Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_14 ID=scaffold_14-JGI_221_v2.0
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: 2042280
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 64439 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:4445 original size:21 final size:21
Alignment explanation
Indices: 4371--4487 Score: 73
Period size: 21 Copynumber: 5.6 Consensus size: 21
4361 GTTGACCTTT
*
4371 GAATCGAGTT-AAACAAC-AAA
1 GAATCGA-TTCAATCAACAAAA
* *
4391 GAATCGATTCAAACAATAAAAA
1 GAATCGATTCAATCAA-CAAAA
* *
4413 GAATTGAGTCAATCAACAAAA
1 GAATCGATTCAATCAACAAAA
* **
4434 CAATCGATTCAAAT-AAGTAAA
1 GAATCGATTC-AATCAACAAAA
*
4455 GAATCGATTTAAGAT-AACAAAA
1 GAATCGA-TTCA-ATCAACAAAA
4477 -AATCGATTCAA
1 GAATCGATTCAA
4488 AAGAAACAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
19 3 0.04
20 16 0.21
21 29 0.38
22 28 0.37
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.21
Consensus pattern (21 bp):
GAATCGATTCAATCAACAAAA
Found at i:4456 original size:42 final size:43
Alignment explanation
Indices: 4384--4488 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 43
4374 TCGAGTTAAA
* * *
4384 CAACAAAGAATCGATTCAAACAATAAAAAGAATTGA-GTCA-AT
1 CAACAAAAAATCGATTCAAACAAT-AAAAGAATCGATGTAAGAT
* *
4426 CAACAAAACAATCGATTCAAATAAGT-AAAGAATCGATTTAAGAT
1 CAACAAAA-AATCGATTCAAACAA-TAAAAGAATCGATGTAAGAT
4470 -AACAAAAAATCGATTCAAA
1 CAACAAAAAATCGATTCAAA
4489 AGAAACAACA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 28 0.52
43 23 0.43
44 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.20
Consensus pattern (43 bp):
CAACAAAAAATCGATTCAAACAATAAAAGAATCGATGTAAGAT
Found at i:4591 original size:20 final size:20
Alignment explanation
Indices: 4566--4678 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
4556 GTTGGCCTTT
4566 GAATCGAGTT-AAACAACAAA
1 GAATCGA-TTCAAACAACAAA
* *
4586 GAATCGATTCAAATAATAAA
1 GAATCGATTCAAACAACAAA
*
4606 CAATCGATTCAAACAACAAAAA
1 GAATCGATTCAAACAAC--AAA
* *
4628 GAATCGAGTCAATCAACAAAA
1 GAATCGATTCAAACAAC-AAA
* *
4649 CAATCGATTCAAATAAGCAAA
1 GAATCGATTCAAACAA-CAAA
4670 GAATCGATT
1 GAATCGATT
4679 TAAGACAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.03
20 29 0.38
21 27 0.36
22 18 0.24
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.19
Consensus pattern (20 bp):
GAATCGATTCAAACAACAAA
Found at i:4651 original size:43 final size:43
Alignment explanation
Indices: 4577--4661 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
4567 AATCGAGTTA
* *
4577 AACAACAAAGAATCGATTCAAATAATAAACAATCGATTCAAAC
1 AACAACAAAGAATCGAGTCAAATAAAAAACAATCGATTCAAAC
4620 AACAA-AAAGAATCGAGTC-AATCAACAAAACAATCGATTCAAA
1 AACAACAAAGAATCGAGTCAAAT-AA-AAAACAATCGATTCAAA
4662 TAAGCAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 3 0.08
42 14 0.37
43 21 0.55
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.16
Consensus pattern (43 bp):
AACAACAAAGAATCGAGTCAAATAAAAAACAATCGATTCAAAC
Found at i:4653 original size:21 final size:22
Alignment explanation
Indices: 4577--4661 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
4567 AATCGAGTTA
*
4577 AACAACAAAGAATCGATTCAAA-
1 AACAA-AAACAATCGATTCAAAC
* *
4599 TA-ATAAACAATCGATTCAAAC
1 AACAAAAACAATCGATTCAAAC
* * *
4620 AACAAAAAGAATCGAGTCAATC
1 AACAAAAACAATCGATTCAAAC
4642 AAC-AAAACAATCGATTCAAA
1 AACAAAAACAATCGATTCAAA
4662 TAAGCAAAGA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
20 15 0.30
21 16 0.32
22 19 0.38
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.16
Consensus pattern (22 bp):
AACAAAAACAATCGATTCAAAC
Found at i:4669 original size:22 final size:21
Alignment explanation
Indices: 4587--4678 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
4577 AACAACAAAG
*
4587 AATCGATTCAAATAA-TAAAC
1 AATCGATTCAAATAACAAAAC
* *
4607 AATCGATTCAAACAACAAAAAG
1 AATCGATTCAAATAAC-AAAAC
*
4629 AATCGAGTC-AATCAACAAAAC
1 AATCGATTCAAAT-AACAAAAC
*
4650 AATCGATTCAAATAAGC-AAAG
1 AATCGATTCAAATAA-CAAAAC
4671 AATCGATT
1 AATCGATT
4679 TAAGACAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
20 14 0.24
21 27 0.46
22 18 0.31
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (21 bp):
AATCGATTCAAATAACAAAAC
Found at i:4671 original size:42 final size:40
Alignment explanation
Indices: 4567--4676 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 40
4557 TTGGCCTTTG
* *
4567 AATCGAGTT-AAACAACAAAGAATCGATTCAAATAATAAAC
1 AATCGA-TTCAAACAACAAAGAATCGAGTCAAATAAAAAAC
4607 AATCGATTCAAACAACAAAAAGAATCGAGTC-AATCAACAAAAC
1 AATCGATTCAAACAAC--AAAGAATCGAGTCAAAT-AA-AAAAC
*
4650 AATCGATTCAAATAAGCAAAGAATCGA
1 AATCGATTCAAACAA-CAAAGAATCGA
4677 TTTAAGACAA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
39 2 0.03
40 13 0.21
41 3 0.05
42 24 0.39
43 18 0.30
44 1 0.02
ACGTcount: A:0.55, C:0.17, G:0.11, T:0.17
Consensus pattern (40 bp):
AATCGATTCAAACAACAAAGAATCGAGTCAAATAAAAAAC
Found at i:5336 original size:3 final size:3
Alignment explanation
Indices: 5328--5352 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5318 CGTTTCCTTC
5328 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
5353 TAATTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11249 original size:20 final size:19
Alignment explanation
Indices: 11224--11261 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
11214 GTTAGGATGC
11224 ACTTCGTGTGCCAGATATGT
1 ACTTCGTGTGCCAG-TATGT
11244 ACTTCGTGTGCCAGTATG
1 ACTTCGTGTGCCAGTATG
11262 CGTTGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (19 bp):
ACTTCGTGTGCCAGTATGT
Found at i:11758 original size:202 final size:199
Alignment explanation
Indices: 11325--11860 Score: 747
Period size: 201 Copynumber: 2.7 Consensus size: 199
11315 GCCCTACTTC
* * *
11325 GATTTA-TAAGTATTTATAGTTATGAATTATAAGTAAGTGACT-GTTGTGAAATAACAACCCCAA
1 GATTTAGTAAGTTTTTATAGTTATGTATTATAAGCAAGTGA-TAGTTGTGAAATAACAACCCC-A
* *
11388 ATACTTTTTACTAATTATTTTATCATACTTATCAGTCTCTTAA-ATCCTCTTGTTTATAGAGTTA
64 GTACTTTTTACTAATTATTTTCTCATACTTATCAGTCTCTTAAGA--CTCTTGTTTATAGAGTTA
* *
11452 AAAATGTGTAATCAAATAATATTCAAATGTATTAAGTGGAGTATATATTTTTTATTAAATGATAA
127 AAAATGTGTAATCAAATAATAATCAAATGTATTAAGTGGAGTATATATTTTCTATTAAATGATAA
11517 ATAAAAAA
192 ATAAAAAA
* *
11525 GATTTAGTAAGTTTTTATAGTTATGTATTATAAACAAGTGATAGTTGTGAAATAACAACTCCAGG
1 GATTTAGTAAGTTTTTATAGTTATGTATTATAAGCAAGTGATAGTTGTGAAATAACAACCCCA-G
*
11590 TACTTTTTACTAATTATTTTCTCATACTTATCAGTCTCTTAAGACTATTTGTTTATAGAGTTAAA
65 TACTTTTTACTAATTATTTTCTCATACTTATCAGTCTCTTAAGACT-CTTGTTTATAGAGTTAAA
* *
11655 AATGTGTGTATCAAATAATAATCCAATGTATTAAGTGGAGTATATATTTTCTATTAAATGATAAA
129 AATGTGT-AATCAAATAATAATCAAATGTATTAAGTGGAGTATATATTTTCTATTAAATGATAAA
*
11720 TGAAAAA
193 TAAAAAA
* **
11727 GATTTAGTAAGTTTTTATAGTTACGTATTATAAGCAAGTGATAGTTGCAAAATAATAACAACCCC
1 GATTTAGTAAGTTTTTATAGTTATGTATTATAAGCAAGTGATAGTTG--TGA-AATAACAACCCC
* * * * * *
11792 AGT-TTTTTTACTAATTATTTTCTTACACTTATTAGTCTCTTAAGCCTGCCTGTTTATAGAGTTA
63 AGTACTTTTTACTAATTATTTTCTCATACTTATCAGTCTCTTAAGACT-CTTGTTTATAGAGTTA
11856 AAAAT
127 AAAAT
11861 TTTCAACATT
Statistics
Matches: 301, Mismatches: 26, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
200 10 0.03
201 113 0.38
202 105 0.35
203 58 0.19
204 3 0.01
205 12 0.04
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (199 bp):
GATTTAGTAAGTTTTTATAGTTATGTATTATAAGCAAGTGATAGTTGTGAAATAACAACCCCAGT
ACTTTTTACTAATTATTTTCTCATACTTATCAGTCTCTTAAGACTCTTGTTTATAGAGTTAAAAA
TGTGTAATCAAATAATAATCAAATGTATTAAGTGGAGTATATATTTTCTATTAAATGATAAATAA
AAAA
Found at i:12371 original size:17 final size:19
Alignment explanation
Indices: 12328--12381 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
12318 AATATTTTTC
*
12328 CATAAATAATGATTAAAAAT
1 CATAAAAAAT-ATTAAAAAT
12348 CATAAAAAATA-TAAAAAT
1 CATAAAAAATATTAAAAAT
*
12366 TA-AAAAAATATTAAAA
1 CATAAAAAATATTAAAA
12382 CTAATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.26
18 13 0.42
19 1 0.03
20 9 0.29
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
CATAAAAAATATTAAAAAT
Found at i:12424 original size:77 final size:77
Alignment explanation
Indices: 12342--12484 Score: 173
Period size: 78 Copynumber: 1.9 Consensus size: 77
12332 AATAATGATT
* * *
12342 AAAAATCAT-AAAAAATATAAAAATTAAAAAAATATTAAAACTA-ATATAAATTGATATAAACTT
1 AAAAATCATGAAAAAATATAAAAATTAAAAAAATATAAAAAATATATA-AAATTAAT-TAAACTT
12405 ATTAAAATTATAAA
64 ATTAAAATTATAAA
* ** * * *
12419 AAAAATTATGAAAACTTATAAATATTAAAAAATTATAAAAAATTTATAAAATTAATTAAACTTAT
1 AAAAATCATGAAAAAATATAAAAATTAAAAAAATATAAAAAATATATAAAATTAATTAAACTTAT
12484 T
66 T
12485 TTAAATATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
77 18 0.33
78 34 0.62
79 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (77 bp):
AAAAATCATGAAAAAATATAAAAATTAAAAAAATATAAAAAATATATAAAATTAATTAAACTTAT
TAAAATTATAAA
Found at i:12465 original size:11 final size:10
Alignment explanation
Indices: 12342--12604 Score: 72
Period size: 10 Copynumber: 27.4 Consensus size: 10
12332 AATAATGATT
*
12342 AAAAATCATA
1 AAAAATTATA
12352 AAAAA-TAT-
1 AAAAATTATA
12360 AAAAATTA-A
1 AAAAATTATA
*
12369 AAAAA-TATT
1 AAAAATTATA
* *
12378 AAAACTAAT-
1 AAAAATTATA
*
12387 ATAAATTGATA
1 AAAAATT-ATA
* *
12398 TAAACTTAT-
1 AAAAATTATA
*
12407 TAAAATTATAAA
1 AAAAATTAT--A
*
12419 AAAAATTATG
1 AAAAATTATA
*
12429 AAAACTTAT-
1 AAAAATTATA
*
12438 AAATA-T-TA
1 AAAAATTATA
12446 AAAAATTATA
1 AAAAATTATA
12456 AAAAATT-TA
1 AAAAATTATA
*
12465 TAAAATTA-A
1 AAAAATTATA
* * *
12474 TTAAACTTATT
1 -AAAAATTATA
** *
12485 TTAAA-TATT
1 AAAAATTATA
* *
12494 TAAAATTTTA
1 AAAAATTATA
*
12504 AAAAAGTAT-
1 AAAAATTATA
* * *
12513 TAAAATTCTT
1 AAAAATTATA
*
12523 AAAAATAAT-
1 AAAAATTATA
*
12532 AAAAATTGTA
1 AAAAATTATA
*
12542 AAAAGTTATA
1 AAAAATTATA
*
12552 AAAAAATAT-
1 AAAAATTATA
*
12561 TAAAATTGATA
1 AAAAATT-ATA
* * *
12572 TAGACTTAT-
1 AAAAATTATA
12581 AAAAATTATA
1 AAAAATTATA
*
12591 AAAAATCATA
1 AAAAATTATA
12601 AAAA
1 AAAA
12605 TTAAATTGGA
Statistics
Matches: 184, Mismatches: 48, Indels: 42
0.67 0.18 0.15
Matches are distributed among these distances:
7 1 0.01
8 12 0.07
9 70 0.38
10 84 0.46
11 9 0.05
12 8 0.04
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:12545 original size:19 final size:18
Alignment explanation
Indices: 12495--12555 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
12485 TTAAATATTT
* *
12495 AAAATTTTAAAAAAGTATT
1 AAAATTCTAAAAAA-TATA
*
12514 AAAATTCTTAAAAATAATA
1 AAAATTCTAAAAAAT-ATA
* *
12533 AAAATTGTAAAAAGTTATA
1 AAAATTCTAAAAA-ATATA
12552 AAAA
1 AAAA
12556 AATATTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTCTAAAAAATATA
Found at i:12591 original size:9 final size:9
Alignment explanation
Indices: 12341--12607 Score: 103
Period size: 9 Copynumber: 28.0 Consensus size: 9
12331 AAATAATGAT
*
12341 TAAAAATCA
1 TAAAAATTA
*
12350 TAAAAAATA
1 TAAAAATTA
12359 TAAAAATTA
1 TAAAAATTA
*
12368 -AAAAAATA
1 TAAAAATTA
* *
12376 TTAAAACTAA
1 -TAAAAATTA
*
12386 TATAAATTGA
1 TAAAAATT-A
*
12396 TATAAACTTA
1 TA-AAAATTA
*
12406 TTAAAATTA
1 TAAAAATTA
12415 TAAAAAAAATTA
1 T---AAAAATTA
*
12427 TGAAAACTTA
1 T-AAAAATTA
*
12437 TAAATATTA
1 TAAAAATTA
12446 -AAAAATTA
1 TAAAAATTA
12454 TAAAAAATT-
1 T-AAAAATTA
12463 TATAAAATTAA
1 TA-AAAATT-A
* *
12474 TTAAACTTATTT
1 -TAAA--AATTA
*
12486 TAAATATT-
1 TAAAAATTA
*
12494 T-AAAATTT
1 TAAAAATTA
*
12502 TAAAAAAGTA
1 T-AAAAATTA
* *
12512 TTAAAATTCT
1 TAAAAATT-A
*
12522 TAAAAATAA
1 TAAAAATTA
*
12531 TAAAAATTG
1 TAAAAATTA
12540 TAAAAAGTTA
1 TAAAAA-TTA
*
12550 TAAAAAAATA
1 T-AAAAATTA
*
12560 TTAAAATTGA
1 TAAAAATT-A
* *
12570 TATAGACTTA
1 TA-AAAATTA
12580 TAAAAATTA
1 TAAAAATTA
*
12589 TAAAAAATCA
1 T-AAAAATTA
12599 TAAAAATTA
1 TAAAAATTA
12608 AATTGGACCG
Statistics
Matches: 190, Mismatches: 44, Indels: 48
0.67 0.16 0.17
Matches are distributed among these distances:
7 5 0.03
8 17 0.09
9 80 0.42
10 56 0.29
11 19 0.10
12 10 0.05
13 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:16244 original size:15 final size:15
Alignment explanation
Indices: 16224--16261 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
16214 TGAAACAGAT
16224 GAATTACAAATAGAC
1 GAATTACAAATAGAC
*
16239 GAATTATAAATAGAC
1 GAATTACAAATAGAC
16254 GAATTACA
1 GAATTACA
16262 TACAACATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (15 bp):
GAATTACAAATAGAC
Found at i:17166 original size:5 final size:5
Alignment explanation
Indices: 17156--17181 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17146 TGAGCATTCG
17156 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
17182 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:17964 original size:31 final size:30
Alignment explanation
Indices: 17929--17988 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17919 GGAGGTGGGA
*
17929 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
17960 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
17989 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:18215 original size:9 final size:9
Alignment explanation
Indices: 18201--18246 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
18191 TATAGTTTCA
18201 TATTCGAAT
1 TATTCGAAT
18210 TATTCGAAT
1 TATTCGAAT
*
18219 TATTCGAGT
1 TATTCGAAT
*
18228 TATTCGAGT
1 TATTCGAAT
18237 TATTCGAAT
1 TATTCGAAT
18246 T
1 T
18247 CAAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18317 original size:9 final size:9
Alignment explanation
Indices: 18300--18330 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18290 TCGAGTTGAT
18300 TCGAATAAC
1 TCGAATAAC
*
18309 TCGATTAAC
1 TCGAATAAC
18318 TCGAATAAC
1 TCGAATAAC
18327 TCGA
1 TCGA
18331 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19609 original size:5 final size:5
Alignment explanation
Indices: 19599--19634 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
19589 TGAGCATTCG
19599 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
19635 AATTTTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:20418 original size:30 final size:31
Alignment explanation
Indices: 20379--20438 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20369 GGAGGTGAGA
*
20379 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
20410 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
20439 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:20666 original size:9 final size:9
Alignment explanation
Indices: 20652--20697 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
20642 TATAGTTTGA
20652 TATTCGAAT
1 TATTCGAAT
20661 TATTCGAAT
1 TATTCGAAT
20670 TATTCGAAT
1 TATTCGAAT
*
20679 TATTCGAGT
1 TATTCGAAT
20688 TATTCGAAT
1 TATTCGAAT
20697 T
1 T
20698 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22735 original size:23 final size:23
Alignment explanation
Indices: 22660--22737 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 23
22650 ATGAACAGGA
* *
22660 AATATTCTCTGGCATGAACAGTAG
1 AATATTCTCTAGCATGAATAGT-G
* *
22684 AA-A-TCTGTGGCA-GAAATAGT-
1 AATATTCTCTAGCATG-AATAGTG
*
22704 AAGATTCTCTAGCATGAATAGTG
1 AATATTCTCTAGCATGAATAGTG
22727 AATATTCTCTA
1 AATATTCTCTA
22738 TAGTTTGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 26 0.59
23 12 0.27
24 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (23 bp):
AATATTCTCTAGCATGAATAGTG
Found at i:23122 original size:18 final size:17
Alignment explanation
Indices: 23074--23123 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
23064 CATATTTCAA
23074 AATTTTAATAATTTATTAG
1 AATTTT-ATAATTT-TTAG
*
23093 AATTTTAT--TTTTTAT
1 AATTTTATAATTTTTAG
23108 AATATTTATAATTTTT
1 AAT-TTTATAATTTTT
23124 TAAAAGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
18 7 0.26
19 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTATAATTTTTAG
Found at i:29912 original size:95 final size:95
Alignment explanation
Indices: 29738--29928 Score: 276
Period size: 95 Copynumber: 2.0 Consensus size: 95
29728 GATTTGTAAT
* * ** **
29738 AACTCGATTTTCAGTGGTGTTGAAAAATATTATTTCAAAACTTCATTTCTGTAAACCGTAAACCA
1 AACTCGATTTTCAGTGGTATTGAAAAATATGATTTCAAAACCCCATTTCCATAAACCGTAAACCA
*
29803 AGTCTGTAAGTATAAAATAGGAATATTTAC
66 AGTCTGTAAATATAAAATAGGAATATTTAC
* * *
29833 AACTCGATTTTTAGTGGTATTGAAAAATATGATTTTAGAACCCCATTTCCATAAACCGTAAACCA
1 AACTCGATTTTCAGTGGTATTGAAAAATATGATTTCAAAACCCCATTTCCATAAACCGTAAACCA
29898 AGT-TCGTAAATATAAAATAGGAATATTTAC
66 AGTCT-GTAAATATAAAATAGGAATATTTAC
29928 A
1 A
29929 GAGTTGATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 1 0.01
95 84 0.99
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (95 bp):
AACTCGATTTTCAGTGGTATTGAAAAATATGATTTCAAAACCCCATTTCCATAAACCGTAAACCA
AGTCTGTAAATATAAAATAGGAATATTTAC
Found at i:32010 original size:24 final size:24
Alignment explanation
Indices: 31983--32032 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31973 TATGTAATGA
31983 TTAGCATAATCTAAACACAATTCT
1 TTAGCATAATCTAAACACAATTCT
32007 TTAGCATAATCTAAACACAATTCT
1 TTAGCATAATCTAAACACAATTCT
32031 TT
1 TT
32033 CTTTTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAGCATAATCTAAACACAATTCT
Found at i:34681 original size:26 final size:26
Alignment explanation
Indices: 34643--34701 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
34633 TGTTTTCTCG
**
34643 AAATTTTACCAGGGGCAAAATTGTCA
1 AAATTTTACCAGGGGCAAAATCATCA
* *
34669 AAATTTTATCAGGGGTAAAATCATCA
1 AAATTTTACCAGGGGCAAAATCATCA
34695 AAATTTT
1 AAATTTT
34702 GCTGGGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAGGGGCAAAATCATCA
Found at i:41534 original size:13 final size:13
Alignment explanation
Indices: 41516--41540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41506 TAATTAAATC
41516 AATAATATTTATT
1 AATAATATTTATT
41529 AATAATATTTAT
1 AATAATATTTAT
41541 GGACTCGATC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAATATTTATT
Found at i:46448 original size:41 final size:41
Alignment explanation
Indices: 46391--46540 Score: 237
Period size: 41 Copynumber: 3.7 Consensus size: 41
46381 TTTAACATAT
* * * *
46391 TCACCAGCATTTAGCCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
46432 TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
46473 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
46514 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
46541 AAGTCCGAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:46974 original size:12 final size:12
Alignment explanation
Indices: 46946--46978 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46936 AGCTCATCAA
46946 ATATACA-ATAG
1 ATATACATATAG
*
46957 ATATACATATAT
1 ATATACATATAG
46969 ATATACATAT
1 ATATACATAT
46979 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:46996 original size:114 final size:114
Alignment explanation
Indices: 46878--47205 Score: 543
Period size: 114 Copynumber: 2.8 Consensus size: 114
46868 AACCTCACAC
46878 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
46943 CAAATATACAATAGATATACATATATATATACATATTCGAACTTCATTT
66 CAAATATACAATAGATATACATATATATATACATATTCGAACTTCATTT
*
46992 ATGTGTATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
47057 CAAATATACAATAGATATACACATATATATATATATACATATTCGAACTTCATTT
66 CAAATATACAATAGATAT--AC----ATATATATATACATATTCGAACTTCATTT
* *
47112 A--TGCATATATATATCATTCATACTTAACTAATTTCAATTCGTATACTTTTAATTATAGCTCAT
1 ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
* *
47175 CAAATGTACAATAGTTATACATATATATATA
66 CAAATATACAATAGATATACATATATATATA
47206 TATGCTGATT
Statistics
Matches: 202, Mismatches: 6, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
112 11 0.05
114 82 0.41
116 4 0.02
118 75 0.37
120 30 0.15
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (114 bp):
ATGTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCAT
CAAATATACAATAGATATACATATATATATACATATTCGAACTTCATTT
Found at i:47206 original size:120 final size:119
Alignment explanation
Indices: 46880--47208 Score: 546
Period size: 118 Copynumber: 2.8 Consensus size: 119
46870 CCTCACACAT
46880 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
1 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
46945 AATATACAATAGATATAC------ATATATATATACATATTCGAACTTCATTTA
66 AATATACAATAGATATACATATATATATATATATACATATTCGAACTTCATTTA
*
46993 TGTGTATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 -GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
*
47058 AAATATACAATAGATATACACATATATATATATATACATATTCGAACTTCATTTA
65 AAATATACAATAGATATACATATATATATATATATACATATTCGAACTTCATTTA
* *
47113 -TGCATATATATATCATTCATACTTAACTAATTTCAATTCGTATACTTTTAATTATAGCTCATCA
1 GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
* *
47177 AATGTACAATAGTTATACATATATATATATAT
66 AATATACAATAGATATACATATATATATATAT
47209 GCTGATTTAA
Statistics
Matches: 202, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
114 82 0.41
118 90 0.45
120 30 0.15
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (119 bp):
GTGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCA
AATATACAATAGATATACATATATATATATATATACATATTCGAACTTCATTTA
Found at i:48201 original size:13 final size:13
Alignment explanation
Indices: 48183--48207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48173 CAATCAAATG
48183 CACACAAAATAAA
1 CACACAAAATAAA
48196 CACACAAAATAA
1 CACACAAAATAA
48208 TATTAAATTA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:50793 original size:26 final size:26
Alignment explanation
Indices: 50763--50815 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50753 ACCCCAAACA
*
50763 ATATTTTCATTCTCTTTGCCTACATG
1 ATATTTTCATTCTCTTTACCTACATG
50789 ATATTTTCATTCTCTTTACCTACATG
1 ATATTTTCATTCTCTTTACCTACATG
50815 A
1 A
50816 AGTACCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (26 bp):
ATATTTTCATTCTCTTTACCTACATG
Found at i:55504 original size:18 final size:18
Alignment explanation
Indices: 55483--55522 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55473 GTGTGAGCAT
55483 TACAGATACAGTTACAAA
1 TACAGATACAGTTACAAA
* *
55501 TACAGTTACAGTTACAGA
1 TACAGATACAGTTACAAA
55519 TACA
1 TACA
55523 AGCACACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (18 bp):
TACAGATACAGTTACAAA
Found at i:55516 original size:12 final size:12
Alignment explanation
Indices: 55482--55522 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
55472 CGTGTGAGCA
55482 TTACAGATACAG
1 TTACAGATACAG
*
55494 TTACAAATACAG
1 TTACAGATACAG
*
55506 TTACAGTTACAG
1 TTACAGATACAG
*
55518 ATACA
1 TTACA
55523 AGCACACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (12 bp):
TTACAGATACAG
Found at i:56344 original size:40 final size:40
Alignment explanation
Indices: 56284--56370 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
56274 TTGAAATTGG
*
56284 ATTGATTTAGTGTATGATTTGTGGTACCAAATGATGGCAT
1 ATTGGTTTAGTGTATGATTTGTGGTACCAAATGATGGCAT
*
56324 ATTGGTTTAGTGTATGATTTGTGGTGCCAAATGATGGCAT
1 ATTGGTTTAGTGTATGATTTGTGGTACCAAATGATGGCAT
56364 ATTGGTT
1 ATTGGTT
56371 AGGCACTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (40 bp):
ATTGGTTTAGTGTATGATTTGTGGTACCAAATGATGGCAT
Found at i:58998 original size:16 final size:16
Alignment explanation
Indices: 58961--59001 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
58951 TCAAAAAGTT
* *
58961 TTAATCTAAAAAAATC
1 TTAATCCAAAAAAAAC
*
58977 TAAATCCAAAAAAAAC
1 TTAATCCAAAAAAAAC
58993 TTAATCCAA
1 TTAATCCAA
59002 GCCCACCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (16 bp):
TTAATCCAAAAAAAAC
Found at i:66376 original size:20 final size:20
Alignment explanation
Indices: 66334--66382 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
66324 CACCTGCAAG
*
66334 GAAACAAAACAACAATGAAA
1 GAAACAAAACAACAAAGAAA
* * *
66354 GAAATAAAACAGCAAAGATA
1 GAAACAAAACAACAAAGAAA
*
66374 GAAAGAAAA
1 GAAACAAAA
66383 TCAAAGATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.06
Consensus pattern (20 bp):
GAAACAAAACAACAAAGAAA
Found at i:79803 original size:43 final size:43
Alignment explanation
Indices: 79536--80281 Score: 271
Period size: 44 Copynumber: 17.5 Consensus size: 43
79526 CGGTATCCAG
* * *
79536 TAATCCTATCTC-CTTGAGGTTGCAGTGGAGCGGATTAAAACC-
1 TAATCTTATCTCGC-TGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * ** *
79578 TCAGATCTTATTTCTCTGAAGTTGCAG-AGAGCAGATT-GCATC-
1 T-A-ATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * *
79620 TAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--AAGCA
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * **
79661 -AGTCTTATCTTC-CTGAAGTTACAGT-GAGGCAGACTGAAGATTGCA
1 TAATCTTATC-TCGCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-ACCA
* **
79706 -AATCTTATCTCGCTGAAGTTGCAGTGGAGCATATTAACGCCGA
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACC-A
* *
79749 TAATCCTATCTCGCTGAAGTTGCAGTGGA-TAGATTAAAACC-
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * *** *
79790 TCAGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATC-
1 T-A-ATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * * * *
79832 TAGTCTTATTTCCCTAAAGTTGCAGTGGAGCAGACT--AAGCA
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * *
79873 -AGTCTTATCCTC-CTGAAGTTGCAGTGAAGCAGATTAAAGCCGA
1 TAATCTTAT-CTCGCTGAAGTTGCAGTGGAGCAGATTAAAACC-A
* * * * *
79916 TAATCCTATCTTGCTGAAGTTACAGTGG-GCGGATTAAAACCT
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * ** *** *
79958 TAGATTTTATCTCTCTGAAGTTGCAG-AAAGCAGA-TCGCATC-
1 TA-ATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * * * *
79999 TAGTCTCATCACCCT-AAGGTTGCAGTGGAGCAGACTAAGCAAGCA
1 TAATCTTATCTCGCTGAA-GTTGCAGTGGAGCAGATTAA--AACCA
* * *
80044 -AGTCTTATCCTC-TTGAAGTTGCAGT-GAGGCAGACTGAAGATGA-CA
1 TAATCTTAT-CTCGCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--ACCA
* * **
80089 -AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCA
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * * *
80131 GTAATCCTATGTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTT
1 -TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACC-A
* * * * * * *
80176 TGATCTTATCTCTCTGAAGCTGCAG-AGAGCAGA-TCACATCA
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* * * * *
80217 -AATCTTATCTCCCTGAAGTCGCAGTGGAACGGATTAAAACCT
1 TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* *
80259 TGGATCTTATCTCTCTGAAGTTG
1 T-AATCTTATCTCGCTGAAGTTG
80282 AAGAGAGCAG
Statistics
Matches: 527, Mismatches: 125, Indels: 102
0.70 0.17 0.14
Matches are distributed among these distances:
39 4 0.01
40 134 0.25
41 35 0.07
42 31 0.06
43 86 0.16
44 173 0.33
45 59 0.11
46 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
TAATCTTATCTCGCTGAAGTTGCAGTGGAGCAGATTAAAACCA
Found at i:79925 original size:167 final size:168
Alignment explanation
Indices: 79703--80126 Score: 537
Period size: 167 Copynumber: 2.5 Consensus size: 168
79693 ACTGAAGATT
* * * *
79703 GCAAATCTTAT-CTCGCTGAAGTTGCAGTGGAGCATATTAACGCCGATAATCCTATCTCGCTGAA
1 GCAAGTCTTATCCTC-CTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCGCTGAA
* *
79767 GTTGCAGTGGATAGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATC
65 GTTGCAGTGGACAGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAGAAAGCAGATCGCATC
* **
79832 TAGTCTTATTTCCCTAAAGTTGCAGTGGAGCAGACT-AA
130 TAGTCTCATCACCCTAAAGTTGCAGTGGAGCAGACTAAA
*
79870 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTTGCTGAAG
1 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCGCTGAAG
* * * * * *
79935 TTACAGTGGGCGGATTAAAACCTTAGATTTTATCTCTCTGAAGTTGCAGAAAGCAGATCGCATCT
66 TTGCAGTGGACAGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAGAAAGCAGATCGCATCT
*
80000 AGTCTCATCACCCTAAGGTTGCAGTGGAGCAGACTAAGCAA
131 AGTCTCATCACCCTAAAGTTGCAGTGGAGCAGACT-A--AA
* * * * ** * * * *
80041 GCAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTAAA
1 GCAAGTCTTATCCTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGA-TAATCCTATCTCGCTGAA
80106 GTTGCAGTGGAGCAGATTAAA
65 GTTGCAGTGGA-CAGATTAAA
80127 GTCAGTAATC
Statistics
Matches: 219, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
167 144 0.66
168 3 0.01
171 42 0.19
172 22 0.10
173 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (168 bp):
GCAAGTCTTATCCTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCGCTGAAG
TTGCAGTGGACAGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAGAAAGCAGATCGCATCT
AGTCTCATCACCCTAAAGTTGCAGTGGAGCAGACTAAA
Found at i:80065 original size:44 final size:45
Alignment explanation
Indices: 80010--80121 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
80000 AGTCTCATCA
* *
80010 CCCTAAGGTTGCAGTGGAGCAGACT-AAGCAAG-CAAGTCTTATC-
1 CCCTAAAGTTGCAGTGGAGCAGACTGAAG-AAGACAAATCTTATCT
* * *
80053 CTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCTTATCT
1 C-CCTAAAGTTGCAGTGGA-GCAGACTGAAGAAGACAAATCTTATCT
80099 CCCTAAAGTTGCAGTGGAGCAGA
1 CCCTAAAGTTGCAGTGGAGCAGA
80122 TTAAAGTCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
43 3 0.05
44 20 0.36
45 30 0.54
46 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (45 bp):
CCCTAAAGTTGCAGTGGAGCAGACTGAAGAAGACAAATCTTATCT
Found at i:80269 original size:217 final size:215
Alignment explanation
Indices: 79875--80281 Score: 500
Period size: 217 Copynumber: 1.9 Consensus size: 215
79865 ACTAAGCAAG
* * **
79875 TCTTATCCTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTTGCTGAAGTTACA
1 TCTTATCCTCCTAAAGTTGCAGTGAAGCAGATTAAAGCAGATAATCCTATCTCCCTGAAGTTACA
* * * * *
79940 GTGGGCGGATTAAAACCTTAGATTTTATCTCTCTGAAGTTGCAGAAAGCAGATCGCATCTAGTCT
66 GTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGCTGCAGAAAGCAGATCACATCAAATCT
* * *
80005 CATCACCCTAAGGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATC-CTCTTGAAGTTGCAGT
131 CATCACCCTAAGGTCGCAGTGGAACAGACTAA-CAACCAAGTCTTATCTCTC-TGAAGTTGCAGT
80069 GAGGCAGACTGAAGATGACAAA
194 GAGGCAGACTGAAGATGACAAA
* * *
80091 TCTTAT-CTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCAG-TAATCCTATGTCCCTGAAGTTG
1 TCTTATCCT-CCTAAAGTTGCAGTGAAGCAGATTAAAG-CAGATAATCCTATCTCCCTGAAGTTA
* *
80154 CAGTGGAGCGGATTAAAACCTTTGATCTTATCTCTCTGAAGCTGCAGAGAGCAGATCACATCAAA
64 CAGTGG-GCGGATTAAAACCTTAGATCTTATCTCTCTGAAGCTGCAGAAAGCAGATCACATCAAA
* * * * **
80219 TCTTATCTCCCTGAA-GTCGCAGTGGAACGGATTAA-AACCTTGGATCTTATCTCTCTGAAGTTG
128 TCTCATCACCCT-AAGGTCGCAGTGGAACAGACTAACAACC-AAG-TCTTATCTCTCTGAAGTTG
80282 AAGAGAGCAG
Statistics
Matches: 161, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
215 5 0.03
216 57 0.35
217 94 0.58
218 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (215 bp):
TCTTATCCTCCTAAAGTTGCAGTGAAGCAGATTAAAGCAGATAATCCTATCTCCCTGAAGTTACA
GTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGCTGCAGAAAGCAGATCACATCAAATCT
CATCACCCTAAGGTCGCAGTGGAACAGACTAACAACCAAGTCTTATCTCTCTGAAGTTGCAGTGA
GGCAGACTGAAGATGACAAA
Found at i:80325 original size:84 final size:84
Alignment explanation
Indices: 80132--80327 Score: 293
Period size: 84 Copynumber: 2.3 Consensus size: 84
80122 TTAAAGTCAG
* * * *
80132 TAATCCTATGTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTTGATCTTATCTCTCTGAAGCT
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATCTCTCTGAAGCT
*
80197 GCAGAGAGCAGATCACATC
66 GAAGAGAGCAGATCACATC
* * *
80216 AAATCTTATCTCCCTGAAGTCGCAGTGGAACGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATCTCTCTGAAGCT
*
80281 GAAGAGAGCAGATCGCATC
66 GAAGAGAGCAGATCACATC
* *
80300 TAATCTTATCTCCCTAAAATTGCAGTGG
1 TAATCTTATCTCCCTGAAGTTGCAGTGG
80328 GCCAGACTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 99 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (84 bp):
TAATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACCTTGGATCTTATCTCTCTGAAGCT
GAAGAGAGCAGATCACATC
Found at i:80783 original size:20 final size:20
Alignment explanation
Indices: 80741--80789 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
80731 CACTTGCAAG
*
80741 GAAACAAAACAACAAGGAAA
1 GAAACAAAACAACAAAGAAA
* * *
80761 GAAATAAAACAGCAAAGATA
1 GAAACAAAACAACAAAGAAA
*
80781 GAAAGAAAA
1 GAAACAAAA
80790 TCAAAGATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.10, G:0.16, T:0.04
Consensus pattern (20 bp):
GAAACAAAACAACAAAGAAA
Found at i:85368 original size:7 final size:7
Alignment explanation
Indices: 85356--85381 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
85346 TAGTCTATTC
85356 GTATTTA
1 GTATTTA
85363 GTATTTA
1 GTATTTA
85370 GTATTTA
1 GTATTTA
85377 GTATT
1 GTATT
85382 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:86035 original size:18 final size:18
Alignment explanation
Indices: 85999--86041 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
85989 TGCCAGGTGC
*
85999 GTATCCTATCTCTTTTAT
1 GTATCCTATCTCTTATAT
86017 GTATCCTAATC-CTTATAT
1 GTATCCT-ATCTCTTATAT
*
86035 GTTTCCT
1 GTATCCT
86042 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.19, C:0.23, G:0.07, T:0.51
Consensus pattern (18 bp):
GTATCCTATCTCTTATAT
Found at i:86328 original size:21 final size:20
Alignment explanation
Indices: 86281--86340 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
86271 CCCAACATCG
* *
86281 GCAACCAAATCCCCTACCTGA
1 GCAACCAAATCCCC-GCCAGA
*
86302 GGAACCAGAATCCCCGCCAGA
1 GCAACCA-AATCCCCGCCAGA
*
86323 GCAACCACAACCCCCGCC
1 GCAACCA-AATCCCCGCC
86341 GAAAGCTGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.32, C:0.47, G:0.15, T:0.07
Consensus pattern (20 bp):
GCAACCAAATCCCCGCCAGA
Found at i:89865 original size:126 final size:126
Alignment explanation
Indices: 89618--89889 Score: 413
Period size: 126 Copynumber: 2.2 Consensus size: 126
89608 GGCCAAATAG
* * ***
89618 GAACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGTGTC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATACATC
* * *
89683 CTGCTTGAAGCGTTTTTGACACTATTTTCTCAGAAACATCTTCTCAAAATTATTTTTTC-A
66 CTGCTTAAAGAGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAA
* *
89743 GAAACTACTGTGGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTATTTTTGCTGACAATACAT
1 G-AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATACAT
*
89808 CCTGCTTAAAGAG-TTTTGACACTATTTGCTCAGAAACATCTTCTTAAAATTATTTTTTCAA
65 CCTGCTTAAAGAGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAA
*
89869 GAACTATTGTAGCAAAAGAGC
1 GAACTACTGTAGCAAAAGAGC
89890 TTTCATGTGA
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
125 63 0.48
126 69 0.52
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (126 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATACATC
CTGCTTAAAGAGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAA
Found at i:90096 original size:81 final size:83
Alignment explanation
Indices: 89984--90156 Score: 298
Period size: 81 Copynumber: 2.1 Consensus size: 83
89974 CCTAAACACT
89984 AAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAACCGC-AAACCCTAATT
1 AAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAACC-CTAAACCCTAATT
*
90048 TATTTGATTTTTC-CTTAA
65 TATTTAATTTTTCTCTTAA
*
90066 AAACCCTAATCT-ATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTT
1 AAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAACCCTAAACCCTAATTT
90130 ATTTAATTTTTCTCTTAA
66 ATTTAATTTTTCTCTTAA
90148 AAACCCTAA
1 AAACCCTAA
90157 ACACTAAATC
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
80 1 0.01
81 60 0.69
82 26 0.30
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (83 bp):
AAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAACCCTAAACCCTAATTT
ATTTAATTTTTCTCTTAA
Found at i:90194 original size:97 final size:96
Alignment explanation
Indices: 90066--90361 Score: 415
Period size: 97 Copynumber: 3.1 Consensus size: 96
90056 TTTTCCTTAA
* *
90066 AAACCCTAATCTATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTA
1 AAACCCTAATCTATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCTTAATTTA
90131 TTTAATTTTTCTCTTAAAAACCCTAAACACT
66 TTTAATTTTTCTCTTAAAAACCCTAAACACT
*
90162 AAATCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCTTAATTT
1 AAACCCTAATCT-ATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCTTAATTT
* * *
90227 ATTTGATTTTT-TCCTTAAAAATCATAAACACT
65 ATTTAATTTTTCT-CTTAAAAACCCTAAACACT
* * * *
90259 AAACCCTAATCTATTTTTTAAAAATTTATAATTAATTTAATTAAG-AAGCCCTAAACTTTTATTT
1 AAACCCTAATCTATTTTTTAAAAATTTATAATTAATTTACTCAAGTAA-CCCTAAACCTTAATTT
90323 -TTTAATTTTTC-CTT-AAAACCCTAAA-ATCT
65 ATTTAATTTTTCTCTTAAAAACCCTAAACA-CT
90352 AAAACCCTAA
1 -AAACCCTAA
90362 CCCTAATTGT
Statistics
Matches: 180, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
92 1 0.01
93 11 0.06
94 12 0.07
95 11 0.06
96 57 0.32
97 88 0.49
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.41
Consensus pattern (96 bp):
AAACCCTAATCTATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCTTAATTTA
TTTAATTTTTCTCTTAAAAACCCTAAACACT
Found at i:90227 original size:178 final size:177
Alignment explanation
Indices: 89904--90247 Score: 548
Period size: 178 Copynumber: 1.9 Consensus size: 177
89894 ATGTGAAAGA
* * *
89904 TTTTTTAAATTAACAAATAATTTAATTAAGTAAGCCTAAACCCTAATTTATTTAATTTTTTCTTC
1 TTTTTTAAATTAACAAATAATTTAATCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCTTA
*
89969 AAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAAC
66 AAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTAAAGTAAC
90034 CGCAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTAATCTAT
131 CGCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAATCTAT
* * * *
90080 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTCTCT
1 TTTTTT-AAATTAACAAATAATTTAATCAAGTAACCCTAAACCCTAATTTATTTAATTTTT-TCT
* *
90145 TAAAAACCCTAAACACTAAATCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTA
64 TAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTAAAGTA
*
90210 ACC-CTAAACCTTAATTTATTTGATTTTTTCCTTAAAAA
129 ACCGC-AAACCCTAATTTATTTGATTTTTTCCTTAAAAA
90248 TCATAAACAC
Statistics
Matches: 153, Mismatches: 11, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
176 6 0.04
177 49 0.32
178 84 0.55
179 14 0.09
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (177 bp):
TTTTTTAAATTAACAAATAATTTAATCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCTTA
AAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTAAAGTAAC
CGCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAATCTAT
Found at i:91032 original size:27 final size:27
Alignment explanation
Indices: 90994--91045 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
90984 TGTTTGTAGG
*
90994 TACATGCATGGACAGCATTGAAGATAA
1 TACATGCATGGACAGCAATGAAGATAA
91021 TACATGCATGGACAGCAATGAAGAT
1 TACATGCATGGACAGCAATGAAGAT
91046 GCTTCAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAGCAATGAAGATAA
Found at i:91576 original size:23 final size:22
Alignment explanation
Indices: 91539--91588 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
91529 GCCGAATTCA
*
91539 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
91563 TGAACCCT-TTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
91584 TGAAC
1 TGAAC
91589 ACATTAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Found at i:95593 original size:59 final size:59
Alignment explanation
Indices: 95530--95708 Score: 241
Period size: 68 Copynumber: 2.9 Consensus size: 59
95520 TCAAGTTTGT
*
95530 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
95589 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
95654 AAA
57 AAA
* * *
95657 TTTACTAATCAAATGTTAGAATTTATTATAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
95709 AATAATTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
59 47 0.44
60 1 0.01
62 2 0.02
65 1 0.01
67 1 0.01
68 55 0.51
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:95631 original size:9 final size:9
Alignment explanation
Indices: 95619--95646 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
95609 TTTTATTACA
95619 ACAATTAAT
1 ACAATTAAT
95628 ACAATTAAT
1 ACAATTAAT
95637 ACAATTAAT
1 ACAATTAAT
95646 A
1 A
95647 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:95637 original size:68 final size:68
Alignment explanation
Indices: 95560--95730 Score: 292
Period size: 68 Copynumber: 2.5 Consensus size: 68
95550 TTTTGTTACA
*
95560 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAATTTATTACAACAATT
95625 AAT
66 AAT
*
95628 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAATTTATTATAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAATTTATTACAACAATT
95693 AAT
66 AAT
* *
95696 ACAATT-A-ACAATTAATAATTTGATAATTTTGCTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
95731 CAATTAATTT
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 26 0.26
67 1 0.01
68 72 0.73
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGAATTTATTACAACAATT
AAT
Found at i:95740 original size:16 final size:16
Alignment explanation
Indices: 95728--95760 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95718 ATAATTTTGC
95728 TAACAATTAATTTTAA
1 TAACAATTAATTTTAA
*
95744 TAACAATTAGTTTTAA
1 TAACAATTAATTTTAA
95760 T
1 T
95761 TTTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TAACAATTAATTTTAA
Found at i:95759 original size:22 final size:23
Alignment explanation
Indices: 95734--95795 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
95724 TTGCTAACAA
* * *
95734 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
95756 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
95779 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
95796 TGAGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:101114 original size:15 final size:15
Alignment explanation
Indices: 101094--101130 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
101084 TTTGAAACTC
*
101094 GTGGTGGTCTTGGAG
1 GTGGTGGTCTTGAAG
101109 GTGGTGGTCTTGAAG
1 GTGGTGGTCTTGAAG
*
101124 GGGGTGG
1 GTGGTGG
101131 GGCACTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.05, G:0.57, T:0.30
Consensus pattern (15 bp):
GTGGTGGTCTTGAAG
Found at i:106874 original size:98 final size:98
Alignment explanation
Indices: 106703--106899 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
106693 GTGCAATAAA
*
106703 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATT
106768 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
106801 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATT
* *
106866 CCTTTAAAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
106899 A
1 A
106900 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAAAACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:107566 original size:20 final size:20
Alignment explanation
Indices: 107543--107589 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
107533 ATGTGTGTAT
* *
107543 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
107563 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
107583 ATATATA
1 ATATATA
107590 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:107621 original size:114 final size:115
Alignment explanation
Indices: 107426--107636 Score: 295
Period size: 114 Copynumber: 1.8 Consensus size: 115
107416 ATAAAGAAAA
107426 ATATACATATAGAAATTATAAAAATATGAGTAGAAAGTATAATATATATATACGTACATATATAT
1 ATATACATATAGAAATTATAAAAATATGAGTAGAAAGTATAATATATATATACGTACATATATAT
* * * * *
107491 GTAAGTTAATAAATATAGACCATAAAGATAATGATTGCATATATGTGTGT
66 ATAAGGTAAAAAATATACACCATAAACATAATGATTGCATATATGTGTGT
* *
107541 ATATATATATATAAATTAT-AAAATATGTA-TAGAAAGTAT-A-ATATATATACGTACATATATA
1 ATATACATATAGAAATTATAAAAATATG-AGTAGAAAGTATAATATATATATACGTACATATATA
*
107602 TATAAGGTAACAAATATATACATCATAAACATAAT
65 TATAAGGTAA-AAA-ATATACACCATAAACATAAT
107637 AATTACACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
112 29 0.34
113 3 0.04
114 35 0.41
115 18 0.21
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (115 bp):
ATATACATATAGAAATTATAAAAATATGAGTAGAAAGTATAATATATATATACGTACATATATAT
ATAAGGTAAAAAATATACACCATAAACATAATGATTGCATATATGTGTGT
Found at i:115005 original size:39 final size:40
Alignment explanation
Indices: 114918--115027 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 40
114908 GTTTGGATAA
** *
114918 AAAACGCCGCTAAAGATCGAGCATTAGCGGAACTTTACAT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTACAG
114958 AAAACGCCGCTAAAGATCGAGCA-TAGCGGCGCTTTA-AGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTACA-G
* *
114997 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCG
115028 TTTTCTGGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 6 0.10
39 34 0.54
40 23 0.37
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTACAG
Found at i:116038 original size:43 final size:43
Alignment explanation
Indices: 115990--116317 Score: 337
Period size: 43 Copynumber: 7.7 Consensus size: 43
115980 ATACTTAATA
* *
115990 CTAAAGGTCTTGATCTATAACGGTGTTTGTGGAAAAAGCGCTG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCTG
*
116033 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGCG-AAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAAGCGCTG
* * *
116076 CTAAAGGTCCTGAGCTATAGCGGTGTTTGTGGAAAAAGCGCTG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCTG
*
116119 CTAAAGGTCTTGATCTATAGTGGCGTTTGTGCG-AAAAGCG-TCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAAGCGCT-G
* * * * *
116162 CTAAAGGTCCTGAGCTATAGTGGCGTTTGTGGAGAAAGCGCCG
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCTG
* ** * * * **
116205 CTAAAGATCTCAAGCTATAGCAGCGTTTGT-GTAAAAGCGCCA
1 CTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCTG
* *
116247 CTAAAGGTAC-TAATCTATAGCGACGTTTGTGGGAAAAATGC-C-G
1 CTAAAGGT-CTTGATCTATAGCGGCGTTTGT-GGAAAAA-GCGCTG
* *
116290 CTAAAGGTCATGATCCATAGCGGCGTTT
1 CTAAAGGTCTTGATCTATAGCGGCGTTT
116318 ATTTCTAAAA
Statistics
Matches: 240, Mismatches: 34, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
42 36 0.15
43 194 0.81
44 8 0.03
45 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
CTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCTG
Found at i:116135 original size:86 final size:86
Alignment explanation
Indices: 115990--116317 Score: 410
Period size: 86 Copynumber: 3.8 Consensus size: 86
115980 ATACTTAATA
* * * *
115990 CTAAAGGTCTTGATCTATAACGGTGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGCG
1 CTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGCG
116055 GCGTTTGTGCGAAAAGCGCCG
66 GCGTTTGTGCGAAAAGCGCCG
* *
116076 CTAAAGGTCCTGAGCTATAGCGGTGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGTG
1 CTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGCG
*
116141 GCGTTTGTGCGAAAAGCGTCG
66 GCGTTTGTGCGAAAAGCGCCG
* * * * ** * *
116162 CTAAAGGTCCTGAGCTATAGTGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCTCAAGCTATAGCA
1 CTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGCG
* *
116227 GCGTTTGTG-TAAAAGCGCCA
66 GCGTTTGTGCGAAAAGCGCCG
* * * * * *
116247 CTAAAGGTACTAATCTATAGCGACGTTTGTGGGAAAAATGC-C-GCTAAAGGTCATGATCCATAG
1 CTAAAGGTCCTGAGCTATAGCGGCGTTTGT-GGAAAAA-GCGCTGCTAAAGGTCTTGATCTATAG
116310 CGGCGTTT
64 CGGCGTTT
116318 ATTTCTAAAA
Statistics
Matches: 209, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
85 55 0.26
86 152 0.73
87 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (86 bp):
CTAAAGGTCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGCG
GCGTTTGTGCGAAAAGCGCCG
Found at i:116221 original size:129 final size:126
Alignment explanation
Indices: 115989--116317 Score: 378
Period size: 129 Copynumber: 2.6 Consensus size: 126
115979 AATACTTAAT
* * *
115989 ACTAAAGGTCTTGATCTATAACGGTGTTTGTGGAAAAAGCGCTGCTAAAGGTCTTGATCTATAGC
1 ACTAAAGGTCTTGATCTATAGCGGCGTTTGTGG-AAAAGCGC-GCTAAAGGTCATGATCTATAGC
* * * * *
116054 GGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCCTGAGCTATAGCGGTGTTTGTGGAAAAAGCGCT
64 GGCGTTTGTGCGAAAAGCGCCGCTAAAGATCCTAAGCTATAGCAGCGTTTGT-GAAAAAGCGCC
* * * * *
116118 GCTAAAGGTCTTGATCTATAGTGGCGTTTGTGCGAAAAGCGTCGCTAAAGGTCCTGAGCTATAGT
1 ACTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAGCG-CGCTAAAGGTCATGATCTATAGC
*
116183 GGCGTTTGTG-GAGAAAGCGCCGCTAAAGAT-CTCAAGCTATAGCAGCGTTTGTGTAAAAGCGCC
64 GGCGTTTGTGCGA-AAAGCGCCGCTAAAGATCCT-AAGCTATAGCAGCGTTTGTGAAAAAGCGCC
* * *
116246 ACTAAAGGTAC-TAATCTATAGCGACGTTTGTGGGAAAAATGC-CGCTAAAGGTCATGATCCATA
1 ACTAAAGGT-CTTGATCTATAGCGGCGTTTGT-GG-AAAA-GCGCGCTAAAGGTCATGATCTATA
116309 GCGGCGTTT
62 GCGGCGTTT
116318 ATTTCTAAAA
Statistics
Matches: 171, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
128 65 0.38
129 102 0.60
130 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (126 bp):
ACTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGCGCTAAAGGTCATGATCTATAGCGG
CGTTTGTGCGAAAAGCGCCGCTAAAGATCCTAAGCTATAGCAGCGTTTGTGAAAAAGCGCC
Found at i:116981 original size:31 final size:31
Alignment explanation
Indices: 116943--117007 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
116933 AACAACCTAG
** *
116943 TGACTTAAATAAAAACTTTTGAATAATTCAA
1 TGACTTAAATAAAAACTTTCAAACAATTCAA
*
116974 TGACTTAAATGAAAACTTTCAAACAATTCAA
1 TGACTTAAATAAAAACTTTCAAACAATTCAA
117005 TGA
1 TGA
117008 TAAATTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAACAATTCAA
Found at i:119227 original size:3 final size:3
Alignment explanation
Indices: 119219--119279 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
119209 GTATGTTTAA
* *
119219 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT -AT AA- CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
119265 AAT AA- AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AA
119280 AACAGTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:121510 original size:31 final size:31
Alignment explanation
Indices: 121446--121516 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
121436 AACAATCCAG
** *
121446 TGACTTAAATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAATTCAA
*
121477 TGACTTAAATAAAAACTTTCAAATAATTTAA
1 TGACTTAAATAAAAACTTTCAAATAATTCAA
121508 TGAC-TAAAT
1 TGACTTAAAT
121517 TGTAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAATTCAA
Found at i:126526 original size:75 final size:74
Alignment explanation
Indices: 126420--126613 Score: 223
Period size: 76 Copynumber: 2.6 Consensus size: 74
126410 GATTCGATTT
* * *
126420 GAAGAAAAATATT-ACATTTGTCTCATGTCTCAATTCATAACATTTGCATAGTTTGTTATAGTGA
1 GAAG-AAAATATTGA-ATTTGTGTCGTGTCTCAATTCATAACATTTACATAGTTTGTTATAGTGA
126484 TTCAACTTAAAA
64 TTC-ACTTAAAA
126496 GAAGAAAATATTGAATTTGTGTCGTGTCTCAATTCATAACATATTTTACATAGTTTGTTATAGTG
1 GAAGAAAATATTGAATTTGTGTCGTGTCTCAATTCATAAC--A-TTTACATAGTTTGTTATAGTG
* *
126561 ATTCAGTTTAAA
63 ATTCACTTAAAA
* ** *
126573 GAA-AAAATATTGTATTTACGT-GATGTCTCAATTCTTAACAT
1 GAAGAAAATATTGAATTTGTGTCG-TGTCTCAATTCATAACAT
126614 ATTTTGCATA
Statistics
Matches: 104, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
73 1 0.01
74 1 0.01
75 33 0.32
76 35 0.34
77 10 0.10
78 24 0.23
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (74 bp):
GAAGAAAATATTGAATTTGTGTCGTGTCTCAATTCATAACATTTACATAGTTTGTTATAGTGATT
CACTTAAAA
Found at i:126614 original size:76 final size:79
Alignment explanation
Indices: 126444--126623 Score: 248
Period size: 76 Copynumber: 2.4 Consensus size: 79
126434 CATTTGTCTC
126444 ATGTCTCAATTCATAAC--A-TTTGCATAGTTTGTTATAGTGATTCAACTTAAAAGAAGAAAATA
1 ATGTCTCAATTCATAACATATTTTGCATAGTTTGTTATAGTGATTCAACTTAAAAGAAGAAAATA
**
126506 TTGAATTTGTGTCG
66 TTGAATTTACGTCG
* * *
126520 -TGTCTCAATTCATAACATATTTTACATAGTTTGTTATAGTGATTC-AGTTTAAAGAA-AAAATA
1 ATGTCTCAATTCATAACATATTTTGCATAGTTTGTTATAGTGATTCAACTTAAAAGAAGAAAATA
*
126582 TTGTATTTACGT-G
66 TTGAATTTACGTCG
*
126595 ATGTCTCAATTCTTAACATATTTTGCATA
1 ATGTCTCAATTCATAACATATTTTGCATA
126624 ATTTATCGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
75 17 0.18
76 41 0.45
77 10 0.11
78 24 0.26
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (79 bp):
ATGTCTCAATTCATAACATATTTTGCATAGTTTGTTATAGTGATTCAACTTAAAAGAAGAAAATA
TTGAATTTACGTCG
Found at i:126641 original size:76 final size:76
Alignment explanation
Indices: 126445--126652 Score: 199
Period size: 76 Copynumber: 2.8 Consensus size: 76
126435 ATTTGTCTCA
* * * * * *
126445 TGTCTCAATTCATAAC--A-TTTGCATAGTTTGTTATAGTGATTCAACTTAAAAGAAGAAAATAT
1 TGTCTCAATTCATAACATATTTTACATAATTTATCATAGTAATTCAA-TTTAAAGAA-AAAATAT
**
126507 TGAATTTGTGTCG
64 TGAATTTACGTCG
* * * * *
126520 TGTCTCAATTCATAACATATTTTACATAGTTTGTTATAGTGATTCAGTTTAAAGAAAAAATATTG
1 TGTCTCAATTCATAACATATTTTACATAATTTATCATAGTAATTCAATTTAAAGAAAAAATATTG
*
126585 TATTTACGT-G
66 AATTTACGTCG
* * * *
126595 ATGTCTCAATTCTTAACATATTTTGCATAATTTATCGTAGTAATTCAATTTAGAGAAA
1 -TGTCTCAATTCATAACATATTTTACATAATTTATCATAGTAATTCAATTTAAAGAAA
126653 CTAATGTGTT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
75 17 0.15
76 63 0.55
77 9 0.08
78 25 0.22
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (76 bp):
TGTCTCAATTCATAACATATTTTACATAATTTATCATAGTAATTCAATTTAAAGAAAAAATATTG
AATTTACGTCG
Found at i:128543 original size:43 final size:43
Alignment explanation
Indices: 128479--128566 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
128469 AGTAGTGAAC
128479 TTAGCATAAAGATGCTCGTTATAAATATGTGATTATATACGAG
1 TTAGCATAAAGATGCTCGTTATAAATATGTGATTATATACGAG
*
128522 TTAGCATAAAGATGCTTGTTATAAATATGTGATTATATACGAG
1 TTAGCATAAAGATGCTCGTTATAAATATGTGATTATATACGAG
128565 TT
1 TT
128567 CATAATTAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (43 bp):
TTAGCATAAAGATGCTCGTTATAAATATGTGATTATATACGAG
Found at i:130997 original size:22 final size:21
Alignment explanation
Indices: 130972--131014 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
130962 AATTATGAAC
*
130972 ATGTTAAATTTTAATTAATTTT
1 ATGTCAAATTTTAATT-ATTTT
*
130994 ATGTCAAATTTTGATTATTTT
1 ATGTCAAATTTTAATTATTTT
131015 CGACAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
ATGTCAAATTTTAATTATTTT
Found at i:131612 original size:25 final size:25
Alignment explanation
Indices: 131562--131612 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
131552 ACATTTCTCA
* *
131562 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTATTC
*
131587 TCTCTTCATTTCCCT-TCTATTATTC
1 TCTCTTCACTTCCCTCTC-ATTATTC
131612 T
1 T
131613 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTATTC
Found at i:143036 original size:19 final size:19
Alignment explanation
Indices: 142999--143036 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
142989 CATCATCGGT
*
142999 CATAGGTAAAAACTGTGAC
1 CATAGGTAAAAACTCTGAC
143018 CATA-GTAAAAACTACTGAC
1 CATAGGTAAAAACT-CTGAC
143037 GCTAACACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
CATAGGTAAAAACTCTGAC
Found at i:145299 original size:17 final size:19
Alignment explanation
Indices: 145257--145300 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
145247 AATCTAAATT
145257 TATTTTATAATAAGATGAA
1 TATTTTATAATAAGATGAA
*
145276 -GTTTTATAATAA-AT-AA
1 TATTTTATAATAAGATGAA
145292 TATTTTATA
1 TATTTTATA
145301 TAGACTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTTTATAATAAGATGAA
Found at i:145471 original size:23 final size:22
Alignment explanation
Indices: 145424--145479 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
145414 AGATTTAAAC
*
145424 AAATATTATATTTATATTATTA
1 AAATATTATATTTATATTATCA
145446 AAATATTCATATTTAATATTA-CA
1 AAATATT-ATATTT-ATATTATCA
*
145469 AAACATT-TATT
1 AAATATTATATT
145480 ACTAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 13 0.43
24 6 0.20
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATATTATATTTATATTATCA
Found at i:146216 original size:18 final size:18
Alignment explanation
Indices: 146182--146217 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
146172 GTTTCTATTA
*
146182 TTATTTATTTGTGTTTAT
1 TTATTTATTTATGTTTAT
*
146200 TTATTTATTTATTTTTAT
1 TTATTTATTTATGTTTAT
146218 GAATTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTATTTATTTATGTTTAT
Found at i:147523 original size:23 final size:23
Alignment explanation
Indices: 147497--147570 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
147487 TGATTTTTAA
*
147497 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
147520 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
147543 ATTTAGGATTATGTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
147566 ATTTA
1 ATTTA
147571 AGAAAAATCG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:147524 original size:13 final size:13
Alignment explanation
Indices: 147506--147570 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
147496 AATTTTGAAT
147506 TATTTAGTGATAA
1 TATTTAGTGATAA
*
147519 TATTTA--GA-AT
1 TATTTAGTGATAA
147529 TATTTAGTGATAA
1 TATTTAGTGATAA
147542 TATTTAG-GAT--
1 TATTTAGTGATAA
*
147552 TATGTAGTGATAA
1 TATTTAGTGATAA
147565 TATTTA
1 TATTTA
147571 AGAAAAATCG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:152714 original size:2 final size:2
Alignment explanation
Indices: 152707--152743 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
152697 ATTCCTAAAC
152707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
152744 ATGAAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:155510 original size:21 final size:21
Alignment explanation
Indices: 155480--155539 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
155470 GGTGGATCGA
* *
155480 CTCTTTTGAGCTTCTGTTCAG
1 CTCTTATGAGCTTTTGTTCAG
155501 CTCTTATGAGCTTTTGTTCAG
1 CTCTTATGAGCTTTTGTTCAG
155522 CTCTTATGAGCTTTTGTT
1 CTCTTATGAGCTTTTGTT
155540 GGTGTGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (21 bp):
CTCTTATGAGCTTTTGTTCAG
Found at i:156419 original size:12 final size:12
Alignment explanation
Indices: 156399--156428 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
156389 TCAGGCAGTT
*
156399 ACACAGCCTAGC
1 ACACGGCCTAGC
156411 ACACGGCCTAGC
1 ACACGGCCTAGC
156423 ACACGG
1 ACACGG
156429 GCGTGCGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:158027 original size:151 final size:151
Alignment explanation
Indices: 157753--158185 Score: 627
Period size: 151 Copynumber: 2.8 Consensus size: 151
157743 ACATGTCAAA
*
157753 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCACAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
* * * * *
157818 ATGGTCTTAAGGGGGACCTCTCATCTCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGG
66 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
157883 ACCTCTCATCTCGGTGCCAAC
131 ACCTCTCATCTCGGTGCCAAC
*
157904 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
*
157969 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACT-CCATGTCCCAGACATGGTCTTACATGA
66 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAA-TGCCATGTCCCAGACATGGTCTTACAGGA
158033 GACCTCTCATCTCGGTGCCAAC
130 GACCTCTCATCTCGGTGCCAAC
* ** * * * *
158055 GCCATGTCCCAGACATGATCTTACATGGGACCTT-TCATCTCGATGCCAACGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
** *
158119 ATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAATGCCATGTCCCAGACGTGGTCTTA
66 ATGGTCTTACGGGGGACCTCTC---ATCTC--GG-TGCCAATGCCATGTCCCAGACATGGTCTTA
158184 CA
125 CA
158186 TGGGATCTCT
Statistics
Matches: 255, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
150 46 0.18
151 171 0.67
152 1 0.00
153 5 0.02
155 3 0.01
156 29 0.11
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (151 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
ACCTCTCATCTCGGTGCCAAC
Found at i:158104 original size:201 final size:205
Alignment explanation
Indices: 157753--158192 Score: 597
Period size: 201 Copynumber: 2.2 Consensus size: 205
157743 ACATGTCAAA
* ** *
157753 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGTCACAGAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAATGCCATGTCACAGAC
* * * *
157818 ATGGTCTTAAGGGGGACCTCTCATCTCGGTGCCCATGCCATGTCCCAGACATGATCTTACGGGGG
66 ATGGTCTTAAGGGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGG
* **
157883 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCAT-A-TC
131 ACCTCTCATCTCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATGACTC
*
157946 -GG-TGCCCAT
195 AGGATGCCAAT
* * *
157955 GCCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTCGGTGCCAACT-CCATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAA-TGCCATGTCACAGA
* *
158018 CATGGTCTTACA-TGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTTACATG
65 CATGGTCTTA-AGGGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGG
* *
158082 GGACCTTTCATCTCGATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATC
129 GGACCTCTCATCTCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGA-C
158147 TCAAGGATGCCAAT
193 TC-AGGATGCCAAT
* *
158161 GCCATGTCCCAGACGTGGTCTTACATGGGATC
1 GCCATGTCCCAGACATGGTCTTACAGGGGATC
158193 TCTTTAGCCA
Statistics
Matches: 207, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
200 6 0.03
201 133 0.64
202 30 0.14
203 2 0.01
205 2 0.01
206 33 0.16
207 1 0.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (205 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGGTGCCAATGCCATGTCACAGAC
ATGGTCTTAAGGGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGG
ACCTCTCATCTCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGACTCA
GGATGCCAAT
Found at i:158165 original size:56 final size:50
Alignment explanation
Indices: 157753--158195 Score: 548
Period size: 50 Copynumber: 8.7 Consensus size: 50
157743 ACATGTCAAA
** * *
157753 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
* * *
157804 GCCATGTCACAGACATGGTCTTA-AGGGGGACCTCTCATCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGGTGCCAAT
* ** *
157854 GCCATGTCCCAGACATGATCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* ** * *
157904 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
**
157955 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA-T
* *
158006 -CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* * * *
158055 GCCATGTCCCAGACATGATCTTACATGGGACCTTTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
158105 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAT
* *
158161 GCCATGTCCCAGACGTGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
158196 TTAGCCAAAT
Statistics
Matches: 341, Mismatches: 40, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
50 227 0.67
51 69 0.20
53 5 0.01
55 1 0.00
56 39 0.11
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:162702 original size:16 final size:16
Alignment explanation
Indices: 162677--162741 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
162667 CGTTTGGTTC
162677 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
162693 GCTATAATGGAATAGA
1 GCTGTAATGGAATAGA
*
162709 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
162725 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
162741 G
1 G
162742 GCATAATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.25
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:163096 original size:16 final size:16
Alignment explanation
Indices: 163075--163119 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
163065 AATATAATTT
*
163075 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
163091 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
163107 AAAATATATAATT
1 AAAATA-ATAATT
163120 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:163115 original size:18 final size:17
Alignment explanation
Indices: 163090--163127 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
163080 AATAATTATT
*
163090 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
163107 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
163125 AAA
1 AAA
163128 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:163155 original size:53 final size:53
Alignment explanation
Indices: 163098--163266 Score: 135
Period size: 53 Copynumber: 3.0 Consensus size: 53
163088 TTAAAAATAT
*
163098 AATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAG
1 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAG
* * * * *
163151 AATTTACTAAAACCATA-ATATATAATACTATAAAATATAATTTAA-ATTAATTATTTTTAAATA
1 AATTTAATAAAA--ATATATA-AT-TTA--ATAAAAT-T--CTTAATATTAAATA-TTCT---TA
*
163214 T
53 G
*
163215 AATTTAATAAAAATATATAATTTAATAAAATTCTCAATATTAAATATTCTTA
1 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTA
163267 TATGAATTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
53 13 0.15
54 3 0.03
55 5 0.06
56 8 0.09
57 7 0.08
58 8 0.09
59 8 0.09
60 7 0.08
61 9 0.10
62 5 0.06
63 3 0.03
64 13 0.15
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (53 bp):
AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAG
Found at i:163194 original size:119 final size:119
Alignment explanation
Indices: 162954--163323 Score: 572
Period size: 119 Copynumber: 3.1 Consensus size: 119
162944 TTAATCATAT
* *
162954 TTTAACATAATTATTATTAAAAAT-T-ATTTA-AAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATAATTATTAAAAATATAATTTATAAAAATATATAATTTAATAAAATTCTTAATAT
163016 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TAAATATTCTT--ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
163072 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATAATTATTAAAAATATAATTTA-TAAAAATATATAATTTAATAAAATTCTTAATA
*
163137 TTAAATATTCTTA-GAATTTACTAAAACCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
163191 TTTAAATTAATTATT-TT-TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATA
1 TTTAAAATAATAATTATTAAAAATATAATTT-ATAAAAATATATAATTTAATAAAATTCTTAATA
*
163254 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATAAAA
65 TTAAATATTC-T-TATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
163311 TTTAAAATAATAA
1 TTTAAAATAATAA
163324 AATTTGAATC
Statistics
Matches: 233, Mismatches: 11, Indels: 14
0.90 0.04 0.05
Matches are distributed among these distances:
117 52 0.22
118 26 0.11
119 56 0.24
120 56 0.24
122 43 0.18
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (119 bp):
TTTAAAATAATAATTATTAAAAATATAATTTATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:163366 original size:20 final size:20
Alignment explanation
Indices: 163319--163357 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
163309 AATTTAAAAT
*
163319 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
163339 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
163358 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:165184 original size:33 final size:32
Alignment explanation
Indices: 165123--165184 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
165113 ATTCCACAAA
* * *
165123 CAAAAAGAACAAAGATAAGCATATTATGCGAG
1 CAAAAAGAACAAAGAAAAGCAAAATATGCGAG
*
165155 CAAAAAGAAAGAAAGAAAAGCAAAATATGC
1 CAAAAAG-AACAAAGAAAAGCAAAATATGC
165185 TATAGCCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 7 0.28
33 18 0.72
ACGTcount: A:0.60, C:0.11, G:0.18, T:0.11
Consensus pattern (32 bp):
CAAAAAGAACAAAGAAAAGCAAAATATGCGAG
Found at i:166129 original size:27 final size:27
Alignment explanation
Indices: 166099--166152 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
166089 AGCTTTTGGA
166099 AGGGAATAGAAATCGGGAGGGTAAAAC
1 AGGGAATAGAAATCGGGAGGGTAAAAC
** *
166126 AGGGCTTAGAAATCGGGAGGGTTAAAC
1 AGGGAATAGAAATCGGGAGGGTAAAAC
166153 GGAAAGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.37, T:0.15
Consensus pattern (27 bp):
AGGGAATAGAAATCGGGAGGGTAAAAC
Found at i:169318 original size:50 final size:50
Alignment explanation
Indices: 169174--169622 Score: 531
Period size: 50 Copynumber: 8.8 Consensus size: 50
169164 GATCATAACA
* * * ** *
169174 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGAGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * **
169225 TTCCCATGCCATGTCGCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
169275 TGCC-ACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * ** *
169325 TGCCCATGCCATGTACCAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
169375 TGCCAACTCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
169425 TGCCAACGTCATGTCCCATACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
169475 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
169525 TGCCAACGCCATGTCCCAGACACGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * *
169580 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
169623 TTGCCCAAAT
Statistics
Matches: 339, Mismatches: 51, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
49 28 0.08
50 208 0.61
51 58 0.17
53 5 0.01
55 2 0.01
56 38 0.11
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:169996 original size:30 final size:30
Alignment explanation
Indices: 169961--170017 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
169951 CCTCGACTCT
169961 AACTTTGT-CAAAATTATGA-TTTTGCCCCTA
1 AACTTT-TACAAAATTAT-ATTTTTGCCCCTA
*
169991 AACTTTTACATAATTATATTTTTGCCC
1 AACTTTTACAAAATTATATTTTTGCCC
170018 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (30 bp):
AACTTTTACAAAATTATATTTTTGCCCCTA
Found at i:171666 original size:22 final size:22
Alignment explanation
Indices: 171641--171685 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
171631 AATATTATAA
171641 ATTTTTTTATTTACCAAAATAT
1 ATTTTTTTATTTACCAAAATAT
171663 ATTTTTTTATTTACCAAAATAT
1 ATTTTTTTATTTACCAAAATAT
171685 A
1 A
171686 CCAAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTTTTATTTACCAAAATAT
Found at i:171833 original size:4 final size:4
Alignment explanation
Indices: 171824--171959 Score: 74
Period size: 4 Copynumber: 34.0 Consensus size: 4
171814 GAAGGAGAGG
* *
171824 GAAA GAAA GAAA GAAA GAAA GAAA GGAAT GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
* * *
171872 GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA -AAA -AAA GGAA G-AA GAAGA
1 GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAA-A
*
171920 GGAAA GGAGAA GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
171960 AGGAAAGGAG
Statistics
Matches: 106, Mismatches: 10, Indels: 32
0.72 0.07 0.22
Matches are distributed among these distances:
3 22 0.21
4 55 0.52
5 23 0.22
6 6 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:171863 original size:18 final size:17
Alignment explanation
Indices: 171813--171883 Score: 72
Period size: 18 Copynumber: 4.1 Consensus size: 17
171803 GGTGGGGGGG
*
171813 AGAAGGAGAGGGAAAGAA
1 AGAAAGAGA-GGAAAGAA
*
171831 AGAAAGA-AAGAAAGAA
1 AGAAAGAGAGGAAAGAA
*
171847 AGGAATGAGAGGAAAGAA
1 A-GAAAGAGAGGAAAGAA
*
171865 AGAAAAAGAAGGAAAGAA
1 AGAAAGAG-AGGAAAGAA
171883 A
1 A
171884 AGGAAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
16 8 0.18
17 11 0.25
18 25 0.57
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
AGAAAGAGAGGAAAGAA
Found at i:171874 original size:10 final size:10
Alignment explanation
Indices: 171859--171955 Score: 52
Period size: 10 Copynumber: 9.1 Consensus size: 10
171849 GAATGAGAGG
171859 AAAGAAAGAA
1 AAAGAAAGAA
*
171869 AAAGAAGGAA
1 AAAGAAAGAA
*
171879 AGAA-AAGGAA
1 A-AAGAAAGAA
*
171889 AGGAGAAGAGAA
1 A-AAGAA-AGAA
*
171901 AAAAAAAGGAA
1 AAAGAAA-GAA
* *
171912 GAAGAAGAGGA
1 AAAGAA-AGAA
*
171923 AAGGAGAAGAAA
1 AAAGA-AAG-AA
171935 AAAGAAAGAA
1 AAAGAAAGAA
*
171945 AAAGAAGGAA
1 AAAGAAAGAA
171955 A
1 A
171956 GAAAAGGAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
10 32 0.48
11 24 0.36
12 11 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:171880 original size:40 final size:39
Alignment explanation
Indices: 171829--171968 Score: 125
Period size: 41 Copynumber: 3.6 Consensus size: 39
171819 AGAGGGAAAG
*
171829 AAAGAAAGAAAGAAA-GAAAGGAATGAGAGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAGGAAAGGAA-GAGA-GAAAGAAAGAA
171869 AAAGAAGGAAAGAAAAGGAAAGG-AGA-AGAGAA-AAA-AA
1 AAAGAAGGAAAG-AAAGGAAAGGAAGAGAGA-AAGAAAGAA
* *
171906 AAGGAA-G-AAGAAGAGGAAAGG-AGAAGAAAAAAGAAAGAA
1 AAAGAAGGAAAGAA-AGGAAAGGAAG-AG-AGAAAGAAAGAA
171945 AAAGAAGGAAAGAAAAGGAAAGGA
1 AAAGAAGGAAAG-AAAGGAAAGGA
171969 GAAGAAGAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
34 2 0.02
35 13 0.16
36 2 0.02
37 9 0.11
38 10 0.12
39 10 0.12
40 14 0.17
41 15 0.18
42 8 0.10
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (39 bp):
AAAGAAGGAAAGAAAGGAAAGGAAGAGAGAAAGAAAGAA
Found at i:171910 original size:33 final size:32
Alignment explanation
Indices: 171856--171956 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 32
171846 AAGGAATGAG
171856 AGGA-AAGAAAGAAAAAGAAGGAAAGAAAAGGAA
1 AGGAGAAGAAA-AAAAA-AAGGAAAGAAAAGGAA
*
171889 AGGAGAAGAGAAAAAAAAAGGAAGAAGAAGAGGAA
1 AGGAGAAGA-AAAAAAAAAGG-A-AAGAAAAGGAA
*
171924 AGGAGAAGAAAAAAGAAA-GAAA-AAGAAGGAA
1 AGGAGAAGAAAAAAAAAAGGAAAGAA-AAGGAA
171955 AG
1 AG
171957 AAAAGGAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
30 2 0.03
31 9 0.15
32 1 0.02
33 9 0.15
34 18 0.30
35 21 0.35
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (32 bp):
AGGAGAAGAAAAAAAAAAGGAAAGAAAAGGAA
Found at i:171936 original size:30 final size:30
Alignment explanation
Indices: 171896--171996 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
171886 GAAAGGAGAA
*
171896 GAGAAAAAAAAAGGAAGAAGAAGAGGAAAG
1 GAGAAGAAAAAAGGAAGAAGAAGAGGAAAG
* *
171926 GAGAAGAAAAAAGAAAGAAAAAGAAGGAAA-
1 GAGAAGAAAAAAGGAAGAAGAAG-AGGAAAG
* * * *
171956 GAAAAG-GAAAGGAGAAGAAGAAGAGGGAAG
1 GAGAAGAAAAAAG-GAAGAAGAAGAGGAAAG
*
171986 GA-AGGAAAAAA
1 GAGAAGAAAAAA
171997 AAAGAAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
29 11 0.20
30 38 0.69
31 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (30 bp):
GAGAAGAAAAAAGGAAGAAGAAGAGGAAAG
Found at i:171939 original size:58 final size:63
Alignment explanation
Indices: 171854--172008 Score: 153
Period size: 62 Copynumber: 2.5 Consensus size: 63
171844 GAAAGGAATG
* * * * *
171854 AGAGGAAA-GAAAG-AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAG-GAAGAAG
1 AGAGGAAAGGAAGGAAAAAAAAAGAAAAGAAAAAG-AAGGA-AAGA-AAAGAAAAAGAGAAGAAG
171916 A
63 A
* * *
171917 AGAGGAAAGG-A-GAAGAAAAAAG-AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGA
1 AGAGGAAAGGAAGGAAAAAAAAAGAAAAGAAAAAGAAGGAAAGAAAAGAAAAAGAGAAGAAGA
*
171977 AGAGGGAAGGAAGGAAAAAAAAAGAAAA-AAAA
1 AGAGGAAAGGAAGGAAAAAAAAAGAAAAGAAAA
172009 GGTAAATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
59 7 0.09
60 21 0.27
61 6 0.08
62 24 0.31
63 19 0.24
64 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (63 bp):
AGAGGAAAGGAAGGAAAAAAAAAGAAAAGAAAAAGAAGGAAAGAAAAGAAAAAGAGAAGAAGA
Found at i:172623 original size:16 final size:15
Alignment explanation
Indices: 172597--172626 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
172587 GTATTGAAAT
172597 AATATAAAATAATAA
1 AATATAAAATAATAA
172612 AATATGAAAATAATA
1 AATAT-AAAATAATA
172627 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:172827 original size:27 final size:27
Alignment explanation
Indices: 172797--172852 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
172787 AAAGAAGGTG
*
172797 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCGGCACCA
*
172824 ATGGAGAGGAATAAAATGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCGGCACCA
172851 AT
1 AT
172853 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.34, T:0.11
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCGGCACCA
Found at i:175595 original size:11 final size:11
Alignment explanation
Indices: 175579--175605 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
175569 TCTATAACTT
175579 AATTTGGATAC
1 AATTTGGATAC
175590 AATTTGGATAC
1 AATTTGGATAC
175601 AATTT
1 AATTT
175606 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:178646 original size:3 final size:3
Alignment explanation
Indices: 178638--178669 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
178628 TCTTAATACT
178638 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
178670 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:178818 original size:11 final size:11
Alignment explanation
Indices: 178798--178837 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
178788 TAAAAAATAC
178798 CTTCTTTTTCT
1 CTTCTTTTTCT
*
178809 CTTCTCTTTCT
1 CTTCTTTTTCT
178820 C-TCTTTTTCT
1 CTTCTTTTTCT
178830 CTTCTTTT
1 CTTCTTTT
178838 CCGTAGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:178825 original size:21 final size:20
Alignment explanation
Indices: 178800--178838 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
178790 AAAAATACCT
178800 TCTTTTTCTCTTCTCTTTCTC
1 TCTTTTTCTCTTCT-TTTCTC
178821 TCTTTTTCTCTTCTTTTC
1 TCTTTTTCTCTTCTTTTC
178839 CGTAGCACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTTTCTCTTCTTTTCTC
Found at i:179218 original size:44 final size:44
Alignment explanation
Indices: 179163--179248 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
179153 GAGAGTGTAA
* *
179163 GTTTAGGGGCTATACCTTCCTATACCTGGAAGTGTATCTGGGTT
1 GTTTAGGGGCTAGACCTTCCTATACCTGGAAGAGTATCTGGGTT
*
179207 GTTTTGGGGCTAGACCTTCCTATACCTGGAAGAGTATCTGGG
1 GTTTAGGGGCTAGACCTTCCTATACCTGGAAGAGTATCTGGG
179249 CTGCGAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (44 bp):
GTTTAGGGGCTAGACCTTCCTATACCTGGAAGAGTATCTGGGTT
Found at i:181673 original size:20 final size:20
Alignment explanation
Indices: 181637--181744 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
181627 ATACGAAATT
**
181637 AAAATTT-TAATTTAATATC
1 AAAATTTCTAATGCAATATC
*
181656 AAAATCTCTAATGCAATATC
1 AAAATTTCTAATGCAATATC
** **
181676 AATAGGTT-TAATGCAATGCC
1 AA-AATTTCTAATGCAATATC
*
181696 AAAATTTTTAATG-AATA-C
1 AAAATTTCTAATGCAATATC
*
181714 TAATATTTCTAATGCAATATC
1 -AAAATTTCTAATGCAATATC
181735 AAAATTTCTA
1 AAAATTTCTA
181745 GCGAATACCA
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 23 0.33
20 42 0.61
21 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (20 bp):
AAAATTTCTAATGCAATATC
Found at i:181738 original size:39 final size:40
Alignment explanation
Indices: 181650--181744 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 40
181640 ATTTTAATTT
*
181650 AATATCAAAATCTCTAATGCAATATCAATAGGTTTAATGC
1 AATATCAAAATTTCTAATGCAATATCAATAGGTTTAATGC
** * *
181690 AATGCCAAAATTTTTAATG-AATA-CTAATA-TTTCTAATGC
1 AATATCAAAATTTCTAATGCAATATC-AATAGGTT-TAATGC
181729 AATATCAAAATTTCTA
1 AATATCAAAATTTCTA
181745 GCGAATACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
38 3 0.07
39 27 0.60
40 15 0.33
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (40 bp):
AATATCAAAATTTCTAATGCAATATCAATAGGTTTAATGC
Found at i:182752 original size:20 final size:20
Alignment explanation
Indices: 182678--182764 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 20
182668 GTTACATATA
* *
182678 TTGGTATTTGGTTTGAAATT
1 TTGGTATTTGATTAGAAATT
* * * *
182698 TTTGTATCTGGTTACAAATT
1 TTGGTATTTGATTAGAAATT
* **
182718 CTGGT-TTCCATTAGAAATT
1 TTGGTATTTGATTAGAAATT
*
182737 TTGTTATTTGATTAGAAATT
1 TTGGTATTTGATTAGAAATT
182757 TTGGTATT
1 TTGGTATT
182765 GTTGGAAAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
19 12 0.24
20 38 0.76
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (20 bp):
TTGGTATTTGATTAGAAATT
Found at i:187493 original size:17 final size:17
Alignment explanation
Indices: 187471--187503 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
187461 TTATTTAGTG
187471 TAATTTTATTA-TTTTAT
1 TAATTTT-TTAGTTTTAT
187488 TAATTTTTTAGTTTTA
1 TAATTTTTTAGTTTTA
187504 GGGCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TAATTTTTTAGTTTTAT
Found at i:192961 original size:46 final size:46
Alignment explanation
Indices: 192894--192992 Score: 173
Period size: 46 Copynumber: 2.2 Consensus size: 46
192884 AAGCAAAAAG
*
192894 AAAGAAAAATAGGAACACACAGATTTTACGTAAAAACCCTTTCGGT
1 AAAGAAAAATAGGAACACACAGATTTTACGTAAAAAACCTTTCGGT
*
192940 AAAGAAAAATAGGAATACACAGATTTTACGTAAAAAACCTTTCGGT
1 AAAGAAAAATAGGAACACACAGATTTTACGTAAAAAACCTTTCGGT
192986 AAA-AAAA
1 AAAGAAAA
192993 CCACGGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 4 0.08
46 47 0.92
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (46 bp):
AAAGAAAAATAGGAACACACAGATTTTACGTAAAAAACCTTTCGGT
Found at i:193278 original size:15 final size:15
Alignment explanation
Indices: 193258--193311 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
193248 CCACCTTGAC
193258 ACAAATTCTCAACGA
1 ACAAATTCTCAACGA
*
193273 ACAAATTCTTC-AC-C
1 ACAAATTC-TCAACGA
*
193287 ACAAACTCTCAACGA
1 ACAAATTCTCAACGA
*
193302 ACAAGTTCTC
1 ACAAATTCTC
193312 CACCTCTTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
15 18 0.58
16 2 0.06
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.22
Consensus pattern (15 bp):
ACAAATTCTCAACGA
Done.