Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 7 of 12
Found at i:996282 original size:53 final size:53
Alignment explanation
Indices: 996218--996354 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
996208 CTACTACCAA
*
996218 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
996271 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
996324 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
996355 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:996387 original size:20 final size:20
Alignment explanation
Indices: 996324--996394 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
996314 GCCAATGTCC
**
996324 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
996344 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
996364 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
996384 TGTATCGATAC
1 TGTATCGATAC
996395 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1000263 original size:13 final size:13
Alignment explanation
Indices: 1000245--1000270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1000235 TACAGCAAGT
1000245 ATGTATCGATACA
1 ATGTATCGATACA
1000258 ATGTATCGATACA
1 ATGTATCGATACA
1000271 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1002529 original size:21 final size:21
Alignment explanation
Indices: 1002496--1002540 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1002486 TTGCAAGTTG
*
1002496 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1002518 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1002538 AAA
1 AAA
1002541 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1004364 original size:15 final size:15
Alignment explanation
Indices: 1004344--1004374 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1004334 TAAAAATGTC
*
1004344 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1004359 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1004374 C
1 C
1004375 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1006444 original size:20 final size:21
Alignment explanation
Indices: 1006365--1006443 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
1006355 AATGTCCAAA
*
1006365 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
1006385 GTGTATCGATACATCTGAAAATTCT
1 ATGTATCGATACATCT----TTTCT
1006410 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
1006430 TTGTATCGATACAT
1 ATGTATCGATACAT
1006444 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:1006448 original size:13 final size:13
Alignment explanation
Indices: 1006430--1006468 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1006420 ACATTTTTCT
1006430 TTGTATCGATACA
1 TTGTATCGATACA
1006443 TTGTATCGATACA
1 TTGTATCGATACA
*
1006456 CTGTATCGATACA
1 TTGTATCGATACA
1006469 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1009013 original size:13 final size:13
Alignment explanation
Indices: 1008995--1009019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1008985 ACAGCAAGTT
1008995 TGTATCGATACAA
1 TGTATCGATACAA
1009008 TGTATCGATACA
1 TGTATCGATACA
1009020 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1011521 original size:13 final size:13
Alignment explanation
Indices: 1011503--1011541 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1011493 CATTTTTTCT
1011503 TTGTATCGATACA
1 TTGTATCGATACA
1011516 TTGTATCGATACA
1 TTGTATCGATACA
1011529 TTGTATCGATACA
1 TTGTATCGATACA
1011542 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1014892 original size:28 final size:27
Alignment explanation
Indices: 1014860--1014932 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
1014850 TTTAGTCACA
1014860 TCTTATTAAGACAGTCTTATCTGGT-TTG
1 TCTTATTAAGACA-TCTTAT-TGGTATTG
* *
1014888 TCTTATTAAGACAATTTTATTTGTATTG
1 TCTTATTAAGAC-ATCTTATTGGTATTG
*
1014916 CCTTATTAAGACATCTT
1 TCTTATTAAGACATCTT
1014933 TATTCGGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 7 0.18
28 31 0.79
29 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (27 bp):
TCTTATTAAGACATCTTATTGGTATTG
Found at i:1018283 original size:14 final size:14
Alignment explanation
Indices: 1018264--1018313 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
1018254 TTTCACTTTA
1018264 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
*
1018278 TTTC-TTTTCTTTC
1 TTTCTTTTTTTTTC
*
1018291 --TCTCTTTTTTTC
1 TTTCTTTTTTTTTC
*
1018303 TCTCTTTTTTT
1 TTTCTTTTTTT
1018314 CAGCTGAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 7 0.24
13 8 0.28
14 12 0.41
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:1018285 original size:12 final size:12
Alignment explanation
Indices: 1018270--1018314 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
1018260 TTTATTTCTT
*
1018270 TTTTTTTCTTTC
1 TTTTTTTCTCTC
1018282 TTTTCTTTCTCTC
1 TTTT-TTTCTCTC
1018295 TTTTTTTCTCTC
1 TTTTTTTCTCTC
1018307 TTTTTTTC
1 TTTTTTTC
1018315 AGCTGAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:1019400 original size:332 final size:325
Alignment explanation
Indices: 1018673--1019686 Score: 1079
Period size: 332 Copynumber: 3.1 Consensus size: 325
1018663 GTTAAGTGAC
* * ** * * * * *
1018673 AATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAATCTTCCC-GAAAATATTTACGGAGTA
1 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAAT-TCCCCTGAAAAAATTTACAGAGTA
* * * * * *
1018737 -AAAACTCAATTTTTCAAAAATAGAAAAATTTTAAGAAAAAATGAATAACTCATGAAAATGAGTG
65 GAAAACTCCATATTTC-AAAACAG-AAAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAGTA
*
1018801 AATTTTTGAAAACTAATTAAATATGAAATAAATAATAATATTTGATAAATTATTAAAATTAAAAA
128 AATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATAAATT-TTAAAATTAAAAA
* ** * **
1018866 CTAAGAAAAATCTTCC-CG-AAAAAATTTACCAAGTAGAAAACTTCGCATTTCAAAAATAGGA-A
192 CTAAGAAAAATC-ACCTCGAAAAAAATTTACGGAGTAGAAAAC-TCGTATTT--TGAATAGGAGA
* * * * * * **
1018928 AATTTTAAG-AAAAATAAAAAACTCATGGAAATGATTGAATTTGTGAAAACT-AATT-GCATGAA
253 AATTTCAAGAAAAAAT-GAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAA
1018990 ATAAATAAT
317 ATAAATAAT
*
1018999 AATATTTGATAAATTTTAAAAATTAAAAACCAAGTAAAATTCCCCTGAAAAAATTTACAGAGTAG
1 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCTGAAAAAATTTACAGAGTAG
* ** * * *
1019064 AAAACTCTATATTTTGGAAACAGGAAAATTTCAAGGAAAAAATAAAAAAACTTATGAAAATGAAT
66 AAAACTCCATA-TTTCAAAACA-GAAAATTTCAA-GAAAAAAT-GAAAAACTCATGAAAATGAGT
* *
1019129 AAATTTTTGAAAACTGATTTAATGT-AAATAAATAATAATATTTGATAAATTTTAGAAATTAAAA
127 AAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATAAATTTTA-AAATTAAAA
* * * *
1019193 ACGAAGAAAGATCACCTCGAAAAAAATTTATGGAGCAGAAAACTGCGTATTTTGAATAGAGAGAA
191 ACTAAGAAAAATCACCTCGAAAAAAATTTACGGAGTAGAAAACT-CGTATTTTGAATAG-GAGAA
* *
1019258 ATTTCAAGAAAAAATGAAAAGCTCATGAAAATGAGTGAATTTTTGAAAACTGATTTAATATAAAA
254 ATTTCAAGAAAAAATGAAAA-CTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAAA
1019323 TAAATAAT
318 TAAATAAT
* * *
1019331 AATATTTAATAAATTTCAAAAATTAAAAA-CAGAGAAAAATTCCTCTTGAAAAAA-TTAC-GTAG
1 AATATTTGATAAATTTTAAAAATTAAAAACCA-AGAAAAATTCC-CCTGAAAAAATTTACAG-AG
* *
1019393 TAGAAAACTCCGTATTTCAAAACAGAAGAATTTTGAAAGAAAAAATGAAAAACTCAT-AAAATGA
63 TAGAAAACTCCATATTTCAAAACAGAA-AA-TTT-CAAGAAAAAATGAAAAACTCATGAAAATGA
*
1019457 GTGAAA-TTTTGAAAACTAATATAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTA
125 GT-AAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATAAATTTT-AAAATTA
* * *
1019521 AAAACTAAGAAAAAT-ACCTCCAAAAAAATTTACGGAGTAGAAAACTCTATATTTTAGAA-ACCG
188 AAAACTAAGAAAAATCACCTCGAAAAAAATTTACGGAGTAGAAAACTC-GTATTTT-GAATA-GG
* * * * * * * *
1019584 AGGAATTTCAAAGAAAAAAATGACAATTGAATGAAAGTAAATGGATTTTTGGAAACTGATTTAAT
250 AGAAATTTC-AAG-AAAAAATGAAAACT-CATGAAAATGAATGAATTTTTGAAAACTGATTTAAT
1019649 ATGAAATAAATAAT
312 ATGAAATAAATAAT
1019663 AATATTTGATAAATTTTAAAAATT
1 AATATTTGATAAATTTTAAAAATT
1019687 TTAAACCCAT
Statistics
Matches: 580, Mismatches: 77, Indels: 56
0.81 0.11 0.08
Matches are distributed among these distances:
325 4 0.01
326 49 0.08
327 32 0.06
328 63 0.11
329 77 0.13
330 106 0.18
331 82 0.14
332 156 0.27
333 11 0.02
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (325 bp):
AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCTGAAAAAATTTACAGAGTAG
AAAACTCCATATTTCAAAACAGAAAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAGTAAAT
TTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAATTAAAAACTAA
GAAAAATCACCTCGAAAAAAATTTACGGAGTAGAAAACTCGTATTTTGAATAGGAGAAATTTCAA
GAAAAAATGAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
Found at i:1019409 original size:165 final size:165
Alignment explanation
Indices: 1018673--1019686 Score: 981
Period size: 165 Copynumber: 6.1 Consensus size: 165
1018663 GTTAAGTGAC
* * * * * * *
1018673 AATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAA-TCTTCCCGAAAATATTTACGGAGTA
1 AATATTTGATAAATTTTAAAAA-TTAAAAACAAGAAAAATTCCTCCCGAAAAAATTTACGGAGTA
** * * * * * *
1018737 -AAAACTCAAT-TTTTCAAAAATAGAAAAATTTTAAGAAAAAATGAATAACTCATGAAAATGAGT
65 GAAAACTCCGTATTTT-GAATACAGAGAAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAGT
* *
1018800 GAATTTTTGAAAACTAATTAAATATGAAATAAATAAT
129 GAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
* **
1018837 AATATTTGATAAATTATT-AAAATTAAAAACTAAGAAAAA-TCTTCCCGAAAAAATTTACCAAGT
1 AATATTTGATAAATT-TTAAAAATTAAAAAC-AAGAAAAATTCCTCCCGAAAAAATTTACGGAGT
* * ** * * * * * *
1018900 AGAAAACTTCGCATTTCAAAAATAG-GAAAATTTTAAG-AAAAATAAAAAACTCATGGAAATGAT
64 AGAAAACTCCGTATTTTGAATACAGAG-AAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAG
* * **
1018963 TGAATTTGTGAAAACT-AATT-GCATGAAATAAATAAT
128 TGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
* * *
1018999 AATATTTGATAAATTTTAAAAATTAAAAACCAAGTAAAATTCC-CCTGAAAAAATTTACAGAGTA
1 AATATTTGATAAATTTTAAAAATTAAAAA-CAAGAAAAATTCCTCCCGAAAAAATTTACGGAGTA
** * *
1019063 GAAAACTCTATATTTTGGAA-ACAG-GAAAATTTCAAGGAAAAAATAAAAAAACTTATGAAAATG
65 GAAAACTCCGTATTTT-GAATACAGAG-AAATTTCAA-GAAAAAAT-GAAAAACTCATGAAAATG
* * *
1019126 AATAAATTTTTGAAAACTGATTTAATGT-AAATAAATAAT
126 AGTGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
* * * *
1019165 AATATTTGATAAATTTTAGAAATTAAAAACGAAGAAAGA-TCAC-CTCGAAAAAAATTTATGGAG
1 AATATTTGATAAATTTTAAAAATTAAAAAC-AAGAAAAATTC-CTCCCG-AAAAAATTTACGGAG
* * * *
1019228 CAGAAAACTGCGTATTTTGAATAGAGAGAAATTTCAAGAAAAAATGAAAAGCTCATGAAAATGAG
63 TAGAAAACTCCGTATTTTGAATACAGAGAAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAG
*
1019293 TGAATTTTTGAAAACTGATTTAATATAAAATAAATAAT
128 TGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
* * ** *
1019331 AATATTTAATAAATTTCAAAAATTAAAAACAGAGAAAAATTCCTCTTGAAAAAA-TTACGTAGTA
1 AATATTTGATAAATTTTAAAAATTAAAAACA-AGAAAAATTCCTCCCGAAAAAATTTACGGAGTA
* * * *
1019395 GAAAACTCCGTA-TTTCAAAACAGAAGAATTTTGAAAGAAAAAATGAAAAACTCAT-AAAATGAG
65 GAAAACTCCGTATTTTGAATACAG-AGAAATTT-CAAGAAAAAATGAAAAACTCATGAAAATGAG
* * *
1019458 TGAAATTTTGAAAACTAATATAATATGAAATAAATAAT
128 TGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
* *
1019496 AATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAATACCT-CCAAAAAAATTTACGGAGTA
1 AATATTTGATAAATTTTAAAAATTAAAAAC-AAGAAAAATTCCTCCCGAAAAAATTTACGGAGTA
** * * * * * * *
1019560 GAAAACTCTATATTTTAGAA-ACCGAGGAATTTCAAAGAAAAAAATG-ACAATTGAATGAAAGTA
65 GAAAACTCCGTATTTT-GAATACAGAGAAATTTC-AAG-AAAAAATGAAAAACT-CATGAAAATG
* * *
1019623 AATGGATTTTTGGAAACTGATTTAATATGAAATAAATAAT
126 AGTGAATTTTTGAAAACTGATTTAATATGAAATAAATAAT
1019663 AATATTTGATAAATTTTAAAAATT
1 AATATTTGATAAATTTTAAAAATT
1019687 TTAAACCCAT
Statistics
Matches: 710, Mismatches: 107, Indels: 63
0.81 0.12 0.07
Matches are distributed among these distances:
161 2 0.00
162 89 0.13
163 14 0.02
164 103 0.15
165 239 0.34
166 153 0.22
167 109 0.15
168 1 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (165 bp):
AATATTTGATAAATTTTAAAAATTAAAAACAAGAAAAATTCCTCCCGAAAAAATTTACGGAGTAG
AAAACTCCGTATTTTGAATACAGAGAAATTTCAAGAAAAAATGAAAAACTCATGAAAATGAGTGA
ATTTTTGAAAACTGATTTAATATGAAATAAATAAT
Found at i:1024449 original size:52 final size:52
Alignment explanation
Indices: 1024379--1024499 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1024369 GAAAATTTAT
*
1024379 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1024431 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1024483 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1024500 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1024512 original size:52 final size:51
Alignment explanation
Indices: 1024379--1024519 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1024369 GAAAATTTAT
1024379 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1024431 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1024483 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1024520 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1024526 original size:13 final size:13
Alignment explanation
Indices: 1024508--1024532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1024498 CAAAGATCAG
1024508 TGTATCGATACAA
1 TGTATCGATACAA
1024521 TGTATCGATACA
1 TGTATCGATACA
1024533 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1024616 original size:13 final size:13
Alignment explanation
Indices: 1024598--1024622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1024588 CAAAAAAATA
1024598 TGTATCGATACAT
1 TGTATCGATACAT
1024611 TGTATCGATACA
1 TGTATCGATACA
1024623 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1024618 original size:33 final size:33
Alignment explanation
Indices: 1024576--1024642 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1024566 AGTAGCTTAA
1024576 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1024609 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1024642 A
1 A
1024643 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1025596 original size:49 final size:49
Alignment explanation
Indices: 1025450--1025607 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1025440 AAAAGTGATA
* * * * *
1025450 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1025501 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1025554 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1025602 ATGATG
1 AAGATG
1025608 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1025667 original size:170 final size:171
Alignment explanation
Indices: 1025379--1025772 Score: 700
Period size: 170 Copynumber: 2.3 Consensus size: 171
1025369 TTTTAGAGAT
*
1025379 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1025444 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1025509 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1025550 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1025614 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1025679 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1025720 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1025773 GTGCCAATGT
Statistics
Matches: 213, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
170 122 0.57
171 51 0.24
173 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:1025829 original size:49 final size:49
Alignment explanation
Indices: 1025687--1026253 Score: 726
Period size: 49 Copynumber: 11.6 Consensus size: 49
1025677 GATGTCAACG
* *
1025687 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
1025739 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1025782 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
1025831 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
1025874 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1025923 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
1025972 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1026021 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
1026070 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* * *
1026122 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
1026171 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAAGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGA-TGCCAATA
* *
1026223 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
1026254 GAAGGGTTGC
Statistics
Matches: 453, Mismatches: 44, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
43 70 0.15
44 5 0.01
45 2 0.00
46 3 0.01
47 1 0.00
48 5 0.01
49 251 0.55
50 3 0.01
51 5 0.01
52 108 0.24
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:1025991 original size:98 final size:99
Alignment explanation
Indices: 1025620--1026253 Score: 902
Period size: 98 Copynumber: 6.4 Consensus size: 99
1025610 AAAAGTGATA
* * * * *
1025620 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
* * *
1025685 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* *
1025725 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
1025784 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1025819 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
1025878 GAGTCAAGGCCAGCTACATTGGACTTCAAGAT-G
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1025911 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1025976 GAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1026009 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1026074 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* *
1026108 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
1026173 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* * *
1026209 AAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 -AAGA-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1026254 GAAGGGTTGC
Statistics
Matches: 498, Mismatches: 19, Indels: 28
0.91 0.03 0.05
Matches are distributed among these distances:
92 127 0.26
94 4 0.01
95 41 0.08
96 5 0.01
98 145 0.29
99 1 0.00
100 3 0.01
101 135 0.27
103 1 0.00
105 3 0.01
107 33 0.07
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (99 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
Found at i:1026322 original size:34 final size:34
Alignment explanation
Indices: 1026253--1026318 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
1026243 TATTGGGCTT
1026253 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1026287 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1026319 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:1026396 original size:34 final size:34
Alignment explanation
Indices: 1026325--1027520 Score: 1091
Period size: 34 Copynumber: 35.9 Consensus size: 34
1026315 TTGGGAAGGA
*
1026325 AAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1026359 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1026393 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
*
1026429 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AG
1026464 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-G
**
1026499 AAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAG
1 -AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1026534 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * * *
1026568 AAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGG
1 AAAAAGAG-TGCCACGGA-GT-TGTGGGCTTTA--AA-AG
* *
1026607 AGAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1026641 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1026675 AAAAA-AGGTGCCACGGAGTTATGGAC-TTAAAGATG
1 AAAAAGA-GTGCCACGGAGTTGTGGGCTTTAAA-A-G
*
1026710 AAAAA-AGTGCCACGGAGTTATGGGC-TTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1026742 -----G-GTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAAG
* * *
1026770 AAAAAGAGTGCCACAGAGTTGTGGGC-TTAGGAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAAG
1026804 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-----
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1026833 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-----
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1026862 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* *
1026897 AAGAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* *
1026931 AAGAAG-GTGCCACAGAGTTGTGGGC-TT-----
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1026958 -AAAAGAGTGCCACGGAGTCGTGGAC-TTAAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-G
* *
1026992 AAAAA-AGTGCCACGGAATTGTGGGCTTCAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1027025 -----G-GTGCCACGGAGTTGTGGGC-TTAGAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1027052 GAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAG-A-GTGCCACGGAGTTGTGGGCTTT-AAAA--G
1027091 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * *
1027126 AAAAAGTGTGCCACAGAGTTGTGGGCTTCAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1027160 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
1027196 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* *
1027231 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAACAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AG
1027266 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1027300 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-G
1027334 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1027368 AAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * * *
1027400 GAAAAG-GTGCCACGAAGCTGTGGGCTTT-GAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * * *
1027432 AAAAA-A-TGCCACTGAGTCGTGGACTTT--GAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * * *
1027462 ACAAA-A-TGCCACTGAGTCGTGGACTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* * * *
1027493 GAAAAGA-TGCCACTGAGTCGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
1027521 GAGCAGAGAT
Statistics
Matches: 1011, Mismatches: 72, Indels: 160
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.00
27 44 0.04
28 21 0.02
29 57 0.06
30 28 0.03
31 21 0.02
32 62 0.06
33 79 0.08
34 345 0.34
35 167 0.17
36 51 0.05
37 110 0.11
38 11 0.01
39 11 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
Found at i:1026752 original size:61 final size:61
Alignment explanation
Indices: 1026676--1026923 Score: 179
Period size: 61 Copynumber: 4.0 Consensus size: 61
1026666 CTTTAAAAGA
*
1026676 AAAAAGGTGCCACGGAGTTATGGACTTA-AAGATGAAAAA-AGTGCCACGGAGTTATGGGCTT
1 AAAAAGGTGCCACGGAGTTATGGACTTAGAAG--GAAAAAGAGTGCCACAGAGTTATGGGCTT
* * * *
1026737 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTT
* * * * *
1026798 AGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-----TAAAAAGAGTGCCACGGAGTTGTGGG
1 ------AAAAAG-GTGCCACGGAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGG
1026858 CTTT
59 C-TT
** * * * * *
1026862 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG-GTGCCACAGAGTTGTGGGCTT
1 AAAAAG-GTGCCACGGAGTTATGGACTTAG-AAGGAAAAAGAGTGCCACAGAGTTATGGGCTT
1026924 TGAAAAGAAG
Statistics
Matches: 159, Mismatches: 12, Indels: 31
0.79 0.06 0.15
Matches are distributed among these distances:
58 27 0.17
60 6 0.04
61 45 0.28
62 5 0.03
63 43 0.27
64 7 0.04
67 5 0.03
68 21 0.13
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (61 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTT
Found at i:1027503 original size:62 final size:63
Alignment explanation
Indices: 1027419--1027616 Score: 280
Period size: 62 Copynumber: 3.2 Consensus size: 63
1027409 CCACGAAGCT
* * * *
1027419 GTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAGAGATTGCCACTGAGTC
*
1027480 GTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGATTGCCACTGGGTC
1 GTGGACTTTAAA-GAAAAGATGCCACTGAGTCGTGGACTTTGAGACAGAGATTGCCACTGAGTC
* *
1027543 GTGGACTTT-GAGAAGAGATTGCCACTGAGTCGTGGACTTTGAGA-AGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAGACAGAGATTGCCACTGAGTC
1027605 GTGGACTTTAAA
1 GTGGACTTTAAA
1027617 AAGGTATTTG
Statistics
Matches: 122, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
61 18 0.15
62 82 0.67
63 22 0.18
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (63 bp):
GTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAGAGATTGCCACTGAGTC
Found at i:1027535 original size:93 final size:94
Alignment explanation
Indices: 1027273--1027613 Score: 291
Period size: 93 Copynumber: 3.6 Consensus size: 94
1027263 CAGAAAAAGG
* * * * * * * * *
1027273 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 TGCCACTGAGTCGTGGACTTT--AAAGGAAAAGATGCCACTGAGTCGTGGACTT--TGAAGAAAA
* * * *
1027338 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA
62 AA-TGCCACTGAGTCGTGGACTTTGAGAAG-AGAA
* * * * *
1027373 GGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCAC-GAAG-CTGTGGGCTTTGAAGAAAA
1 --TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTG-AGTC-GTGGACTTTGAAGAAAA
1027436 AATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
62 AATGCCACTGAGTCGTGGACTTTGAGA-AGAGAA
* * *
1027468 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTG-AGCAGAGATT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAAAT
* *
1027532 GCCACTGGGTCGTGGACTTTGAGAAGAGAT
65 GCCACTGAGTCGTGGACTTTGAGAAGAGAA
* *
1027562 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGATTGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-TGCCACTGAGTCGTGGACTTT
1027614 AAAAAGGTAT
Statistics
Matches: 209, Mismatches: 21, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
92 9 0.04
93 95 0.45
94 24 0.11
95 2 0.01
96 1 0.00
97 21 0.10
98 10 0.05
99 1 0.00
100 25 0.12
102 21 0.10
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATG
CCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:1027538 original size:31 final size:31
Alignment explanation
Indices: 1027438--1027613 Score: 259
Period size: 31 Copynumber: 5.7 Consensus size: 31
1027428 GAAGAAAAAA
*
1027438 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
1027468 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
1027500 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1027531 TGCCACTGGGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1027562 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1027593 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1027614 AAAAAGGTAT
Statistics
Matches: 134, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
30 26 0.19
31 83 0.62
32 24 0.18
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1028562 original size:1 final size:1
Alignment explanation
Indices: 1028558--1028583 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1028548 GGTTTTTCCC
1028558 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1028584 GTGAAGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1028646 original size:16 final size:16
Alignment explanation
Indices: 1028625--1028660 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1028615 CTCACCGAGA
*
1028625 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
1028641 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
1028657 TTTT
1 TTTT
1028661 TTTGTGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:1035219 original size:33 final size:33
Alignment explanation
Indices: 1035182--1035248 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1035172 TTCAACGATT
1035182 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1035215 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1035248 T
1 T
1035249 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1035220 original size:13 final size:13
Alignment explanation
Indices: 1035202--1035226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1035192 CATAAAATGT
1035202 TGTATCGATACAA
1 TGTATCGATACAA
1035215 TGTATCGATACA
1 TGTATCGATACA
1035227 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1035310 original size:13 final size:13
Alignment explanation
Indices: 1035292--1035316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1035282 ATTACTCACA
1035292 TGTATCGATACAT
1 TGTATCGATACAT
1035305 TGTATCGATACA
1 TGTATCGATACA
1035317 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1035453 original size:52 final size:52
Alignment explanation
Indices: 1035325--1035445 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1035315 CACTGATCTT
*
1035325 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1035377 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1035429 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1035446 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1044028 original size:35 final size:33
Alignment explanation
Indices: 1043651--1044030 Score: 433
Period size: 34 Copynumber: 11.1 Consensus size: 33
1043641 TCAAATACCT
* * *
1043651 TTTTAAAGTCCACAACTCCATGGCACTTTTTTCA
1 TTTT-AAGCCCACAACTCCGTGGCACTTTTTTCC
* * *
1043685 TCTTTAAGTCCACAACTCCGTGGCACCTTTTTCT
1 T-TTTAAGCCCACAACTCCGTGGCACTTTTTTCC
* *
1043719 TTTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTT-AAGCCCACAACTCCGTGGCACTTTTTTCC
* *
1043753 TTCTAAGCCCACAACTTCGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACT-TTTTTCC
*
1043787 TTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA-CTT-TTTTCC
* *
1043822 TTCTAAGCCCACAACTTCGTGGCACTCTTTCTT-C
1 TTTTAAGCCCACAACTCCGTGGCACT-TTT-TTCC
*
1043856 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTT--AAGCCCACAACTCCGTGGCACTTTTTTCC
1043890 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
*
1043927 TTTTAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
1043959 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
*
1043995 TTTTAAGTCCACAACTCCGTGGCATCTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA-CTTTTTTCC
1044029 TT
1 TT
1044031 CCCAAAGCCC
Statistics
Matches: 308, Mismatches: 20, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.02
33 45 0.15
34 133 0.43
35 93 0.30
36 30 0.10
37 2 0.01
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.35
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
Found at i:1044064 original size:32 final size:31
Alignment explanation
Indices: 1044027--1044124 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
1044017 CATCTTTTTT
1044027 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
1044058 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
1044090 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
1044123 CC
1 CC
1044125 CCTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:1044108 original size:33 final size:32
Alignment explanation
Indices: 1044032--1044124 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
1044022 TTTTTCCTTC
1044032 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
1044063 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
1044097 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
1044125 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:1044211 original size:49 final size:49
Alignment explanation
Indices: 1044154--1045362 Score: 1713
Period size: 49 Copynumber: 24.9 Consensus size: 49
1044144 TGGCCTTTTC
*
1044154 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1044203 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044252 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1044301 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044350 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1044399 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044448 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1044497 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044546 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1044595 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044644 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1044693 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044742 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1044791 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044840 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1044889 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1044938 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1044987 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
1045036 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1045085 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1045134 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
1045179 C--CTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1045226 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
1045271 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT
*
1045320 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 -CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1045363 ACATCCTTTT
Statistics
Matches: 1018, Mismatches: 127, Indels: 27
0.87 0.11 0.02
Matches are distributed among these distances:
43 76 0.07
45 2 0.00
47 1 0.00
49 903 0.89
50 1 0.00
52 35 0.03
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:1044321 original size:98 final size:98
Alignment explanation
Indices: 1044152--1045423 Score: 2183
Period size: 98 Copynumber: 13.0 Consensus size: 98
1044142 GCTGGCCTTT
1044152 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044217 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
1044250 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044315 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
*
1044348 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044413 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
1044446 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044511 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
1044544 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044609 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
1044642 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044707 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
*
1044740 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044805 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
1044838 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1044903 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
*
1044936 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1045001 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
* *
1045034 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1045099 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
* *
1045132 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
*
1045191 ATATCGCTGGCATTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
* * *
1045224 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * *
1045283 ATATAGCTGGCCTTGAATCAGCATATCGGCACCTTT
66 ATATCGCTGGCCTTGAATCAGCATATTGGCA---TC
* * *
1045319 TCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTT
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T--TCATCTTT
* * *
1045384 AAG-CCAATATCGTTGGCCGTGAATCAACATATTGGCATC
59 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
1045423 T
1 T
1045424 TTATCACTTT
Statistics
Matches: 1134, Mismatches: 24, Indels: 26
0.96 0.02 0.02
Matches are distributed among these distances:
92 129 0.11
94 1 0.00
95 44 0.04
98 921 0.81
104 2 0.00
106 1 0.00
107 29 0.03
108 7 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
ATATCGCTGGCCTTGAATCAGCATATTGGCATC
Found at i:1045200 original size:43 final size:43
Alignment explanation
Indices: 1045137--1045318 Score: 238
Period size: 43 Copynumber: 4.1 Consensus size: 43
1045127 GCATCTTCAT
* *
1045137 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
1045180 CTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* * *
1045227 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
1045272 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1045315 CTTT
1 CTTT
1045319 TCCATCTTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
43 81 0.68
45 1 0.01
47 1 0.01
49 37 0.31
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:1045209 original size:92 final size:92
Alignment explanation
Indices: 1045088--1045371 Score: 469
Period size: 92 Copynumber: 3.0 Consensus size: 92
1045078 GCACCTTCAT
1045088 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1045153 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1045180 CTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
1045245 GCTGGCCTTGAATCAACACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1045272 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAAT
*
1045337 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
1045368 CTTT
1 CTTT
1045372 TTCATCATCT
Statistics
Matches: 179, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
92 129 0.72
94 3 0.02
95 42 0.23
96 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1045296 original size:22 final size:22
Alignment explanation
Indices: 1045229--1045296 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1045219 GCATCTTCAT
*
1045229 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
1045251 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
1045272 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1045294 CTT
1 CTT
1045297 GAATCAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1045409 original size:55 final size:52
Alignment explanation
Indices: 1045272--1045409 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
1045262 ACATTGGCAC
* *
1045272 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
1045324 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * *
1045380 CTTTAAG-CCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1045410 ACATATTGGC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
55 18 0.25
56 10 0.14
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:1046245 original size:33 final size:33
Alignment explanation
Indices: 1046208--1046274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1046198 TTCAACGATT
1046208 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1046241 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1046274 T
1 T
1046275 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1046246 original size:13 final size:13
Alignment explanation
Indices: 1046228--1046252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1046218 CATAAAATGT
1046228 TGTATCGATACAA
1 TGTATCGATACAA
1046241 TGTATCGATACA
1 TGTATCGATACA
1046253 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1046336 original size:13 final size:13
Alignment explanation
Indices: 1046318--1046342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1046308 ATTACTCACA
1046318 TGTATCGATACAT
1 TGTATCGATACAT
1046331 TGTATCGATACA
1 TGTATCGATACA
1046343 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1046479 original size:52 final size:52
Alignment explanation
Indices: 1046351--1046471 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1046341 CACTGATCTT
*
1046351 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1046403 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1046455 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1046472 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1050558 original size:52 final size:52
Alignment explanation
Indices: 1050488--1050608 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1050478 GAAAATTTAT
*
1050488 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1050540 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1050592 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1050609 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1050621 original size:52 final size:51
Alignment explanation
Indices: 1050488--1050628 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1050478 GAAAATTTAT
1050488 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1050540 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1050592 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1050629 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1050635 original size:13 final size:13
Alignment explanation
Indices: 1050617--1050641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1050607 CAAAGATCAG
1050617 TGTATCGATACAA
1 TGTATCGATACAA
1050630 TGTATCGATACA
1 TGTATCGATACA
1050642 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1050726 original size:13 final size:13
Alignment explanation
Indices: 1050708--1050732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1050698 CAAAAAAATA
1050708 TGTATCGATACAT
1 TGTATCGATACAT
1050721 TGTATCGATACA
1 TGTATCGATACA
1050733 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1050728 original size:33 final size:33
Alignment explanation
Indices: 1050686--1050752 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1050676 AGTAGCTTAA
1050686 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1050719 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1050752 A
1 A
1050753 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1056122 original size:30 final size:32
Alignment explanation
Indices: 1056097--1056159 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1056087 TTAGGCTTAG
1056097 AAAGGTTGCCACCAACTTGTGTAGGCTTTAAA
1 AAAGGTTGCCACCAACTTGTGTAGGCTTTAAA
*
1056129 AAAGGTTGCCACCAACTTATG--GGCTTTAAA
1 AAAGGTTGCCACCAACTTGTGTAGGCTTTAAA
1056159 A
1 A
1056160 GGATGCCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 10 0.33
32 20 0.67
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (32 bp):
AAAGGTTGCCACCAACTTGTGTAGGCTTTAAA
Found at i:1056166 original size:28 final size:30
Alignment explanation
Indices: 1056089--1056168 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 30
1056079 CAGCGACATT
* *
1056089 AGGC-TTAGAAAGGTTGCCACCAACTTGTG
1 AGGCTTTAAAAAGGTTGCCACCAACTTATG
1056118 TAGGCTTTAAAAAAGGTTGCCACCAACTTATG
1 -AGGCTTT-AAAAAGGTTGCCACCAACTTATG
*
1056150 -GGCTTT-AAAAGGATGCCAC
1 AGGCTTTAAAAAGGTTGCCAC
1056169 TGATTTGTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.27
30 10 0.22
31 2 0.04
32 21 0.47
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (30 bp):
AGGCTTTAAAAAGGTTGCCACCAACTTATG
Found at i:1056188 original size:28 final size:28
Alignment explanation
Indices: 1056129--1056528 Score: 358
Period size: 28 Copynumber: 14.1 Consensus size: 28
1056119 AGGCTTTAAA
* ** * *
1056129 AAAGGTTGCCACCAACTTATGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
1056157 AAAGGATGCCACTGATTTGTGAGG-TTTG
1 AAAGGATGCCACTGACTTGTG-GGCTTTG
* * * *
1056185 AAAGGGTG-AATCTAACTTGTGGGCTTCG
1 AAAGGATGCCA-CTGACTTGTGGGCTTTG
* *
1056213 AAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
1056241 AAAGGGTGCCACTAATTTATGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
1056269 AAAGGCTGCAACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1056297 AGAGAGGTTGCTACCGAATTGTGTGGGC-TT-
1 A-A-AGGATGCCACTG-ACT-TGTGGGCTTTG
*
1056327 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* * * *
1056356 AAATGATTCCACTGACATGCGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
1056384 AAATGGATGCCATTGACTTGTGGGCTTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* * *
1056413 AAAGGATACCGCTGACATGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
1056441 AGAAGGATGCGACTGACTTGTGGGCTTTG
1 A-AAGGATGCCACTGACTTGTGGGCTTTG
*
1056470 AAAGGATGCCACTGACATGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1056498 AAAGGATGCCACTAACATGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
1056526 AAA
1 AAA
1056529 AAGGTCGTAT
Statistics
Matches: 305, Mismatches: 54, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
27 10 0.03
28 211 0.69
29 63 0.21
30 10 0.03
31 4 0.01
32 7 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:1056410 original size:57 final size:56
Alignment explanation
Indices: 1056148--1056528 Score: 333
Period size: 57 Copynumber: 6.7 Consensus size: 56
1056138 CACCAACTTA
* * * * *
1056148 TGGGCTTTAAAAGGATGCCACTGATTTGTGAGG-TTTGAAAGGGTGA--ATCTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTG-GGCTTTGAAAGGAT-ACCA-CTGACATG
* * * * * * ** *
1056204 TGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAATTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACATG
* * * * * * *
1056260 TGGGCTTTAAAAGGCTGCAACTGACTTGTGGGCTTTGAGAGAGGTTGCTACCGA-ATTGTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-A-AGGATACCACTGACA---TG
* * *
1056320 TGGGC-TT-AAAGGGGTGCCACTGACTTGTGGGCTTTGAAATGATTCCACTGACATG
1 TGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACATG
* * *
1056375 CGGGCTTTGAAATGGATGCCATTGACTTGTGGGCTTTGAAAGGATACCGCTGACATG
1 TGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACATG
* *
1056432 TGGGCTTTGAGAAGGATGCGACTGACTTGTGGGCTTTGAAAGGATGCCACTGACATG
1 TGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACATG
* * *
1056489 TGGGCTTTGAAAGGATGCCACTAACATGTGAGCTTTGAAA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
1056529 AAGGTCGTAT
Statistics
Matches: 270, Mismatches: 42, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
55 8 0.03
56 103 0.38
57 111 0.41
58 16 0.06
59 26 0.10
60 6 0.02
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (56 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACATG
Found at i:1056441 original size:85 final size:84
Alignment explanation
Indices: 1056148--1056528 Score: 268
Period size: 85 Copynumber: 4.5 Consensus size: 84
1056138 CACCAACTTA
* * ** * * * * *
1056148 TGGGCTTTAAAAGGATGCCACTGATTTGTGAGG-TTTGAAAGGGTG-AATCTAACTTGTGGGCTT
1 TGGGCTTTGAAAGGATACCACTGACATGTG-GGCTTTGAAAGGATGCCA-CTGACATGCGGGCTT
* * *
1056211 CGAAAGGGTGCCACTGACTTG
64 TGAAAGGATGCCACTGACATG
* * * * ** * * * * * *
1056232 TGGGCTTCGAAAGGGTGCCACTAATTTATGGGCTTTAAAAGGCTGCAACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAGGATACCACTGACATGTGGGCTTTGAAAGGATGCCACTGACATGCGGGCTTTG
* * *
1056297 AGAGAGGTTGCTACCGA-ATTGTG
66 A-A-AGGATGCCACTGACA---TG
* * * * *
1056320 TGGGC-TT-AAAGGGGTGCCACTGACTTGTGGGCTTTGAAATGATTCCACTGACATGCGGGCTTT
1 TGGGCTTTGAAA-GGATACCACTGACATGTGGGCTTTGAAAGGATGCCACTGACATGCGGGCTTT
* *
1056383 GAAATGGATGCCATTGACTTG
65 GAAA-GGATGCCACTGACATG
* * * *
1056404 TGGGCTTTGAAAGGATACCGCTGACATGTGGGCTTTGAGAAGGATGCGACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGGATACCACTGACATGTGGGCTTTGA-AAGGATGCCACTGACATGCGGGCTTT
1056469 GAAAGGATGCCACTGACATG
65 GAAAGGATGCCACTGACATG
* * *
1056489 TGGGCTTTGAAAGGATGCCACTAACATGTGAGCTTTGAAA
1 TGGGCTTTGAAAGGATACCACTGACATGTGGGCTTTGAAA
1056529 AAGGTCGTAT
Statistics
Matches: 240, Mismatches: 44, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
83 2 0.01
84 60 0.25
85 76 0.32
86 50 0.21
87 45 0.19
88 7 0.03
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (84 bp):
TGGGCTTTGAAAGGATACCACTGACATGTGGGCTTTGAAAGGATGCCACTGACATGCGGGCTTTG
AAAGGATGCCACTGACATG
Found at i:1063618 original size:15 final size:15
Alignment explanation
Indices: 1063585--1063629 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1063575 TGTATCGATG
* *
1063585 ATTTTGTGGTGGGTA
1 ATTTTGTGGTGGATT
*
1063600 ATTTGGTGGTGGATT
1 ATTTTGTGGTGGATT
*
1063615 ATTTTGTGGCGGATT
1 ATTTTGTGGTGGATT
1063630 TGGAGAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.47
Consensus pattern (15 bp):
ATTTTGTGGTGGATT
Found at i:1068511 original size:52 final size:52
Alignment explanation
Indices: 1068370--1068518 Score: 230
Period size: 52 Copynumber: 2.9 Consensus size: 52
1068360 CAAAATATGA
*
1068370 AAATTTGCCTGCATGTATCGATACATTGAAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAG-ATCAGTGTATCGATACATCTGGGC
* *
1068422 AAATTTGCCTGCATGTATCGATACACTA-TTCAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TAGATCAGTGTATCGATACATCTGGGC
*
1068474 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATAGATCAGTGTATCGATACA
1068519 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.97
53 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAGATCAGTGTATCGATACATCTGGGC
Found at i:1068525 original size:13 final size:13
Alignment explanation
Indices: 1068507--1068531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1068497 CAAAGATCAG
1068507 TGTATCGATACAA
1 TGTATCGATACAA
1068520 TGTATCGATACA
1 TGTATCGATACA
1068532 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1068609 original size:33 final size:33
Alignment explanation
Indices: 1068572--1068638 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1068562 AGTAGCTTAA
1068572 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1068605 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1068638 A
1 A
1068639 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1068612 original size:13 final size:13
Alignment explanation
Indices: 1068594--1068618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1068584 CAAAAAAATA
1068594 TGTATCGATACAT
1 TGTATCGATACAT
1068607 TGTATCGATACA
1 TGTATCGATACA
1068619 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1076148 original size:92 final size:93
Alignment explanation
Indices: 1076010--1076223 Score: 231
Period size: 92 Copynumber: 2.3 Consensus size: 93
1076000 GAGACTGAAC
* * * *
1076010 GTATCAATACATCTTGTGAATGTATTGATACATATGGTTGGCAGTAGCTACAA-AATAC-TAAAA
1 GTATCGATACATCATATGAATGTATCGATACATATGGTTGGCAGTAGCTA-AACAATACTTAAAA
*
1076073 CCCTAATTTTTATCAATACA-AGTGAAAAT
65 CCCTAATTTGTATCAATACACA-TGAAAAT
* * * * * *
1076102 GTATCGATACATCATATGAATGTATCGATACATTTTGTTGGTAGTAGTTAAACAATTCTTGAAAC
1 GTATCGATACATCATATGAATGTATCGATACATATGGTTGGCAGTAGCTAAACAATACTTAAAAC
* * *
1076167 TCTTATTTGTATCAATACACATTAAAAT
66 CCTAATTTGTATCAATACACATGAAAAT
*
1076195 GTATTGATACA--ATATAGAATGTATCGATA
1 GTATCGATACATCATAT-GAATGTATCGATA
1076224 AATCCATAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
91 6 0.06
92 59 0.57
93 37 0.36
94 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (93 bp):
GTATCGATACATCATATGAATGTATCGATACATATGGTTGGCAGTAGCTAAACAATACTTAAAAC
CCTAATTTGTATCAATACACATGAAAAT
Found at i:1076204 original size:20 final size:20
Alignment explanation
Indices: 1076174--1076243 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
1076164 AACTCTTATT
*
1076174 TGTATCAATACACAT-TAAAA
1 TGTATCGATACA-ATATAAAA
* *
1076194 TGTATTGATACAATATAGAA
1 TGTATCGATACAATATAAAA
1076214 TGTATCGATA-AATCCATAAAA
1 TGTATCGATACAAT--ATAAAA
1076235 --TATCGATAC
1 TGTATCGATAC
1076244 TTTGAGTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.32
20 23 0.56
21 5 0.12
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAATATAAAA
Found at i:1077419 original size:13 final size:13
Alignment explanation
Indices: 1077401--1077427 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1077391 ACATTATGCT
1077401 TTGTATCGATACA
1 TTGTATCGATACA
1077414 TTGTATCGATACA
1 TTGTATCGATACA
1077427 T
1 T
1077428 ACTCAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1077502 original size:20 final size:20
Alignment explanation
Indices: 1077477--1077529 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1077467 CTAAGTGAAA
1077477 TGTATCGATACATAG-GACAT
1 TGTATCGATACATAGAGA-AT
1077497 TGTATCGATACA-AGAAGAAT
1 TGTATCGATACATAG-AGAAT
*
1077517 TGCATCGATACAT
1 TGTATCGATACAT
1077530 TATGCCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAGAGAAT
Found at i:1086203 original size:13 final size:13
Alignment explanation
Indices: 1086185--1086214 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1086175 GATACATGAG
1086185 ACATTGTAACGAT
1 ACATTGTAACGAT
*
1086198 ACATTGTATCGAT
1 ACATTGTAACGAT
1086211 ACAT
1 ACAT
1086215 GAAGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
ACATTGTAACGAT
Found at i:1089097 original size:76 final size:78
Alignment explanation
Indices: 1089001--1089199 Score: 208
Period size: 79 Copynumber: 2.6 Consensus size: 78
1088991 AATAACAGGG
* * * * *
1089001 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT-
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTG
*
1089063 AGAA-AAAATCGGGA
64 AGAATAAAACCGGGA
* ** *
1089077 TTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTGA
* *
1089142 GAATAAAGCCGGGG
65 GAATAAAACCGGGA
* * *
1089156 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1089200 GAAATAACGA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
75 7 0.07
76 43 0.43
77 2 0.02
78 3 0.03
79 45 0.45
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTGAG
AATAAAACCGGGA
Found at i:1089191 original size:28 final size:28
Alignment explanation
Indices: 1089151--1089222 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1089141 GGAATAAAGC
** *
1089151 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1089179 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1089207 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1089223 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1089280 original size:52 final size:50
Alignment explanation
Indices: 1089211--1089380 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 50
1089201 AAATAACGAG
* * *
1089211 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTT-GAAATAAAACCGGA
** * *
1089263 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTG-AAATAAAACC-GGA
*
1089316 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGAA--ATAAAACCGGA
1089367 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1089381 TCGAAAATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.82
53 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGA
Found at i:1089399 original size:28 final size:28
Alignment explanation
Indices: 1089354--1089435 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
1089344 AGTGTTTTAA
* *
1089354 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1089381 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
1089408 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
1089436 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:1091872 original size:13 final size:13
Alignment explanation
Indices: 1091854--1091879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1091844 ACAAAGATCC
1091854 ATGTATCGATACA
1 ATGTATCGATACA
1091867 ATGTATCGATACA
1 ATGTATCGATACA
1091880 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1091875 original size:33 final size:33
Alignment explanation
Indices: 1091833--1091899 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1091823 AAAATTTCCA
***
1091833 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1091866 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1091899 A
1 A
1091900 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1091943 original size:19 final size:18
Alignment explanation
Indices: 1091919--1091986 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1091909 CAGTAGCTAA
1091919 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1091938 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1091953 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1091970 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1091987 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1091959 original size:13 final size:13
Alignment explanation
Indices: 1091941--1091965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1091931 ACAATACTTA
1091941 TGTATCGATACAT
1 TGTATCGATACAT
1091954 TGTATCGATACA
1 TGTATCGATACA
1091966 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1091963 original size:32 final size:32
Alignment explanation
Indices: 1091922--1091984 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1091912 TAGCTAATTA
*
1091922 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1091954 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1091985 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1092066 original size:21 final size:21
Alignment explanation
Indices: 1092042--1092098 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1092032 CATTTGTAGG
1092042 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1092063 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1092084 ATGTATCGATACATT
1 ATGTATCGATACATT
1092099 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1092127 original size:18 final size:18
Alignment explanation
Indices: 1092104--1092139 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1092094 ACATTTAAAT
1092104 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
1092122 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
1092140 ACACTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:1096812 original size:140 final size:140
Alignment explanation
Indices: 1096408--1096842 Score: 669
Period size: 140 Copynumber: 3.1 Consensus size: 140
1096398 AAGTATCGAT
** *
1096408 ATAATAATTTTTATTTAATTTTTAATTTCCAAAAATTCATTTCATACCTTAATGGAAATCCGAAA
1 ATAATAATTTTTATTTAATTTTTAATTTCCAAAAATTCATTTTGTACCTTAATGGAGATCCGAAA
* * *
1096473 AGATACAAAAAGTTTCAAAGATTTTTATATCCTTACGAGAAACCATAGGAATATTAGAAATCTTG
66 AGATACGAAAAGTTTCAAAGATTTTTATATCCCTACGAAAAACCATAGGAATATTAGAAATCTTG
*
1096538 AAAAATTAGG
131 AAAAATTAAG
* * *
1096548 ATAATAATTTTTATTTGATTTTTAATTTCCAAAAATTCA--TTGTACCATAATGGAGAACCGAAA
1 ATAATAATTTTTATTTAATTTTTAATTTCCAAAAATTCATTTTGTACCTTAATGGAGATCCGAAA
* * * * *
1096611 AGATATGAAATGTTTTAAAGATTTCTATA-CCCTTACAAAAAACCATAGGAATATTAGAAATCTT
66 AGATACGAAAAGTTTCAAAGATTTTTATATCCC-TACGAAAAACCATAGGAATATTAGAAATCTT
*
1096675 AAAAAATTAAG
130 GAAAAATTAAG
*
1096686 ATAATAATTTTTATTTAATTTTTAATTTTCAAAAATTCATTTTGTACCTTAATGGAGATCCGAAA
1 ATAATAATTTTTATTTAATTTTTAATTTCCAAAAATTCATTTTGTACCTTAATGGAGATCCGAAA
* *
1096751 AGATACGAAAAGTTTCAAAGATTTTTATATCCCTACGAAAAACCATAAGAATATTAAAAATCTTG
66 AGATACGAAAAGTTTCAAAGATTTTTATATCCCTACGAAAAACCATAGGAATATTAGAAATCTTG
1096816 AAAAATTAAG
131 AAAAATTAAG
1096826 ATAATAATTTTTATTTA
1 ATAATAATTTTTATTTA
1096843 GTGATAAAAT
Statistics
Matches: 263, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
137 2 0.01
138 118 0.45
140 140 0.53
141 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (140 bp):
ATAATAATTTTTATTTAATTTTTAATTTCCAAAAATTCATTTTGTACCTTAATGGAGATCCGAAA
AGATACGAAAAGTTTCAAAGATTTTTATATCCCTACGAAAAACCATAGGAATATTAGAAATCTTG
AAAAATTAAG
Found at i:1096898 original size:17 final size:17
Alignment explanation
Indices: 1096855--1096896 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
1096845 GATAAAATAA
*
1096855 TATTTA-TTTATTATTT
1 TATTTATTTTATAATTT
1096871 TATTTATTTTATAATTT
1 TATTTATTTTATAATTT
1096888 T-TTTATTTT
1 TATTTATTTT
1096897 TAAAAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTATTTTATAATTT
Found at i:1097375 original size:21 final size:21
Alignment explanation
Indices: 1097351--1097404 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1097341 TTTTTGTCCA
*
1097351 AATGAATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
1097372 AATGTATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
1097393 AATGTATCGATA
1 AATGTATCGATA
1097405 TAAGGTCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTCTAG
Found at i:1097585 original size:20 final size:21
Alignment explanation
Indices: 1097552--1097596 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
1097542 TTGTAGAATG
1097552 CATCGATACATTGTATCGATA
1 CATCGATACATTGTATCGATA
*
1097573 CATCGAT-CTTTGTATCGATA
1 CATCGATACATTGTATCGATA
1097593 CATC
1 CATC
1097597 TAGGAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (21 bp):
CATCGATACATTGTATCGATA
Found at i:1101574 original size:7 final size:6
Alignment explanation
Indices: 1101561--1101609 Score: 52
Period size: 5 Copynumber: 8.7 Consensus size: 6
1101551 GTTTGGCTTA
*
1101561 TTTTTC TATTTTC -TTTT- TTTTTC TTTTT- TTTTTC TTTCTC TTTTT-
1 TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1101606 TTTT
1 TTTT
1101610 CTCCACTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 17 0.46
6 15 0.41
7 5 0.14
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:1101583 original size:17 final size:15
Alignment explanation
Indices: 1101561--1101609 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 15
1101551 GTTTGGCTTA
1101561 TTTTTCTATTTTCTTTT
1 TTTTTCT-TTTT-TTTT
1101578 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
1101593 TCTTTCTCTTTTTTTTT
1 T-TTT-TCTTTTTTTTT
1101610 CTCCACTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.17
16 7 0.23
17 18 0.60
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:1101588 original size:16 final size:16
Alignment explanation
Indices: 1101561--1101611 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
1101551 GTTTGGCTTA
1101561 TTTTTCTATTTTCTTTT-
1 TTTTTCT-TTTT-TTTTC
1101578 TTTTTCTTTTTTTTTTC
1 TTTTTC-TTTTTTTTTC
*
1101595 TTTCTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
1101611 T
1 T
1101612 CCACTTGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 15 0.48
17 15 0.48
18 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:1101604 original size:11 final size:11
Alignment explanation
Indices: 1101563--1101611 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1101553 TTGGCTTATT
*
1101563 TTTCTATTTTC
1 TTTCTTTTTTC
1101574 TTT-TTTTTTC
1 TTTCTTTTTTC
*
1101584 TTTTTTTTTTC
1 TTTCTTTTTTC
*
1101595 TTTCTCTTTTTT
1 TTTCT-TTTTTC
1101607 TTTCT
1 TTTCT
1101612 CCACTTGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:1104619 original size:16 final size:16
Alignment explanation
Indices: 1104598--1104628 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1104588 CATTTATATG
1104598 TGACTTTATGGATTAT
1 TGACTTTATGGATTAT
*
1104614 TGACTTTTTGGATTA
1 TGACTTTATGGATTA
1104629 ACTTTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (16 bp):
TGACTTTATGGATTAT
Found at i:1105348 original size:72 final size:71
Alignment explanation
Indices: 1105173--1105348 Score: 194
Period size: 72 Copynumber: 2.5 Consensus size: 71
1105163 TGAGACTAAA
* ** *
1105173 TGTATTGATACATCTTGTGAATGTATCAATACATATGGTTGGCAGTAGCTACAAAATGCTAAAAC
1 TGTATTGATACA-CATGAAAATGTATCAATACATATGGTTGGCAGTAGCTACAAAATCCTAAAAC
*
1105238 CCTTATT
65 CCTCATT
* * * * * *
1105245 TCTATCGATACA-AGTGAAAATGTATCAATACATTTTGTTGGTAGTAGCTA-AATAATTCCTGAA
1 TGTATTGATACACA-TGAAAATGTATCAATACATATGGTTGGCAGTAGCTACAA-AA-TCCTAAA
1105308 ACCCTCATT
63 ACCCTCATT
*
1105317 TGTATTGATACACATGAAAATGTATCGATACA
1 TGTATTGATACACATGAAAATGTATCAATACA
1105349 ATATAGAATG
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
70 2 0.02
71 33 0.38
72 50 0.58
73 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (71 bp):
TGTATTGATACACATGAAAATGTATCAATACATATGGTTGGCAGTAGCTACAAAATCCTAAAACC
CTCATT
Found at i:1107758 original size:17 final size:16
Alignment explanation
Indices: 1107736--1107780 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
1107726 AATTTTGTAT
1107736 TATTTATTTAGGATAAA
1 TATTTATTTAGG-TAAA
*
1107753 TATTTAATTTTGGTAAA
1 TATTT-ATTTAGGTAAA
1107770 TATTTATTTAG
1 TATTTATTTAG
1107781 AAAAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TATTTATTTAGGTAAA
Found at i:1113326 original size:52 final size:52
Alignment explanation
Indices: 1113181--1113306 Score: 243
Period size: 52 Copynumber: 2.4 Consensus size: 52
1113171 AATATGAAAT
1113181 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
*
1113233 TTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1113285 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
1113307 AAGATTAGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:1113333 original size:13 final size:13
Alignment explanation
Indices: 1113315--1113339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1113305 CAAAGATTAG
1113315 TGTATCGATACAA
1 TGTATCGATACAA
1113328 TGTATCGATACA
1 TGTATCGATACA
1113340 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1113416 original size:19 final size:19
Alignment explanation
Indices: 1113392--1113475 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
1113382 AGCGATACAT
*
1113392 TGTATCGATATAAAACTTA
1 TGTATCGATACAAAACTTA
1113411 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1113430 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
1113443 TGTATCAATACAACACTTA
1 TGTATCGATACAAAACTTA
1113462 TGTATCGATACAAA
1 TGTATCGATACAAA
1113476 TCGTTGAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.18
14 1 0.02
16 2 0.04
18 1 0.02
19 41 0.75
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1113447 original size:32 final size:32
Alignment explanation
Indices: 1113411--1113473 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1113401 ATAAAACTTA
*
1113411 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCAATACAAAACTTATGTATCGATACAT
*
1113443 TGTATCAATACAACACTTATGTATCGATACA
1 TGTATCAATACAAAACTTATGTATCGATACA
1113474 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
TGTATCAATACAAAACTTATGTATCGATACAT
Found at i:1114632 original size:37 final size:37
Alignment explanation
Indices: 1114591--1114661 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
1114581 ATTTTTGTAA
1114591 GTTTGTCTTAAATT-GGACATCATCTAACTTTTAGGTT
1 GTTTGT-TTAAATTAGGACATCATCTAACTTTTAGGTT
* * *
1114628 GTTTGTTTTAATTAGGATATTATCTAACTTTTAG
1 GTTTGTTTAAATTAGGACATCATCTAACTTTTAG
1114662 ATAACTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (37 bp):
GTTTGTTTAAATTAGGACATCATCTAACTTTTAGGTT
Found at i:1114884 original size:157 final size:158
Alignment explanation
Indices: 1114598--1114917 Score: 439
Period size: 157 Copynumber: 2.0 Consensus size: 158
1114588 TAAGTTTGTC
*
1114598 TTAAATTGGACATCATCTAACTTTTAGGTTGTTTGTTTTAATTAGGATATTATCTAACTTTTAGA
1 TTAAATTGGACATCATCTAACTTTTAGGTTGTTTGTCTTAATTAGGATATTATCTAACTTTTAGA
* * * * * **
1114663 TAACTTTATCTTAATTTAGACAAACCATATAGCTTGTAATAGTTGTTAAACCATTTAGGAAACTT
66 TAACTTGATCATAATTTAGACAAACCATATAGCATATAATACTTCATAAACCATTTAGGAAACTT
1114728 -GCTTTTCAAAAACAACATTTTAAGACA
131 AGCTTTTCAAAAACAACATTTTAAGACA
* * *
1114755 TTAAATTGGATATTATTTAACTTTTAGGTTGTTTGTCTTAATTAGGACT-TTATCTAACTTTTAG
1 TTAAATTGGACATCATCTAACTTTTAGGTTGTTTGTCTTAATTAGGA-TATTATCTAACTTTTAG
* * * *
1114819 ATAA-TTGGGTCATAATTTGGACAAATCATTTAGCATATAATACTTCATAAACCATTTAGGAAAC
65 ATAACTT-GATCATAATTTAGACAAACCATATAGCATATAATACTTCATAAACCATTTAGGAAAC
** *
1114883 TTATTTTTTCAAAAATAACATTTTAAGACA
129 TTAGCTTTTCAAAAACAACATTTTAAGACA
1114913 TTAAA
1 TTAAA
1114918 ATAAGGAAAC
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
156 2 0.01
157 110 0.77
158 30 0.21
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (158 bp):
TTAAATTGGACATCATCTAACTTTTAGGTTGTTTGTCTTAATTAGGATATTATCTAACTTTTAGA
TAACTTGATCATAATTTAGACAAACCATATAGCATATAATACTTCATAAACCATTTAGGAAACTT
AGCTTTTCAAAAACAACATTTTAAGACA
Found at i:1116495 original size:218 final size:218
Alignment explanation
Indices: 1116114--1116550 Score: 759
Period size: 218 Copynumber: 2.0 Consensus size: 218
1116104 AAGTTGAGAT
1116114 CTATATGTGATCAAATAGAAATTTAAAACACATATCTGATTGAGATCTTATCCTTTAAAGACTCG
1 CTATATGTGATCAAATAGAAATTTAAAACACATATCTGATTGAGATCTTATCCTTTAAAGACTCG
* *
1116179 TAACTTTGTGTGTATCGATCCCTGCATAATCACTATCATAGTAGGGTTATTTCAATTTATCTTTA
66 TAACTTTGTGTATATCGATCCCTGCATAATCACTATCATAGTAAGGTTATTTCAATTTATCTTTA
* *
1116244 AAGCCACAAGGAGCATAAGTGTCTCCTTCAATGGTAATCCAAATGAATGATCATTGGAGCCTTTT
131 AAGCCACAAGGAGCATAAGTGTCTCCCTCAATGGTAATCCAAATGAATGATCACTGGAGCCTTTT
*
1116309 CAAGGCATGGTAATTCATCTGTG
196 CAAGGCATGGTAATTCATATGTG
* * * *
1116332 CTATATGTGCTCAGATTGAAATTTAAAACACATATCTGATTGAGATCTTATCCTTTAAAGACTTG
1 CTATATGTGATCAAATAGAAATTTAAAACACATATCTGATTGAGATCTTATCCTTTAAAGACTCG
* *
1116397 TAACTTTGTGTATGTCGATCCCTGCATAATCACTATCATAGTAAGGTTATTTTAATTTATCTTT-
66 TAACTTTGTGTATATCGATCCCTGCATAATCACTATCATAGTAAGGTTATTTCAATTTATCTTTA
1116461 AAGACCACAAGGAGCATAAGTGTCTCCCTCAATGGTAATCCAAATGAATGATCACTGGAGCCTTT
131 AAG-CCACAAGGAGCATAAGTGTCTCCCTCAATGGTAATCCAAATGAATGATCACTGGAGCCTTT
1116526 TCAAGGCATGGTAATTCATATGTG
195 TCAAGGCATGGTAATTCATATGTG
1116550 C
1 C
1116551 CAGTAGCTTG
Statistics
Matches: 207, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
217 3 0.01
218 204 0.99
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (218 bp):
CTATATGTGATCAAATAGAAATTTAAAACACATATCTGATTGAGATCTTATCCTTTAAAGACTCG
TAACTTTGTGTATATCGATCCCTGCATAATCACTATCATAGTAAGGTTATTTCAATTTATCTTTA
AAGCCACAAGGAGCATAAGTGTCTCCCTCAATGGTAATCCAAATGAATGATCACTGGAGCCTTTT
CAAGGCATGGTAATTCATATGTG
Found at i:1117436 original size:16 final size:16
Alignment explanation
Indices: 1117417--1117449 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1117407 TTAGACATTG
1117417 TCTTGTTAATATGAAC
1 TCTTGTTAATATGAAC
1117433 TCTTGTTAATATGAAC
1 TCTTGTTAATATGAAC
1117449 T
1 T
1117450 TATCCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (16 bp):
TCTTGTTAATATGAAC
Found at i:1117516 original size:28 final size:28
Alignment explanation
Indices: 1117485--1117543 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
1117475 TACTGTAGAC
*
1117485 ATTGTCTTGTTAAGACAACCTTATCCAT
1 ATTGTCTTATTAAGACAACCTTATCCAT
* *
1117513 ATTGTTTTATTAAGACAAGCTTATCCAT
1 ATTGTCTTATTAAGACAACCTTATCCAT
1117541 ATT
1 ATT
1117544 CTTTGAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (28 bp):
ATTGTCTTATTAAGACAACCTTATCCAT
Found at i:1125619 original size:13 final size:13
Alignment explanation
Indices: 1125594--1125644 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
1125584 ATCCTTCGCA
*
1125594 AAAC-AAAACAAC
1 AAACAAAAAAAAC
*
1125606 AACCAAAAAAAAC
1 AAACAAAAAAAAC
*
1125619 AAAAAGCAAAAAAAC
1 AAACA--AAAAAAAC
1125634 AAACAAAAAAA
1 AAACAAAAAAA
1125645 GGGGGAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.10
13 16 0.52
15 12 0.39
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAC
Found at i:1125619 original size:16 final size:16
Alignment explanation
Indices: 1125592--1125636 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
1125582 GCATCCTTCG
*
1125592 CAAAACAAAACAACAAC
1 CAAAA-AAAACAAAAAC
*
1125609 CAAAAAAAACAAAAAG
1 CAAAAAAAACAAAAAC
1125625 C-AAAAAAACAAA
1 CAAAAAAAACAAA
1125637 CAAAAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.78, C:0.20, G:0.02, T:0.00
Consensus pattern (16 bp):
CAAAAAAAACAAAAAC
Found at i:1132419 original size:52 final size:52
Alignment explanation
Indices: 1132341--1132458 Score: 200
Period size: 52 Copynumber: 2.3 Consensus size: 52
1132331 AAGTTGCTTG
* *
1132341 CATGTATCGATAGATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
1132393 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
1132445 CATGTATCGATACA
1 CATGTATCGATACA
1132459 AAGATCAGTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:1132471 original size:52 final size:52
Alignment explanation
Indices: 1132341--1132478 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
1132331 AAGTTGCTTG
* *
1132341 CATGTATCGATAGATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
*** * *
1132393 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1132445 CATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CATGTATCGATACATAAGAT-AGTGTATCGATACA
1132479 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:1132575 original size:13 final size:13
Alignment explanation
Indices: 1132557--1132581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1132547 CAAAAAAATA
1132557 TGTATCGATACAT
1 TGTATCGATACAT
1132570 TGTATCGATACA
1 TGTATCGATACA
1132582 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1132577 original size:33 final size:33
Alignment explanation
Indices: 1132535--1132601 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1132525 AGTAGCTTAA
1132535 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1132568 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1132601 A
1 A
1132602 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1133309 original size:16 final size:16
Alignment explanation
Indices: 1133288--1133318 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1133278 TTTTAACTAG
1133288 ATGTATCGATACATCA
1 ATGTATCGATACATCA
1133304 ATGTATCGATACATC
1 ATGTATCGATACATC
1133319 TGAGTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGTATCGATACATCA
Found at i:1133359 original size:20 final size:20
Alignment explanation
Indices: 1133334--1133447 Score: 140
Period size: 20 Copynumber: 5.8 Consensus size: 20
1133324 AAAAGGACAG
* *
1133334 AATGTATTGATACATTAAAA
1 AATGTATCGATACATTCAAA
*
1133354 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1133374 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1133394 CATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1133414 CATGTATCGATACATT-GAA
1 AATGTATCGATACATTCAAA
*
1133433 AATGTATCCATACAT
1 AATGTATCGATACAT
1133448 CTAGGTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
19 14 0.16
20 71 0.84
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1133408 original size:12 final size:12
Alignment explanation
Indices: 1133375--1133428 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
1133365 ACATTGAAAA
1133375 ATGTATCGATAC
1 ATGTATCGATAC
1133387 A--T-TC-ATAC
1 ATGTATCGATAC
1133395 ATGTATCGATAC
1 ATGTATCGATAC
1133407 A--T-TC-ATAC
1 ATGTATCGATAC
1133415 ATGTATCGATAC
1 ATGTATCGATAC
1133427 AT
1 AT
1133429 TGAAAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
8 10 0.29
9 4 0.12
10 4 0.12
11 4 0.12
12 12 0.35
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1133428 original size:60 final size:59
Alignment explanation
Indices: 1133335--1133447 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 59
1133325 AAAGGACAGA
* *
1133335 ATGTATTGATACATTAAAAAATGTATCGATACATTGAAAAATGTATCGATACATTCATAC
1 ATGTATCGATACATTAAAAAATGTATCGATACATTG-AAAATGTATCCATACATTCATAC
* * *
1133395 ATGTATCGATACATTCATACATGTATCGATACATTGAAAATGTATCCATACAT
1 ATGTATCGATACATTAAAAAATGTATCGATACATTGAAAATGTATCCATACAT
1133448 CTAGGTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 16 0.33
60 32 0.67
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (59 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATTGAAAATGTATCCATACATTCATAC
Found at i:1134357 original size:14 final size:14
Alignment explanation
Indices: 1134334--1134368 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1134324 ATTGTCAACA
*
1134334 AAATTGTTGTCAAG
1 AAATTTTTGTCAAG
1134348 AAATTTTTGTCAAG
1 AAATTTTTGTCAAG
*
1134362 AACTTTT
1 AAATTTT
1134369 GTCGAGAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (14 bp):
AAATTTTTGTCAAG
Found at i:1134472 original size:28 final size:27
Alignment explanation
Indices: 1134441--1134501 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
1134431 CACTAGTTAG
1134441 TGGCACCTTTTCGAAGTCCACAAGTCAA
1 TGGCACCTTTTCGAAGTCCACAA-TCAA
* * *
1134469 TGGCATCTTTTCGAAGTCCATAATCAG
1 TGGCACCTTTTCGAAGTCCACAATCAA
1134496 TGGCAC
1 TGGCAC
1134502 TTGCTGTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (27 bp):
TGGCACCTTTTCGAAGTCCACAATCAA
Found at i:1134728 original size:32 final size:31
Alignment explanation
Indices: 1134680--1134895 Score: 204
Period size: 32 Copynumber: 6.8 Consensus size: 31
1134670 AGAAACCTTC
*
1134680 TTCAAAGCCCACACAAGTCGATGGCAACCCT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1134711 TTCCAAATCCCACACAAGTTGGTGGCAACCTTCT
1 TT-CAAAGCCCACACAAGTCGGTGGCAACC--CT
* *
1134745 TT-AAAGCCCACACAAGTTGGTGGCGACCCT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1134775 TTCTAAAGCCGACACAAGTTGGTGGCAACCTT
1 TTC-AAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1134807 TTCTGAAGCTCACACAA-ACTGGTGGCAACCTCT
1 TTC-AAAGCCCACACAAGTC-GGTGGCAACC-CT
* *
1134840 CTT-AAAGCCCACACAAGTCAGTGGCAACCTT
1 -TTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1134871 TTCAAAAGCCCACACAAGTTGGTGG
1 TTC-AAAGCCCACACAAGTCGGTGG
1134896 AATCTCCTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
30 6 0.04
31 3 0.02
32 136 0.89
33 2 0.01
34 6 0.04
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (31 bp):
TTCAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:1134752 original size:64 final size:63
Alignment explanation
Indices: 1134673--1134895 Score: 247
Period size: 64 Copynumber: 3.5 Consensus size: 63
1134663 CCAATGGAGA
* *
1134673 AACCTTCTTC-AAAGCCCACACAAGTCGATGGCAACCCTTTCCAAATCCCACACAAGTTGGTGGC
1 AACCTT-TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTT-CAAAGCCCACACAAGTTGGTGGC
* * *
1134737 AACCTTCTT-TAAAGCCCACACAAGTTGGTGGCGACCCTTTCTAAAGCCGACACAAGTTGGTGGC
1 AACCTT-TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTC-AAAGCCCACACAAGTTGGTGGC
* * * **
1134801 AACCTTTTCTGAAGCTCACACAA-ACTGGTGGCAACCTCTCTT-AAAGCCCACACAAGTCAGTGG
1 AACCTTTTCTAAAGCCCACACAAGTC-GGTGGCAACC-CT-TTCAAAGCCCACACAAGTTGGTGG
1134864 C
63 C
* *
1134865 AACCTTTTCAAAAGCCCACACAAGTTGGTGG
1 AACCTTTTCTAAAGCCCACACAAGTCGGTGG
1134896 AATCTCCTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.02
64 127 0.95
65 2 0.01
66 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (63 bp):
AACCTTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:1134847 original size:96 final size:96
Alignment explanation
Indices: 1134683--1134895 Score: 275
Period size: 96 Copynumber: 2.2 Consensus size: 96
1134673 AACCTTCTTC
* * * **
1134683 AAAGCCCACACAAGTCGATGGCAACCCTTTCCAAATCCCACACAAGTTGGTGGCAACCTTCTTTA
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAACTGGTGGCAACCTTCTTTA
** * *
1134748 AAGCCCACACAAGTTGGTGGCGACCCTTTCT
66 AAGCCCACACAAGTCAGTGGCAACCCTTTCA
* * ** *
1134779 AAAGCCGACACAAGTTGGTGGCAACCTTTTCTGAAGCTCACACAAACTGGTGGCAACC-TCTCTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAACTGGTGGCAACCTTCT-TT
*
1134843 AAAGCCCACACAAGTCAGTGGCAACCTTTTCA
65 AAAGCCCACACAAGTCAGTGGCAACCCTTTCA
1134875 AAAGCCCACACAAGTTGGTGG
1 AAAGCCCACACAAGTTGGTGG
1134896 AATCTCCTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
95 3 0.03
96 97 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (96 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACACAAACTGGTGGCAACCTTCTTTA
AAGCCCACACAAGTCAGTGGCAACCCTTTCA
Found at i:1135552 original size:20 final size:20
Alignment explanation
Indices: 1135529--1135601 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1135519 ACAATTCAAA
1135529 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
1135549 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
1135570 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1135590 GTATCGATACAT
1 GTATCGATACAT
1135602 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1135573 original size:21 final size:21
Alignment explanation
Indices: 1135547--1135622 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1135537 ACATGTTGCA
1135547 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
1135568 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
1135586 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
1135609 ATGTATCGATACAT
1 ATGTATCGATACAT
1135623 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:1135580 original size:41 final size:41
Alignment explanation
Indices: 1135529--1135622 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1135519 ACAATTCAAA
* *
1135529 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1135570 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1135611 GTATCGATACAT
1 GTATCGATACAT
1135623 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1135679 original size:13 final size:13
Alignment explanation
Indices: 1135661--1135686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1135651 TACAGCAAGT
1135661 ATGTATCGATACA
1 ATGTATCGATACA
1135674 ATGTATCGATACA
1 ATGTATCGATACA
1135687 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1141862 original size:20 final size:21
Alignment explanation
Indices: 1141793--1141870 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
1141783 AATGTCCAAA
*
1141793 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
1141813 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
1141838 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
1141858 TTGTATCGATACA
1 ATGTATCGATACA
1141871 ATGAATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:1141880 original size:13 final size:13
Alignment explanation
Indices: 1141862--1141896 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1141852 TTTTCTTTGT
1141862 ATCGATACAATGA
1 ATCGATACAATGA
* *
1141875 ATCGATACACTGT
1 ATCGATACAATGA
1141888 ATCGATACA
1 ATCGATACA
1141897 GGGTGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (13 bp):
ATCGATACAATGA
Done.