAGTTATTTGTTGAGATGCATAACATATCCGATGTTCCTAAGTCATCAAGAAATGTG
ACCGGAAATTCATCTCAAATGGCTTTCGGAAGTGAGGTTAAGGACCCAACATACAGAGCGATAAA
CAATTTTATGGCGCTATTGGAAAGTGAAAATGAAGTCGGTGGGACATCCGCACCAGCATAGTATG
AG
Found at i:965207 original size:30 final size:31
Alignment explanation
Indices: 965173--965237 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
965163 TCCTTATACT
* *
965173 TATATTCATTTCTT-AAATTAATTTTATAA-A
1 TATATTAATTTCTTAAAATT-ATTTTAAAAGA
*
965203 TATA-TAATTTTTTAAAATTATTTTAAAAGA
1 TATATTAATTTCTTAAAATTATTTTAAAAGA
965233 TATAT
1 TATAT
965238 ATTTTACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (31 bp):
TATATTAATTTCTTAAAATTATTTTAAAAGA
Found at i:965212 original size:16 final size:15
Alignment explanation
Indices: 965187--965253 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 15
965177 TTCATTTCTT
965187 AAAT-TAATTTTATA
1 AAATATAATTTTATA
*
965201 AATATATAATTTTTTA
1 AA-ATATAATTTTATA
965217 AAAT-T-ATTTTA-A
1 AAATATAATTTTATA
965229 AAGATATATATTTTACATA
1 AA-ATATA-ATTTT--ATA
965248 AAATAT
1 AAATAT
965254 GTTCGGTCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
12 3 0.07
13 7 0.17
14 4 0.10
15 4 0.10
16 16 0.38
18 5 0.12
19 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AAATATAATTTTATA
Found at i:970119 original size:73 final size:73
Alignment explanation
Indices: 970035--970172 Score: 276
Period size: 73 Copynumber: 1.9 Consensus size: 73
970025 TTATGTGTAC
970035 AGGCATATGCATGTTATACATGTATATCGTAGTTCTTTGTCCTTGATTTTGGTCATCTGATTTCA
1 AGGCATATGCATGTTATACATGTATATCGTAGTTCTTTGTCCTTGATTTTGGTCATCTGATTTCA
970100 CTTATGTG
66 CTTATGTG
970108 AGGCATATGCATGTTATACATGTATATCGTAGTTCTTTGTCCTTGATTTTGGTCATCTGATTTCA
1 AGGCATATGCATGTTATACATGTATATCGTAGTTCTTTGTCCTTGATTTTGGTCATCTGATTTCA
970173 ATAATCATCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (73 bp):
AGGCATATGCATGTTATACATGTATATCGTAGTTCTTTGTCCTTGATTTTGGTCATCTGATTTCA
CTTATGTG
Found at i:974687 original size:125 final size:124
Alignment explanation
Indices: 974466--974715 Score: 473
Period size: 125 Copynumber: 2.0 Consensus size: 124
974456 TGGGAGGTTG
974466 ATAAATTAGCTAAGGAGGGGATCGGTTGATTGTAAGGGTATTTTTCTAGAGAGCTTTAATGGTTT
1 ATAAATTAGCTAAGGAGGGGATCGGTTGATTGTAAGGGTATTTTTCTAGAGAGCTTTAATGGTTT
974531 TTGTTTAATCTGCTATCCTAAGTGTATTGGTGTAATTTAATGTACTAGTTTTATATATA
66 TTGTTTAATCTGCTATCCTAAGTGTATTGGTGTAATTTAATGTACTAGTTTTATATATA
974590 ATAAATTAGCTAAGGAGGGGATCGGTTGATTGTAAGGGGTATTTTTCTAGAGAGCTTTAATGGTT
1 ATAAATTAGCTAAGGAGGGGATCGGTTGATTGTAA-GGGTATTTTTCTAGAGAGCTTTAATGGTT
* *
974655 TTTGTTTAATCTGCTGTCCTAAGTGTATTGGTGTAATTTAATGTACTAGTTTTCTATATA
65 TTTGTTTAATCTGCTATCCTAAGTGTATTGGTGTAATTTAATGTACTAGTTTTATATATA
974715 A
1 A
974716 AATTGAGGCA
Statistics
Matches: 123, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
124 35 0.28
125 88 0.72
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (124 bp):
ATAAATTAGCTAAGGAGGGGATCGGTTGATTGTAAGGGTATTTTTCTAGAGAGCTTTAATGGTTT
TTGTTTAATCTGCTATCCTAAGTGTATTGGTGTAATTTAATGTACTAGTTTTATATATA
Found at i:976900 original size:29 final size:29
Alignment explanation
Indices: 976866--976923 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
976856 TTGATCCAAT
*
976866 GTGCAATGT-AATATGAGAACTTTGATTTG
1 GTGCAATGTGAACATGA-AACTTTGATTTG
976895 GTGCAATGTGAACATGAAACTTTGATTTG
1 GTGCAATGTGAACATGAAACTTTGATTTG
976924 TACACTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (29 bp):
GTGCAATGTGAACATGAAACTTTGATTTG
Found at i:997250 original size:15 final size:15
Alignment explanation
Indices: 997232--997262 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
997222 AAATTCTAAA
997232 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
997247 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
997262 T
1 T
997263 CTATCTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:998784 original size:31 final size:31
Alignment explanation
Indices: 998749--998808 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
998739 AAACAGTTCA
* **
998749 GATGCATAATTGTTACTATCCCCTAATGCTG
1 GATGCATAACTGAAACTATCCCCTAATGCTG
998780 GATGCATAACTGAAACTATCCCCTAATGC
1 GATGCATAACTGAAACTATCCCCTAATGC
998809 ATAAAGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (31 bp):
GATGCATAACTGAAACTATCCCCTAATGCTG
Found at i:1003670 original size:2 final size:2
Alignment explanation
Indices: 1003663--1003711 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1003653 TTTACATTCT
1003663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1003705 TA TA TA T
1 TA TA TA T
1003712 TAATCATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1004105 original size:2 final size:2
Alignment explanation
Indices: 1004098--1004128 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1004088 TTTACATTCT
1004098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1004129 TAATGACCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1004118 original size:435 final size:434
Alignment explanation
Indices: 1003309--1004128 Score: 1631
Period size: 435 Copynumber: 1.9 Consensus size: 434
1003299 AATAGGATCG
1003309 ATTGGCATCTAAGATCTTATGAAATTATGGAGAAAACAACAAGCGGAAATGAGTCTACATTGTGT
1 ATTGGCATCTAAGATCTTATGAAATTATGGAGAAAACAACAAGCGGAAATGAGTCTACATTGTGT
1003374 TTTCACTGGATAAAATGATTTTTCCCTTAAATTGCTCATCTCGCTTTCAAAATGCCAAAGCATCT
66 TTTCACTGGATAAAATGATTTTTCCCTTAAATTGCTCATCTCGCTTTCAAAATGCCAAAGCATCT
1003439 CTCAATGCAATTCCTAGCTTGAGAATGTTTCATGTTGAAATATTCTTGAGGGGTGGTAGGTTGGT
131 CTCAATGCAATTCCTAGCTTGAGAATGTTTCATGTTGAAATATTCTTGAGGGGTGGTAGGTTGGT
1003504 GTCATTCTCTCCAATCATTCAAGTGGTATCTTTGACCTCTATATGGTGAAAGAAACCCCTCTCTA
196 GTCATTCTCTCCAATCATTCAAGTGGTATCTTTGACCTCTATATGGTGAAAGAAACCCCTCTCTA
1003569 TTCGTGTATCCAACATCACATAAGTAGTAACACCTTGTATTATTTTAATTTAAAAGTAAATTAAT
261 TTCGTGTATCCAACATCACATAAGTAGTAACACCTTGTATTATTTTAATTTAAAAGTAAATTAAT
1003634 ATACAAAACTTTTAAGAATTTTACATTCTTATATATATATATATATATATATATATATATATATA
326 ATACAAAACTTTTAAGAATTTTACATTCTTATATATATATATATATATATATATATATATATATA
1003699 TATATATATATATTAATCATTTCTACCTCATTAATCTCTTCAAC
391 TATATATATATATTAATCATTTCTACCTCATTAATCTCTTCAAC
1003743 ATTGGCATCTAAGATCTTATGAAATTATGGAGAAAACAACAAGCGGAAATGAGTCTACATTGTGT
1 ATTGGCATCTAAGATCTTATGAAATTATGGAGAAAACAACAAGCGGAAATGAGTCTACATTGTGT
1003808 TTTCACTGGATAAAATGATTTTTCCCTTAAAATTGCTCATCTCGCTTTCAAAATGCCAAAGCATC
66 TTTCACTGGATAAAATGATTTTTCCCTT-AAATTGCTCATCTCGCTTTCAAAATGCCAAAGCATC
1003873 TCTCAATGCAATTCCTAGCTTGAGAATGTTTCATGTTGAAATATTCTTGAGGGGTGGTAGGTTGG
130 TCTCAATGCAATTCCTAGCTTGAGAATGTTTCATGTTGAAATATTCTTGAGGGGTGGTAGGTTGG
1003938 TGTCATTCTCTCCAATCATTCAAGTGGTATCTTTGACCTCTATATGGTGAAAGAAACCCCTCTCT
195 TGTCATTCTCTCCAATCATTCAAGTGGTATCTTTGACCTCTATATGGTGAAAGAAACCCCTCTCT
1004003 ATTCGTGTATCCAACATCACATAAGTAGTAACACCTTGTATTATTTTAATTTAAAAGTAAATTAA
260 ATTCGTGTATCCAACATCACATAAGTAGTAACACCTTGTATTATTTTAATTTAAAAGTAAATTAA
1004068 TATACAAAACTTTTAAGAATTTTACATTCTTATATATATATATATATATATATATATATAT
325 TATACAAAACTTTTAAGAATTTTACATTCTTATATATATATATATATATATATATATATAT
1004129 TAATGACCTA
Statistics
Matches: 385, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
434 93 0.24
435 292 0.76
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (434 bp):
ATTGGCATCTAAGATCTTATGAAATTATGGAGAAAACAACAAGCGGAAATGAGTCTACATTGTGT
TTTCACTGGATAAAATGATTTTTCCCTTAAATTGCTCATCTCGCTTTCAAAATGCCAAAGCATCT
CTCAATGCAATTCCTAGCTTGAGAATGTTTCATGTTGAAATATTCTTGAGGGGTGGTAGGTTGGT
GTCATTCTCTCCAATCATTCAAGTGGTATCTTTGACCTCTATATGGTGAAAGAAACCCCTCTCTA
TTCGTGTATCCAACATCACATAAGTAGTAACACCTTGTATTATTTTAATTTAAAAGTAAATTAAT
ATACAAAACTTTTAAGAATTTTACATTCTTATATATATATATATATATATATATATATATATATA
TATATATATATATTAATCATTTCTACCTCATTAATCTCTTCAAC
Found at i:1005162 original size:26 final size:26
Alignment explanation
Indices: 1005132--1005195 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
1005122 CAGAAATTGC
1005132 TGAAACACTTTAACAACAACAAATGT
1 TGAAACACTTTAACAACAACAAATGT
*
1005158 TGAAACACTTTAACAACAGCAAATGT
1 TGAAACACTTTAACAACAACAAATGT
1005184 TGAAACACTTTA
1 TGAAACACTTTA
1005196 TGAAGCATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (26 bp):
TGAAACACTTTAACAACAACAAATGT
Found at i:1005219 original size:20 final size:20
Alignment explanation
Indices: 1005194--1005235 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1005184 TGAAACACTT
1005194 TATGAAGCATGTATAA-GCTC
1 TATGAAGCATGT-TAACGCTC
*
1005214 TATGAAGTATGTTAACGCTC
1 TATGAAGCATGTTAACGCTC
1005234 TA
1 TA
1005236 CTCTATGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGAAGCATGTTAACGCTC
Found at i:1007693 original size:58 final size:58
Alignment explanation
Indices: 1007626--1007747 Score: 244
Period size: 58 Copynumber: 2.1 Consensus size: 58
1007616 TTCTTCAACA
1007626 TTTTTCATATTCTTTTCTGGTTTTATAATTAACCAAGCTAATTTAATCATTTCCCTTT
1 TTTTTCATATTCTTTTCTGGTTTTATAATTAACCAAGCTAATTTAATCATTTCCCTTT
1007684 TTTTTCATATTCTTTTCTGGTTTTATAATTAACCAAGCTAATTTAATCATTTCCCTTT
1 TTTTTCATATTCTTTTCTGGTTTTATAATTAACCAAGCTAATTTAATCATTTCCCTTT
1007742 TTTTTC
1 TTTTTC
1007748 TCTGTATTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (58 bp):
TTTTTCATATTCTTTTCTGGTTTTATAATTAACCAAGCTAATTTAATCATTTCCCTTT
Found at i:1011174 original size:156 final size:157
Alignment explanation
Indices: 1010947--1011362 Score: 471
Period size: 158 Copynumber: 2.6 Consensus size: 157
1010937 TTATTATTCA
* * * *
1010947 TTCAATTCATCCTTTATTTTAAGTCCGTTATTTTACCAAATTTGAACAACATTCTCCTAAACCAC
1 TTCAATTCATCATTTATTTTAAGTCTG-T-TTTTACCAAATTTGAACCACATACTCCTAAACCAC
* * * *
1011012 TATAGAATAC-ATATATACTTTCAATTTCTCTTTTTGATTATAATTTTT-TATTTTTCAATTTAA
64 TATAGAATACAATATA-ACTTTCAATTCCTCTTTTTAATAACAATTTTTCTATTTTTCAATTTAA
1011075 TCCCTCAATTGTTTATAATTTGCTTATTTC
128 TCCCTCAATTGTTTATAATTTGCTTATTTC
** *
1011105 TTCAATTCATCATTTATTTTAAGTCTGTTTTCCCCAAATTTAAACCACATACTCCTAAACCA-TC
1 TTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATACTCCTAAACCACT-
* * * * * *
1011169 GTAGAATATAATATGAACTTTCAATTCCTCTTTTTAATAACATTTTTTCTATTTTTTAGTTTAGT
65 ATAGAATACAATAT-AACTTTCAATTCCTCTTTTTAATAACAATTTTTCTATTTTTCAATTTAAT
* * *
1011234 CCCTCATTTTTTTATAATTTTCTTATTTC
129 CCCTCAATTGTTTATAATTTGCTTATTTC
* * * * * * *
1011263 TTCACTTCATCATTTATTTTAAGTTTGTTTTTACCAAATTTGAATCACATGCTCGTATACCACAA
1 TTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATACTCCTAAACCACTA
* * *
1011328 TAGAATATCTATGTAAC-TTCAATTCTTACTTTTTA
66 TAGAATA-CAATATAACTTTCAATTCCT-CTTTTTA
1011363 CTAAAAATGT
Statistics
Matches: 216, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
155 1 0.00
156 36 0.17
157 41 0.19
158 135 0.62
159 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (157 bp):
TTCAATTCATCATTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATACTCCTAAACCACTA
TAGAATACAATATAACTTTCAATTCCTCTTTTTAATAACAATTTTTCTATTTTTCAATTTAATCC
CTCAATTGTTTATAATTTGCTTATTTC
Found at i:1011773 original size:160 final size:159
Alignment explanation
Indices: 1011537--1011848 Score: 606
Period size: 160 Copynumber: 2.0 Consensus size: 159
1011527 AATATTATGA
1011537 TTATATTTCAGAGTTTTAGATTGTATTTGATATATTAAAAACATTTAATTTATTATGTGTTGTGT
1 TTATATTTCAGAGTTTTAGATTGTATTTGATATATTAAAAACATTTAATTTATTATGTGTTGTGT
*
1011602 TTGTTTGTTAGTTAATCAAAATATTCAAATATAATGCATAATAAACTAAATAAGACATGTATAAA
66 TTGTTTGTTAGTTAATCAAAATATTCAAATATAATACATAATAAACTAAATAAGACATGTATAAA
1011667 TTATTCGTATATCATTAAACTTCATGTGT
131 TTATTCGTATATCATTAAACTTCATGTGT
1011696 TTATATTTCAGAGTTTTAGATTGTATTTGATATATTAAAAAACATTTAATTTATTATGTGTTGTG
1 TTATATTTCAGAGTTTTAGATTGTATTTGATATATT-AAAAACATTTAATTTATTATGTGTTGTG
1011761 TTTGTTTGTTAGTTAATCAAAATATTCAAATATAATACATAATAAACTAAATAAGACATGTATAA
65 TTTGTTTGTTAGTTAATCAAAATATTCAAATATAATACATAATAAACTAAATAAGACATGTATAA
1011826 ATTATTCGTATATCATTAAACTT
130 ATTATTCGTATATCATTAAACTT
1011849 TAAATTATAT
Statistics
Matches: 151, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
159 36 0.24
160 115 0.76
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (159 bp):
TTATATTTCAGAGTTTTAGATTGTATTTGATATATTAAAAACATTTAATTTATTATGTGTTGTGT
TTGTTTGTTAGTTAATCAAAATATTCAAATATAATACATAATAAACTAAATAAGACATGTATAAA
TTATTCGTATATCATTAAACTTCATGTGT
Found at i:1014469 original size:24 final size:24
Alignment explanation
Indices: 1014437--1014484 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1014427 ATAGATACGG
1014437 TGGACGAGATAATTTCCGATCACC
1 TGGACGAGATAATTTCCGATCACC
*
1014461 TGGACGAGATGATTTCCGATCACC
1 TGGACGAGATAATTTCCGATCACC
1014485 ACCACCGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (24 bp):
TGGACGAGATAATTTCCGATCACC
Found at i:1019470 original size:23 final size:23
Alignment explanation
Indices: 1019438--1019481 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1019428 GCAATTGCTG
*
1019438 CGACATTGGTTTAGGATTACTAC
1 CGACAATGGTTTAGGATTACTAC
1019461 CGACAATGGTTTAGGATTACT
1 CGACAATGGTTTAGGATTACT
1019482 GCACTATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (23 bp):
CGACAATGGTTTAGGATTACTAC
Found at i:1020648 original size:26 final size:25
Alignment explanation
Indices: 1020596--1020649 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
1020586 AGGTTTTTTT
* * **
1020596 TAAAAAAAAATATAATAATAATGAA
1 TAAAAAAAAAAAAAATAATAAAAAA
1020621 TAAAAAAAAACAAAAATAATAAAAAA
1 TAAAAAAAAA-AAAAATAATAAAAAA
1020647 TAA
1 TAA
1020650 TATAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (25 bp):
TAAAAAAAAAAAAAATAATAAAAAA
Found at i:1020947 original size:18 final size:18
Alignment explanation
Indices: 1020906--1020944 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1020896 ATATATACAT
*
1020906 ATAATAATAATAACATGA
1 ATAATAAAAATAACATGA
1020924 ATAATAAAAATAA-ATGA
1 ATAATAAAAATAACATGA
1020941 ATAA
1 ATAA
1020945 ATATCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAAAAATAACATGA
Found at i:1022283 original size:105 final size:105
Alignment explanation
Indices: 1022095--1022818 Score: 1097
Period size: 105 Copynumber: 7.0 Consensus size: 105
1022085 GCATTGTTCA
* ** **
1022095 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1022155 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1022195 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
* *
1022260 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1022300 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-ACGATTGGGAAGTTGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAGAAGTTGTTGTTGACAA
1022364 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1022405 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
1022470 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1022510 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTAAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
1022572 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1022612 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1022677 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1022717 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGTCAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
1022782 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1022819 CCTCGAGTGC
Statistics
Matches: 578, Mismatches: 35, Indels: 16
0.92 0.06 0.03
Matches are distributed among these distances:
100 35 0.06
101 1 0.00
102 101 0.17
103 2 0.00
104 3 0.01
105 395 0.68
106 41 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1022442 original size:210 final size:208
Alignment explanation
Indices: 1022095--1022818 Score: 1100
Period size: 207 Copynumber: 3.5 Consensus size: 208
1022085 GCATTGTTCA
* ** ** *
1022095 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGAATCTGAA-TGA-AA-TT-TTGTTGACAAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTGAGAAGTTGTT-TTGACAAGC
*
1022156 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGT
* * *
1022221 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGTAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
1022286 ACTTGCATTGTCTG
195 ACTTGCATTGTCTG
* *
1022300 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTACGATTGGGAAGTTGTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTA-AATTGAGAAGTTGTT-TTGACAAG
1022365 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
1022430 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
1022495 AACTTGCATTGTCTG
194 AACTTGCATTGTCTG
* * * *
1022510 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTAAAATTGAGAAGTTG--TTGACAGGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAGTTGTTTTGACAAGC
* *
1022573 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGT
* *
1022638 TGAAATTGGCTCTGAAATTGAGAAGTTATTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1022703 ACTTGCGTTGTCTG
195 ACTTGCATTGTCTG
*
1022717 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGTCAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAATTGAGAAGTTG-TT-TTGACAA
* ** * *
1022782 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1022819 CCTCGAGTGC
Statistics
Matches: 473, Mismatches: 36, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
205 34 0.07
206 1 0.00
207 199 0.42
208 2 0.00
209 2 0.00
210 198 0.42
211 37 0.08
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTGAGAAGTTGTTTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCATTGTCTG
Found at i:1023635 original size:65 final size:67
Alignment explanation
Indices: 1023464--1023618 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 67
1023454 ATATCTGTTA
* * ** *
1023464 TTTCATGAGAAACGGTCTCAAGG--GAAACAGAATTATGTTTTAAGGGAAATAAATTTGAAGATT
1 TTTCAAGAGAAACTGTCTCAAGGAAGAAA-A-AATT-TGTTTTAAGGGAAATAAATTCAAAGAGT
1023527 TTGTG
63 TTGTG
* *
1023532 TTTCAAGAGTAACTGTCTCAAGGAAGAAAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTTT-
1 TTTCAAGAGAAACTGTCTCAAGGAAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTTTG
1023595 TG
66 TG
*
1023597 TTTCAAGGGAAACTGTCTCAAG
1 TTTCAAGAGAAACTGTCTCAAG
1023619 ATAGACGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
65 22 0.29
66 3 0.04
67 22 0.29
68 24 0.32
69 1 0.01
70 4 0.05
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (67 bp):
TTTCAAGAGAAACTGTCTCAAGGAAGAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAGTTTG
TG
Found at i:1023645 original size:36 final size:36
Alignment explanation
Indices: 1023594--1023717 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
1023584 TTCAAAGGTT
*
1023594 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
1023630 TTGTTTCAAGAGAAACTGTCTTAAGAGAGA-TAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
1023665 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
*
1023703 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
1023718 TGTTTTCAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 4 0.05
36 40 0.55
37 26 0.36
38 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:1024230 original size:17 final size:17
Alignment explanation
Indices: 1024210--1024243 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1024200 GTTGAATCCC
*
1024210 CAAAGATGCCCCAATAT
1 CAAAAATGCCCCAATAT
1024227 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
1024244 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAAAATGCCCCAATAT
Found at i:1025341 original size:9 final size:8
Alignment explanation
Indices: 1025319--1025376 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 8
1025309 TTTTTGTCCC
1025319 TTTTTC-T
1 TTTTTCTT
1025326 TTTTTCTT
1 TTTTTCTT
1025334 TTTGTTCTT
1 TTT-TTCTT
1025343 TTTTTGCTT
1 TTTTT-CTT
1025352 TTTTT-TT
1 TTTTTCTT
**
1025359 GCTTT-TT
1 TTTTTCTT
1025366 TTTTTCTT
1 TTTTTCTT
1025374 TTT
1 TTT
1025377 GCCCTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 16 0.37
8 11 0.26
9 16 0.37
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1025345 original size:23 final size:22
Alignment explanation
Indices: 1025308--1025376 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
1025298 TTTGAATGTG
* *
1025308 TTTTTTGTCCCTTTTTCTTTTT
1 TTTTTTGTTCTTTTTTCTTTTT
1025330 TCTTTTTGTTCTTTTTTTGCTTTTT
1 T-TTTTTGTTC-TTTTTT-CTTTTT
1025355 TTTTGCTT-TT-TTTTTTCTTTTT
1 TTTT--TTGTTCTTTTTTCTTTTT
1025377 GCCCTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
22 7 0.17
23 14 0.35
24 8 0.20
25 9 0.22
26 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (22 bp):
TTTTTTGTTCTTTTTTCTTTTT
Found at i:1025348 original size:11 final size:11
Alignment explanation
Indices: 1025332--1025376 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
1025322 TTCTTTTTTC
1025332 TTTTTGTTCTT
1 TTTTTGTTCTT
1025343 TTTTTG--CTT
1 TTTTTGTTCTT
1025352 TTTTT-TTGCTT
1 TTTTTGTT-CTT
*
1025363 TTTTTTTTCTT
1 TTTTTGTTCTT
1025374 TTT
1 TTT
1025377 GCCCTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.27
11 20 0.67
12 2 0.07
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (11 bp):
TTTTTGTTCTT
Found at i:1029407 original size:29 final size:29
Alignment explanation
Indices: 1029346--1029408 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 29
1029336 CACAAGGTTT
1029346 TAAAAAAAAAAAATAATAATAAATAATGAA
1 TAAAAAAAAAAAATAATAATAAATAAT-AA
1029376 TAAAAAAAACGAAAATAATAA-AAATAAT-A
1 TAAAAAAAA--AAAATAATAATAAATAATAA
1029405 TAAA
1 TAAA
1029409 TATATAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 5 0.16
30 9 0.29
31 7 0.23
32 10 0.32
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (29 bp):
TAAAAAAAAAAAATAATAATAAATAATAA
Found at i:1034582 original size:88 final size:86
Alignment explanation
Indices: 1034480--1034654 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 86
1034470 TTTTAATACA
1034480 AACTCCGTACAAAAAATCCAAGTAACACAAAAAATTCATTCTTGAGGGTAAACTATTCATTTATG
1 AACTCCGTACAAAAAATCCAAGTAACACAAAAAA---ATTCTTGAGGGTAAACTATTCATTTATG
1034545 AG-AAATATTTTTTTTGAGAAATT
63 AGAAAATATTTTTTTTGAGAAATT
1034568 AACTCCGTACAAAAAATCCAAGTAACACAAAAAAATTCTTGAGGGTAAACTATTCATTTATGAGA
1 AACTCCGTACAAAAAATCCAAGTAACACAAAAAAATTCTTGAGGGTAAACTATTCATTTATGAGA
1034633 TAAATATTTTTTTTGAGAAATT
66 -AAATATTTTTTTTGAGAAATT
1034655 TACCACTTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
85 30 0.35
87 21 0.25
88 34 0.40
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (86 bp):
AACTCCGTACAAAAAATCCAAGTAACACAAAAAAATTCTTGAGGGTAAACTATTCATTTATGAGA
AAATATTTTTTTTGAGAAATT
Found at i:1036766 original size:27 final size:27
Alignment explanation
Indices: 1036724--1036787 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
1036714 GGTTTTGTAA
* *
1036724 TATTAAATAATATATATTAATAATAAT
1 TATTATATAATATATAATAATAATAAT
1036751 TATTATTATAAT-TATAATAATAATAAT
1 TATTA-TATAATATATAATAATAATAAT
1036778 TATTATATAA
1 TATTATATAA
1036788 ATAACATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 24 0.71
28 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTATATAATATATAATAATAATAAT
Found at i:1037077 original size:40 final size:40
Alignment explanation
Indices: 1037033--1037257 Score: 394
Period size: 40 Copynumber: 5.8 Consensus size: 40
1037023 TGAATAAGCT
1037033 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1037073 CTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-TTC-T-
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1037109 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1037149 CTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-TTC-T-
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1037185 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
1037225 CTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1037258 TCTCTGGAAA
Statistics
Matches: 177, Mismatches: 0, Indels: 16
0.92 0.00 0.08
Matches are distributed among these distances:
36 62 0.35
37 4 0.02
38 12 0.07
39 4 0.02
40 95 0.54
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.47
Consensus pattern (40 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTC
Found at i:1037116 original size:76 final size:76
Alignment explanation
Indices: 1037031--1037262 Score: 464
Period size: 76 Copynumber: 3.1 Consensus size: 76
1037021 GTTGAATAAG
1037031 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1037096 TTATGAACTTT
66 TTATGAACTTT
1037107 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1037172 TTATGAACTTT
66 TTATGAACTTT
1037183 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1037248 TTATGAACTTT
66 TTATGAACTTT
1037259 CTCT
1 CTCT
1037263 GGAAAAGCTG
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 156 1.00
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.47
Consensus pattern (76 bp):
CTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTT
Found at i:1037349 original size:113 final size:112
Alignment explanation
Indices: 1037200--1037968 Score: 1172
Period size: 113 Copynumber: 6.8 Consensus size: 112
1037190 TCAGATGAGT
*
1037200 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTCTGG
*
1037265 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
1037313 TCTTCTCATTATGAACTTCTTATTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1037378 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
1037425 TCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TCTGG
1037490 AAAAGCTGATCCATCAAGTGATGG----GAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
1037534 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TCTGG
1037599 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
1037647 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TCTGG
* * **
1037712 AAAAGTTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAAT
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* * *
1037760 TCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAAC-TCTAC
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AG--ATGAGTTCTTCTTATTATGAACTTCT--
*** * * ** * * **
1037824 CTGGAAATTTTAATCCATCACA-TGATGAATTCAAACAAAAGGTTAAACAAAT
61 CTGGAAAAGCTGATCCATCA-AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
1037876 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTCTGG
1037941 AAAAGCTGATCCATCAAGTGATGGATTT
65 AAAAGCTGATCCATCAAGTGATGGATTT
1037969 AAATCTTTGC
Statistics
Matches: 610, Mismatches: 32, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
109 108 0.18
112 113 0.19
113 287 0.47
114 3 0.00
115 7 0.01
116 91 0.15
117 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:1037675 original size:222 final size:223
Alignment explanation
Indices: 1037200--1037964 Score: 1137
Period size: 229 Copynumber: 3.4 Consensus size: 223
1037190 TCAGATGAGT
1037200 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
1037265 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGG---TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* *
1037330 TCTTATTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTTC-TCTGGAAAAGCTGATCCATCAA
128 TCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAA
1037394 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
193 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
1037425 TCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
1037489 GAAAAGCTGATCCATCAAGTGATGG-GAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
65 GAAAAGCTGATCCATCAAGTGATGGTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
1037553 TTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAAGT
130 TTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAAGT
1037618 GATGGATTTGAGCAAAAGGTTGAACAAGC
195 GATGGATTTGAGCAAAAGGTTGAACAAGC
*
1037647 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
* * ** *
1037711 GAAAAGTTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAAT
65 GAAAAGCTGATCCATCAAGTGATGG---TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
* * * *** *
1037776 TTCTTCTTCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAAC-TCTACCTGGAAATTTTAATCC
127 TTCTTCTTCCTTCTTC-AG--ATGAGTTCTTCTTATTATGAACTTCT-TCTGGAAAAGCTGATCC
* ** * * **
1037840 ATCACA-TGATGAATTCAAACAAAAGGTTAAACAAAT
188 ATCA-AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
1037876 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1037941 AAAAGCTGATCCATCAAGTGATGG
66 AAAAGCTGATCCATCAAGTGATGG
1037965 ATTTAAATCT
Statistics
Matches: 500, Mismatches: 28, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
221 77 0.15
222 140 0.28
224 3 0.01
225 82 0.16
226 47 0.09
227 2 0.00
228 3 0.01
229 142 0.28
230 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (223 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGGTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
TCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAAGTG
ATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:1038909 original size:83 final size:83
Alignment explanation
Indices: 1038810--1039074 Score: 433
Period size: 83 Copynumber: 3.2 Consensus size: 83
1038800 GGTTTCATAT
* * *
1038810 CAAACCAGATCGGATAACTCAAAGAACACTTCTAGAAGATACTACTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTACTAGCACATTCCTCTTCCAAA
1038875 TTCAATAACTGGTTTTAC
66 TTCAATAACTGGTTTTAC
** *
1038893 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTTATCTTTCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTACT-AGCACATTCCTCTTCCAA
* *
1038957 ATTCAATGATTGGTTTTAC
65 ATTCAATAACTGGTTTTAC
*
1038976 CAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTACTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTACTAGCACATTCCTCTTCCAAA
1039041 TTCAATAACTGGTTTTAC
66 TTCAATAACTGGTTTTAC
1039059 CAAACCAGATCAGATA
1 CAAACCAGATCAGATA
1039075 TGAGCACATT
Statistics
Matches: 165, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
82 1 0.01
83 163 0.99
84 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTACTAGCACATTCCTCTTCCAAA
TTCAATAACTGGTTTTAC
Found at i:1039087 original size:55 final size:54
Alignment explanation
Indices: 1039022--1039128 Score: 178
Period size: 55 Copynumber: 2.0 Consensus size: 54
1039012 AGATGCTACT
*
1039022 AGCACATTCCTCTTCCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATATG
1 AGCACATTCCTCTTCCAAATTCAATAA-TGATTTTACCAAACCAGATCAGATATG
* *
1039077 AGCACATTCCTCTTCCAAATTCAATGATGATTTTACCAAATCAGATCAGATA
1 AGCACATTCCTCTTCCAAATTCAATAATGATTTTACCAAACCAGATCAGATA
1039129 ACTCAAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 23 0.47
55 26 0.53
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (54 bp):
AGCACATTCCTCTTCCAAATTCAATAATGATTTTACCAAACCAGATCAGATATG
Found at i:1040260 original size:9 final size:9
Alignment explanation
Indices: 1040246--1040301 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
1040236 CTTGACCCCC
1040246 CTTTTTCTT
1 CTTTTTCTT
1040255 CTTTTTCTT
1 CTTTTTCTT
1040264 -TTTTT-TT
1 CTTTTTCTT
1040271 CTTTTCTCTT
1 CTTTT-TCTT
*
1040281 TTTTTTCTT
1 CTTTTTCTT
* *
1040290 TTTTTTTTT
1 CTTTTTCTT
1040299 CTT
1 CTT
1040302 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.05
8 9 0.22
9 24 0.59
10 6 0.15
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
CTTTTTCTT
Found at i:1040272 original size:16 final size:16
Alignment explanation
Indices: 1040247--1040298 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
1040237 TTGACCCCCC
*
1040247 TTTTTCTTCTTTTTCT
1 TTTTTTTTCTTTTTCT
1040263 TTTTTTTTC-TTTTCT
1 TTTTTTTTCTTTTTCT
1040278 CTTTTTTTTCTTTTT-T
1 -TTTTTTTTCTTTTTCT
1040294 TTTTT
1 TTTTT
1040299 CTTCAAGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 11 0.33
16 18 0.55
17 4 0.12
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:1040282 original size:23 final size:23
Alignment explanation
Indices: 1040248--1040300 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1040238 TGACCCCCCT
1040248 TTTTCTTCTTTTTCTTT-TTTTTTC
1 TTTTC-TCTTTTT-TTTCTTTTTTC
*
1040272 TTTTCTCTTTTTTTTCTTTTTTT
1 TTTTCTCTTTTTTTTCTTTTTTC
1040295 TTTTCT
1 TTTTCT
1040301 TCAAGCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.11
23 19 0.70
24 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTCTCTTTTTTTTCTTTTTTC
Found at i:1040287 original size:26 final size:25
Alignment explanation
Indices: 1040246--1040296 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
1040236 CTTGACCCCC
1040246 CTTTTTCTTCTTTTTCTTTTTTTTT
1 CTTTTTCTTCTTTTTCTTTTTTTTT
*
1040271 CTTTTCTCTTTTTTTTCTTTTTTTTT
1 CTTTT-TCTTCTTTTTCTTTTTTTTT
1040297 TTCTTCAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (25 bp):
CTTTTTCTTCTTTTTCTTTTTTTTT
Found at i:1047634 original size:15 final size:15
Alignment explanation
Indices: 1047611--1047642 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1047601 TGAAATGAAT
1047611 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1047626 AATGCATGTATGCAA
1 AATGAATGTATGCAA
1047641 AA
1 AA
1047643 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1055063 original size:19 final size:19
Alignment explanation
Indices: 1055039--1055090 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
1055029 AATGCACTGA
1055039 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
1055058 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
1055077 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1055091 AAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:1055146 original size:20 final size:20
Alignment explanation
Indices: 1055118--1055156 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1055108 CAAGAAATTA
1055118 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
1055138 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1055157 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:1063708 original size:18 final size:19
Alignment explanation
Indices: 1063662--1063708 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1063652 GGACTCTCAG
*
1063662 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
1063681 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
1063698 TGCATTCGATG
1 TGCA-TCGATG
1063709 TTTTGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:1063849 original size:91 final size:90
Alignment explanation
Indices: 1063661--1063849 Score: 224
Period size: 91 Copynumber: 2.1 Consensus size: 90
1063651 TGGACTCTCA
* **
1063661 GTGCATCGATGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAG
1 GTGCATCAATGCACT-AGAGTGCATCGATGCATAAAATGCATTCGATGTTAAGAAAAA-CCTGAG
*
1063726 TGCATCGATGCATGGTCTTGTGCATCG
64 TGCATCGATGCATGGTCTGGTGCATCG
* *
1063753 ATGCATCAAATGCACT-GAGTGCATCGATGCATAAAATGCATTCGATGTTCAAGAAATTAA-TTG
1 GTGCATC-AATGCACTAGAGTGCATCGATGCATAAAATGCATTCGATGTT-AAGAAA--AACCTG
*
1063816 A-TGCATCGATGCATGGAT-TGGTGCTTCG
62 AGTGCATCGATGCATGG-TCTGGTGCATCG
1063844 GTGCAT
1 GTGCAT
1063850 GCCCTTGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
91 61 0.73
92 14 0.17
93 7 0.08
94 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (90 bp):
GTGCATCAATGCACTAGAGTGCATCGATGCATAAAATGCATTCGATGTTAAGAAAAACCTGAGTG
CATCGATGCATGGTCTGGTGCATCG
Found at i:1064872 original size:21 final size:23
Alignment explanation
Indices: 1064824--1064875 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1064814 GTCGAGGGTT
1064824 CTATGTGGTCATTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
* *
1064847 CTATGTGGTCTTTTGGGA-AAAA
1 CTATGTGGTCATTCGGGACAAAA
1064869 -TATGTGG
1 CTATGTGG
1064876 CACTTCAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 7 0.26
22 4 0.15
23 16 0.59
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:1067195 original size:7 final size:7
Alignment explanation
Indices: 1067180--1067211 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1067170 ATTTAATCCT
*
1067180 AAGTAAA
1 AAGTGAA
1067187 AAGTGAA
1 AAGTGAA
1067194 AAGTGAA
1 AAGTGAA
1067201 AAGTGAA
1 AAGTGAA
1067208 AAGT
1 AAGT
1067212 TCCATCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (7 bp):
AAGTGAA
Found at i:1078325 original size:20 final size:20
Alignment explanation
Indices: 1078300--1078371 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
1078290 CGGTTGAATG
* *
1078300 GGTATCAATACCATAAGGAT
1 GGTATCGATACCAGAAGGAT
1078320 GGTATCGATACCAGAAGGAT
1 GGTATCGATACCAGAAGGAT
1078340 GGTATCGATACCAGAAGGAT
1 GGTATCGATACCAGAAGGAT
1078360 GGTATCGATACC
1 GGTATCGATACC
1078372 GTTGTTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
GGTATCGATACCAGAAGGAT
Found at i:1079036 original size:21 final size:21
Alignment explanation
Indices: 1078995--1079104 Score: 69
Period size: 21 Copynumber: 5.0 Consensus size: 21
1078985 TCGAAGGTTT
* *
1078995 TATGTGGTTCTTCGAG-ACAAA
1 TATGTGGTACTTCG-GTGCAAA
1079016 TATGTGGTACTTCGGTGCAAA
1 TATGTGGTACTTCGGTGCAAA
* * *
1079037 CCTATGTGGCACTTTGGTGTAAA
1 --TATGTGGTACTTCGGTGCAAA
* ** *
1079060 TTTATGTGGTCCTTCGGAACAAT
1 --TATGTGGTACTTCGGTGCAAA
* *
1079083 TATGTGGCACTTTGGTGCAAA
1 TATGTGGTACTTCGGTGCAAA
1079104 T
1 T
1079105 TACGAGTTGT
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
20 1 0.02
21 33 0.50
23 32 0.48
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (21 bp):
TATGTGGTACTTCGGTGCAAA
Found at i:1079050 original size:23 final size:22
Alignment explanation
Indices: 1079012--1079106 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 22
1079002 TTCTTCGAGA
*
1079012 CAAA-TATGTGGTACTTCGGTG
1 CAAATTATGTGGCACTTCGGTG
* *
1079033 CAAACCTATGTGGCACTTTGGTG
1 CAAA-TTATGTGGCACTTCGGTG
* **
1079056 TAAATTTATGTGGTC-CTTCGGAA
1 CAAA-TTATGTGG-CACTTCGGTG
*
1079079 C-AATTATGTGGCACTTTGGTG
1 CAAATTATGTGGCACTTCGGTG
1079100 CAAATTA
1 CAAATTA
1079107 CGAGTTGTGG
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.02
21 18 0.32
22 7 0.12
23 30 0.53
24 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (22 bp):
CAAATTATGTGGCACTTCGGTG
Found at i:1085846 original size:22 final size:22
Alignment explanation
Indices: 1085821--1085862 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1085811 TAGGACAAAT
1085821 ATGTGGCACTTCGATGCAAACC
1 ATGTGGCACTTCGATGCAAACC
* *
1085843 ATGTGGCACTTTGGTGCAAA
1 ATGTGGCACTTCGATGCAAA
1085863 TTTATGTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
ATGTGGCACTTCGATGCAAACC
Found at i:1087760 original size:88 final size:86
Alignment explanation
Indices: 1087613--1087787 Score: 332
Period size: 88 Copynumber: 2.0 Consensus size: 86
1087603 ACATATCATA
1087613 TCATTACATTTCAATGTTGCAAAATGTTGGAATTTTGTGAGAAGGTTTAGGTGGACTATGTTGCC
1 TCATTACATTTCAATGTTGCAAAATGTTGGAATTTTGTGAGAAGGTTTAGGTGGACTATGTTGCC
1087678 ACCCGTCATCCAGTCAACTAT
66 ACCCGTCATCCAGTCAACTAT
1087699 TCATTACATTTCAATGTTGCAAAAATGTTTGGAATTTTGTGAGAAGGTTTAGGTGGACTATGTTG
1 TCATTACATTTCAATGTTGC-AAAATG-TTGGAATTTTGTGAGAAGGTTTAGGTGGACTATGTTG
1087764 CCACCCGTCATCCAGTCAACTAT
64 CCACCCGTCATCCAGTCAACTAT
1087787 T
1 T
1087788 TGTTTCGCAA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
86 20 0.23
87 6 0.07
88 61 0.70
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (86 bp):
TCATTACATTTCAATGTTGCAAAATGTTGGAATTTTGTGAGAAGGTTTAGGTGGACTATGTTGCC
ACCCGTCATCCAGTCAACTAT
Found at i:1088362 original size:35 final size:37
Alignment explanation
Indices: 1088323--1088394 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
1088313 GAGAAAACAT
1088323 ATCTTCATAAGTTCTTAAGGAAGAA-TCTC-AGAGTC
1 ATCTTCATAAGTTCTTAAGGAAGAATTCTCAAGAGTC
1088358 ATCTTCATAAGTTCTTAAGGAAGAATTCTCAAGAGTC
1 ATCTTCATAAGTTCTTAAGGAAGAATTCTCAAGAGTC
1088395 TATATCTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 25 0.71
36 4 0.11
37 6 0.17
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (37 bp):
ATCTTCATAAGTTCTTAAGGAAGAATTCTCAAGAGTC
Found at i:1092952 original size:20 final size:20
Alignment explanation
Indices: 1092927--1092964 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1092917 AGGTTTTCGA
1092927 GATGAGCTGATGTTTCACGG
1 GATGAGCTGATGTTTCACGG
1092947 GATGAGCTGATGTTTCAC
1 GATGAGCTGATGTTTCAC
1092965 TAATATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
GATGAGCTGATGTTTCACGG
Found at i:1093704 original size:45 final size:45
Alignment explanation
Indices: 1093643--1094027 Score: 524
Period size: 45 Copynumber: 8.6 Consensus size: 45
1093633 ATTATTTTAA
* * * * * *
1093643 TTATGGCATTCGTTCATGCCTATAATGCACTGTTATGAATTTTAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
* * *
1093688 TTATGGCATCCTTTCATGCCAATAATGCACTGTTATGCGTTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
*
1093733 TTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
** *
1093778 TTAT-GCATCCTTTCATGTTGATAATGCACTGTTATGCATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
* * *
1093822 TTATGGCATCCTTTCATTCCGATAATGCACCGTTATACGTTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
* * *
1093867 TTATGGCAACCTTTCATGTCGATAATGCACTGTTATGCATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
* **
1093912 TTATGACATAATTTCATGCCGATAATTG-ACCGTTATGCATTTCAT
1 TTATGGCATCCTTTCATGCCGATAA-TGCACCGTTATGCATTTCAT
1093957 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
* *
1094002 CTATAG-ATCCTTTCATGCCGATAATG
1 TTATGGCATCCTTTCATGCCGATAATG
1094028 AAAACATATA
Statistics
Matches: 302, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
44 64 0.21
45 236 0.78
46 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTCAT
Found at i:1093895 original size:134 final size:135
Alignment explanation
Indices: 1093655--1094027 Score: 554
Period size: 134 Copynumber: 2.8 Consensus size: 135
1093645 ATGGCATTCG
* * * * *
1093655 TTCATGCCTATAATGCACTGTTATGAATTTTATTTATGGCATCCTTTCATGCCAATAATGCACTG
1 TTCATGCCGATAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
1093720 TTATGCGTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCATTTCATTTATG-C
66 TTATGCGTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCATTTCATTTATGAC
**
1093784 ATCCT
131 ATAAT
** *
1093789 TTCATGTTGATAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATTCCGATAATGCACCG
1 TTCATGCCGATAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * *
1093854 TTATACGTTTCATTTATGGCAACCTTTCATGTCGATAATGCACTGTTATGCATTTCATTTATGAC
66 TTATGCGTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCATTTCATTTATGAC
1093919 ATAAT
131 ATAAT
*
1093924 TTCATGCCGATAATTG-ACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCGATAATGCACC
1 TTCATGCCGATAA-TGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCCGATAATGCACC
* * * *
1093988 GTTATGCATTTCATCTATAG-ATCCTTTCATGCCGATAATG
65 GTTATGCGTTTCATTTATGGCATCCTTTCATGTCGATAATG
1094028 AAAACATATA
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
134 135 0.63
135 77 0.36
136 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (135 bp):
TTCATGCCGATAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
TTATGCGTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCATTTCATTTATGAC
ATAAT
Found at i:1102750 original size:14 final size:15
Alignment explanation
Indices: 1102733--1102765 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1102723 GCAGACCATA
1102733 ATTT-AAAACAACCT
1 ATTTAAAAACAACCT
*
1102747 ATTTAAAAACAATCT
1 ATTTAAAAACAACCT
1102762 ATTT
1 ATTT
1102766 GTAGGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTTAAAAACAACCT
Found at i:1103412 original size:16 final size:17
Alignment explanation
Indices: 1103387--1103418 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1103377 TTATGTATCA
1103387 AAAAATAATTAATATTG
1 AAAAATAATTAATATTG
1103404 AAAAA-AATTAATATT
1 AAAAATAATTAATATT
1103419 ATATTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATAATTAATATTG
Found at i:1106356 original size:16 final size:16
Alignment explanation
Indices: 1106315--1106390 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
1106305 AGAAGGTAAG
*
1106315 TTAGGATTTT-TTTAA
1 TTAGGATTTTCTTAAA
*
1106330 TTAAGATATTTTCTTAAA
1 TT-AG-GATTTTCTTAAA
1106348 TTAGGATTTTCTTTAAGA
1 TTAGGATTTTC-TTAA-A
*
1106366 TCTA-G-TTTTTTTAAA
1 T-TAGGATTTTCTTAAA
1106381 TTAGGATTTT
1 TTAGGATTTT
1106391 TTTTTAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 2 0.04
15 5 0.10
16 16 0.33
17 15 0.31
18 9 0.18
19 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (16 bp):
TTAGGATTTTCTTAAA
Found at i:1106392 original size:18 final size:17
Alignment explanation
Indices: 1106321--1106409 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 17
1106311 TAAGTTAGGA
*
1106321 TTTTTTT-AATTAAGATA
1 TTTTTTTAAATT-AGATT
*
1106338 TTTTCTTAAATTAGGA-T
1 TTTTTTTAAATTA-GATT
*
1106355 TTTCTTTAAGATCTAG---
1 TTTTTTTAA-AT-TAGATT
1106371 TTTTTTTAAATTAGGATT
1 TTTTTTTAAATTA-GATT
1106389 TTTTTTTAAATTTAGATT
1 TTTTTTTAAA-TTAGATT
1106407 TTT
1 TTT
1106410 ATTAAACTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.03
15 3 0.05
16 8 0.14
17 14 0.24
18 26 0.45
19 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTTTTTAAATTAGATT
Found at i:1106409 original size:33 final size:33
Alignment explanation
Indices: 1106337--1106409 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
1106327 TAATTAAGAT
1106337 ATTTTCTTAAATTAGGATTTTCTTTAAGATCTAG
1 ATTTT-TTAAATTAGGATTTTCTTTAAGATCTAG
* * *
1106371 TTTTTTTAAATTAGGATTTTTTTTTAA-ATTTAG
1 ATTTTTTAAATTAGGA-TTTTCTTTAAGATCTAG
1106404 ATTTTT
1 ATTTTT
1106410 ATTAAACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.59
Consensus pattern (33 bp):
ATTTTTTAAATTAGGATTTTCTTTAAGATCTAG
Found at i:1107515 original size:30 final size:30
Alignment explanation
Indices: 1107479--1107571 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
1107469 AGCAGAACAG
*
1107479 AACGGGGATATGATCCCATACAGATGTCAA
1 AACGGGGATATAATCCCATACAGATGTCAA
* *
1107509 AACGGGGATAAAATCCCATACAGATGTCTA
1 AACGGGGATATAATCCCATACAGATGTCAA
* *
1107539 AACGAGGATGTAATCCCATGA-AGATGTCAA
1 AACGGGGATATAATCCCAT-ACAGATGTCAA
1107569 AAC
1 AAC
1107572 CGAGAGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 54 0.98
31 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (30 bp):
AACGGGGATATAATCCCATACAGATGTCAA
Found at i:1108964 original size:29 final size:30
Alignment explanation
Indices: 1108930--1109013 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
1108920 AGAATGAGGT
*
1108930 TATAATCTAATGCAAATGTCA-TACCGGGA
1 TATAATCTAATGCAAATGTCAGAACCGGGA
** * *
1108959 TATAATC-ACATATAGATGTCAGAACGGGGA
1 TATAATCTA-ATGCAAATGTCAGAACCGGGA
* *
1108989 TATAATCTCATGCAAATGTTAGAAC
1 TATAATCTAATGCAAATGTCAGAAC
1109014 AATGATATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
28 1 0.02
29 16 0.38
30 25 0.60
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (30 bp):
TATAATCTAATGCAAATGTCAGAACCGGGA
Found at i:1108991 original size:30 final size:29
Alignment explanation
Indices: 1108955--1109048 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 29
1108945 ATGTCATACC
*
1108955 GGGATATAATCACATATAGATGTCAGAACG
1 GGGATATAATCACATA-AGATGTTAGAACG
* *
1108985 GGGATATAATCTCATGCAA-ATGTTAGAACA
1 GGGATATAATCACAT--AAGATGTTAGAACG
** *
1109015 ATGATATAATCCCATGAAGATGTTAGAACG
1 GGGATATAATCACAT-AAGATGTTAGAACG
1109045 GGGA
1 GGGA
1109049 GTTCATCCCA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 2 0.04
30 47 0.92
31 1 0.02
32 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (29 bp):
GGGATATAATCACATAAGATGTTAGAACG
Found at i:1109656 original size:13 final size:13
Alignment explanation
Indices: 1109640--1109708 Score: 104
Period size: 13 Copynumber: 5.3 Consensus size: 13
1109630 AAGATAACAA
1109640 TCAAAGTCAACGG
1 TCAAAGTCAACGG
1109653 TCAAAGTCAACGG
1 TCAAAGTCAACGG
1109666 TCAAAGTCAACGG
1 TCAAAGTCAACGG
*
1109679 TCAAAGTCAACCG
1 TCAAAGTCAACGG
*
1109692 TCAACTGTCAA-GG
1 TCAA-AGTCAACGG
1109705 TCAA
1 TCAA
1109709 TGGGTCGGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
13 47 0.90
14 5 0.10
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (13 bp):
TCAAAGTCAACGG
Found at i:1109681 original size:20 final size:20
Alignment explanation
Indices: 1109635--1109708 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
1109625 TAAAAAAGAT
* *
1109635 AACAATCAAAGTCAACGGTC
1 AACAGTCAAAGTCAACAGTC
*
1109655 AA-AGTCAACGGTCAA-AGTC
1 AACAGTCAA-AGTCAACAGTC
* *
1109674 AACGGTCAAAGTCAACCGTC
1 AACAGTCAAAGTCAACAGTC
* *
1109694 AACTGTCAAGGTCAA
1 AACAGTCAAAGTCAA
1109709 TGGGTCGGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
AACAGTCAAAGTCAACAGTC
Found at i:1116017 original size:30 final size:30
Alignment explanation
Indices: 1115983--1116098 Score: 153
Period size: 30 Copynumber: 3.9 Consensus size: 30
1115973 ACAAAAGGGA
* * *
1115983 GATATAATCTCACGCAGATATCAGAACGGG
1 GATATAATCCCATGCAGATGTCAGAACGGG
* *
1116013 GATATAATCCCATGTAGATGTCAGAACGGA
1 GATATAATCCCATGCAGATGTCAGAACGGG
*
1116043 GATATAACCCCATGCAGATGTCAGAACGGG
1 GATATAATCCCATGCAGATGTCAGAACGGG
*
1116073 GAGT-TTATCCCATGCAGATGTCAGAA
1 GA-TATAATCCCATGCAGATGTCAGAA
1116099 ATGCATCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
30 74 0.99
31 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (30 bp):
GATATAATCCCATGCAGATGTCAGAACGGG
Found at i:1116671 original size:13 final size:13
Alignment explanation
Indices: 1116653--1116687 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1116643 GGTCTTTGGA
1116653 AAAGTCAACGATC
1 AAAGTCAACGATC
*
1116666 AAAGTCAACGGTC
1 AAAGTCAACGATC
1116679 AAAGTCAAC
1 AAAGTCAAC
1116688 AATTAACGGT
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:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAGTCAACGATC
Found at i:1118851 original size:112 final size:110
Alignment explanation
Indices: 1118623--1118833 Score: 277
Period size: 112 Copynumber: 1.9 Consensus size: 110
1118613 AAAAGACCCT
* *
1118623 AAAAAAGTATATATATAGCGGCGTTTTTCCAACAAACGCCACTATAGATGACCCATTGCGACGCT
1 AAAAAAGTATATATATAGCGGCGTTTTTCCAACAAACACCACTATAGATGACCCATTACGACGCT
* *
1118688 TTTTTCAAAAAAACGCCACTATTATTGCACAGCCCAAAACAATGCCC
66 TTTTTCAAAAAAACGCCACTATTAGTG-ACA-CCCAAAACAATGCCA
** * * *
1118735 AAAAAAGTATATATATATTGGCGTTTTTCCAATAAACACCACTATAGATGGACCTATTACGACGT
1 AAAAAAGTATATATATAGCGGCGTTTTTCCAACAAACACCACTATAGAT-GACCCATTACGACGC
*
1118800 TTTTTTC-AAGAAACGCCACTATT-GTG-C-CCCAAAA
65 TTTTTTCAAAAAAACGCCACTATTAGTGACACCCAAAA
1118834 TCGAATATAT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
107 7 0.08
109 1 0.01
111 2 0.02
112 60 0.67
113 19 0.21
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (110 bp):
AAAAAAGTATATATATAGCGGCGTTTTTCCAACAAACACCACTATAGATGACCCATTACGACGCT
TTTTTCAAAAAAACGCCACTATTAGTGACACCCAAAACAATGCCA
Found at i:1126401 original size:17 final size:17
Alignment explanation
Indices: 1126375--1126407 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1126365 AAAAAAATAT
1126375 TTTTGGTTTAATTGTTG
1 TTTTGGTTTAATTGTTG
*
1126392 TTTTGTTTTAATTGTT
1 TTTTGGTTTAATTGTT
1126408 TTAATGAAAA
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:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (17 bp):
TTTTGGTTTAATTGTTG
Found at i:1126461 original size:12 final size:13
Alignment explanation
Indices: 1126434--1126466 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1126424 ATATTATAAT
*
1126434 TTTTCAAACTTAG
1 TTTTCAAACATAG
1126447 TTTTCAAA-ATAG
1 TTTTCAAACATAG
1126459 TTTTCAAA
1 TTTTCAAA
1126467 TTTGCCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:1129123 original size:15 final size:15
Alignment explanation
Indices: 1129103--1129132 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1129093 TTTTTTGTAA
1129103 GTTTGCAAAATTTGT
1 GTTTGCAAAATTTGT
1129118 GTTTGCAAAATTTGT
1 GTTTGCAAAATTTGT
1129133 AATTTACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
GTTTGCAAAATTTGT
Found at i:1130257 original size:22 final size:23
Alignment explanation
Indices: 1130227--1130270 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1130217 TTAAATTTTG
1130227 TATAAAA-TTTAAAAAATAAAAT
1 TATAAAATTTTAAAAAATAAAAT
* *
1130249 TATATAATTTTTAAAAATAAAA
1 TATAAAATTTTAAAAAATAAAA
1130271 CACATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TATAAAATTTTAAAAAATAAAAT
Found at i:1130280 original size:23 final size:22
Alignment explanation
Indices: 1130228--1130281 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1130218 TAAATTTTGT
* **
1130228 ATAAAATTTAAAAAATAAAATT
1 ATAAATTTTAAAAAATAAAAAC
*
1130250 ATATAATTTTTAAAAATAAAACAC
1 ATA-AATTTTAAAAAATAAAA-AC
1130274 ATAAATTT
1 ATAAATTT
1130282 CGAAATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATTTTAAAAAATAAAAAC
Found at i:1131914 original size:21 final size:21
Alignment explanation
Indices: 1131890--1131939 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
1131880 GGATGTTAAG
1131890 CAATGTAAACCTTGGAAGGTT
1 CAATGTAAACCTTGGAAGGTT
1131911 CAATGTAAACCTTGGAAGGTT
1 CAATGTAAACCTTGGAAGGTT
1131932 CAATGTAA
1 CAATGTAA
1131940 GACGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (21 bp):
CAATGTAAACCTTGGAAGGTT
Found at i:1139527 original size:18 final size:18
Alignment explanation
Indices: 1139501--1139539 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1139491 CTAATATCCA
1139501 ATTTCTTATATA-TTTTTT
1 ATTTCTTAT-TAGTTTTTT
*
1139519 ATTTTTTATTAGTTTTTT
1 ATTTCTTATTAGTTTTTT
1139537 ATT
1 ATT
1139540 CATAATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTAGTTTTTT
Found at i:1141927 original size:21 final size:21
Alignment explanation
Indices: 1141857--1141996 Score: 95
Period size: 21 Copynumber: 6.6 Consensus size: 21
1141847 ATTTGTCCCG
* * *
1141857 AAGGACCACACATATGTCCCA
1 AAGGACCACATATATATTCCA
* * *
1141878 AAGGACCACATAGAAATCTCCTT
1 AAGGACCACATATATAT-TCC-A
1141901 AAGGACCACATATATATTCCA
1 AAGGACCACATATATATTCCA
* * * *
1141922 AAGGACCAAATATGTGTTCCG
1 AAGGACCACATATATATTCCA
* *
1141943 AAGAACCAC-TGATATGTTCCA
1 AAGGACCACAT-ATATATTCCA
** *
1141964 TAA-GATTACATATATATCCCA
1 -AAGGACCACATATATATTCCA
1141985 AAGGACCACATA
1 AAGGACCACATA
1141997 GAACCCTCGA
Statistics
Matches: 89, Mismatches: 24, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.03
21 63 0.71
22 8 0.09
23 15 0.17
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (21 bp):
AAGGACCACATATATATTCCA
Found at i:1146055 original size:21 final size:21
Alignment explanation
Indices: 1146029--1146171 Score: 81
Period size: 21 Copynumber: 6.7 Consensus size: 21
1146019 ACATATAATT
1146029 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
* * *
1146050 TGTCCCGGAGGACCACAGAGAAA
1 TGTCCCGAAGGACCAC--ATATA
* *** *
1146073 TCTCTTTAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
* * * * *
1146094 TATTCCAAAGGACCAAATATG
1 TGTCCCGAAGGACCACATATA
* * *
1146115 TGTTCCAAAGAACCACATATA
1 TGTCCCGAAGGACCACATATA
* **
1146136 TGTTCC-ATAGGATTACATATA
1 TGTCCCGA-AGGACCACATATA
1146157 TGTCCCGAAGGACCA
1 TGTCCCGAAGGACCA
1146172 TGTATAACCC
Statistics
Matches: 89, Mismatches: 29, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
20 1 0.01
21 74 0.83
22 1 0.01
23 13 0.15
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:1147610 original size:23 final size:23
Alignment explanation
Indices: 1147576--1147644 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
1147566 CACCACAGCT
* * *
1147576 CGTATAAATGCACTGGAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1147599 CGTAGAATTGCACCAAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
1147622 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1147645 TATAAGATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1153220 original size:45 final size:46
Alignment explanation
Indices: 1153171--1153261 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
1153161 AAACATCGAA
* * *
1153171 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
*
1153216 TGCATTTGATGCATCGATGCACAAGACCATGTATCAATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
1153262 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
Found at i:1158807 original size:277 final size:277
Alignment explanation
Indices: 1158313--1158866 Score: 1049
Period size: 277 Copynumber: 2.0 Consensus size: 277
1158303 GCGGATTATG
*
1158313 GAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTACTTGCCAATTCCTTGGAAATATTCTGATT
1 GAGGATGCAAATTAGATAGGAAAAGCACCTACGGTACTTGCCAATTCCTTGGAAATATTCTGATT
1158378 TCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACCACTGAAGCGGAATACATTTCAGC
66 TCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACCACTGAAGCGGAATACATTTCAGC
*
1158443 CAGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAA
131 CAGTAGTTATTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAA
1158508 GTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCCAACAC
196 GTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCCAACAC
1158573 TCTAGAACTAAGCACAT
261 TCTAGAACTAAGCACAT
*
1158590 GAGGATGCAAATTAGATAGGAAAAGCACCTACGGTACTTGTCAATTCCTTGGAAATATGT-TGAT
1 GAGGATGCAAATTAGATAGGAAAAGCACCTACGGTACTTGCCAATTCCTTGGAAATAT-TCTGAT
1158654 TTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACCACTGAAGCGGAATACATTTCAG
65 TTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACCACTGAAGCGGAATACATTTCAG
1158719 CC-GATAGTTATTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGT
130 CCAG-TAGTTATTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGT
1158783 AAGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCCAAC
194 AAGTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCCAAC
1158848 ACTCTAGAACTAAGCACAT
259 ACTCTAGAACTAAGCACAT
1158867 TGAAATAAGA
Statistics
Matches: 272, Mismatches: 3, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
276 1 0.00
277 270 0.99
278 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (277 bp):
GAGGATGCAAATTAGATAGGAAAAGCACCTACGGTACTTGCCAATTCCTTGGAAATATTCTGATT
TCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACCACTGAAGCGGAATACATTTCAGC
CAGTAGTTATTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAA
GTACCATTCCTATCAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCCATCCAACAC
TCTAGAACTAAGCACAT
Found at i:1159892 original size:13 final size:13
Alignment explanation
Indices: 1159874--1159912 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1159864 AAAACTATAC
1159874 ATATTATTTTCAA
1 ATATTATTTTCAA
1159887 ATATTATTTTCAA
1 ATATTATTTTCAA
*
1159900 ATAGT-TTTTCAA
1 ATATTATTTTCAA
1159912 A
1 A
1159913 ACATTGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (13 bp):
ATATTATTTTCAA
Found at i:1160953 original size:21 final size:21
Alignment explanation
Indices: 1160911--1160954 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1160901 ACTCTAGGAG
* *
1160911 CTAGTTCCTCACGAGCTTCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1160932 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1160953 CT
1 CT
1160955 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.14, T:0.34
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1161429 original size:2 final size:2
Alignment explanation
Indices: 1161422--1161467 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1161412 TTTAAACTTA
1161422 AT AT AT 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
1161464 AT AT
1 AT AT
1161468 TAGTTTAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1162118 original size:20 final size:20
Alignment explanation
Indices: 1162089--1162126 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1162079 TTTCAAAGTG
1162089 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1162109 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1162127 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1162195 original size:45 final size:46
Alignment explanation
Indices: 1162146--1162236 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
1162136 AATCATCGAA
* * * *
1162146 TGCATTTTATGCGTCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
*
1162191 TGCATTTGATGCATCGATGCACAAGACCATGTATCAATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
1162237 GCTTTTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTCAG
Found at i:1167310 original size:2 final size:2
Alignment explanation
Indices: 1167303--1167334 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1167293 CATACGATAA
1167303 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1167335 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1174771 original size:169 final size:171
Alignment explanation
Indices: 1174472--1174814 Score: 622
Period size: 169 Copynumber: 2.0 Consensus size: 171
1174462 TTGGTATTCA
1174472 AACTACACATTCATATGAATTCAAATTCTCAAACAACATCAAACCAACATCATGCCTCATTTCAT
1 AACTACACATTCATATGAATTCAAATTCTCAAACAACATCAAACCAACATCATGCCTCATTTCAT
1174537 GTTTAAAAAACCAACTAGCATGCCACAATATTACAATTTTATCATCATAAAAATTATATAAGTCC
66 GTTTAAAAAACCAACTAGCA--CCACAATATTACAATTTTATCATCATAAAAATTATATAAGTCC
1174602 CAATGGTTCCCACATTGTCATTTTATGAAAACAAACCACATAC
129 CAATGGTTCCCACATTGTCATTTTATGAAAACAAACCACATAC
1174645 AACTACACATTC-TATGAATTCAACATTCTCAAACAACATCAAACCAACATCATG-CTCATTTCA
1 AACTACACATTCATATGAATTCAA-ATTCTCAAACAACATCAAACCAACATCATGCCTCATTTCA
1174708 TGTTTAAAAAACCCAA-TAGCA-CACAATATTACAATTTTATCATCATAAAAATTATATAAGTCC
65 TGTTTAAAAAA-CCAACTAGCACCACAATATTACAATTTTATCATCATAAAAATTATATAAGTCC
1174771 CAATGGTTCCCACATTGTCATTTTATGAAAACAAACCACATAC
129 CAATGGTTCCCACATTGTCATTTTATGAAAACAAACCACATAC
1174814 A
1 A
1174815 CTTTATTTAA
Statistics
Matches: 168, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
169 86 0.51
172 36 0.21
173 46 0.27
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.29
Consensus pattern (171 bp):
AACTACACATTCATATGAATTCAAATTCTCAAACAACATCAAACCAACATCATGCCTCATTTCAT
GTTTAAAAAACCAACTAGCACCACAATATTACAATTTTATCATCATAAAAATTATATAAGTCCCA
ATGGTTCCCACATTGTCATTTTATGAAAACAAACCACATAC
Found at i:1175722 original size:12 final size:12
Alignment explanation
Indices: 1175705--1175729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1175695 ATGCCAATAT
1175705 TCACATTTTATA
1 TCACATTTTATA
1175717 TCACATTTTATA
1 TCACATTTTATA
1175729 T
1 T
1175730 TAATTATAGG
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCACATTTTATA
Found at i:1181548 original size:2 final size:2
Alignment explanation
Indices: 1181543--1181590 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1181533 ATGTGATATA
1181543 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1181585 TG TG TG
1 TG TG TG
1181591 CATTGTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1183407 original size:21 final size:21
Alignment explanation
Indices: 1183359--1183409 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1183349 TGGGAATAGA
*
1183359 AGTATTAATACTCATCCAATG
1 AGTATTGATACTCATCCAATG
1183380 AGTATTGATACTCATCCAATG
1 AGTATTGATACTCATCCAATG
1183401 AGTATTGAT
1 AGTATTGAT
1183410 TCTACTGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
AGTATTGATACTCATCCAATG
Found at i:1183740 original size:3 final size:3
Alignment explanation
Indices: 1183732--1183821 Score: 128
Period size: 3 Copynumber: 30.3 Consensus size: 3
1183722 TTAATTTTTC
** *
1183732 ATT ATT ATT ATT ATT ATT AAA ATT ATT ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
**
1183780 AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1183822 AATAAATAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
2 2 0.03
3 74 0.97
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1184111 original size:20 final size:19
Alignment explanation
Indices: 1184086--1184141 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1184076 GAGATGAGAC
1184086 AGAGAGCAATCCAAAAAGAA
1 AGAGAGCAATCCAAAAA-AA
* *
1184106 AGAGAGCAAACCAAAAAAT
1 AGAGAGCAATCCAAAAAAA
1184125 AGAGAGCAATCCAAAAA
1 AGAGAGCAATCCAAAAA
1184142 CATAGACGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.61, C:0.16, G:0.18, T:0.05
Consensus pattern (19 bp):
AGAGAGCAATCCAAAAAAA
Found at i:1184128 original size:19 final size:20
Alignment explanation
Indices: 1184086--1184147 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
1184076 GAGATGAGAC
* *
1184086 AGAGAGCAATCCAAAAAGAA
1 AGAGAGCAATCCAAAAACAT
*
1184106 AGAGAGCAAACCAAAAA-AT
1 AGAGAGCAATCCAAAAACAT
1184125 AGAGAGCAATCCAAAAACAT
1 AGAGAGCAATCCAAAAACAT
1184145 AGA
1 AGA
1184148 CGAATGCAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.60, C:0.16, G:0.18, T:0.06
Consensus pattern (20 bp):
AGAGAGCAATCCAAAAACAT
Found at i:1185149 original size:18 final size:18
Alignment explanation
Indices: 1185126--1185190 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 18
1185116 CCATTTTCTG
1185126 ATATTTTTTTATAAATAA
1 ATATTTTTTTATAAATAA
*
1185144 ATATTTTACTTTTATAAATTAT
1 ATA-TTT--TTTTATAAA-TAA
1185166 ATATATTTTTTA-AAATAA
1 ATAT-TTTTTTATAAATAA
1185184 ATATTTT
1 ATATTTT
1185191 ACTTTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 3 0.08
18 9 0.22
19 6 0.15
20 5 0.12
21 10 0.25
22 7 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTTTTATAAATAA
Found at i:1185169 original size:22 final size:21
Alignment explanation
Indices: 1185132--1185218 Score: 90
Period size: 22 Copynumber: 4.2 Consensus size: 21
1185122 TCTGATATTT
*
1185132 TTTTATAAATAAATATTTTAC
1 TTTTATAAATAAATATATTAC
*
1185153 TTTTATAAATTATATATATT--
1 TTTTATAAA-TAAATATATTAC
*
1185173 TTTTA-AAATAAATATTTTAC
1 TTTTATAAATAAATATATTAC
* *
1185193 TTTTATAAATTATATATATTAT
1 TTTTATAAA-TAAATATATTAC
1185215 TTTT
1 TTTT
1185219 TAATGTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.15
19 3 0.06
20 10 0.19
21 12 0.22
22 21 0.39
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAAATAAATATATTAC
Found at i:1185183 original size:40 final size:41
Alignment explanation
Indices: 1185126--1185217 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 41
1185116 CCATTTTCTG
1185126 ATAT-TTTTTTATAAATAAATATTTTACTTTTATAAATTAT
1 ATATATTTTTTATAAATAAATATTTTACTTTTATAAATTAT
1185166 ATATATTTTTTA-AAATAAATATTTTACTTTTATAAATTAT
1 ATATATTTTTTATAAATAAATATTTTACTTTTATAAATTAT
1185206 ATATATTATTTT
1 ATATATT-TTTT
1185218 TTAATGTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
40 39 0.78
41 11 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (41 bp):
ATATATTTTTTATAAATAAATATTTTACTTTTATAAATTAT
Found at i:1185323 original size:2 final size:2
Alignment explanation
Indices: 1185316--1185366 Score: 86
Period size: 2 Copynumber: 25.5 Consensus size: 2
1185306 ATATCTTATT
1185316 TA TA TA 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 TA TA TA TA
1185357 TCA TA TA TA T
1 T-A TA TA TA T
1185367 TTTCTTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1185891 original size:28 final size:29
Alignment explanation
Indices: 1185860--1185928 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
1185850 AACTCTTTCC
*
1185860 TTTCAAAT-TTTTTATATA-TACTTATTAT
1 TTTCAAATATTTATATATATTA-TTATTAT
*
1185888 TTTCATAATATTTATATATATTATTTTTAT
1 TTTCA-AATATTTATATATATTATTATTAT
*
1185918 TTTCAAGTATT
1 TTTCAAATATT
1185929 AATTTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.14
29 8 0.23
30 20 0.57
31 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTCAAATATTTATATATATTATTATTAT
Done.