Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002276.1 Hibiscus syriacus cultivar Beakdansim tig00004630_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 831455
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:283137 original size:68 final size:68
Alignment explanation
Indices: 283028--283164 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
283018 GGACATTGCC
*
283028 TAAATTCCCTAATAACACTCAGCCCATATGATCATTTAATAGAATTCTTTCTATTTGAAAATTTA
1 TAAATTCCCTAATAACACACAGCCCATATGATCATTTAATAGAATTCTTTCTATTTGAAAATTTA
283093 AAT
66 AAT
*
283096 TAAATTCCCTAATAACACACAGCCCATATGATCATTTAATAGAATTCTTTCTGTTTGAAAATTTA
1 TAAATTCCCTAATAACACACAGCCCATATGATCATTTAATAGAATTCTTTCTATTTGAAAATTTA
283161 AAT
66 AAT
283164 T
1 T
283165 TTTTAAATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (68 bp):
TAAATTCCCTAATAACACACAGCCCATATGATCATTTAATAGAATTCTTTCTATTTGAAAATTTA
AAT
Found at i:283374 original size:18 final size:19
Alignment explanation
Indices: 283341--283376 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
283331 ATAAATTTAC
283341 ATTTATAATATATTTTCAT
1 ATTTATAATATATTTTCAT
*
283360 ATTTTTAAT-TATTTTCA
1 ATTTATAATATATTTTCA
283377 GTGTGTATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTATAATATATTTTCAT
Found at i:285642 original size:19 final size:20
Alignment explanation
Indices: 285595--285644 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
285585 TACTGTTCAT
* * *
285595 TATTGTTCATACAGTATCGG
1 TATTATTCATACAATATCAG
*
285615 TACTATTCATACAATAT-AG
1 TATTATTCATACAATATCAG
285634 TATTATTCATA
1 TATTATTCATA
285645 AAAATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TATTATTCATACAATATCAG
Found at i:287653 original size:20 final size:20
Alignment explanation
Indices: 287628--287720 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
287618 TTTTCCCAAT
287628 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
287648 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
287668 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
** *
287689 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
287710 TCGCAATGCGA
1 TCGCAATGCGA
287721 TACTGACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:287670 original size:41 final size:41
Alignment explanation
Indices: 287625--287720 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
287615 CGATTTTCCC
287625 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
287666 AATTCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
287707 AAATCGCAATGCGA
1 AATTCGCAATGCGA
287721 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:287674 original size:21 final size:20
Alignment explanation
Indices: 287628--287720 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
287618 TTTTCCCAAT
*
287628 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
287648 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
287668 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
**
287689 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
287710 TCGCAATGCGA
1 TCGCAATGCGA
287721 TACTGACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:287734 original size:20 final size:20
Alignment explanation
Indices: 287709--287802 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
287699 AATTGGGAAA
*
287709 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
287729 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
287750 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
287770 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
287790 TTTGCAACGCGAT
1 ATCGCAACGCGAT
287803 TTACTTAGCG
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:287751 original size:41 final size:41
Alignment explanation
Indices: 287706--287783 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
287696 GCGAATTGGG
* * *
287706 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
287747 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
287784 CTGACTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:288371 original size:19 final size:19
Alignment explanation
Indices: 288328--288392 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
288318 CGAGAATGAG
* *
288328 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
288348 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
* **
288367 AATCGTAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
288386 AATCGCA
1 AATCGCA
288393 TTGCGATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 27 0.73
20 10 0.27
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:288410 original size:19 final size:19
Alignment explanation
Indices: 288388--288591 Score: 194
Period size: 19 Copynumber: 11.1 Consensus size: 19
288378 GAAACCAAAA
*
288388 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
288407 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
288426 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
288445 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
288464 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
288484 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
288500 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
288517 TCGCGTTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
* **
288531 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
288550 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
288570 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
288590 TC
1 TC
288592 AACCAAAAGA
Statistics
Matches: 157, Mismatches: 15, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
14 18 0.11
15 2 0.01
16 4 0.03
17 4 0.03
18 2 0.01
19 77 0.49
20 49 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:288516 original size:33 final size:33
Alignment explanation
Indices: 288479--288566 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
288469 GTTGCGATTT
* *
288479 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* *
288512 TCATTTCGCGTTGCAATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
288545 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
288567 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:288568 original size:20 final size:20
Alignment explanation
Indices: 288534--288591 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
288524 GCAATTCTCT
**
288534 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
288554 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
288574 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
288592 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:292179 original size:18 final size:18
Alignment explanation
Indices: 292156--292190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
292146 TTCCATCCGG
*
292156 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
292174 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
292191 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:293310 original size:8 final size:8
Alignment explanation
Indices: 293291--293353 Score: 98
Period size: 8 Copynumber: 8.4 Consensus size: 8
293281 GTCAACAGTA
293291 GTCAAC-G
1 GTCAACGG
293298 GTCAACGG
1 GTCAACGG
293306 GTCAACGG
1 GTCAACGG
293314 GTCAACGG
1 GTCAACGG
293322 GTCAACGG
1 GTCAACGG
293330 GTCAACGG
1 GTCAACGG
293338 GT---CGG
1 GTCAACGG
293343 GTCAACGG
1 GTCAACGG
293351 GTC
1 GTC
293354 GGGTAAACGG
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.10
7 6 0.12
8 41 0.79
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.14
Consensus pattern (8 bp):
GTCAACGG
Found at i:293369 original size:18 final size:18
Alignment explanation
Indices: 293348--293393 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
293338 GTCGGGTCAA
293348 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
293366 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
293384 TGGGTCGGGT
1 CGGGTCGGGT
293394 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:293382 original size:26 final size:26
Alignment explanation
Indices: 293318--293383 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
293308 CAACGGGTCA
*
293318 ACGGGTCAACGGGTCAACGGGTCGGGT
1 ACGGGT-AACGGGTAAACGGGTCGGGT
293345 CAACGGGT--CGGGTAAACGGGTCGGGT
1 --ACGGGTAACGGGTAAACGGGTCGGGT
293371 -CGGGTAAACGGGT
1 ACGGGT-AACGGGT
293384 TGGGTCGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
23 5 0.15
26 22 0.67
29 6 0.18
ACGTcount: A:0.20, C:0.20, G:0.45, T:0.15
Consensus pattern (26 bp):
ACGGGTAACGGGTAAACGGGTCGGGT
Found at i:293388 original size:13 final size:13
Alignment explanation
Indices: 293297--293371 Score: 87
Period size: 13 Copynumber: 5.3 Consensus size: 13
293287 AGTAGTCAAC
293297 GGTCAACGGGTCAACG
1 GGTCAACGGGT---CG
293313 GGTCAACGGGTCAACG
1 GGTCAACGGGT---CG
293329 GGTCAACGGGTCG
1 GGTCAACGGGTCG
293342 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
293355 GGTAAACGGGTCG
1 GGTCAACGGGTCG
293368 GGTC
1 GGTC
293372 GGGTAAACGG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
13 30 0.53
16 27 0.47
ACGTcount: A:0.20, C:0.23, G:0.43, T:0.15
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:295031 original size:42 final size:42
Alignment explanation
Indices: 294971--295093 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
294961 GCCCGACTCG
* * *
294971 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
295013 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
295055 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
295094 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:295051 original size:21 final size:21
Alignment explanation
Indices: 295027--295093 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
295017 TCATTCCTCG
295027 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
295048 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
295069 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
295090 AGAG
1 AGAG
295094 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:296457 original size:13 final size:14
Alignment explanation
Indices: 296449--296485 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
296439 GATTGTTTAA
296449 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
296463 GTGATTTGTAAAAG
1 TTGATTTGTAAAAG
296477 TTGATTTGT
1 TTGATTTGT
296486 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:296628 original size:20 final size:20
Alignment explanation
Indices: 296603--296644 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
296593 TCGTAATGCG
296603 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
296623 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
296643 AA
1 AA
296645 TTAAATTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (20 bp):
AAATGAAAATCGCAACGCGA
Found at i:296672 original size:19 final size:19
Alignment explanation
Indices: 296650--296767 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
296640 CGAAATTAAA
296650 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
296669 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
296684 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
296702 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
296717 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
296735 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
296754 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
296768 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:296696 original size:33 final size:33
Alignment explanation
Indices: 296654--296747 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
296644 ATTAAATTCG
296654 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
296687 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
296720 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
296748 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:300441 original size:19 final size:19
Alignment explanation
Indices: 300419--300455 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
300409 GCATTGCGAT
*
300419 TTTCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGATAGTCA
300438 TTTCGCGTTGCGATAGTC
1 TTTCGCGTTGCGATAGTC
300456 TGTTTTGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:300558 original size:14 final size:14
Alignment explanation
Indices: 300539--300575 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
300529 CATCAATTAA
300539 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
300553 ACAAATCATCTTTT
1 ACAAATCAACATTT
300567 ACAAATCAA
1 ACAAATCAA
300576 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:300947 original size:20 final size:20
Alignment explanation
Indices: 300922--300972 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
300912 ATTCATTTGA
300922 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
300942 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
*
300962 TTATCGCAACG
1 CTATCGCAACG
300973 AGAATATCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
CTATCGCAACGTGAAAATGG
Found at i:301157 original size:14 final size:14
Alignment explanation
Indices: 301138--301174 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
301128 CATCAATTAA
301138 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
301152 ACAAATCATCTTTT
1 ACAAATCAACATTT
301166 ACAAATCAA
1 ACAAATCAA
301175 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:301390 original size:596 final size:593
Alignment explanation
Indices: 300163--302648 Score: 3481
Period size: 596 Copynumber: 4.1 Consensus size: 593
300153 TTTAACAATT
300163 ATTATTGAATTCTAGGTACTTAACCAAACA-TTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
300227 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
* * ** **
300292 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTATTAGACATTCATTTGACTATCGC
131 GAGTTTGAACATTGCTATCATC-GTTCAGTTGACATCACTTATTAGACATGAAAATGACTATCGC
* *
300357 AATGCGAAAATGGTTATCGCAACGAGAAAATCGCAATGC-----GAAATTTCATTTCGCATTGCG
195 AACGCGAAAATGGTTATCGCAACGAGAAAATCGCAACGCGAAATGAAATTTCATTTCGCATTGCG
*
300417 ATTTTCTCGTTGCGATAGTCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGAT
260 ATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGAT
300482 TGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAAACAAATCA
325 TGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAAACAAATCA
300547 ACATTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAATAATAATTCTTATTTCT
390 ACATTTACAAATCATCTTTTACAAATCAATTAAACAATC-AAAAATAATAATAATTCTTATTTCT
300612 TCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCAC
454 TCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCAC
300677 TTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTA
519 TTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTA
300742 CAAACAACAA
584 CAAACAACAA
300752 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
300817 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
* * * *
300882 GAGTTTGAACATTGCTATCA-C-TT-A-TTAGACATTCATTTGACTATCGCAACGTGAAAATGGC
131 GAGTTTGAACATTGCTATCATCGTTCAGTT-GACA-TCACTT-A-T-TAG--ACATGAAAATGAC
* *
300943 TATCGCAACGTGAAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGATAAATTTCATTTC
189 TATCGCAACGCGAAAATGGTTATCGCAACGAGAAAATCGCAACGCGAAATG--AAATTTCATTTC
301008 GCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATA
252 GCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATA
301073 AAGCAGATTGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAA
317 AAGCAGATTGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAA
301138 ACAAATCAACATTTACAAATCATCTTTTACAAATCAATTAAACAATC-AAAA-AATAATAATTCT
382 ACAAATCAACATTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAATAATAATAATTCT
301201 TATTTCTTCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGC
447 TATTTCTTCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGC
*
301266 AGCTCACTTAAGGATTAACCTACAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTA
512 AGCTCACTTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTA
301331 AAACCTACAAACAACAA
577 AAACCTACAAACAACAA
301348 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
301413 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
* * * *
301478 GAGTTTGAACATTGCTATCA-C-TT-A-TTAGACATTCATTTGACTATCGCAACGTGAAAATGGC
131 GAGTTTGAACATTGCTATCATCGTTCAGTT-GACA-TCACTT-A-T-TAG--ACATGAAAATGAC
* *
301539 TATCGCAACGTGAAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGATAATCGCATTGCG
189 TATCGCAACGCGAAAATGGTTATCGCAACGAGAAAATCGCAACGCGAAATGA-AAT----TT-C-
* * ** * **
301604 ATTTTCTCGTTGCGATTTTCATTTCGCATTGCGAT-TTCATTTCGCATTGCGATTTTCTCGTTGC
247 A-TTTCGCATTGCGATTTTC---TCG--TTGCGATAGCCATTTCGCGTTGCGATAGTCT-GTT--
** * * * * * *** * * **
301668 GATAACCATTTC-GCGTTGCGATAGTCTGTTTTG-CCTTCAACATAAAGCAGA-T-TGA-AAATC
303 --TTGCC--TTCAAC-AT---AAAG-CAG-ATTGAAAATCAAC--AAATCA-ACTATTACATTTC
* * * * * * * *
301728 AACAAATCAACTAT-TACATTCAACACAAATTATGTACACATC-A-ATTAAACAAATCAACATTT
355 AACACA--AATTATGTACA--C-A-TC-AATTA--AACAAATCAACATT-TACAAATCATCTTTT
*
301790 ACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAATAATAATTCTTATTTCTTCATCA
410 ACAAATCA---ATT---AA--A------CAATC-AAAAATAATAATAATTCTTATTTCTTCATCA
301855 ATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGG
460 ATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGG
301920 ATTAACCTGCAGAAACC-AACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACA
525 ATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACA
*
301984 GCAA
590 ACAA
301988 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
302053 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
* * ** **
302118 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTATTAGACATTCATTTGACTATCGC
131 GAGTTTGAACATTGCTATCATC-GTTCAGTTGACATCACTTATTAGACATGAAAATGACTATCGC
* * *
302183 AATGCGAAAATGGTTATCGCAATGAGAAAATCGCAATGCGAAATGAAA----A--TCGCATTGCG
195 AACGCGAAAATGGTTATCGCAACGAGAAAATCGCAACGCGAAATGAAATTTCATTTCGCATTGCG
* *
302242 ATTTTCTCGTTGCGATAACCATTTCGCGTTGCGATAGTCTATTTTGCCTTCAACATAAAGCAGAT
260 ATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGAT
302307 TGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAAACAAATCA
325 TGAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAAACAAATCA
302372 ACATTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAATAATAATTCTTATTTCT
390 ACATTTACAAATCATCTTTTACAAATCAATTAAACAATC-AAAAATAATAATAATTCTTATTTCT
302437 TCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCAC
454 TCATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCAC
302502 TTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTA
519 TTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTA
*
302567 CAAACAGCAA
584 CAAACAACAA
*
302577 ATTATTAAATTCTAGGTACTTAACCAAACA-TTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
302641 CTTGCATT
66 CTTGCATT
302649 TGACTTACCA
Statistics
Matches: 1716, Mismatches: 95, Indels: 173
0.86 0.05 0.09
Matches are distributed among these distances:
585 2 0.00
586 4 0.00
587 7 0.00
588 162 0.09
589 112 0.07
590 120 0.07
592 48 0.03
594 2 0.00
595 3 0.00
596 402 0.23
597 5 0.00
599 192 0.11
600 1 0.00
601 7 0.00
602 37 0.02
603 8 0.00
604 1 0.00
605 4 0.00
606 20 0.01
607 21 0.01
608 9 0.01
609 15 0.01
610 3 0.00
611 3 0.00
612 1 0.00
613 8 0.00
614 1 0.00
615 3 0.00
616 3 0.00
617 15 0.01
618 9 0.01
619 20 0.01
620 20 0.01
621 4 0.00
622 1 0.00
623 8 0.00
624 35 0.02
625 6 0.00
627 3 0.00
630 2 0.00
632 1 0.00
637 2 0.00
638 59 0.03
640 205 0.12
641 108 0.06
642 1 0.00
643 7 0.00
644 4 0.00
645 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (593 bp):
ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
GAGTTTGAACATTGCTATCATCGTTCAGTTGACATCACTTATTAGACATGAAAATGACTATCGCA
ACGCGAAAATGGTTATCGCAACGAGAAAATCGCAACGCGAAATGAAATTTCATTTCGCATTGCGA
TTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATT
GAAAATCAACAAATCAACTATTACATTTCAACACAAATTATGTACACATCAATTAAACAAATCAA
CATTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAATAATAATAATTCTTATTTCTTC
ATCAATTATTGAATCAAGAATCAACAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTT
AAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACA
AACAACAA
Found at i:301543 original size:20 final size:20
Alignment explanation
Indices: 301518--301568 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
301508 ATTCATTTGA
301518 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
301538 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
*
301558 TTATCGCAACG
1 CTATCGCAACG
301569 AGAATATCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
CTATCGCAACGTGAAAATGG
Found at i:301618 original size:14 final size:15
Alignment explanation
Indices: 301598--301670 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
301588 TGATAATCGC
301598 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
301613 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
301630 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
301648 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
301664 -TTGCGAT
1 ATTGCGAT
301671 AACCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:301635 original size:19 final size:19
Alignment explanation
Indices: 301594--301660 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
301584 GAAATGATAA
301594 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
301610 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
301627 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
301645 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
301661 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:301795 original size:14 final size:14
Alignment explanation
Indices: 301776--301812 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
301766 CATCAATTAA
301776 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
301790 ACAAATCATCTTTT
1 ACAAATCAACATTT
301804 ACAAATCAA
1 ACAAATCAA
301813 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:302383 original size:14 final size:14
Alignment explanation
Indices: 302364--302400 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
302354 CATCAATTAA
302364 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
302378 ACAAATCATCTTTT
1 ACAAATCAACATTT
302392 ACAAATCAA
1 ACAAATCAA
302401 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:304298 original size:20 final size:19
Alignment explanation
Indices: 304263--304328 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 19
304253 GAAACTTAAA
304263 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
304282 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* *
304302 ATCGCAATGCGAAATGA-A
1 ATCGCAACGCGAAATGACT
304320 ATCGCAACG
1 ATCGCAACG
304329 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.20
19 16 0.39
20 17 0.41
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:304337 original size:14 final size:14
Alignment explanation
Indices: 304318--304373 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
304308 ATGCGAAATG
304318 AAATCGCAACGACA
1 AAATCGCAACGACA
304332 AAATCGCAACG-CGAA
1 AAATCGCAACGAC--A
304347 ATGAATCGCAACGACA
1 A--AATCGCAACGACA
304363 AAATCGCAACG
1 AAATCGCAACG
304374 CGAAACACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 21 0.57
15 2 0.05
16 2 0.05
17 10 0.27
18 1 0.03
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:304357 original size:31 final size:32
Alignment explanation
Indices: 304302--304378 Score: 138
Period size: 31 Copynumber: 2.4 Consensus size: 32
304292 GGAAATGGCT
*
304302 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
304334 ATCGCAACGCGAAATG-AATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
304365 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
304379 CACAAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 29 0.66
32 15 0.34
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:304407 original size:19 final size:19
Alignment explanation
Indices: 304385--304448 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
304375 GAAACACAAA
304385 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
304404 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
304420 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
304437 TCGCATTGCGAT
1 TCGCATTGCGAT
304449 AGCCATTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 7 0.19
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 19 0.53
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:304467 original size:20 final size:19
Alignment explanation
Indices: 304433--304487 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
304423 TTGCGATTTT
*
304433 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
304452 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
304472 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
304488 AAGTAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:304985 original size:18 final size:18
Alignment explanation
Indices: 304959--305003 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
304949 GTCGATCAGA
*
304959 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
304977 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
304995 TGATGGCTC
1 TGATGGCTC
305004 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:306348 original size:20 final size:20
Alignment explanation
Indices: 306323--306360 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
306313 AATAGTTTCT
306323 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
306343 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
306361 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:306630 original size:22 final size:22
Alignment explanation
Indices: 306605--306648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
306595 GATTTAGATA
*
306605 GACGGATTTCGCCGAAGATGGG
1 GACGGACTTCGCCGAAGATGGG
* *
306627 GACGGACTTCGTCGGAGATGGG
1 GACGGACTTCGCCGAAGATGGG
306649 TGAGAGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.18, G:0.43, T:0.18
Consensus pattern (22 bp):
GACGGACTTCGCCGAAGATGGG
Found at i:306861 original size:20 final size:20
Alignment explanation
Indices: 306836--306929 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
306826 GATTATGTAT
306836 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
306856 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
306876 TATCTCGTTGCGATTTTTTAC
1 TATCGCGTTGCGA-AAGTCAG
* *
306897 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
306917 TATCGCATTGCGA
1 TATCGCGTTGCGA
306930 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:306901 original size:41 final size:41
Alignment explanation
Indices: 306856--306933 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
306846 CGAAAGTCAG
* * *
306856 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAC
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAC
* *
306897 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
306934 CTCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAC
Found at i:306930 original size:20 final size:20
Alignment explanation
Indices: 306816--306930 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
306806 CGCTTTGAAA
*
306816 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
306837 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
306857 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
306877 ATCTCGTTGCGATTTTTTACT
1 ATCGCATTGCGA-TAGTCAGT
306898 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
306918 ATCGCATTGCGAT
1 ATCGCATTGCGAT
306931 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:306952 original size:21 final size:21
Alignment explanation
Indices: 306919--307011 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
306909 ATAGTCAGTA
306919 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTTCTCAAT
* * * *
306940 TCGCGTTGTGATTTACT-TAT
1 TCGCATTGCGATTTTCTCAAT
* *
306960 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCGATTTTCTCAAT
* * *
306981 TCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTTCTCAAT
307001 TCGCATTGCGA
1 TCGCATTGCGA
307012 ATTGGGAAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 26 0.47
21 29 0.53
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCTCAAT
Found at i:306964 original size:41 final size:41
Alignment explanation
Indices: 306919--307014 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
306909 ATAGTCAGTA
* * *
306919 TCGCATTGCGATTTTCTCAATTCGCGTTGTGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
306960 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
307001 TCGCATTGCGAATT
1 TCGCATTGCGAATT
307015 GGGAAAATCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:307850 original size:25 final size:26
Alignment explanation
Indices: 307816--307871 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
307806 TTTTAAAAAC
307816 TTCATCAAATA-TTTCTT-AAAATTCT
1 TTCATCAAATAGTTT-TTCAAAATTCT
307841 TTCATCAAATAGTTTTTCAAAATTCT
1 TTCATCAAATAGTTTTTCAAAATTCT
307867 TTCAT
1 TTCAT
307872 AAAACAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (26 bp):
TTCATCAAATAGTTTTTCAAAATTCT
Found at i:308264 original size:30 final size:30
Alignment explanation
Indices: 308228--308299 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
308218 GTTTAACACC
* *
308228 AAATAGTACATGAACTTGGCTACCAATGCT
1 AAATAGTACAGGAACTTGGCCACCAATGCT
* * *
308258 AAATAGTATAGGTACTTGGCCACCAATGTT
1 AAATAGTACAGGAACTTGGCCACCAATGCT
* *
308288 AAACAATACAGG
1 AAATAGTACAGG
308300 GACCAAGGCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (30 bp):
AAATAGTACAGGAACTTGGCCACCAATGCT
Found at i:311602 original size:20 final size:21
Alignment explanation
Indices: 311570--311612 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
311560 TTTTGGTGGC
*
311570 TTACGGTTTTTTTACCGTTGT
1 TTACGGTTTTTTTACCGTAGT
*
311591 TTACGG-TTTTTTGCCGTAGT
1 TTACGGTTTTTTTACCGTAGT
311611 TT
1 TT
311613 TTGTTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.14, G:0.21, T:0.56
Consensus pattern (21 bp):
TTACGGTTTTTTTACCGTAGT
Found at i:336044 original size:20 final size:20
Alignment explanation
Indices: 336019--336064 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
336009 TTATATTGTT
336019 CGTCTATCCATGCTTTCGAC
1 CGTCTATCCATGCTTTCGAC
336039 CGTCTATCCATGCTTTCGAC
1 CGTCTATCCATGCTTTCGAC
*
336059 CCTCTA
1 CGTCTA
336065 GCTGAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.37, G:0.13, T:0.35
Consensus pattern (20 bp):
CGTCTATCCATGCTTTCGAC
Found at i:355875 original size:19 final size:19
Alignment explanation
Indices: 355847--355893 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
355837 AGGAGCTTTG
*
355847 TTGCTATCCGAATCAGCAA
1 TTGCTCTCCGAATCAGCAA
355866 TTGCTCTCCGAATCAGCAA
1 TTGCTCTCCGAATCAGCAA
355885 TTGCTCTCC
1 TTGCTCTCC
355894 AAACTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (19 bp):
TTGCTCTCCGAATCAGCAA
Found at i:363408 original size:22 final size:22
Alignment explanation
Indices: 363380--363423 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
363370 TACCTTTGGA
363380 GCGGATCAGAAGTGGAACGGAT
1 GCGGATCAGAAGTGGAACGGAT
*
363402 GCGGATCAGAAGTGGATCGGAT
1 GCGGATCAGAAGTGGAACGGAT
363424 CTGAAGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.41, T:0.16
Consensus pattern (22 bp):
GCGGATCAGAAGTGGAACGGAT
Found at i:368557 original size:22 final size:22
Alignment explanation
Indices: 368529--368572 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
368519 TACCTTTGGA
368529 GCGGATCAGAAGTGGAACGGAT
1 GCGGATCAGAAGTGGAACGGAT
*
368551 GCGGATCAGAAGTGGATCGGAT
1 GCGGATCAGAAGTGGAACGGAT
368573 CTGAAGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.41, T:0.16
Consensus pattern (22 bp):
GCGGATCAGAAGTGGAACGGAT
Found at i:373100 original size:14 final size:14
Alignment explanation
Indices: 373081--373108 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
373071 ATTAAATTGT
373081 CTACCAGTTATTTC
1 CTACCAGTTATTTC
373095 CTACCAGTTATTTC
1 CTACCAGTTATTTC
373109 TTAGGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
CTACCAGTTATTTC
Found at i:377073 original size:24 final size:24
Alignment explanation
Indices: 377041--377088 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
377031 AATGTGGTTT
377041 CTAGATTGGTAAGTTTCCTTTTGG
1 CTAGATTGGTAAGTTTCCTTTTGG
377065 CTAGATTGGTAAGTTTCCTTTTGG
1 CTAGATTGGTAAGTTTCCTTTTGG
377089 GGAACTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (24 bp):
CTAGATTGGTAAGTTTCCTTTTGG
Found at i:383591 original size:30 final size:30
Alignment explanation
Indices: 383551--383615 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
383541 AGGGAGTGCG
*
383551 CAAGGCACTATAA-ACTAACTAGCTTAGGCA
1 CAAGGAACTATAAGA-TAACTAGCTTAGGCA
* *
383581 CAAGGAACTATAAGATAACTAGCTTGGGCT
1 CAAGGAACTATAAGATAACTAGCTTAGGCA
383611 CAAGG
1 CAAGG
383616 TCCAACACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (30 bp):
CAAGGAACTATAAGATAACTAGCTTAGGCA
Found at i:383826 original size:15 final size:15
Alignment explanation
Indices: 383806--383846 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
383796 GAAAAAATAG
383806 ATAACAATATACCAT
1 ATAACAATATACCAT
*
383821 ATAACAATAGACCAT
1 ATAACAATATACCAT
383836 ATAACAATATA
1 ATAACAATATA
383847 TAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
ATAACAATATACCAT
Found at i:384915 original size:18 final size:18
Alignment explanation
Indices: 384892--384936 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
384882 ACTGAATATT
* *
384892 TGTCCCGGATAACCACTA
1 TGTCCCGAATAACAACTA
*
384910 TGTCCCGAATGACAACTA
1 TGTCCCGAATAACAACTA
384928 TGTCCCGAA
1 TGTCCCGAA
384937 GGACAACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (18 bp):
TGTCCCGAATAACAACTA
Found at i:384941 original size:18 final size:18
Alignment explanation
Indices: 384906--384944 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
384896 CCGGATAACC
*
384906 ACTATGTCCCGAATGACA
1 ACTATGTCCCGAAGGACA
384924 ACTATGTCCCGAAGGACA
1 ACTATGTCCCGAAGGACA
384942 ACT
1 ACT
384945 GATAATCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (18 bp):
ACTATGTCCCGAAGGACA
Found at i:385209 original size:2 final size:2
Alignment explanation
Indices: 385202--385245 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
385192 TCTATCCAAC
385202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
385244 AT
1 AT
385246 GCATGTACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:387295 original size:21 final size:21
Alignment explanation
Indices: 387237--387297 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
387227 TCCAGCAAAT
387237 GATCGATCCCTTTT-CAAAAG
1 GATCGATCCCTTTTCCAAAAG
* ***
387257 GATTGATCCCTCGACCAAAAG
1 GATCGATCCCTTTTCCAAAAG
387278 GATCGATCCCTTTTCCAAAA
1 GATCGATCCCTTTTCCAAAA
387298 CATAAATCCC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (21 bp):
GATCGATCCCTTTTCCAAAAG
Found at i:389468 original size:19 final size:21
Alignment explanation
Indices: 389431--389470 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
389421 CATGTATTTA
389431 TATTAGTATATGTGATATATGT
1 TATTAGTATATGT-ATATATGT
389453 TATTA-TATATGT-TATATG
1 TATTAGTATATGTATATATG
389471 ATTTGTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (21 bp):
TATTAGTATATGTATATATGT
Found at i:417606 original size:33 final size:29
Alignment explanation
Indices: 417553--417615 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 29
417543 GGATTTTTTG
*
417553 TATTAAAATAATAATATTAATTTTATTATT
1 TATTAAAAAAATAATATTAA-TTTATTATT
417583 TATTAAAAAAATAGATTAGTTAATTTATTATT
1 TATTAAAAAAATA-A-TA-TTAATTTATTATT
417615 T
1 T
417616 TTTATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.41
31 1 0.03
32 12 0.41
33 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TATTAAAAAAATAATATTAATTTATTATT
Found at i:417615 original size:32 final size:30
Alignment explanation
Indices: 417553--417652 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 30
417543 GGATTTTTTG
*
417553 TATTAAAATAATAATATTAATTTTATTATT
1 TATTAAAAAAATAATATTAATTTTATTATT
*
417583 TATTAAAAAAATAGATTAGTTAATTTATTATTTTT
1 TATTAAAAAAATA-A-TA-TTAA-TT-TTATTATT
* * *
417618 TATTAATAAATTAATAATTATTATTTA-TATT
1 TATTAAAAAAATAAT-ATTAAT-TTTATTATT
417649 TATT
1 TATT
417653 TTTTGAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
30 12 0.21
31 8 0.14
32 6 0.11
33 9 0.16
34 4 0.07
35 18 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTAAAAAAATAATATTAATTTTATTATT
Found at i:418241 original size:12 final size:12
Alignment explanation
Indices: 418202--418241 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
418192 TTGTAGCATA
418202 ATTTTCTTATAT
1 ATTTTCTTATAT
* *
418214 ATTCTC-TATTT
1 ATTTTCTTATAT
418225 ATTTTCTTATAT
1 ATTTTCTTATAT
418237 ATTTT
1 ATTTT
418242 ATTTTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTCTTATAT
Found at i:418527 original size:81 final size:81
Alignment explanation
Indices: 418392--418554 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
418382 AGTGCACCTT
*
418392 CCAAGGGCCCATAACACAGACTTCATTCGATTTAAAAATAGGCTTAAACACACTATTGGCCCTTA
1 CCAAGGGCCCATAACACAGACTTCATTCGAATTAAAAATAGGCTTAAACACACTATTGGCCCTTA
418457 AACTATATTATTTGTA
66 AACTATATTATTTGTA
*
418473 CCAAGGGCCCATAACACAGACTTCATTCGAATTAAAAATAGGCTTAAATACACTATTGGCCCTTA
1 CCAAGGGCCCATAACACAGACTTCATTCGAATTAAAAATAGGCTTAAACACACTATTGGCCCTTA
418538 AACTATATTATTTGTA
66 AACTATATTATTTGTA
418554 C
1 C
418555 AAAGTTGTCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (81 bp):
CCAAGGGCCCATAACACAGACTTCATTCGAATTAAAAATAGGCTTAAACACACTATTGGCCCTTA
AACTATATTATTTGTA
Found at i:423856 original size:29 final size:29
Alignment explanation
Indices: 423823--423902 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
423813 AAACTAAGTT
*
423823 GATGTCATTACTTACATCAATTAGGTGAA
1 GATGTCATTGCTTACATCAATTAGGTGAA
423852 GATGTCATTGCTTACATCAATTAGGTGAA
1 GATGTCATTGCTTACATCAATTAGGTGAA
423881 GATGTCATTGCTTACATCAATT
1 GATGTCATTGCTTACATCAATT
423903 TAGTCAGGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (29 bp):
GATGTCATTGCTTACATCAATTAGGTGAA
Found at i:426939 original size:22 final size:23
Alignment explanation
Indices: 426887--426949 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
426877 TACTTTACAA
426887 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
426910 ATACCTATTACATTATAT-AAGG
1 CTACCTATTACATTATATAAACG
*
426932 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
426950 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:427001 original size:22 final size:22
Alignment explanation
Indices: 426967--427011 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
426957 TATTATATTG
*
426967 AAAGTATCCATACTTTTTATAA
1 AAAGGATCCATACTTTTTATAA
* *
426989 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCCATACTTTTTATAA
427011 A
1 A
427012 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAGGATCCATACTTTTTATAA
Found at i:427408 original size:23 final size:22
Alignment explanation
Indices: 427356--427414 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 22
427346 TACTTTACAA
427356 CTACCTATTACATTATA-AACG
1 CTACCTATTACATTATATAACG
*
427377 ATACC---TACATTATATAAGCG
1 CTACCTATTACATTATATAA-CG
*
427397 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
427415 TTTTACCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 9 0.30
19 2 0.07
20 6 0.20
21 4 0.13
23 9 0.30
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (22 bp):
CTACCTATTACATTATATAACG
Found at i:427813 original size:460 final size:468
Alignment explanation
Indices: 426493--428296 Score: 2887
Period size: 460 Copynumber: 3.9 Consensus size: 468
426483 CATTATAATG
*
426493 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT-ACTTTTTTAAAGTTATGTAATTTATGTT
* * *
426558 TCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTTGCACA
65 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTAAT-ATTTCATTTACAC-
*
426623 AAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
128 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
426688 ACCCAAAGATAATAATAATATGTAATATATG-TTATTGTTTTAATTTAATAAT-A-ATATATCGT
193 A-CCAAAGATAATAATAATATGTAATATATGTTTATTGTTTTAATTTAATAATAATATATATCGT
426750 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
257 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
426815 GATAACCTTAAATTAATG-TTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGAT
322 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAT
426878 ACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG-GCTACCTATTA
387 ACTTTACAACTACCTATTACA-T-TATAAACGATACC---TACATTATATAAGCGCTACCTATTA
426942 CATCATATTTTTACCTATTATA
447 CATCATATTTTTACCTATTATA
*
426964 TTGAAAGTATCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAA-TTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTT
427028 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
65 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAAT-ATTTCATTTACAC
*
427093 AAAAATTATTTGATTGTTTTGATCTTTTAT--AATAATATTTAGAATTTAAATTTAAC-ATATTA
128 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
427155 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTT-ATTTAATAATAATATATATC
193 ACCAAAGATAATAAT-AATATGT-A-ATATATGTTTATTGTTTTAATTTAATAATAATATATATC
*
427219 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATATT-AAACTCACTCAA
255 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
* *
427282 AAG--AACCTTGAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
320 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
427345 ATACTTTACAACTACCTATTACATTATAAACGATACCTACATTATATAAGCGCTACCTATTACAT
385 ATACTTTACAACTACCTATTACATTATAAACGATACCTACATTATATAAGCGCTACCTATTACAT
427410 CATATTTTTACCTATTATA
450 CATATTTTTACCTATTATA
* *
427429 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTTTTTAAAGTTATGTAATTTATGTTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTT
*
427494 CAATTTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTAA-TAAT-TTT-ATTTACACAA
66 CAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTAATATTTCATTTACAC-A
*
427556 AAAATTATTTGA-TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATATTAA
129 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
*
427620 CCAAAGAT-ATAATAATATGTAATACATGTTTATTGTTTTTAATTTAATAATAATATAT-T-GTA
194 CCAAAGATAATAATAATATGTAATATATGTTTATTG-TTTTAATTTAATAATAATATATATCGTA
427682 ACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-AAACTCACTCAAAAG
258 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
427745 ATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGATA
323 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATA
* *
427808 CTTTACAACTACCTATTACATTATATAACGATACATATTACATTATATAAACGCTACCTA-T---
388 CTTTACAACTACCTATTACATTATA-AACGATAC---CTACATTATATAAGCGCTACCTATTACA
427869 T-ATATTTTTACCTATTATA
449 TCATATTTTTACCTATTATA
* *
427888 TTGAAAGTGTCCATA-TTTTTATAAAAAAAAGATCGATACTTTTTTAAAGTTATTTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTAT--AAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGT
427952 TTCAATTTTTTTAATAGTGTTTCATGTTTTTCCACCTACAATATTAATTTAATATTTCATTTACA
64 TTCAATTTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATTAA-TTAATATTTCATTTACA
*
428017 C-AAAATTATTTTGATTGTTTTGATCTTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
127 CAAAAATTA-TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
428081 TAACCAAAGATAAT-A-AA-ATG--ATATATGTTTATTGTTTTTAATTTAAT-ATAATATATATC
191 TAACCAAAGATAATAATAATATGTAATATATGTTTATTG-TTTTAATTTAATAATAATATATATC
428140 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
255 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
*
428205 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAG
320 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
428270 ATACTTTACAACTACCTA-TACATTATA
385 ATACTTTACAACTACCTATTACATTATA
428297 TACTGGATCA
Statistics
Matches: 1262, Mismatches: 30, Indels: 89
0.91 0.02 0.06
Matches are distributed among these distances:
458 7 0.01
459 61 0.05
460 207 0.16
461 76 0.06
462 112 0.09
463 73 0.06
464 180 0.14
465 108 0.09
466 54 0.04
467 41 0.03
468 38 0.03
469 87 0.07
470 133 0.11
471 85 0.07
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (468 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTATGTTT
CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTAATATTTCATTTACACAAA
AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAATATGTAATATATGTTTATTGTTTTAATTTAATAATAATATATATCGTAACG
TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTT
TACAACTACCTATTACATTATAAACGATACCTACATTATATAAGCGCTACCTATTACATCATATT
TTTACCTATTATA
Found at i:427869 original size:23 final size:22
Alignment explanation
Indices: 427816--427870 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
427806 TACTTTACAA
427816 CTACCTATTACATTATATAACG
1 CTACCTATTACATTATATAACG
* *
427838 ATACATATTACATTATATAAACG
1 CTACCTATTACATTATAT-AACG
427861 CTACCTATTA
1 CTACCTATTA
427871 TATTTTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (22 bp):
CTACCTATTACATTATATAACG
Found at i:428263 original size:925 final size:928
Alignment explanation
Indices: 426493--428296 Score: 3033
Period size: 925 Copynumber: 1.9 Consensus size: 928
426483 CATTATAATG
*
426493 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAACTTTTTTAAAGTTATGTAATTTATGTT
* *
426558 TCATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTTGCACA
66 TCATTTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTTACACA
426623 AAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
131 AAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
*
426688 ACCCAAAGATAATAATAATATGTAATATATGTTATTGTTTTAATTTAATAATAATATATCGTAAC
196 ACCCAAAGATAATAATAATATGTAATACATGTTATTGTTTTAATTTAATAATAATATATCGTAAC
426753 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
261 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
426818 AACCTTAAATTAATGTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
326 AACCTTAAATTAATGTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
* *
426883 ACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGCTACCTATTACATCAT
391 ACAACTACCTATTACATTATATAAACGATACATATTACATTATATAACGCTACCTATT--ATCAT
*
426948 ATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAG
454 ATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAG
427013 TTATGTAATTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAA
519 TTATGTAATTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAA
427078 TAATTTCATTTACACAAAAATTATTTGATTGTTTTGATCTTTTATAATAATATTTAGAATTTAAA
584 TAATTTCATTTACACAAAAATTATTTGATTGTTTTGATCTTTTATAATAATATTTAGAATTTAAA
427143 TTTAACATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTATTTAATAA
649 TTTAACATATTAACCAAAG--AATAATAAATATG--A-ATATATGTTTATTGTTTTATTTAATAA
427208 TAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATATTAAA
709 TAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATATTAAA
* *
427273 CTCACTCAAAAGAACCTTGAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAA
774 CTCACTCAAAAGAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
427338 AGGATAGATACTTTACAACTACCTATTACATTATAAACGATACCTACATTATATAAGCGCTACCT
839 AGGATAGATACTTTACAACTACCTA-TACATTATAAACGATACCTACATTATATAAGCGCTACCT
427403 ATTACATCATATTTTTACCTATTATA
903 ATTACATCATATTTTTACCTATTATA
* *
427429 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGAT-ACTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAACTTTTTTAAAGTTATGTAATTTATGTT
*
427493 TCAATTTTTTTTAATAATGTTTCATGTTTTCCACCTAC-A-A-TA-TTAATAATTTTATTTACAC
66 TC-ATTTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTTACAC
* *
427554 AAAAAATTATTTGA-TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATATT
130 AAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
427618 AA-CCAAAGAT-ATAATAATATGTAATACATGTTTATTGTTTTTAATTTAATAATAATATATTGT
195 AACCCAAAGATAATAATAATATGTAATACATG-TTATTG-TTTTAATTTAATAATAATATATCGT
427681 AACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-AAACTCACTCAAAA
258 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
427744 GATAACCTTAAATTAATGTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGATA
323 GATAACCTTAAATTAATGTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGATA
427808 CTTTACAACTACCTATTACATTATAT-AACGATACATATTACATTATATAAACGCTACCTA-T-T
387 CTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATAT-AACGCTACCTATTAT
*
427870 -ATATTTTTACCTATTATATTGAAAGTGTCCATA-TTTTTATAAAAAAAAGATCGATAC-TTTTT
451 CATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTAT--AAAAAAGATCGATACTTTTTT
*
427932 TAAAGTTATTTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTTCCACCTACAATATT
514 TAAAGTTATGTAA-TTATGTTTCAATTTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATT
427997 AATTTAAT-ATTTCATTTACAC-AAAATTATTTTGATTGTTTTGATCTTTTATAAAATAATATTT
577 AATTTAATAATTTCATTTACACAAAAATTA-TTTGATTGTTTTGATCTTTTAT--AATAATATTT
428060 AGAATTTAAATTTAACAATATTAACCAAAG-ATAATAAA-ATG-ATATATGTTTATTGTTTTTAA
639 AGAATTTAAATTTAAC-ATATTAACCAAAGAATAATAAATATGAATATATGTTTATTG-TTTT-A
428122 TTTAAT-ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
701 TTTAATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
*
428186 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
765 TATATT-AAACTCACTCAAAAG--AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
*
428251 ACTTTTATAAAAATGATAGATACTTTACAACTACCTATACATTATA
827 ACTTTTATAAAAAGGATAGATACTTTACAACTACCTATACATTATA
428297 TACTGGATCA
Statistics
Matches: 830, Mismatches: 19, Indels: 50
0.92 0.02 0.06
Matches are distributed among these distances:
920 14 0.02
921 23 0.03
922 50 0.06
923 22 0.03
924 68 0.08
925 165 0.20
926 26 0.03
927 26 0.03
928 35 0.04
929 111 0.13
930 79 0.10
931 80 0.10
932 30 0.04
933 2 0.00
934 1 0.00
935 30 0.04
936 68 0.08
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (928 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAACTTTTTTAAAGTTATGTAATTTATGTT
TCATTTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTTACACA
AAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
ACCCAAAGATAATAATAATATGTAATACATGTTATTGTTTTAATTTAATAATAATATATCGTAAC
GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
AACCTTAAATTAATGTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
ACAACTACCTATTACATTATATAAACGATACATATTACATTATATAACGCTACCTATTATCATAT
TTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTT
ATGTAATTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
ATTTCATTTACACAAAAATTATTTGATTGTTTTGATCTTTTATAATAATATTTAGAATTTAAATT
TAACATATTAACCAAAGAATAATAAATATGAATATATGTTTATTGTTTTATTTAATAATAATATA
TATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATATTAAACTCACTC
AAAAGAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ATACTTTACAACTACCTATACATTATAAACGATACCTACATTATATAAGCGCTACCTATTACATC
ATATTTTTACCTATTATA
Found at i:428411 original size:22 final size:21
Alignment explanation
Indices: 428379--428433 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
428369 GACATGGGAA
428379 AAAATAA-AATAAATAAGTGAT
1 AAAATAATAATAAATAA-TGAT
428400 AAAATAATAATAAATAATGAT
1 AAAATAATAATAAATAATGAT
428421 AAATATAATAATA
1 AAA-ATAATAATA
428434 TATATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAATAATAATAAATAATGAT
Found at i:428606 original size:34 final size:36
Alignment explanation
Indices: 428445--428620 Score: 132
Period size: 37 Copynumber: 5.0 Consensus size: 36
428435 ATATATAAAC
* * **
428445 GTTTTC-AAAAC-ATATAATATATAAATTTTTTAAAT
1 GTTTTCAAAAACTATATATTATATATA-TTTCAAAAT
*
428480 GTTTTTAAAAAACTATATATTATATATATTTCAAAAT
1 G-TTTTCAAAAACTATATATTATATATATTTCAAAAT
* * * * **
428517 GATTTTTAAAAATTATATATTATAAATGTTT-TTAAT
1 G-TTTTCAAAAACTATATATTATATATATTTCAAAAT
* * *
428553 GTTTTC-AAAAGTATCTATTATATAT-TTT-AAAAC
1 GTTTTCAAAAACTATATATTATATATATTTCAAAAT
*
428586 GTTTTCAAAAACTATGTATTATATA-ATTTTCAAAA
1 GTTTTCAAAAACTATATATTATATATA-TTTCAAAA
428621 ATATATTTTC
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
33 11 0.10
34 32 0.28
35 8 0.07
36 12 0.11
37 38 0.34
38 12 0.11
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
GTTTTCAAAAACTATATATTATATATATTTCAAAAT
Found at i:428630 original size:14 final size:15
Alignment explanation
Indices: 428606--428634 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
428596 ACTATGTATT
428606 ATATAATTTTCAAAA
1 ATATAATTTTCAAAA
428621 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
428635 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATTTTCAAAA
Found at i:428750 original size:121 final size:119
Alignment explanation
Indices: 428501--428747 Score: 365
Period size: 123 Copynumber: 2.0 Consensus size: 119
428491 ACTATATATT
* *
428501 ATATATATTTCAAAATGATTTTTAAAAATTATATATTATAAATGTTTTTAATGTTTTCAAAAGTA
1 ATATAT-TTTCAAAATGATTTTTAAAAATTATATATTATAAATGTTTATAACGTTTTCAAAAGTA
*
428566 TCTATTATATATTTTAAAACGTTTTCAAAAACTATGTATTATATAATTTTCAAAA
65 TCTATTATATATTTTAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
*
428621 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATATATAAATGTTTCATAACGTTTTC-AAAG
1 ATATATTTTCAAAATGATTTTT-AAAAATTATATAT-TATAAATGTTT-ATAACGTTTTCAAAAG
428685 TATAC-ATTATATATATTTTAAAAACGTTTTCAAAAACTATATA-TATATAATTTTCAAAA
63 TAT-CTA-T-TATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
428744 ATAT
1 ATAT
428748 TTTAAAAACT
Statistics
Matches: 116, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
119 15 0.13
120 19 0.16
121 19 0.16
122 11 0.09
123 30 0.26
124 22 0.19
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (119 bp):
ATATATTTTCAAAATGATTTTTAAAAATTATATATTATAAATGTTTATAACGTTTTCAAAAGTAT
CTATTATATATTTTAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAA
Found at i:428782 original size:37 final size:36
Alignment explanation
Indices: 428621--428813 Score: 166
Period size: 35 Copynumber: 5.3 Consensus size: 36
428611 ATTTTCAAAA
*
428621 ATATATTTTC-AAAATGGTTTTTAAAAAATTATATATAT
1 ATATATTTTCAAAAAT-G-TTTT-AAAAACTATATATAT
* * * * * *
428659 ATAAATGTTTC-ATAACGTTTT-CAAAGTATACATTAT
1 ATATAT-TTTCAAAAATGTTTTAAAAACTATATA-TAT
*
428695 ATATATTTT-AAAAACGTTTTCAAAAACTATATATAT
1 ATATATTTTCAAAAATGTTTT-AAAAACTATATATAT
*
428731 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATAT-ATAT
*
428767 ACATATTTTCAAAAATGTTTT--AAACTATATTATAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATA-TATAT
*
428802 ATGTATTTTCAA
1 ATATATTTTCAA
428814 TCACAATTTG
Statistics
Matches: 129, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
35 58 0.45
36 30 0.23
37 28 0.22
38 6 0.05
39 7 0.05
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
ATATATTTTCAAAAATGTTTTAAAAACTATATATAT
Found at i:428839 original size:37 final size:35
Alignment explanation
Indices: 428692--428842 Score: 112
Period size: 35 Copynumber: 4.2 Consensus size: 35
428682 AAGTATACAT
* *
428692 TATATATATTTT-AAAAACGTTTTCAAAAACTATAT-A
1 TATATATATTTTCAAAAATG-TTGC--AAACTATATAA
* **
428728 TATATA-ATTTTCAAAAATATTTTAAAAACTATATAA
1 TATATATATTTTC-AAAA-ATGTTGCAAACTATATAA
* ** *
428764 TATACATATTTTCAAAAATGTTTTAAACTATATTA
1 TATATATATTTTCAAAAATGTTGCAAACTATATAA
*
428799 TATATGTATTTTCAATCACAAT-TTGCAAACTATATAA
1 TATATATATTTTCAA--A-AATGTTGCAAACTATATAA
428836 TATATAT
1 TATATAT
428843 GTGTATATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
35 41 0.45
36 16 0.17
37 31 0.34
38 4 0.04
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (35 bp):
TATATATATTTTCAAAAATGTTGCAAACTATATAA
Found at i:429663 original size:165 final size:166
Alignment explanation
Indices: 429387--429979 Score: 707
Period size: 165 Copynumber: 3.6 Consensus size: 166
429377 TCTTGCCATG
* * * * * * * *
429387 AGTTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCG-TGAGTC--TTTGGCA
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAG-GTCTTTTTGGCA
* * *
429449 GATAACCCTTCTTGACTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCGGAGTCGAACT
65 GATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
** * *
429514 CGAAGGTCTTTGG-TCACAGATAACCCTTCTAGCCTTG
130 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG-CTTA
* * * *
429551 AG-TATGCTGTAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCA
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-TTGGCA
* * * * ** *
429614 AACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
65 GATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
429679 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
130 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG-CTTA
* * * **
429717 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTC--TTTGGCAG
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTTGGCAG
* *
429780 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
66 ATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
429845 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCTTA
131 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCTTA
* * *
429881 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAACTCGAAGGTCTTGGTGGGCA
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TTTGGCA
* * * * * *
429946 GATAGCCCTTATGGCCTTGAGCTAAGCTGCAAAT
65 GATAACCCTTCTAGACTTAAGCTATGCTGCAAAT
429980 AGTTTGTTTA
Statistics
Matches: 363, Mismatches: 56, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
162 20 0.06
163 20 0.06
164 56 0.15
165 169 0.47
166 22 0.06
167 55 0.15
168 21 0.06
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (166 bp):
AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTTGGCAG
ATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCTTA
Found at i:429915 original size:249 final size:246
Alignment explanation
Indices: 429443--429979 Score: 675
Period size: 248 Copynumber: 2.2 Consensus size: 246
429433 TCGTGAGTCT
* * * * *
429443 TTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCGGAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCGAAGCTGAGCGGAAT
* * *
429508 CGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTATGCTGTAAATGATGTGCC
66 CGAACTCGAAGGTCTTTGG--ACAGATAACCCTTCTAGACTTAAGTATGCTGCAAATGATGTGCC
*
429573 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTG
129 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTA
* * * *
429638 TATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
194 TACTGCAAATGATATGCCTCGAAGCTGAGCATAGTCGAACTCGAAGGTC-TTGG
* * *
429692 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTCGAAGCTGAGCGGAA
* ** * *
429757 TCGAACTTGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
65 TCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTAAG-TATGCTGCAAATGATGTGCC
* * * *
429821 -TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG-CTTAAGT
129 GTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGGCAAACAACCCTTCTAGACTTAAGT
* *
429884 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAACTCGAAGGTCTTGG
192 TATACTGCAAATGATATG-CCTCGAAGCTGAGCATAGTCGAACTCGAAGGTCTTGG
* * * * * * *
429940 TGGGCAGATAGCCCTTATGGCCTTGAGCTAAGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
429980 AGTTTGTTTA
Statistics
Matches: 248, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
247 21 0.08
248 106 0.43
249 91 0.37
250 30 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (246 bp):
TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCGAAGCTGAGCGGAAT
CGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTAAGTATGCTGCAAATGATGTGCCGT
TGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTATA
CTGCAAATGATATGCCTCGAAGCTGAGCATAGTCGAACTCGAAGGTCTTGG
Found at i:429940 original size:83 final size:84
Alignment explanation
Indices: 429443--429955 Score: 641
Period size: 83 Copynumber: 6.2 Consensus size: 84
429433 TCGTGAGTCT
* * * *
429443 TTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCGGAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
429508 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
** * * * *
429527 -TCACAGATAACCCTTCTAGCCTTGAG-TATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
429589 TCGAACTCAAAGGTCTTT-G
65 TCGAACTCGAAGGTCTTTGG
* * * * ** *
429608 TTGGCAAACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
429673 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * * *
429692 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
* **
429757 TCGAACTTGGGGGTC--T--
65 TCGAACTCGAAGGTCTTTGG
* *
429773 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
429838 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * *
429857 TTGGCAGATAACCCTTCTCG-CTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCATAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
429921 TCGAACTCGAAGGTC-TTGG
65 TCGAACTCGAAGGTCTTTGG
* *
429940 TGGGCAGATAGCCCTT
1 TTGGCAGATAACCCTT
429956 ATGGCCTTGA
Statistics
Matches: 367, Mismatches: 51, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
80 26 0.07
81 45 0.12
82 70 0.19
83 111 0.30
84 89 0.24
85 26 0.07
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGG
Found at i:435423 original size:13 final size:13
Alignment explanation
Indices: 435405--435436 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
435395 TCTCATTTGG
435405 TCTCTCTGCGCTC
1 TCTCTCTGCGCTC
435418 TCTCTCTGCGCTC
1 TCTCTCTGCGCTC
435431 TCTCTC
1 TCTCTC
435437 GTCTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.47, G:0.12, T:0.41
Consensus pattern (13 bp):
TCTCTCTGCGCTC
Found at i:436343 original size:20 final size:20
Alignment explanation
Indices: 436318--436359 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
436308 GACATGGGAA
*
436318 AAAAAAAAAAAATAAGTGAT
1 AAAAAAAAAAAATAAATGAT
* *
436338 AAAAAATAATAATAAATGAT
1 AAAAAAAAAAAATAAATGAT
436358 AA
1 AA
436360 TAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAAAAAAAAAATAAATGAT
Found at i:436411 original size:26 final size:25
Alignment explanation
Indices: 436368--436416 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
436358 AATAATAATA
*
436368 ATATATATATAACGTTTTCAAAAAC
1 ATATATATATAAAGTTTTCAAAAAC
* *
436393 ATATAATATATAAATTTTTTAAAA
1 ATAT-ATATATAAAGTTTTCAAAA
436417 TGTTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
ATATATATATAAAGTTTTCAAAAAC
Found at i:436428 original size:37 final size:36
Alignment explanation
Indices: 436381--436499 Score: 134
Period size: 36 Copynumber: 3.3 Consensus size: 36
436371 TATATATAAC
436381 GTTTTCAAAAACATATAATATATAAATTTTTTAAAAT
1 GTTTTCAAAAAC-TATAATATATAAATTTTTTAAAAT
* * * *
436418 GTTTTTAAAAACTATATTATATATA-TTTTCAAAAT
1 GTTTTCAAAAACTATAATATATAAATTTTTTAAAAT
* * *
436453 GATTTTTAAAAATTAT-ATATATAAATGTTTTTATAAT
1 G-TTTTCAAAAACTATAATATATAAAT-TTTTTAAAAT
436490 GTTTTCAAAA
1 GTTTTCAAAA
436500 GTATCTATTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
35 17 0.25
36 32 0.46
37 20 0.29
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (36 bp):
GTTTTCAAAAACTATAATATATAAATTTTTTAAAAT
Found at i:436446 original size:36 final size:35
Alignment explanation
Indices: 436381--436551 Score: 134
Period size: 34 Copynumber: 4.8 Consensus size: 35
436371 TATATATAAC
436381 GTTTTCAAAAACATATAATATATAAATTTTTTAAAAT
1 GTTTTCAAAAAC-TAT-ATATATAAATTTTTTAAAAT
* * *
436418 GTTTTTAAAAACTATAT-TATATATATTTTCAAAAT
1 GTTTTCAAAAACTATATATATAAAT-TTTTTAAAAT
* * *
436453 GATTTTTAAAAATTATATATATAAATGTTTTTATAAT
1 G-TTTTCAAAAACTATATATATAAAT-TTTTTAAAAT
* * * * *
436490 GTTTTC-AAAAGTATCTAT-TATATATTTTAAAAAC
1 GTTTTCAAAAACTATATATATAAAT-TTTTTAAAAT
* *
436524 GTTTTC-AAAACTATGTATTATATATTTT
1 GTTTTCAAAAACTATATA-TATAAATTTT
436552 CAAAAAAATA
Statistics
Matches: 111, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
34 32 0.29
35 26 0.23
36 27 0.24
37 26 0.23
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (35 bp):
GTTTTCAAAAACTATATATATAAATTTTTTAAAAT
Found at i:436474 original size:35 final size:33
Alignment explanation
Indices: 436398--436556 Score: 108
Period size: 36 Copynumber: 4.6 Consensus size: 33
436388 AAAACATATA
* *
436398 ATATATAAATTTTTTAAAATGTTTTTAAAAACT
1 ATATATATATTTTTCAAAATGTTTTTAAAAACT
*
436431 ATATTATATATATTTTCAAAATGATTTTTAAAAATT
1 ATA-TATATAT-TTTTCAAAATG-TTTTTAAAAACT
* * *
436467 ATATATATAAATGTTTTTATAATGTTTTCAAAAGTATCT
1 ATATATAT--AT-TTTTCAAAATGTTTTTAAAA--A-CT
* * *
436506 AT-TATATA-TTTTAAAAACG-TTTTCAAAACT
1 ATATATATATTTTTCAAAATGTTTTTAAAAACT
*
436536 ATGTATTATATATTTTCAAAA
1 ATATA-TATAT-TTTTCAAAA
436557 AAATATATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
30 4 0.04
31 3 0.03
32 4 0.04
33 9 0.09
34 22 0.22
35 15 0.15
36 23 0.23
37 11 0.11
38 6 0.06
39 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (33 bp):
ATATATATATTTTTCAAAATGTTTTTAAAAACT
Found at i:436621 original size:125 final size:125
Alignment explanation
Indices: 436438--436686 Score: 382
Period size: 125 Copynumber: 2.0 Consensus size: 125
436428 ACTATATTAT
* *
436438 ATATATTTTCAAAATGATTTTTAAAAATTATATATATAAATGTTTTTATAATGTTTTCAAAAGTA
1 ATATATTTTCAAAATGATTTTTAAAAATTATATATATAAATGTTTTCATAACGTTTTCAAAAGTA
*
436503 T-C--TATTATATATTTTAAAAACGTTTTC-AAAACTATGTATTATAT-ATTTTCAAAAAA
66 TACATTA-TATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAA
*
436559 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGATTTTT-AAAAA-T-TATA-TATATAAATGTTTTCATAACGTTTTCAAA
436624 AGTATACATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
62 AGTATACATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
436687 TATTTTAAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
121 21 0.18
122 5 0.04
123 1 0.01
124 4 0.03
125 32 0.28
126 1 0.01
127 22 0.19
128 18 0.16
129 11 0.10
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (125 bp):
ATATATTTTCAAAATGATTTTTAAAAATTATATATATAAATGTTTTCATAACGTTTTCAAAAGTA
TACATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAA
Found at i:436658 original size:36 final size:37
Alignment explanation
Indices: 436559--436758 Score: 167
Period size: 36 Copynumber: 5.3 Consensus size: 37
436549 TTTCAAAAAA
** * *
436559 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTAT
1 ATATATTTTCAAAAACG-TTTT-CAAAACTATATATTAT
* * * *
436598 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATACATTAT
1 AT--ATATTTTCAAAAACGTTTTCAAAACTATATATTAT
436636 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTC-AAAACTATATATTAT
** * *
436673 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTCAAAACTATATATTAT
* *
436709 ACATATTTTCAAAAAATGTTTT--AAACTATATATTAT
1 ATATATTTTC-AAAAACGTTTTCAAAACTATATATTAT
436745 ATATGTATTTTCAA
1 ATA--TATTTTCAA
436759 TCACAATTTG
Statistics
Matches: 133, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
36 52 0.39
37 33 0.25
38 32 0.24
39 6 0.05
40 3 0.02
41 7 0.05
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTCAAAACTATATATTAT
Found at i:443029 original size:30 final size:31
Alignment explanation
Indices: 442951--443075 Score: 189
Period size: 31 Copynumber: 4.1 Consensus size: 31
442941 TAAAAAATAA
*
442951 GTGTTTAACATTTTTGATGTTACACTTTTAG
1 GTGTCTAACATTTTTGATGTTACACTTTTAG
*
442982 GTGTCTAACATTTTTGATATTACACTTTTAG
1 GTGTCTAACATTTTTGATGTTACACTTTTAG
* *
443013 GGGTATAACA-TTTTGATGTTACACTTTTAG
1 GTGTCTAACATTTTTGATGTTACACTTTTAG
* *
443043 GTGTCTAACATTTTTGACGTTATACTTTTAG
1 GTGTCTAACATTTTTGATGTTACACTTTTAG
443074 GT
1 GT
443076 ACCTACCCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
30 27 0.32
31 57 0.68
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (31 bp):
GTGTCTAACATTTTTGATGTTACACTTTTAG
Found at i:443031 original size:61 final size:62
Alignment explanation
Indices: 442956--443074 Score: 204
Period size: 61 Copynumber: 1.9 Consensus size: 62
442946 AATAAGTGTT
*
442956 TAACATTTTTGATGTTACACTTTTAGGTGTCTAACATTTTTGATATTACACTTTTAGGGGTA
1 TAACATTTTTGATGTTACACTTTTAGGTGTCTAACATTTTTGACATTACACTTTTAGGGGTA
* *
443018 TAACA-TTTTGATGTTACACTTTTAGGTGTCTAACATTTTTGACGTTATACTTTTAGG
1 TAACATTTTTGATGTTACACTTTTAGGTGTCTAACATTTTTGACATTACACTTTTAGG
443075 TACCTACCCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 49 0.91
62 5 0.09
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (62 bp):
TAACATTTTTGATGTTACACTTTTAGGTGTCTAACATTTTTGACATTACACTTTTAGGGGTA
Found at i:443695 original size:20 final size:20
Alignment explanation
Indices: 443672--443709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
443662 TTAAAAAATA
443672 TTTTT-AAATAATATTTTAT
1 TTTTTAAAATAATATTTTAT
*
443691 TTTTTAAAATAATTTTTTA
1 TTTTTAAAATAATATTTTA
443710 AAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAAAATAATATTTTAT
Found at i:443837 original size:29 final size:29
Alignment explanation
Indices: 443802--443863 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
443792 GTCGAAAACG
** * *
443802 TTAGACACGTATTCTTATCGAAAAATTCT
1 TTAGACACACATTCTTAGCGAAAAACTCT
443831 TTAGACACACATTCTTAGCGAAAAACTCT
1 TTAGACACACATTCTTAGCGAAAAACTCT
443860 TTAG
1 TTAG
443864 GCATATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (29 bp):
TTAGACACACATTCTTAGCGAAAAACTCT
Found at i:448254 original size:85 final size:84
Alignment explanation
Indices: 448101--448266 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 84
448091 TATGATGCAC
* * *
448101 ATTTATGACACGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGACAA
1 ATTTATGACACGCATTTATGACGCTCATTGCGCGTCATTGAAGCACACATCATAAA-GAAGACAA
*
448166 CACACATTTGTGTGTCATAA
65 CACACATTCGTGTGTCATAA
* * *
448186 ATTTATGACACGCATTTATGAC-TTACATTGCGTGTCATTGAAGCACACATCATTAGAA-AAGAT
1 ATTTATGACACGCATTTATGACGCT-CATTGCGCGTCATTGAAGCACACATCA-TA-AAGAAGAC
* *
448249 GACACATATTCGTGTGTC
63 AACACACATTCGTGTGTC
448267 GTGATTGTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 64 0.93
86 2 0.03
87 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (84 bp):
ATTTATGACACGCATTTATGACGCTCATTGCGCGTCATTGAAGCACACATCATAAAGAAGACAAC
ACACATTCGTGTGTCATAA
Found at i:449769 original size:2 final size:2
Alignment explanation
Indices: 449762--449804 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
449752 CGCACATTTA
449762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
449804 A
1 A
449805 ACTAATAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:452555 original size:15 final size:15
Alignment explanation
Indices: 452530--452572 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
452520 TCTTCTTGTT
452530 TTTCTTC-TCTTCCC
1 TTTCTTCATCTTCCC
452544 TTTCTTCATCTTCCC
1 TTTCTTCATCTTCCC
452559 TTTCTTCATCTTCC
1 TTTCTTCATCTTCC
452573 TTCACCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTCTTCATCTTCCC
Found at i:454028 original size:19 final size:20
Alignment explanation
Indices: 454004--454057 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
453994 TCGAAATGGA
454004 GTGCATAGATGCACTACA-G
1 GTGCATAGATGCACTACAGG
* *
454023 GTGCATGGATGTACTACAGG
1 GTGCATAGATGCACTACAGG
*
454043 GCGCATAGATGCACT
1 GTGCATAGATGCACT
454058 TTGACACCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (20 bp):
GTGCATAGATGCACTACAGG
Found at i:464472 original size:17 final size:17
Alignment explanation
Indices: 464450--464495 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
464440 TGAAAGAGTA
464450 TTTTGGGATATATCGGG
1 TTTTGGGATATATCGGG
*
464467 TTTTGGTATATATATCGGG
1 TTTTGG--GATATATCGGG
*
464486 TGTTGGGATA
1 TTTTGGGATA
464496 CATGTGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.43
Consensus pattern (17 bp):
TTTTGGGATATATCGGG
Found at i:466398 original size:42 final size:42
Alignment explanation
Indices: 466352--466446 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
466342 TCTCAATACA
* *
466352 TTACTTTAAATTTATTTTATTTGTTATTATATTCTCATAATT
1 TTACTTTAAATTTATTTAATTTGTTATTATATTCGCATAATT
* * *
466394 TTACTTTAAAATTATTTAATTTGTTATTGTATTCGCATGATT
1 TTACTTTAAATTTATTTAATTTGTTATTATATTCGCATAATT
*
466436 TTACGTTAAAT
1 TTACTTTAAAT
466447 GAATCTTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (42 bp):
TTACTTTAAATTTATTTAATTTGTTATTATATTCGCATAATT
Found at i:470748 original size:27 final size:27
Alignment explanation
Indices: 470710--470763 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
470700 TTAATATATC
470710 AACAGTCTCAATCAAACACACATACGT
1 AACAGTCTCAATCAAACACACATACGT
470737 AACAGTCTCAATCAAACACACATACGT
1 AACAGTCTCAATCAAACACACATACGT
470764 CTCTACTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.30, G:0.07, T:0.19
Consensus pattern (27 bp):
AACAGTCTCAATCAAACACACATACGT
Found at i:476393 original size:12 final size:12
Alignment explanation
Indices: 476376--476403 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
476366 CCTTGTATCT
476376 AGCAAGGAATCC
1 AGCAAGGAATCC
476388 AGCAAGGAATCC
1 AGCAAGGAATCC
476400 AGCA
1 AGCA
476404 TTTCATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.25, G:0.25, T:0.07
Consensus pattern (12 bp):
AGCAAGGAATCC
Found at i:489731 original size:31 final size:31
Alignment explanation
Indices: 489658--489732 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
489648 ATTAACACTG
* *
489658 AGTGACCAA-TTGTTACAAATTGATAATGTT
1 AGTGATCAATTTGTTACAAATTGACAATGTT
* **
489688 AGCGATTTATTTGTTACAAATTGACAATGTT
1 AGTGATCAATTTGTTACAAATTGACAATGTT
489719 AGTGATCAATTTGT
1 AGTGATCAATTTGT
489733 AACTTTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (31 bp):
AGTGATCAATTTGTTACAAATTGACAATGTT
Found at i:495625 original size:45 final size:45
Alignment explanation
Indices: 495542--495633 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
495532 AAATCATTTT
* * * * **
495542 AGTCTGACCAAACAACACTGTCGAACTAGCCCTTAAAATCACTCC
1 AGTCGGACCAAACAACACAGTCAAACCAGCCCACAAAATCACTCC
* *
495587 AGTCGGACCAAACAACACAGTCAAACCAGTCCACAAAATCGCTCC
1 AGTCGGACCAAACAACACAGTCAAACCAGCCCACAAAATCACTCC
495632 AG
1 AG
495634 CCAGACCGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.34, G:0.13, T:0.15
Consensus pattern (45 bp):
AGTCGGACCAAACAACACAGTCAAACCAGCCCACAAAATCACTCC
Found at i:503213 original size:55 final size:55
Alignment explanation
Indices: 503153--503258 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
503143 AATATTTGAC
* * ** *
503153 GAATGAATAAATTTGAACCTGACTAAAGAACGATTCATGAAGAAAGACATCCGAT
1 GAATGAAGAAATTTGAAACTGACTAAAGAACGATTCACAAAGAAAAACATCCGAT
* * *
503208 GAATGAAGAAATTTGAAACTGATTGAAGACCGATTCACAAAGAAAAACATC
1 GAATGAAGAAATTTGAAACTGACTAAAGAACGATTCACAAAGAAAAACATC
503259 ATGAAGATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (55 bp):
GAATGAAGAAATTTGAAACTGACTAAAGAACGATTCACAAAGAAAAACATCCGAT
Found at i:504036 original size:72 final size:72
Alignment explanation
Indices: 503919--504069 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
503909 CCCTATTACA
* *
503919 CAAGAAAATATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAGC
503984 AAATGAT
66 AAATGAT
*
503991 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAGC
*
504056 AACTGAT
66 AAATGAT
504063 CAAGAAC
1 CAAGAAC
504070 CTGTTAGGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:508719 original size:32 final size:33
Alignment explanation
Indices: 508683--508790 Score: 85
Period size: 36 Copynumber: 3.1 Consensus size: 33
508673 GAAGATTGGG
*
508683 GCAAAGCCA-AGTCTTCACCAAAGAGTAGTGAA
1 GCAAAGCCATAGCCTTCACCAAAGAGTAGTGAA
* *
508715 GCAAATCCATTTTGAGCCTTCACTAAAGAGTAGTGAA
1 GCAAAGCCA---T-AGCCTTCACCAAAGAGTAGTGAA
* *
508752 GCAAA-CCATCTTAAGCCTTCATCGAAGAGTAGTGAA
1 GCAAAGCCA---T-AGCCTTCACCAAAGAGTAGTGAA
508788 GCA
1 GCA
508791 TATCTTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 8 0.13
36 29 0.46
37 26 0.41
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (33 bp):
GCAAAGCCATAGCCTTCACCAAAGAGTAGTGAA
Found at i:508745 original size:37 final size:36
Alignment explanation
Indices: 508695--508790 Score: 131
Period size: 36 Copynumber: 2.6 Consensus size: 36
508685 AAAGCCAAGT
* * *
508695 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACTAAAGAGTAGTGAAGCAAA-CCATCTTAAGC
508732 CTTCACTAAAGAGTAGTGAAGCAAACCATCTTAAGC
1 CTTCACTAAAGAGTAGTGAAGCAAACCATCTTAAGC
*
508768 CTTCA-TCGAAGAGTAGTGAAGCA
1 CTTCACT-AAAGAGTAGTGAAGCA
508791 TATCTTTTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
35 1 0.02
36 29 0.54
37 24 0.44
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (36 bp):
CTTCACTAAAGAGTAGTGAAGCAAACCATCTTAAGC
Found at i:508780 original size:36 final size:37
Alignment explanation
Indices: 508703--508833 Score: 126
Period size: 36 Copynumber: 3.6 Consensus size: 37
508693 GTCTTCACCA
* * **
508703 AAGAGTAGTGAAGCAAATCCATTTTGAGCCTTCA-CTA
1 AAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCATCGG
508740 AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATC-G
1 AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGG
* * * * *
508776 AAGAGTAGTGAAGCATATCTTTTTAAACCTTC-TCGG
1 AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGG
*
508812 AAGAGT-GTTGGAGCAAACCATC
1 AAGAGTAG-TGAAGCAAACCATC
508834 AGACTATCAG
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
35 3 0.04
36 57 0.73
37 18 0.23
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (37 bp):
AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGG
Found at i:509386 original size:54 final size:54
Alignment explanation
Indices: 509193--509799 Score: 891
Period size: 54 Copynumber: 11.5 Consensus size: 54
509183 GTAGTAAAGC
* * *
509193 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAGTGAATCCGT-
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
509246 --AAGAA-ATATTCGAGTTCCATACTCCCTAGAGAAAGA-GG-GCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
509295 AGAA-AAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
509348 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
509402 AGAAGAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
509456 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
509510 AGAAGAATATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
509564 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAATCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
509618 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGA-GG-GCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * * **
509670 AGAAGAAGATGCTC--GTTCCATACTCCTTAGAGAAAGAGGGAGCAAATGCGT-
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
509721 --AAGAAGATGTTCGAGTTTCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
509773 AGAAGAAGATGTTTGAGTTCCATACTC
1 AGAAGAAGATGTTCGAGTTCCATACTC
509800 TCTGAAGGAA
Statistics
Matches: 499, Mismatches: 41, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
48 8 0.02
49 13 0.03
50 53 0.11
51 71 0.14
52 30 0.06
53 16 0.03
54 308 0.62
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:509966 original size:55 final size:55
Alignment explanation
Indices: 509777--510196 Score: 458
Period size: 55 Copynumber: 7.8 Consensus size: 55
509767 CCCGTAAGAA
* * * * * *
509777 GAAGA-TGTTTGAGTTCCATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
* * *
509831 GAAGA----TCGAGTCCTATACTCTCTGAAGGAATAG-GAAGCGGACACGTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAG-AGCAGACCCGTTTATT
* *
509882 GAAGA----TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTT
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
* *
509933 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAG-TGAACCCGTTTGTT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAG-ACCCGTTTATT
* *
509988 GAAGATTGTTCAAGTTCTATACTCTCTGAAGGAATAGAGAGC-GAACCTGTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAG-ACCCGTTTATT
* * *
510043 GAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATACAGAGCGGACCCGTTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCG-TTTATT
* * * *
510099 GAAGATTGTTCAAG-TCTTATACTCTCTGAATGAATAGGGAGCAGACACGTTTA-T
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
*
510153 GAAGATTGTTCGAGTTTTATACT-TCCTGAAGGAATAGAGAGCAG
1 GAAGATTGTTCGAGTTCTATACTCT-CTGAAGGAATAGAGAGCAG
510197 GCTCGTCATT
Statistics
Matches: 323, Mismatches: 28, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
50 2 0.01
51 88 0.27
52 1 0.00
53 1 0.00
54 43 0.13
55 140 0.43
56 48 0.15
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
Found at i:510055 original size:110 final size:110
Alignment explanation
Indices: 509794--510224 Score: 516
Period size: 110 Copynumber: 4.0 Consensus size: 110
509784 TTTGAGTTCC
* * *
509794 ATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGA----TCGAGTCCTATACTCTCTG
1 ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATACTCTCTG
* *
509855 AAGGAATAG-GAAGCGGACACGTTTATTGAAGA----TCGAGTCTT
66 AAGGAATAGAG-AGCGGACCCGTTTATTGAAGATTGTTCAAGTCTT
* *
509896 ATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTG
1 ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATACTCTCTG
* * *
509961 AAGGAATAGAGAGTGAACCCGTTTGTTGAAGATTGTTCAAGT-TCT
66 AAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCAAGTCT-T
* *
510006 ATACTCTCTGAAGGAATAGAGAGC-GA-ACCTGTTTATTGAAGATTTTTCGAGTTCTATACTCTC
1 ATACTCTCTGAAGGAATAGGGAGCAGACA-C-GTTTATTGAAGATTGTTCGAGTTCTATACTCTC
*
510069 TGAAGGAATACAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCTT
64 TGAAGGAATAGAGAGCGGACCCG-TTTATTGAAGATTGTTCAAGTCTT
* *
510117 ATACTCTCTGAATGAATAGGGAGCAGACACGTTTA-TGAAGATTGTTCGAGTTTTATACT-TCCT
1 ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATACTCT-CT
* * *
510180 GAAGGAATAGAGAGCAGG-CTCG-TCATTTGAAGATTTTTCAAGTCT
65 GAAGGAATAGAGAGC-GGACCCGTTTA-TTGAAGATTGTTCAAGTCT
510225 CATTTATCCC
Statistics
Matches: 286, Mismatches: 24, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
102 40 0.14
106 44 0.15
107 1 0.00
108 2 0.01
109 23 0.08
110 121 0.42
111 50 0.17
112 4 0.01
113 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (110 bp):
ATACTCTCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATACTCTCTG
AAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGTTCAAGTCTT
Found at i:521879 original size:51 final size:51
Alignment explanation
Indices: 521785--521884 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
521775 TTAAATATTG
* ** ***
521785 TTTTGAAGATACAAATAATACTATTGATTTAAAATGTTTTTAAAAAAAAAT
1 TTTTGAAGATACAAATAATACTAATGATAAAAAATGCAATTAAAAAAAAAT
*
521836 TTTTGAAGATACAAATAATACTAATGATAAAAAAAT-CAATTAAATAAAA
1 TTTTGAAGATACAAATAATACTAATGAT-AAAAAATGCAATTAAAAAAAA
521885 TTATTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 36 0.88
52 5 0.12
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (51 bp):
TTTTGAAGATACAAATAATACTAATGATAAAAAATGCAATTAAAAAAAAAT
Found at i:522825 original size:2 final size:2
Alignment explanation
Indices: 522766--522805 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
522756 AGTGTTACCG
*
522766 TA TA CTA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
522806 ATTTTTTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:525433 original size:8 final size:8
Alignment explanation
Indices: 525422--525448 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
525412 TGATTACTTT
525422 AAAAATTA
1 AAAAATTA
525430 AAAAATTA
1 AAAAATTA
525438 AAAAATTA
1 AAAAATTA
525446 AAA
1 AAA
525449 CAGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTA
Found at i:529510 original size:37 final size:37
Alignment explanation
Indices: 529457--529561 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
529447 CCTTTTCGTC
529457 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
529494 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
529531 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
529562 TCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:530002 original size:2 final size:2
Alignment explanation
Indices: 529995--530030 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
529985 CTTAATTAGT
529995 TA TA TA TA TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
530031 CATACTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:530017 original size:14 final size:12
Alignment explanation
Indices: 529995--530030 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
529985 CTTAATTAGT
529995 TATATATATATA
1 TATATATATATA
530007 -ATATA-ATATA
1 TATATATATATA
530017 TATATATATATA
1 TATATATATATA
530029 TA
1 TA
530031 CATACTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.23
11 10 0.45
12 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATATATATA
Found at i:530151 original size:24 final size:23
Alignment explanation
Indices: 530124--530231 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 23
530114 CTTTGCATTT
530124 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
530148 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
530171 TT-TTATT-CTAAT-TATTTATA
1 TTATTATTACTATTATATTTATA
530191 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
530213 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
530232 TTTCCTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.03
20 14 0.20
21 8 0.12
22 19 0.28
23 7 0.10
24 19 0.28
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:530272 original size:12 final size:11
Alignment explanation
Indices: 530248--530288 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
530238 TTCTTTTTTT
530248 TATTATTCTTG
1 TATTATTCTTG
530259 TATTATTACTTG
1 TATTATT-CTTG
* *
530271 TATTATTTTTA
1 TATTATTCTTG
530282 TATTATT
1 TATTATT
530289 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Done.