Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold98
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: 1546936
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:765710 original size:20 final size:19
Alignment explanation
Indices: 765656--765711 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
765646 AAAACCCTTA
*
765656 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
765676 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
765696 AATGTATCGATACATG
1 AAAGTATCGATACATG
765712 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:765799 original size:13 final size:13
Alignment explanation
Indices: 765781--765806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
765771 TACACAAAAT
765781 ATGTATCGATACA
1 ATGTATCGATACA
765794 ATGTATCGATACA
1 ATGTATCGATACA
765807 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:771968 original size:13 final size:13
Alignment explanation
Indices: 771950--771987 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
771940 CATTTTTCTT
*
771950 TGTATCGATATAA
1 TGTATCGATACAA
*
771963 TGTATCGATACAC
1 TGTATCGATACAA
771976 TGTATCGATACA
1 TGTATCGATACA
771988 GGAGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:774358 original size:20 final size:19
Alignment explanation
Indices: 774304--774359 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
774294 AAAACCCCTA
*
774304 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
774324 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
774344 AATGTATCGATACATG
1 AAAGTATCGATACATG
774360 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:774435 original size:19 final size:18
Alignment explanation
Indices: 774411--774474 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
774401 TAGCCAAACT
774411 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
774430 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
774443 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
774462 TTGTATCGATACA
1 -TGTATCGATACA
774475 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:774447 original size:13 final size:13
Alignment explanation
Indices: 774429--774454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
774419 TACACAAAAT
774429 ATGTATCGATACA
1 ATGTATCGATACA
774442 ATGTATCGATACA
1 ATGTATCGATACA
774455 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:774452 original size:32 final size:33
Alignment explanation
Indices: 774411--774474 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
774401 TAGCCAAACT
*
774411 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
774443 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
774475 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:776587 original size:20 final size:20
Alignment explanation
Indices: 776562--776635 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
776552 GTTTGGGACA
*
776562 ATGTATCGATACAATTCTTT
1 ATGTATCGATACAATTCGTT
776582 ATGTATCGATACAATTCGTT
1 ATGTATCGATACAATTCGTT
**
776602 ATGTATCGATACAATGT-GCC
1 ATGTATCGATACAAT-TCGTT
776622 ATGTATCGATACAA
1 ATGTATCGATACAA
776636 ACAGTGGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCGTT
Found at i:784031 original size:13 final size:13
Alignment explanation
Indices: 784013--784039 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
784003 ACAATTGAGT
784013 ATGTATCGATACA
1 ATGTATCGATACA
784026 ATGTATCGATACA
1 ATGTATCGATACA
784039 A
1 A
784040 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:784695 original size:20 final size:21
Alignment explanation
Indices: 784672--784710 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
784662 TAAAGCAATA
784672 TGTATCGATA-TTTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
784692 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
784711 GCTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:792463 original size:20 final size:20
Alignment explanation
Indices: 792438--792562 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
792428 TTTTAACTAG
792438 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
792458 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
792478 ATGTATC-AGTACATCTGGGAAAAAAGACAGA
1 ATGTATCGA-TACAT-T--G-----A-A-A-A
* * *
792509 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
792529 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
792549 ATGTATCAATACAT
1 ATGTATCGATACAT
792563 CTAGGTAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.01
20 61 0.73
21 2 0.02
23 2 0.02
28 1 0.01
29 1 0.01
30 2 0.02
31 13 0.15
32 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:792520 original size:71 final size:71
Alignment explanation
Indices: 792438--792573 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 71
792428 TTTTAACTAG
* * *
792438 ATGTATCGATACATTGAAAAATGTATCAATACATTGAAAAATGTATCAGTACATCTGGGAAAAAA
1 ATGTATCGATACATTCAAAAATGTATCAATACATTGAAAAATGTATCAATACATCTAGGAAAAAA
792503 GACAGA
66 GACAGA
* * * *
792509 ATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAAAAA
1 ATGTATCGATACATTCAAAAATGTATCAATACATTGAAAAATGTATCAATACATCTAGGAAAAAA
792574 TGTGACTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (71 bp):
ATGTATCGATACATTCAAAAATGTATCAATACATTGAAAAATGTATCAATACATCTAGGAAAAAA
GACAGA
Found at i:794002 original size:19 final size:20
Alignment explanation
Indices: 793959--794011 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
793949 TACCAGTTCT
**
793959 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCAAC
*
793979 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTCAAC
*
793998 ATGTACCGATACAA
1 ATGTATCGATACAA
794012 AGTAATATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATTCAAC
Found at i:794029 original size:20 final size:19
Alignment explanation
Indices: 793982--794029 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
793972 ATTCTTCATG
* *
793982 TATCGATACAATGAACATG
1 TATCGATACAAAGAACATC
* *
794001 TACCGATACAAAGTAATATC
1 TATCGATACAAAG-AACATC
794021 TATCGATAC
1 TATCGATAC
794030 TTCTGGGCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (19 bp):
TATCGATACAAAGAACATC
Found at i:796541 original size:12 final size:12
Alignment explanation
Indices: 796524--796548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
796514 TATTTCTTGG
796524 TATAATATCTCA
1 TATAATATCTCA
796536 TATAATATCTCA
1 TATAATATCTCA
796548 T
1 T
796549 GCAATAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATATCTCA
Found at i:802066 original size:20 final size:19
Alignment explanation
Indices: 802041--802116 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
802031 TCTGGAAAGG
802041 AAATGTATCGATACATAAGT
1 AAATGTATCGATACAT-AGT
* *
802061 AAATGTATTGATACATGGT
1 AAATGTATCGATACATAGT
*
802080 CACAATTTATCGATACATTA-T
1 -A-AATGTATCGATACA-TAGT
**
802101 CCATGTATCGATACAT
1 AAATGTATCGATACAT
802117 TTTGGGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.02
19 14 0.31
20 16 0.36
21 13 0.29
22 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (19 bp):
AAATGTATCGATACATAGT
Found at i:804471 original size:13 final size:13
Alignment explanation
Indices: 804453--804477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
804443 ATTTTGCTTA
804453 GTATCGATACATT
1 GTATCGATACATT
804466 GTATCGATACAT
1 GTATCGATACAT
804478 AAAACTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:806189 original size:13 final size:13
Alignment explanation
Indices: 806171--806195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
806161 CTATTTATGA
806171 TGTATCGATACAC
1 TGTATCGATACAC
806184 TGTATCGATACA
1 TGTATCGATACA
806196 TGAATAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:806285 original size:21 final size:22
Alignment explanation
Indices: 806254--806304 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
806244 GTGAATAGTG
806254 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
806276 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
806297 TGAACAGT
1 TGAACAGT
806305 AATGAATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:806418 original size:53 final size:53
Alignment explanation
Indices: 806350--806486 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
806340 CTACTTCCAA
*
806350 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * * *
806403 TGTATTGATATATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
806456 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
806487 TATGCAATCT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 62 0.83
54 13 0.17
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:806522 original size:21 final size:20
Alignment explanation
Indices: 806474--806528 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
806464 TACATATTTG
**
806474 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
806494 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
806515 TGTGTATCGATACT
1 TGTGTATCGATACT
806529 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:810245 original size:35 final size:34
Alignment explanation
Indices: 810149--810248 Score: 130
Period size: 34 Copynumber: 2.9 Consensus size: 34
810139 GACCTTACAA
* *
810149 CCCTATCTTTTTGAAGGCTAAAATAGAACCTTTT
1 CCCTATCTTTTTAAAGGCTAAGATAGAACCTTTT
* *
810183 CCCTATCTATTCACAA-GCTAAGATAGAACCTTTT
1 CCCTATCTTTTTA-AAGGCTAAGATAGAACCTTTT
*
810217 CCCTTTCTTTTTTAAAGGCTAAGATAGAACCT
1 CCCTATC-TTTTTAAAGGCTAAGATAGAACCT
810249 CTCAATTACC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
34 35 0.62
35 21 0.38
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (34 bp):
CCCTATCTTTTTAAAGGCTAAGATAGAACCTTTT
Found at i:810848 original size:33 final size:33
Alignment explanation
Indices: 810806--810868 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
810796 TTTTATGGTG
*
810806 TATCGATACA-ATGCAATTTGTATCGATACAATA
1 TATCGATACATA-GCAACTTGTATCGATACAATA
810839 TATCGATACATAGCAACTTGTATCGATACA
1 TATCGATACATAGCAACTTGTATCGATACA
810869 TCTGCATGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
TATCGATACATAGCAACTTGTATCGATACAATA
Found at i:811611 original size:13 final size:13
Alignment explanation
Indices: 811585--811617 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
811575 GAACAAAATT
811585 TTCAT-GAAAGCA
1 TTCATAGAAAGCA
*
811597 TTCATAGAAATCA
1 TTCATAGAAAGCA
811610 TTCATAGA
1 TTCATAGA
811618 TAAAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (13 bp):
TTCATAGAAAGCA
Found at i:814377 original size:21 final size:20
Alignment explanation
Indices: 814353--814396 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
814343 ATGTAAATTT
814353 TTATTTT-TCTTAGTTAACTCA
1 TTATTTTATCTT-G-TAACTCA
814374 TTATTTTCATCTTGTAACTCA
1 TTATTTT-ATCTTGTAACTCA
814395 TT
1 TT
814397 TATCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 1 0.05
23 4 0.19
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATTTTATCTTGTAACTCA
Found at i:816090 original size:35 final size:34
Alignment explanation
Indices: 816001--816102 Score: 143
Period size: 34 Copynumber: 3.0 Consensus size: 34
815991 AGCCTTACAA
* * *
816001 CCCTATCTTTTCGAAGGTTAAGATAGAACCTTTT
1 CCCTATCTTTTCAAAGGCTAAGATAGAACCTCTT
*
816035 CTCTATCTTTTCACAA-GCTAAGATAGAACCTCTT
1 CCCTATCTTTTCA-AAGGCTAAGATAGAACCTCTT
816069 CCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
1 CCCTATC-TTTTCAAAGGCTAAGATAGAACCTCT
816103 CAATCACTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
34 35 0.58
35 25 0.42
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (34 bp):
CCCTATCTTTTCAAAGGCTAAGATAGAACCTCTT
Found at i:817416 original size:26 final size:26
Alignment explanation
Indices: 817380--817434 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
817370 AAACTCCATG
817380 GATGTTCCCTGAAGCAATCATGCACA
1 GATGTTCCCTGAAGCAATCATGCACA
817406 GATGTTCCCTGAAGCAATCATGCACA
1 GATGTTCCCTGAAGCAATCATGCACA
817432 GAT
1 GAT
817435 ACGAGGACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (26 bp):
GATGTTCCCTGAAGCAATCATGCACA
Found at i:827661 original size:28 final size:29
Alignment explanation
Indices: 827605--827681 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
827595 GGAATAAAGC
**
827605 CGGGGTTGGAGTAT-CCCTTTGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGGAAGTAA
827633 CGGGGTTGGAGTATCCCCGAT-G-AGATAA
1 CGGGGTTGGAGTATCCCCGATGGAAG-TAA
* *
827661 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
827682 TGTGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 37 0.86
29 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCGATGGAAGTAA
Found at i:827766 original size:51 final size:52
Alignment explanation
Indices: 827689--827787 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 52
827679 GATTGTGAAA
* * * * *
827689 AAAATTGGTGTTTTTGGAAATAAAATCGGAGCTGGAGTATCCCCGATTATAG
1 AAAATTAGTGTTTTTGAAAATAAAATCGGAGATGGAATAACCCCGATTATAG
827741 AAAATTAGTG-TTTTGAAAATAAAATCGGAGATGGAATAACCCCGATT
1 AAAATTAGTGTTTTTGAAAATAAAATCGGAGATGGAATAACCCCGATT
827788 GTGGAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 33 0.79
52 9 0.21
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAATTAGTGTTTTTGAAAATAAAATCGGAGATGGAATAACCCCGATTATAG
Found at i:830164 original size:13 final size:13
Alignment explanation
Indices: 830146--830171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
830136 ACAAAGATCC
830146 ATGTATCGATACA
1 ATGTATCGATACA
830159 ATGTATCGATACA
1 ATGTATCGATACA
830172 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:830183 original size:33 final size:33
Alignment explanation
Indices: 830125--830191 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
830115 AAATTTTCCA
*** *
830125 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
*
830158 AATGTATCGATACACAGAAAAATGTATCAATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
830191 A
1 A
830192 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCAATAC
Found at i:831084 original size:61 final size:60
Alignment explanation
Indices: 830990--831884 Score: 1081
Period size: 61 Copynumber: 15.3 Consensus size: 60
830980 ATAAAGTGTA
* * *
830990 TCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGCCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCG
* * *
831051 TCCTGCTCTTTGAGGACTGGGAAGTACCACCAACTTGTGTGGACTTT---A-AG-AGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
*
831106 TCCTGCTCTTTGAAGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCG
* * * * *
831167 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCG
* * * * *
831228 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCG
* * *
831289 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----GA-AAGGCA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
* *
831344 TCCTGCTCTTTGAGGATTAGGAAGTGCCACCAACTTGTGTGGGCTTT---A-AG-AGGTG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
* *
831399 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT---A-A-AAGGCA
1 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
* * *
831454 TCCTGCTCTTTGAGGATTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGAGAAGGCG
*
831515 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT---A-AG-AGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
831570 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCG
* *
831631 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
* *
831690 TCCCGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCG
*
831751 TCCTGCTCTTTGAGGACAAGGAAGTGCCACCAACTTGTGTGGGCTTT---A-A-AAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
* * *
831806 TCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCG
*
831866 TCCTGCTTTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
831885 AAGGGCTAAA
Statistics
Matches: 745, Mismatches: 49, Indels: 79
0.85 0.06 0.09
Matches are distributed among these distances:
53 3 0.00
54 26 0.03
55 263 0.35
56 8 0.01
57 1 0.00
58 4 0.01
59 29 0.04
60 80 0.11
61 324 0.43
62 7 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCG
Found at i:831197 original size:116 final size:116
Alignment explanation
Indices: 830990--831883 Score: 1199
Period size: 116 Copynumber: 7.7 Consensus size: 116
830980 ATAAAGTGTA
* * *
830990 TCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGCCTTTAAAAGGAGAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
** * *
831055 GCTCTTTGAGGACTGGGAAGTACCACCAACTTGTGTGGACTTTAAGAGGCG
66 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
*
831106 TCCTGCTCTTTGAAGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* * *
831171 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCA
66 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---AAG---AGGCG
* * * * *
831228 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCC
*
831292 TGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
65 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
* *
831344 TCCTGCTCTTTGAGGATTAGGAAGTGCCACCAACTTGTGTGGGCTTT---A--AG-AGGTGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* *
831403 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCA
66 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
* * *
831454 TCCTGCTCTTTGAGGATTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
**
831519 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
66 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
831570 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
*
831635 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCG
66 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AA-G---AGGCG
* *
831690 TCCCGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
*
831754 TGCTCTTTGAGGAC--AAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
65 TGCTCTTTGAGGACTGAA--AAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
* * *
831806 TCCTGCTCTTTGAGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
*
831869 TGCTTTTTGAGGACT
65 TGCTCTTTGAGGACT
831884 AAAGGGCTAA
Statistics
Matches: 702, Mismatches: 49, Indels: 54
0.87 0.06 0.07
Matches are distributed among these distances:
109 2 0.00
110 100 0.14
111 1 0.00
112 1 0.00
113 1 0.00
114 2 0.00
115 81 0.12
116 298 0.42
117 1 0.00
119 6 0.01
120 82 0.12
121 25 0.04
122 93 0.13
123 9 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
Found at i:831275 original size:36 final size:36
Alignment explanation
Indices: 831235--831337 Score: 93
Period size: 36 Copynumber: 3.2 Consensus size: 36
831225 GCATCCTGCT
831235 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
* * * *
831271 CTTTGA--A-AAGAAAAAG-CATC--C-TG-CT---
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
831296 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
1 CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
831332 CTTTGA
1 CTTTGA
831338 AAGGCATCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
25 6 0.12
27 1 0.02
28 8 0.17
29 5 0.10
30 1 0.02
31 1 0.02
32 5 0.10
33 8 0.17
34 1 0.02
36 12 0.25
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (36 bp):
CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
Found at i:838130 original size:28 final size:28
Alignment explanation
Indices: 838069--838141 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
838059 ATAAAGCCAG
*
838069 GGTTGGAGTATCCCTCG--GAAGTAACGG
1 GGTTGGAGTAT-CCTCGATGAAGTAACGA
*
838096 GGCTGGAGTATCCTCGATG-AGATAACGA
1 GGTTGGAGTATCCTCGATGAAG-TAACGA
838124 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCTCGAT
838142 TGTGAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 5 0.12
27 12 0.30
28 23 0.57
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCTCGATGAAGTAACGA
Found at i:838188 original size:54 final size:52
Alignment explanation
Indices: 838127--838250 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 52
838117 ATAACGAGGT
* * * *
838127 TGGAGTATCCTCGATTGTGAAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCCCCGATTGTG-AAAAAATTAGTG-TTTTGAAAATAAAATCGGAGA
* *
838181 TGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGA
1 TGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGA
*
838232 TGGAATATCCCCGATTGTG
1 TGGAGTATCCCCGATTGTG
838251 GAGAATTGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 35 0.57
52 10 0.16
54 16 0.26
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (52 bp):
TGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGA
Found at i:840623 original size:13 final size:13
Alignment explanation
Indices: 840605--840630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
840595 ACAAAGATCC
840605 ATGTATCGATACA
1 ATGTATCGATACA
840618 ATGTATCGATACA
1 ATGTATCGATACA
840631 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:840694 original size:19 final size:18
Alignment explanation
Indices: 840670--840801 Score: 123
Period size: 19 Copynumber: 7.9 Consensus size: 18
840660 CAGTAGCTAA
840670 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
840689 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
840704 -T-TGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
840721 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
840736 -T-TGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
840753 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
840768 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
840785 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
840802 TTGTTGAATT
Statistics
Matches: 95, Mismatches: 0, Indels: 37
0.72 0.00 0.28
Matches are distributed among these distances:
13 33 0.35
14 3 0.03
16 6 0.06
18 6 0.06
19 47 0.49
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:840710 original size:13 final size:13
Alignment explanation
Indices: 840692--840780 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
840682 ACAATACTTA
840692 TGTATCGATACAT
1 TGTATCGATACAT
840705 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
840723 ATGTATCGATACAT
1 -TGTATCGATACAT
840737 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
840755 ATGTATCGATACAT
1 -TGTATCGATACAT
840769 TGTATCGATACA
1 TGTATCGATACA
840781 AAACTTATGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
14 2 0.03
16 4 0.06
18 2 0.03
19 22 0.34
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:840711 original size:32 final size:32
Alignment explanation
Indices: 840673--840799 Score: 245
Period size: 32 Copynumber: 4.0 Consensus size: 32
840663 TAGCTAATTA
840673 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
840705 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
840737 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
*
840769 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAATACTTATGTATCGATACA
840800 AATTGTTGAA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:840863 original size:21 final size:22
Alignment explanation
Indices: 840837--840894 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
840827 GTTGGGACCC
* *
840837 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
840858 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
840879 TGTATCGATACATTTG
1 TGTATCGATACATTTG
840895 GATAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:842112 original size:32 final size:32
Alignment explanation
Indices: 842067--842133 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
842057 TTTTTTGAAA
*
842067 CCCGTACAAGTTGGTGGCAACCTCTTCTTAAG
1 CCCGTACAAGTTGGTGACAACCTCTTCTTAAG
* *
842099 CCCGTACAGGTTGGTGACAACCTCTTTTTAAG
1 CCCGTACAAGTTGGTGACAACCTCTTCTTAAG
842131 CCC
1 CCC
842134 ACACAAGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (32 bp):
CCCGTACAAGTTGGTGACAACCTCTTCTTAAG
Found at i:842228 original size:32 final size:32
Alignment explanation
Indices: 842128--842309 Score: 188
Period size: 33 Copynumber: 5.7 Consensus size: 32
842118 ACCTCTTTTT
* *
842128 AAGCCCACACAAGCTAGTGGCAT-CTTTTTGA
1 AAGCCCACACAAGTTAGTGGCATCCTTTTTCA
*
842159 AAGCCCACACAAGTTGGTGGCATCCTTTTTTCA
1 AAGCCCACACAAGTTAGTGGCATCC-TTTTTCA
* ** *
842192 AAGCCCACACAAATTAGTGGCATTTTTTTTCT
1 AAGCCCACACAAGTTAGTGGCATCCTTTTTCA
*
842224 AAGCCCACACAAGTTGGTGGCATCCTTTTTCGA
1 AAGCCCACACAAGTTAGTGGCATCCTTTTTC-A
* * * * *
842257 AAGCCCACACGAGTAAGTGGTAACCCTTTT-A
1 AAGCCCACACAAGTTAGTGGCATCCTTTTTCA
* * *
842288 AAACCCACACAGGTTGGTGGCA
1 AAGCCCACACAAGTTAGTGGCA
842310 ACCCTCTCAA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
31 38 0.31
32 34 0.28
33 51 0.41
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (32 bp):
AAGCCCACACAAGTTAGTGGCATCCTTTTTCA
Found at i:842244 original size:65 final size:64
Alignment explanation
Indices: 842128--842266 Score: 208
Period size: 65 Copynumber: 2.2 Consensus size: 64
842118 ACCTCTTTTT
* *
842128 AAGCCCACACAAGCTAGTGGCATCTTTTTGAAAGCCCACACAAGTTGGTGGCATCCTTTTTTC-A
1 AAGCCCACACAAACTAGTGGCATCTTTTTCAAAGCCCACACAAGTTGGTGGCATCC-TTTTTCGA
* * *
842192 AAGCCCACACAAATTAGTGGCATTTTTTTTCTAAGCCCACACAAGTTGGTGGCATCCTTTTTCGA
1 AAGCCCACACAAACTAGTGGCA-TCTTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTTCGA
842257 AAGCCCACAC
1 AAGCCCACAC
842267 GAGTAAGTGG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 26 0.38
65 42 0.62
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (64 bp):
AAGCCCACACAAACTAGTGGCATCTTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTTCGA
Found at i:842276 original size:65 final size:63
Alignment explanation
Indices: 842128--842309 Score: 206
Period size: 65 Copynumber: 2.8 Consensus size: 63
842118 ACCTCTTTTT
*
842128 AAGCCCACACAAGCTAGTGGCATCTTTTTGAAAGCCCACACAAGTTGGTGGCATCCTTTTTTCA
1 AAGCCCACACAAG-TAGTGGCATCTTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTTTCA
* * *
842192 AAGCCCACACAAATTAGTGGCATTTTTTTTCTAAGCCCACACAAGTTGGTGGCATCC-TTTTTCG
1 AAGCCCACAC-AAGTAGTGGCA-TCTTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTTTC-
842256 A
63 A
* * * * * *
842257 AAGCCCACACGAGTAAGTGGTAACCCTTTT-AAAACCCACACAGGTTGGTGGCA
1 AAGCCCACACAAGT-AGTGG-CATCTTTTTCAAAGCCCACACAAGTTGGTGGCA
842310 ACCCTCTCAA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
64 46 0.46
65 53 0.53
66 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (63 bp):
AAGCCCACACAAGTAGTGGCATCTTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTTTCA
Found at i:842478 original size:52 final size:52
Alignment explanation
Indices: 842406--842666 Score: 278
Period size: 52 Copynumber: 5.0 Consensus size: 52
842396 ATCTACTTTC
* * * *
842406 TAAGTCTAATATCGCTAGCCTTGAATCAACACATTGGCATTCTTCTCATCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTT
*
842458 TAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACGTCTAT-T-ATCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCAC-TCT-TCTCATCTT
* * * * * *
842510 TAAGCCCAATGTC-ATTGACCTTGAATCAGCACATTGGCACCCTTATCAT-GT
1 TAAGTCCAATGTCGCTAG-CCTTGAATCAGCACATTGGCACTCTTCTCATCTT
* * * *
842561 TAAGTCTAATGTCGCTAGCTTTGAATCAGCACATTGGTATTCTTCTCATCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTT
* * * * * *
842613 CAAGTCCAACGTTGCTGGCCTTGAATCGGCTCATTGGCACTCTTCTCATCTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTT
842665 TA
1 TA
842667 TCATCTTTAA
Statistics
Matches: 170, Mismatches: 32, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
50 1 0.01
51 43 0.25
52 121 0.71
53 4 0.02
54 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTCTCATCTT
Found at i:842635 original size:103 final size:104
Alignment explanation
Indices: 842423--842662 Score: 270
Period size: 103 Copynumber: 2.3 Consensus size: 104
842413 AATATCGCTA
* * *
842423 GCCTTGAATCAACACATTGGCATTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
1 GCCTTGAATCAGCACATTGGCACTCTTCTCATCGTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * *
842488 ATATTGGCACGTCTATTATCTTTAAGCCCAATGTCATTG
66 ACATTGGCACGTCTATTATCTTCAAGCCCAACGTCACTG
* * * * *
842527 ACCTTGAATCAGCACATTGGCACCCTTATCAT-GTTAAGTCTAATGTCGCTAGCTTTGAATCAGC
1 GCCTTGAATCAGCACATTGGCACTCTTCTCATCGTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * **
842591 ACATTGGTA-TTCT-TCTCATCTTCAAGTCCAACGTTGCTG
66 ACATTGGCACGTCTAT-T-ATCTTCAAGCCCAACGTCACTG
* *
842630 GCCTTGAATCGGCTCATTGGCACTCTTCTCATC
1 GCCTTGAATCAGCACATTGGCACTCTTCTCATC
842663 TTTATCATCT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
101 1 0.01
102 4 0.04
103 79 0.71
104 27 0.24
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (104 bp):
GCCTTGAATCAGCACATTGGCACTCTTCTCATCGTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
ACATTGGCACGTCTATTATCTTCAAGCCCAACGTCACTG
Found at i:845122 original size:21 final size:21
Alignment explanation
Indices: 845097--845139 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
845087 AAACATTTTA
845097 AAATTTTAAACG-ATTTTTCCT
1 AAATTTTAAA-GTATTTTTCCT
*
845118 AAATTTTATAGTATTTTTCCT
1 AAATTTTAAAGTATTTTTCCT
845139 A
1 A
845140 TAAAGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATTTTAAAGTATTTTTCCT
Found at i:851043 original size:8 final size:8
Alignment explanation
Indices: 851032--851061 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
851022 AAATCAAAAA
851032 TGGGCACT
1 TGGGCACT
851040 TGGGCACT
1 TGGGCACT
851048 TGGGGCACT
1 T-GGGCACT
851057 TGGGC
1 TGGGC
851062 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.23, G:0.43, T:0.23
Consensus pattern (8 bp):
TGGGCACT
Found at i:856216 original size:8 final size:8
Alignment explanation
Indices: 856205--856234 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
856195 AAATCAAAAA
856205 TGGGCACT
1 TGGGCACT
856213 TGGGCACT
1 TGGGCACT
856221 TGGGGCACT
1 T-GGGCACT
856230 TGGGC
1 TGGGC
856235 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.23, G:0.43, T:0.23
Consensus pattern (8 bp):
TGGGCACT
Found at i:858895 original size:2 final size:2
Alignment explanation
Indices: 858888--858915 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
858878 ATGGTTTCAA
858888 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
858916 TGTTTTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:860790 original size:21 final size:21
Alignment explanation
Indices: 860766--860808 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
860756 TATTAATAGA
*
860766 AAACTCTGCGATATGCGAAAT
1 AAACTCTGCGATATGCAAAAT
**
860787 AAACTCTTTGATATGCAAAAT
1 AAACTCTGCGATATGCAAAAT
860808 A
1 A
860809 CGAAGTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (21 bp):
AAACTCTGCGATATGCAAAAT
Found at i:862086 original size:19 final size:19
Alignment explanation
Indices: 862057--862113 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
862047 TTGTATCGAT
* * *
862057 ACATTGGATCGATATATGG
1 ACATTGTATCGATACATGC
*
862076 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
862095 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
862114 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:862103 original size:20 final size:20
Alignment explanation
Indices: 862078--862211 Score: 76
Period size: 20 Copynumber: 6.5 Consensus size: 20
862068 ATATATGGTC
862078 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
862098 ATTGTATCGATACATG-A-A
1 ATTGTATCGATACATGCACA
* * * * *
862116 ACTGGTAGTAGCTACCCTACCACTA
1 A-TTGTA-TCGATA-CAT-GCAC-A
* *
862141 TTTGTATTGATACATGGCAC-
1 ATTGTATCGATACAT-GCACA
* *
862161 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGCACA
* ** *
862181 ATTGTATCGATGCATTAAGA
1 ATTGTATCGATACATGCACA
862201 ATTGTATCGAT
1 ATTGTATCGAT
862212 GCATTGTCCC
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.02
19 7 0.08
20 62 0.70
21 2 0.02
22 5 0.06
23 5 0.06
24 4 0.05
25 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:862212 original size:20 final size:20
Alignment explanation
Indices: 862161--862216 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
862151 TACATGGCAC
* *
862161 ATTGTATCGATACATGAAGA
1 ATTGTATCGATGCATTAAGA
862181 ATTGTATCGATGCATTAAGA
1 ATTGTATCGATGCATTAAGA
862201 ATTGTATCGATGCATT
1 ATTGTATCGATGCATT
862217 GTCCCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATGCATTAAGA
Found at i:868042 original size:78 final size:78
Alignment explanation
Indices: 867950--868141 Score: 197
Period size: 79 Copynumber: 2.4 Consensus size: 78
867940 TAGAGATAAC
* *
867950 AACAGGGCTAGAGTATCCCGATTATGGAAAATCGGTGTTCCAAAAATAAAACCGAGGTTGGAGTA
1 AACAGGGTTAGAGTATCCCGATTATGGAAAATCGGTATTCCAAAAATAAAACCGAGGTTGGAGTA
*
868015 TCCCCTCGAAAAT
66 TCCCCTCAAAAAT
* ** * * *** ** *
868028 AACAGGGTTGGAGTATCTCTAATTATAGAAAATTGGTATTTTGAAAATAAAATTGGGGTTGGAGT
1 AACAGGGTTAGAGTATC-CCGATTATGGAAAATCGGTATTCCAAAAATAAAACCGAGGTTGGAGT
868093 ATCCCCTCAAAAAT
65 ATCCCCTCAAAAAT
* * *
868107 AAC-GAGGTTTGAGTATCCTCGATTGTGAAAAATCG
1 AACAG-GGTTAGAGTATCC-CGATTATGGAAAATCG
868142 ATGATTTAGA
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
78 17 0.19
79 73 0.81
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
AACAGGGTTAGAGTATCCCGATTATGGAAAATCGGTATTCCAAAAATAAAACCGAGGTTGGAGTA
TCCCCTCAAAAAT
Found at i:868315 original size:28 final size:28
Alignment explanation
Indices: 868284--868338 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
868274 ATCTCCTCGA
*
868284 AAATAACGAGATTGAAGTATCCCCGATG
1 AAATAACGAGATTGAAGTACCCCCGATG
* * *
868312 AAATAACGGGGTTGGAGTACCCCCGAT
1 AAATAACGAGATTGAAGTACCCCCGAT
868339 TATGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (28 bp):
AAATAACGAGATTGAAGTACCCCCGATG
Found at i:868569 original size:50 final size:51
Alignment explanation
Indices: 868401--868567 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 51
868391 GGAAATAACA
* * * *
868401 GAGTTGGAGTATCCCTAATTGTGAAAAATTGGTGTTTTGGAAATAAAATTG
1 GAGTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCG
* ** * *
868452 GAGTTGGAGTATCCCCAATTGCGGTAAATTGATGCTTTAGAAATAAAATCG
1 GAGTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCG
* * *
868503 GAGTTGG-GTATCCCCGATTAAGAAAAATTGAT-TTTTGGAAATGAAATCG
1 GAGTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCG
*
868552 GGGTTGGAGTATCCCC
1 GAGTTGGAGTATCCCC
868568 GAGATAAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 20 0.20
50 28 0.29
51 50 0.51
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GAGTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCG
Found at i:870883 original size:13 final size:13
Alignment explanation
Indices: 870865--870889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870855 AATGCCTGAA
870865 TGTATCGATACAT
1 TGTATCGATACAT
870878 TGTATCGATACA
1 TGTATCGATACA
870890 ATGAGCAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:872501 original size:22 final size:22
Alignment explanation
Indices: 872473--872517 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
872463 GTTTGATACT
872473 AATTTTTGCCATAATTCTAGAA
1 AATTTTTGCCATAATTCTAGAA
872495 AATTTTTGCCATAATTCTAGAA
1 AATTTTTGCCATAATTCTAGAA
872517 A
1 A
872518 GATGTATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (22 bp):
AATTTTTGCCATAATTCTAGAA
Found at i:872549 original size:28 final size:28
Alignment explanation
Indices: 872517--872587 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
872507 AATTCTAGAA
872517 AGATGTATCGATACATATGGAAAAACCC
1 AGATGTATCGATACATATGGAAAAACCC
872545 AGATGTATCGATACATATGGAAAAACCC
1 AGATGTATCGATACATATGGAAAAACCC
872573 AGATGTATCGATACA
1 AGATGTATCGATACA
872588 ATATTCTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (28 bp):
AGATGTATCGATACATATGGAAAAACCC
Found at i:872613 original size:13 final size:13
Alignment explanation
Indices: 872595--872634 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
872585 ACAATATTCT
*
872595 TTGTATTGATACA
1 TTGTATCGATACA
*
872608 TTGTATCCATACA
1 TTGTATCGATACA
*
872621 ATGTATCGATACA
1 TTGTATCGATACA
872634 T
1 T
872635 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:875175 original size:20 final size:19
Alignment explanation
Indices: 875152--875213 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
875142 TGCTTTTTAT
*
875152 TGATATATTGTATCGATATA
1 TGATA-ATTGTATCGATACA
*
875172 TGATCATTGTATCGATACA
1 TGATAATTGTATCGATACA
*
875191 TGCACAATTGTATCGATACA
1 TG-ATAATTGTATCGATACA
875211 TGA
1 TGA
875214 AACTAGCAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (19 bp):
TGATAATTGTATCGATACA
Found at i:875182 original size:19 final size:19
Alignment explanation
Indices: 875158--875213 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
875148 TTATTGATAT
*
875158 ATTGTATCGATATATGATC-
1 ATTGTATCGATACATGA-CA
875177 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATG-ACA
875197 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
875214 AACTAGCAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:877717 original size:13 final size:13
Alignment explanation
Indices: 877699--877725 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
877689 ACATATTACT
877699 TTGTATCGATACA
1 TTGTATCGATACA
877712 TTGTATCGATACA
1 TTGTATCGATACA
877725 T
1 T
877726 GATCTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:877816 original size:20 final size:20
Alignment explanation
Indices: 877791--877844 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
877781 CTACCACTGT
*
877791 TTGTATCGATACATGGTAAA
1 TTGTATCGATACATAGTAAA
*
877811 TTGTATCAATACATAGTAAA
1 TTGTATCGATACATAGTAAA
**
877831 AAGTATCGATACAT
1 TTGTATCGATACAT
877845 TATGCCCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGTAAA
Found at i:887167 original size:20 final size:21
Alignment explanation
Indices: 887142--887193 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 21
887132 CTACCACTGT
887142 TTGTATCGATACATGGCAC-A
1 TTGTATCGATACATGGCACAA
887162 TTGTATCGAT--A--GCACAA
1 TTGTATCGATACATGGCACAA
887179 TTGTATCGATACATG
1 TTGTATCGATACATG
887194 AAACTAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 1 0.04
19 1 0.04
20 10 0.37
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGCACAA
Found at i:887196 original size:80 final size:80
Alignment explanation
Indices: 887098--887252 Score: 292
Period size: 80 Copynumber: 1.9 Consensus size: 80
887088 GTATTGATAC
* *
887098 ATTGTATCGATACATGAAACTAGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGGCACAT
1 ATTGTATCGATACATGAAACTAGCAGCAGCTACCCTACCACTATTTGTATCGATACATGGCACAT
887163 TGTATCGATAGCACA
66 TGTATCGATAGCACA
887178 ATTGTATCGATACATGAAACTAGCAGCAGCTACCCTACCACTATTTGTATCGATACATGGCACAT
1 ATTGTATCGATACATGAAACTAGCAGCAGCTACCCTACCACTATTTGTATCGATACATGGCACAT
887243 TGTATCGATA
66 TGTATCGATA
887253 CAATGTATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (80 bp):
ATTGTATCGATACATGAAACTAGCAGCAGCTACCCTACCACTATTTGTATCGATACATGGCACAT
TGTATCGATAGCACA
Found at i:890789 original size:20 final size:20
Alignment explanation
Indices: 890763--890858 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
890753 TAAAAAGACA
*
890763 AAATGTATCGATACATTGA-
1 AAATGTATCGATACATTCAT
890782 AGAATGTATCGATACATTCAT
1 A-AATGTATCGATACATTCAT
*
890803 ACATGTATCGATACATTCAT
1 AAATGTATCGATACATTCAT
* * *
890823 ACATGTATCGATACATTGAA
1 AAATGTATCGATACATTCAT
890843 AAATGTATCGATACAT
1 AAATGTATCGATACAT
890859 CTGGGTACCT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
19 1 0.01
20 68 0.97
21 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATTCAT
Found at i:890818 original size:12 final size:12
Alignment explanation
Indices: 890785--890838 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
890775 ACATTGAAGA
890785 ATGTATCGATAC
1 ATGTATCGATAC
890797 A--T-TC-ATAC
1 ATGTATCGATAC
890805 ATGTATCGATAC
1 ATGTATCGATAC
890817 A--T-TC-ATAC
1 ATGTATCGATAC
890825 ATGTATCGATAC
1 ATGTATCGATAC
890837 AT
1 AT
890839 TGAAAAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
8 10 0.29
9 4 0.12
10 4 0.12
11 4 0.12
12 12 0.35
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:891877 original size:28 final size:28
Alignment explanation
Indices: 891744--892857 Score: 1039
Period size: 28 Copynumber: 38.9 Consensus size: 28
891734 TAAAAAAAAA
891744 GTGCCACTAACTTGTGTGGGCTTTGAAACGAG
1 GTGCCACTAAC-T-TGTGGGCTTTGAAA-G-G
* * * *
891776 TTGCCACCAACTCGTGTAGGTTTTGAAAAGAG
1 GTGCCACTAACT--TGTGGGCTTTG-AAAG-G
* * * **
891808 TTACCACTAGCTTGTGGGCTTTGAAAAAA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* *
891837 GTGCCGCTAACTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
891865 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
891893 GTGCCAATGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
891921 ATGCCACTAACTTGTGGGCTTTGAAAAGT
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
**
891950 GTGCCACTAACTTGTGGATTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
891978 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* *
892007 GTGCCATTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTAACTTGTGGGCTTTG-AAAG-G
* ** *
892037 TTGCCACCGACTCGTGTGGGTTTTGAAAAGAG
1 GTGCCACTAACT--TGTGGGCTTTG-AAAG-G
* * * *
892069 TTACCACTAGCTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
892097 GTGCCACTGACTTATGGGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
892125 ATGCCACTAACTTATGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
892154 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
892182 ATACCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
892210 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
892238 ATGCCACTGACTTATGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* * *
892267 GTGCCACTAACTTGTGAGATTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
** * *
892295 GTGCCACTAACTCATAGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* * *
892324 GTGCCACTGACTTGTGGGCGTTGAAGGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * *
892352 GAGTCATTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
*
892381 GTTCCACTAAC-TGATGGGCTTTGAAAGG
1 GTGCCACTAACTTG-TGGGCTTTGAAAGG
*
892409 GTGCCAC-AGACTTGTGAGCTTTGAAAGG
1 GTGCCACTA-ACTTGTGGGCTTTGAAAGG
* * * *
892437 ATGTCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* * *
892466 GTACCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
892494 GTGCCACTAACTTATGGGCTTTAAAAAGA
1 GTGCCACTAACTTGTGGGCTTT-GAAAGG
* *
892523 GTGCCACTAACTTGTGAGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
892551 GTGCCATTGACTTATGAGCTTTG-AAGAG
1 GTGCCACTAACTTGTGGGCTTTGAAAG-G
* *
892579 GAGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
*
892608 GTGCCACTAACTTGTGGGCTTTGAAAGT
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
892636 GTGCCACTGACTTGCGTGGGCTTTGAAAGG
1 GTGCCACTAACTT--GTGGGCTTTGAAAGG
* * *
892666 GTGTCGCTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
892694 ATGCCACTAACTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
892722 ATGCCACTAACTCGT-GGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * *
892749 ATGCCATTGACTGGTGGGCTTTGAACGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
** *
892777 GTGCCGTTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * *
892805 ATTCCCCTAACTTGTGGGCTTGGATAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
892833 GTGCCACTAACTTGTGGGCTTTGAA
1 GTGCCACTAACTTGTGGGCTTTGAA
892858 GAGATGAACG
Statistics
Matches: 898, Mismatches: 161, Indels: 50
0.81 0.15 0.05
Matches are distributed among these distances:
27 28 0.03
28 517 0.58
29 234 0.26
30 59 0.07
31 1 0.00
32 56 0.06
33 3 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
GTGCCACTAACTTGTGGGCTTTGAAAGG
Found at i:891883 original size:57 final size:57
Alignment explanation
Indices: 891744--892857 Score: 1047
Period size: 57 Copynumber: 19.4 Consensus size: 57
891734 TAAAAAAAAA
* * * *
891744 GTGCCACTAACTTGTGTGGGCTTTGAAACGAGTTGCCACCAACTCGTGTAGGTTTTGAAAAGAG
1 GTGCCACTAAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTAACT--TGTGGGCTTTG-AAAG-G
* * * * * *
891808 TTACCACTAGCTTGTGGGCTTTGAAAAAAGTGCCGCTAACTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
891865 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAATGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * **
891921 ATGCCACTAACTTGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGATTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
891978 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-G
* ** * * * *
892037 TTGCCACCGACTCGTGTGGGTTTTGAAAAGAGTTACCACTAGCTTATGGGCTTTGAAAGG
1 GTGCCACTAACT--TGTGGGCTTTGAAAAGAG-TGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
892097 GTGCCACTGACTTATGGGCTTT-AAAAG-GATGCCACTAACTTATGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAG-TGCCACTAACTTGTGGGCTTTG-AAAGG
* *
892154 GTGCCACTAACTTGTGGGCTTTGAAAGGA-TACCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * *
892210 ATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTATGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGG
* * * ** * *
892267 GTGCCACTAACTTGTGAGATTT-AAAAGGGTGCCACTAACTCATAGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGG
* * ** * * *
892324 GTGCCACTGACTTGTGGGCGTTGAAGGGGAGT--CATTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTGAA-AAGAGTGCCACTAACTTGTGGGCTTTG-AAAGG
* * *
892381 GTTCCACTAAC-TGATGGGCTTTG-AAAGGGTGCCAC-AGACTTGTGAGCTTTGAAAGG
1 GTGCCACTAACTTG-TGGGCTTTGAAAAGAGTGCCACTA-ACTTGTGGGCTTTGAAAGG
* * * * * *
892437 ATGTCACTGACTTGTGGGCTTTGAAAAGAGTACCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
892494 GTGCCACTAACTTATGGGCTTTAAAAAGAGTGCCACTAACTTGTGAGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * * * *
892551 GTGCCATTGACTTATGAGCTTTGAAGAG-GAGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGG
* *
892608 GTGCCACTAACTTGTGGGCTTTG-AAAGTGTGCCACTGACTTGCGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTT--GTGGGCTTTGAAAGG
* * * * *
892666 GTGTCGCTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
* * * * * * *
892722 ATGCCACTAACTCGT-GGCTTTGAAAGGA-TGCCATTGACTGGTGGGCTTTGAACGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
** * * * * * *
892777 GTGCCGTTGACTTGTGGGCTTTGAAAGGA-TTCCCCTAACTTGTGGGCTTGGATAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
892833 GTGCCACTAACTTGTGGGCTTTGAA
1 GTGCCACTAACTTGTGGGCTTTGAA
892858 GAGATGAACG
Statistics
Matches: 864, Mismatches: 160, Indels: 60
0.80 0.15 0.06
Matches are distributed among these distances:
55 48 0.06
56 248 0.29
57 393 0.45
58 57 0.07
59 35 0.04
60 11 0.01
61 30 0.03
62 33 0.04
63 1 0.00
64 8 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (57 bp):
GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
Found at i:891914 original size:85 final size:85
Alignment explanation
Indices: 891738--892857 Score: 1069
Period size: 85 Copynumber: 13.0 Consensus size: 85
891728 TTTTTTTAAA
* * * * *
891738 AAAAAAGTGCCACTAACTTGTGTGGGCTTTGAAACGAGTTGCCACCAACTCGTGTAGGTTTTGAA
1 AAAAGAGTGCCACTAAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTAACT--TGTGGGCTTTG-A
* *
891803 AAGAGTTACCACT-AGCTTGTGGGCTTTG
59 AAG-GGTGCCACTGA-CTTGTGGGCTTTG
* * * *
891831 AAAAAAGTGCCGCTAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
*
891896 CCAATGACTTGTGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
* * **
891916 AAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGTGTGCCACTAACTTGTGGATTTTGAAAGGGT
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGT
891980 GCCACTGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * ** *
892001 AAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGTTTTGAAAA
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTAACT--TGTGGGCTTTG-AAA
* * *
892066 GAGTTACCACT-AGCTTATGGGCTTTG
61 G-GGTGCCACTGA-CTTGTGGGCTTTG
* * * * * * *
892092 -AAAGGGTGCCACTGACTTATGGGCTTTAAAAGGATGCCACTAACTTATGGGCTTTGAAAAGAGT
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGT
*
892156 GCCACTAACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * *
892177 AAAGGA-TACCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
*
892241 CCACTGACTTATGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
* * * ** * *
892261 AAAAGAGTGCCACTAACTTGTGAGATTTAAAAGGGTGCCACTAACTCATAGGCTTTGAAAAGAGT
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGT
*
892326 GCCACTGACTTGTGGGCGTTG
65 GCCACTGACTTGTGGGCTTTG
** * * * *
892347 AAGGGGAGT--CATTGACTTGTGGGCTTTGAAAAGAGTTCCACTAAC-TGATGGGCTTTGAAAGG
1 AA-AAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTG-TGGGCTTTGAAAGG
* *
892409 GTGCCACAGACTTGTGAGCTTTG
63 GTGCCACTGACTTGTGGGCTTTG
* * * * * * *
892432 AAAGGA-TGTCACTGACTTGTGGGCTTTGAAAAGAGTACCACTGACTTGTGGGCTTTGAAAAGGT
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGT
* * *
892496 GCCACTAACTTATGGGCTTTA
65 GCCACTGACTTGTGGGCTTTG
* * * * * * *
892517 AAAAGAGTGCCACTAACTTGTGAGCTTTAAAAGGGTGCCATTGACTTATGAGCTTTG-AAGAGGA
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAG-GGT
*
892581 GCCACTAACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* *
892602 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGTGTGCCACTGACTTGCGTGGGCTTTGAAAGGG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTT--GTGGGCTTTGAAAGGG
* *
892667 TGTCGCTGACTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * * * *
892689 AAAGGA-TGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTCGT-GGCTTTGAAAGGATG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
* *
892752 CCATTGACTGGTGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
* * ** * * * * * *
892772 -AACGGGTGCCGTTGACTTGTGGGCTTTGAAAGGATTCCCCTAACTTGTGGGCTTGGATAGGGTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
*
892836 CCACTAACTTGTGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
892856 AA
1 AA
892858 GAGATGAACG
Statistics
Matches: 857, Mismatches: 143, Indels: 62
0.81 0.13 0.06
Matches are distributed among these distances:
82 3 0.00
83 66 0.08
84 85 0.10
85 381 0.44
86 151 0.18
87 55 0.06
88 13 0.02
89 24 0.03
90 30 0.04
91 32 0.04
92 1 0.00
93 16 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (85 bp):
AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
CCACTGACTTGTGGGCTTTG
Found at i:894122 original size:21 final size:21
Alignment explanation
Indices: 894098--894137 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
894088 TTTTCTTCAG
* *
894098 TTTTTTGTTTTTTTTGTTTTA
1 TTTTTTATTTTTTTAGTTTTA
894119 TTTTTTATTTTTTTAGTTT
1 TTTTTTATTTTTTTAGTTT
894138 GTTTTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (21 bp):
TTTTTTATTTTTTTAGTTTTA
Found at i:894142 original size:20 final size:21
Alignment explanation
Indices: 894097--894142 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
894087 TTTTTCTTCA
* *
894097 GTTTTTTGTTTTTTTTGTTTT
1 GTTTTTTATTTTTTTAGTTTT
*
894118 ATTTTTTATTTTTTTAG-TTT
1 GTTTTTTATTTTTTTAGTTTT
894138 GTTTT
1 GTTTT
894143 AGTTTGTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.83
Consensus pattern (21 bp):
GTTTTTTATTTTTTTAGTTTT
Found at i:894148 original size:10 final size:9
Alignment explanation
Indices: 894101--894151 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
894091 TCTTCAGTTT
*
894101 TTTGTTTTT
1 TTTGTTTTA
894110 TTTGTTTTA
1 TTTGTTTTA
894119 -TT-TTTTA
1 TTTGTTTTA
894126 TTT-TTTTA
1 TTTGTTTTA
894134 GTTTGTTTTA
1 -TTTGTTTTA
894144 GTTTGTTT
1 -TTTGTTT
894152 GGTATAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
7 5 0.13
8 9 0.24
9 11 0.29
10 13 0.34
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (9 bp):
TTTGTTTTA
Found at i:901275 original size:20 final size:20
Alignment explanation
Indices: 901222--901276 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
901212 ATATGCCTGC
**
901222 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
901242 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
901262 ATGTATCGATACATT
1 ATGTATCGATACATT
901277 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:901330 original size:19 final size:19
Alignment explanation
Indices: 901306--901355 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
901296 AGCGATACAT
*
901306 TGTATTGATACAACACTTA
1 TGTATTGATACAAAACTTA
901325 TGTATTGATACAAAACTTA
1 TGTATTGATACAAAACTTA
*
901344 TGTATCGATACA
1 TGTATTGATACA
901356 TTTACTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATTGATACAAAACTTA
Found at i:902285 original size:101 final size:101
Alignment explanation
Indices: 902108--903009 Score: 696
Period size: 101 Copynumber: 9.5 Consensus size: 101
902098 CGAAGAATGA
* * * * * * * **
902108 CAATGTGCTGATTCATGGCCAGCTACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * * *
902171 GGCCAACGACATTGGGCTT-AGGAATGTTAAAGATAC
66 GGCGAACGACATTGGTCTTAAAG-ATGATAAAGGTGC
* * *
902207 CAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * **
902272 GG-GCAGCGACATTGGTTTTAAAGATGGCAAAGGTGC
66 GGCG-AACGACATTGGTCTTAAAGATGATAAAGGTGC
*
902308 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * *
902373 GGCTAGCGACATTGGTCCTAAAGATGACGAAA-GTGC
66 GGCGAACGACATTGGTCTTAAAGATGA-TAAAGGTGC
* * * *
902409 CAATATGCTGATTAAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGCCGATGTGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATT
*
902474 CAAGGCGAACGACATCGGTCTT-AA-A-GATAAAGGTGC
63 CAAGGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
* *
902510 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
902565 GGCCAGCGACATTGGTCTT-AA-A-GA-CAAGGTGC
66 GGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
* *
902597 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
902652 GGCCAGCGACATTGGTCTT-AA-A-GA-CAAGGTGC
66 GGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
* *
902684 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
902739 GGCCAGCGACATTGGTCTT--A-ATGA-CAAGGTGC
66 GGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
* *
902771 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
902826 GGCCAGCGACATTGGTCTT-AA-A-GATAAAGGTGC
66 GGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
* * * * * * *
902859 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGACGCCAATATGCTGGTT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG--G-TGCCAATGTGCTGATT
* * *
902924 CAAGGCCAACGATATTGGGCTTAAAGA-G--AAAGGTGC
63 CAAGGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
*
902960 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-CAAGGTGCCA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCA
903010 TGAAGTTATG
Statistics
Matches: 708, Mismatches: 66, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
86 2 0.00
87 251 0.35
88 78 0.11
89 1 0.00
94 1 0.00
95 1 0.00
96 1 0.00
97 4 0.01
98 1 0.00
99 34 0.05
100 7 0.01
101 278 0.39
102 9 0.01
103 4 0.01
104 36 0.05
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCGAACGACATTGGTCTTAAAGATGATAAAGGTGC
Found at i:902318 original size:52 final size:50
Alignment explanation
Indices: 902206--902999 Score: 647
Period size: 49 Copynumber: 16.8 Consensus size: 50
902196 GTTAAAGATA
* * * *
902206 CCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATG-AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * * *
902255 CCAATGTGCTGATTCAAGGGCAGCGACATTGGTTTTAAAGATGGCAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-G-AAAGGTG
* *
902307 CCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGATG-AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * * * *
902356 CCAATGTGCTGATTCAAGGCTAGCGACATTGGTCCTAAAGATGACGAAAGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGA--AAGGTG
* * **
902408 CCAATATGCTGATTAAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-G-AAAGGTG
* * * * * *
902460 CCGATGTGCTGATTCAAGGCGAACGACATCGGTCTTAAAGAT-AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* *
902509 CCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T-----GTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * *
902548 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--CAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* *
902596 CCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T-----GTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * *
902635 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--CAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* *
902683 CCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T---A--TG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* *
902722 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--A-ATGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGA-AAGGTG
*
902770 CCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---A--TG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * *
902809 CCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
* * * **
902858 CCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGACG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATG-A-AAGGTG
* * *
902910 CCAATATGCTGGTTCAAGGCCAACGATATTGGGCTTAAAGA-GAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
*
902959 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA
903000 CAAGGTGCCA
Statistics
Matches: 603, Mismatches: 90, Indels: 104
0.76 0.11 0.13
Matches are distributed among these distances:
39 130 0.22
40 4 0.01
41 2 0.00
42 1 0.00
43 1 0.00
45 2 0.00
46 1 0.00
47 4 0.01
48 100 0.17
49 192 0.32
50 2 0.00
51 3 0.00
52 160 0.27
53 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (50 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAAGGTG
Found at i:902563 original size:39 final size:39
Alignment explanation
Indices: 902506--902840 Score: 274
Period size: 39 Copynumber: 7.9 Consensus size: 39
902496 AAAGATAAAG
* *
902506 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
902545 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
902584 AAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
902632 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
902671 AAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
902719 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T--T
*
902761 GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
902806 ATGCCAATGTGTTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
902841 TCTTAAAGAT
Statistics
Matches: 240, Mismatches: 29, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
39 133 0.55
40 1 0.00
42 1 0.00
45 1 0.00
47 1 0.00
48 103 0.43
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:902616 original size:48 final size:48
Alignment explanation
Indices: 902545--903009 Score: 453
Period size: 48 Copynumber: 10.1 Consensus size: 48
902535 TATTGGGCTT
*
902545 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
902593 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
*
902632 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
902680 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
902720 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAATGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
902767 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
902807 -TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * *
902855 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * * * * *
902904 AAGACGCCAATATGCTGGTTCAAGGCCAACGATATTGGGCTTAAAGAGAAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* *
902956 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
903004 GTGCCA
1 GTGCCA
903010 TGAAGTTATG
Statistics
Matches: 346, Mismatches: 40, Indels: 62
0.77 0.09 0.14
Matches are distributed among these distances:
39 103 0.30
41 2 0.01
46 1 0.00
47 1 0.00
48 114 0.33
49 84 0.24
50 1 0.00
51 1 0.00
52 39 0.11
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:902628 original size:87 final size:87
Alignment explanation
Indices: 902457--902889 Score: 731
Period size: 87 Copynumber: 5.0 Consensus size: 87
902447 GATGGTTGAG
* * * * *
902457 GTGCCGATGTGCTGATTCAAGGCGAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTAAT
902522 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
902545 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
902610 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
902632 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
902697 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
902719 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAATGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
902784 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
902806 ATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTAAT
*
902871 TCAAGGCCAGCGACATTGG
65 TCAAGGCCAGCGATATTGG
902890 TCTTAAAGAT
Statistics
Matches: 330, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
87 255 0.77
88 75 0.23
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATT
CAAGGCCAGCGATATTGGGCTT
Found at i:902754 original size:174 final size:175
Alignment explanation
Indices: 902457--902990 Score: 764
Period size: 174 Copynumber: 3.0 Consensus size: 175
902447 GATGGTTGAG
* * * *
902457 GTGCCGATGTGCTGATTCAAGGCGAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
*
902522 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
*
902587 GACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
131 GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
902632 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
*
902696 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAT
66 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
902761 GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
131 GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
902806 ATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
* * * * *
902871 TCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGACGCCAATATGCTGGTTCAAGGCCAACGA
66 TCAAGGCCAGCGATATTGGGCTT----AT---------GCCAATGTGCTGATTCAAGGCCAGCGA
* * *
902936 TATTGGGCTTAAAGAGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
118 CATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
902991 ACTTAAAGAC
Statistics
Matches: 323, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
174 168 0.52
175 79 0.24
179 2 0.01
188 36 0.11
189 38 0.12
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (175 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAAT
TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
GACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:903070 original size:34 final size:33
Alignment explanation
Indices: 903032--903141 Score: 95
Period size: 33 Copynumber: 3.3 Consensus size: 33
903022 CGTACAGGAA
903032 AAAAGGATGCCATAGAGGTGTGGGCTTAAAAGGG
1 AAAAGG-TGCCATAGAGGTGTGGGCTTAAAAGGG
* * *
903066 AAAAGGGTG-CA-ACGAAGTCATGGACTTAAAA-GG
1 AAAA-GGTGCCATA-GAGGT-GTGGGCTTAAAAGGG
*
903099 AAAAGGTGCCATAGAGTTGTGGAG-TTAAAA-GG
1 AAAAGGTGCCATAGAGGTGTGG-GCTTAAAAGGG
903131 AATAAGGTGCC
1 AA-AAGGTGCC
903142 CGGGGTTGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
32 18 0.29
33 25 0.40
34 17 0.27
35 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.18
Consensus pattern (33 bp):
AAAAGGTGCCATAGAGGTGTGGGCTTAAAAGGG
Found at i:903150 original size:32 final size:32
Alignment explanation
Indices: 903032--903223 Score: 121
Period size: 34 Copynumber: 6.0 Consensus size: 32
903022 CGTACAGGAA
* * *
903032 AAAAGGATGCCATAGAGGTGTGGGCTTAAAAGGG
1 AAAAGG-TGCCACAGAGTTGTGGACTTAAAA-GG
* **
903066 AAAAGGGTGCAAC-GAAGTCATGGACTTAAAAGG
1 AAAA-GGTGCCACAG-AGTTGTGGACTTAAAAGG
* *
903099 AAAAGGTGCCATAGAGTTGTGGAGTTAAAAGG
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* *
903131 AATAAGGTGCC-CGGGGTTGTAGG-CTTAAAA-G
1 AA-AAGGTGCCACAGAGTTGT-GGACTTAAAAGG
* *
903162 ----GGTGCCACTGAGTTGTGGACTTAAAGGG
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * *
903190 AAAAAGAGTGCCACGGAGTTATGGGCTTAAAAGG
1 -AAAAG-GTGCCACAGAGTTGTGGACTTAAAAGG
903224 GTGCCACTGA
Statistics
Matches: 122, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
26 8 0.07
27 13 0.11
28 1 0.01
31 1 0.01
32 35 0.29
33 19 0.16
34 43 0.35
35 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.20
Consensus pattern (32 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:903166 original size:59 final size:61
Alignment explanation
Indices: 903099--903244 Score: 192
Period size: 61 Copynumber: 2.4 Consensus size: 61
903089 ACTTAAAAGG
* * * *
903099 AAAA-GGTGCCA-TAGAGTTGTGGAGTTAAAAGGAATAAG-GTGCC-CGGGGTTGTAGGCTT
1 AAAAGGGTGCCACT-GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAGGCTT
* *
903157 AAAAGGGTGCCACTGAGTTGTGGACTTAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTT
1 AAAAGGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAGGCTT
*
903218 AAAAGGGTGCCACTGAGTCGTGGACTT
1 AAAAGGGTGCCACTGAGTTGTGGACTT
903245 TGAAGAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
58 4 0.05
59 29 0.38
60 6 0.08
61 38 0.49
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (61 bp):
AAAAGGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATAGGCTT
Found at i:903184 original size:27 final size:27
Alignment explanation
Indices: 903146--903244 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 27
903136 GGTGCCCGGG
903146 GTTGTAGG-CTTAAAAGGGTGCCACTGA
1 GTTGT-GGACTTAAAAGGGTGCCACTGA
* *
903173 GTTGTGGACTTAAAGGGAAAAAGAGTGCCACGGA
1 GTTGTGGACTT-------AAAAGGGTGCCACTGA
* *
903207 GTTATGGGCTTAAAAGGGTGCCACTGA
1 GTTGTGGACTTAAAAGGGTGCCACTGA
*
903234 GTCGTGGACTT
1 GTTGTGGACTT
903245 TGAAGAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
26 2 0.04
27 30 0.55
34 23 0.42
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
GTTGTGGACTTAAAAGGGTGCCACTGA
Found at i:903293 original size:32 final size:32
Alignment explanation
Indices: 903225--903356 Score: 165
Period size: 32 Copynumber: 4.0 Consensus size: 32
903215 CTTAAAAGGG
903225 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAAGA
* * *
903259 TGCCATTGAGTCATGGACTTGGAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
* * *
903291 TGCCACTAAGTCGTGGACTTAGAAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
* *
903323 TGCCATTGAGTCGTGGACTTTGAAGGAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAGA
903356 T
1 T
903357 TTGAAGAATT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 55 0.65
33 7 0.08
34 22 0.26
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
Found at i:903340 original size:64 final size:67
Alignment explanation
Indices: 903225--903356 Score: 198
Period size: 64 Copynumber: 2.0 Consensus size: 67
903215 CTTAAAAGGG
* *
903225 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCATTGAGTCATGGACTTGGAA-GAAAAA
1 TGCCACTAAGTCGTGGACTTAGAAGAAAAAAAGATGCCATTGAGTCATGGACTTGGAAGGAAAAA
903289 GA
66 GA
* * *
903291 TGCCACTAAGTCGTGGACTTAG-A-AAAAAAAGATGCCATTGAGTCGTGGACTTTGAAGGAAAGA
1 TGCCACTAAGTCGTGGACTTAGAAGAAAAAAAGATGCCATTGAGTCATGGACTTGGAAGGAAAAA
903354 GA
66 GA
903356 T
1 T
903357 TTGAAGAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
64 31 0.52
65 9 0.15
66 20 0.33
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (67 bp):
TGCCACTAAGTCGTGGACTTAGAAGAAAAAAAGATGCCATTGAGTCATGGACTTGGAAGGAAAAA
GA
Found at i:904612 original size:24 final size:23
Alignment explanation
Indices: 904567--904613 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
904557 CTTTGCACTA
**
904567 TTTTTTTTTGTGTTGTTGTTTTG
1 TTTTTTTTTGTGTTGTACTTTTG
904590 TTTTTTTTTGTGTTTGTACTTTTG
1 TTTTTTTTTGTG-TTGTACTTTTG
904614 AGGGAACTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.02, C:0.02, G:0.19, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTGTGTTGTACTTTTG
Found at i:912988 original size:32 final size:32
Alignment explanation
Indices: 912943--913020 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
912933 ACAAATAGTA
* *
912943 AATGTATCAATACATAAGTTTTGTATCGAGAC
1 AATGTATCGATACATAAGTGTTGTATCGAGAC
*
912975 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGAGAC
*
913007 AATGTATCGCTACA
1 AATGTATCGATACA
913021 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGAGAC
Found at i:919873 original size:1 final size:1
Alignment explanation
Indices: 919869--919921 Score: 88
Period size: 1 Copynumber: 53.0 Consensus size: 1
919859 TTTTGCATGT
* *
919869 CCCCCCCCCCCCCTCCCCCCCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
919922 GGCCCCACGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.96, G:0.00, T:0.04
Consensus pattern (1 bp):
C
Found at i:919927 original size:14 final size:14
Alignment explanation
Indices: 919868--919921 Score: 101
Period size: 14 Copynumber: 3.9 Consensus size: 14
919858 TTTTTGCATG
919868 TCCCCCCCCCCCCC
1 TCCCCCCCCCCCCC
919882 TCCCCCCCCCCCCC
1 TCCCCCCCCCCCCC
919896 TCCCCCCCCCCCCC
1 TCCCCCCCCCCCCC
919910 -CCCCCCCCCCCC
1 TCCCCCCCCCCCC
919922 GGCCCCACGC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
13 12 0.30
14 28 0.70
ACGTcount: A:0.00, C:0.94, G:0.00, T:0.06
Consensus pattern (14 bp):
TCCCCCCCCCCCCC
Found at i:919927 original size:26 final size:27
Alignment explanation
Indices: 919870--919927 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
919860 TTTGCATGTC
*
919870 CCCCCCCCCCCCTCCCCCCCCCCCCCT
1 CCCCCCCCCCCCTCCCCCCCCCCCCCG
919897 CCCCCCCCCCCC-CCCCCCCCCCCCCG
1 CCCCCCCCCCCCTCCCCCCCCCCCCCG
*
919923 GCCCC
1 CCCCC
919928 ACGCAGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.00, C:0.93, G:0.03, T:0.03
Consensus pattern (27 bp):
CCCCCCCCCCCCTCCCCCCCCCCCCCG
Found at i:926947 original size:13 final size:13
Alignment explanation
Indices: 926929--926954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
926919 CATTATCAAA
926929 TGTATCGATACAT
1 TGTATCGATACAT
926942 TGTATCGATACAT
1 TGTATCGATACAT
926955 GATCTTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:930836 original size:20 final size:20
Alignment explanation
Indices: 930810--930870 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
930800 CAAAAGTTAC
*
930810 AAAAAAACCACAAAAACAAA
1 AAAAAAAACACAAAAACAAA
*
930830 AACAAAAAACACAAAACCAAA
1 AA-AAAAAACACAAAAACAAA
*
930851 AAAAAATACACAAAAA-AAA
1 AAAAAAAACACAAAAACAAA
930870 A
1 A
930871 GAGGAGAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 4 0.11
20 14 0.39
21 18 0.50
ACGTcount: A:0.80, C:0.18, G:0.00, T:0.02
Consensus pattern (20 bp):
AAAAAAAACACAAAAACAAA
Found at i:930869 original size:14 final size:14
Alignment explanation
Indices: 930812--930870 Score: 63
Period size: 14 Copynumber: 4.3 Consensus size: 14
930802 AAAGTTACAA
930812 AAAAACCACAAAAAC
1 AAAAA-CACAAAAAC
930827 AAAAACA-AAAAAC
1 AAAAACACAAAAAC
930840 ACAAAAC-CAAAAA-
1 A-AAAACACAAAAAC
930853 AAAATACACAAAAA-
1 AAAA-ACACAAAAAC
930867 AAAA
1 AAAA
930871 GAGGAGAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.08
13 10 0.25
14 22 0.55
15 5 0.12
ACGTcount: A:0.80, C:0.19, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAACACAAAAAC
Found at i:933575 original size:44 final size:44
Alignment explanation
Indices: 933499--933764 Score: 143
Period size: 44 Copynumber: 5.8 Consensus size: 44
933489 TGTTTTCAGA
*
933499 CCAATGTCGCTGGGCCTTGAATCAGCACATTGGCACCTTC-ACGT
1 CCAATATCGCT-GGCCTTGAATCAGCACATTGGCACCTTCTACGT
* * *
933543 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGGA
1 -CCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T-TC--T-ACGT
* * * *
933593 CCAATGTTGCTGG-CTT-AATCAGCACATTGGCACATTCAACGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTACGT
* * * *
933635 CCAA-ATCGCTTGCCCTTGAATAAGCATATT-GCACCTTCATCTTTATAGAT
1 CCAATATCGC-TGGCCTTGAATCAGCACATTGGCACC-T--TC--TA-CG-T
* * * * *
933685 CCAATGTCGCTGGCC-TGACTTAGCACAATT-GCACCTTTTTTAAC-C
1 CCAATATCGCTGGCCTTGAATCAGCAC-ATTGGCACC--TTCT-ACGT
*
933730 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
933765 ACTTTGTTTT
Statistics
Matches: 168, Mismatches: 31, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
41 3 0.02
42 8 0.05
43 7 0.04
44 35 0.21
45 30 0.18
46 17 0.10
47 17 0.10
48 5 0.03
49 21 0.12
50 19 0.11
51 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (44 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCTACGT
Found at i:933579 original size:92 final size:90
Alignment explanation
Indices: 933472--933866 Score: 360
Period size: 91 Copynumber: 4.2 Consensus size: 90
933462 TTGGCCATGC
*
933472 TCAGCATATTGGCACCTTGTTTTCAGACCAATGTCGCTGGGCCTTGAATCAGCACATTGGCACCT
1 TCAGCATATTGGCACCTTGTTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCT
933537 TCACGTCCCAATATCGCTGGCCTTGAA
65 TCACGT-CCAATATCGCTGGCCTTGAA
* *
933564 TCAGCATATTGGCACCTTGTCTTTAAGGACCAATGTTGCTGG-CTT-AATCAGCACATTGGCACA
1 TCAGCATATTGGCACCTTGT-TTTAA-GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
*
933627 TTCAACGTCCAA-ATCGCTTGCCCTTGAA
64 TTC-ACGTCCAATATCGC-TGGCCTTGAA
* * * *
933655 TAAGCATATT-GCACCTTCATCTTTATAGATCCAATGTCGCTGGCC-TGACTTAGCACAATT-GC
1 TCAGCATATTGGCACCTT-GT-TTTA-AGA-CCAATGTCGCTGGCCTTGAATCAGCAC-ATTGGC
* *
933717 ACCTTTTTTAAC-CCCAATATCGCTGGCCTTGAA
61 ACC----TTCACGTCCAATATCGCTGGCCTTGAA
* * * *
933750 TCAGCATATTGGCACACTTTGTTTTTAAGACCACTGTCGGTAAGCCTTGAATCGGCA-ATTGGCA
1 TCAGCATATTGGCAC-C-TTG-TTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCA
* *
933814 CCTTTAAGTCCAATATCGCT-GCCTTGTTGAA
62 CCTTCACGTCCAATATCGCTGGCC---TTGAA
*
933845 TCAGCATTATT-GCACTTTGTTT
1 TCAGCA-TATTGGCACCTTGTTT
933867 ACGACTAATA
Statistics
Matches: 251, Mismatches: 25, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
90 12 0.05
91 50 0.20
92 50 0.20
93 32 0.13
94 15 0.06
95 49 0.20
96 26 0.10
97 14 0.06
98 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (90 bp):
TCAGCATATTGGCACCTTGTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
CACGTCCAATATCGCTGGCCTTGAA
Found at i:935146 original size:19 final size:18
Alignment explanation
Indices: 935110--935151 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
935100 AATGCTAACT
935110 GATACATAAGTGTGTATC
1 GATACATAAGTGTGTATC
* *
935128 TATACATAAGTTTTGTATC
1 GATACATAAG-TGTGTATC
935147 GATAC
1 GATAC
935152 CCATGTATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
GATACATAAGTGTGTATC
Found at i:950041 original size:52 final size:52
Alignment explanation
Indices: 949963--950113 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
949953 CGAAATATGA
*
949963 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
950015 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * *
950067 AAATTTGCCTACATGTATCGATACATTTGAGTAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACAT
950114 TTTCTTGGCA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 76 0.84
53 15 0.16
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:950095 original size:22 final size:21
Alignment explanation
Indices: 950069--950115 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
950059 ATCTGGGCAA
*
950069 ATTTGCCTACATGTATCGATAC
1 ATTTGACTA-ATGTATCGATAC
*
950091 ATTTGAGTAATGTATCGATAC
1 ATTTGACTAATGTATCGATAC
950112 ATTT
1 ATTT
950116 TCTTGGCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGACTAATGTATCGATAC
Found at i:950168 original size:19 final size:19
Alignment explanation
Indices: 950144--950195 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
950134 AGCGATACAT
950144 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
950163 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
950182 TGTATCGATACAAA
1 TGTATCGATACAAA
950196 TCATTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:951014 original size:101 final size:101
Alignment explanation
Indices: 950839--951102 Score: 395
Period size: 101 Copynumber: 2.6 Consensus size: 101
950829 ATGAAAATAA
* * ** * *
950839 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGTGCCAATATACT
*
950904 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACGTAAAGATGAAGG
* * *
950941 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACCTAAAGATGACAAAGGCGCCAATATACTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATACTG
951006 ATTCAAGGCCAGCGATATTGGACGTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACGTAAAGATGAAGG
* *
951042 TGCCAATGTGCTAATTCAAGGCCAAG-GACAATGGACTTAAAGATGACAAAGGTGCCAATAT
1 TGCCAATGTGCTGATTCAAGGCC-AGCGACATTGGACTTAAAGATGACAAAGGTGCCAATAT
951103 CCGATATCGG
Statistics
Matches: 146, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 115 0.79
102 31 0.21
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATACTG
ATTCAAGGCCAGCGATATTGGACGTAAAGATGAAGG
Found at i:951017 original size:52 final size:51
Alignment explanation
Indices: 950839--951102 Score: 304
Period size: 49 Copynumber: 5.2 Consensus size: 51
950829 ATGAAAATAA
* * * **
950839 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAC-AAGG
*
950892 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGG
* * *
950941 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACCTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGG
* * * *
950993 CGCCAATATACTGATTCAAGGCCAGCGATATTGGACGTAAAGATG--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGG
* * *
951042 TGCCAATGTGCTAATTCAAGGCCAAG-GACAATGGACTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCC-AGCGACATTGGACTTAAAGATGAC-AAGG
951094 TGCCAATAT
1 TGCCAATAT
951103 CCGATATCGG
Statistics
Matches: 180, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
49 84 0.47
50 2 0.01
52 66 0.37
53 28 0.16
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (51 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGG
Found at i:951167 original size:86 final size:87
Alignment explanation
Indices: 951018--951276 Score: 255
Period size: 86 Copynumber: 3.0 Consensus size: 87
951008 TCAAGGCCAG
* * * * * * * *
951018 CGATATTGGACGTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAAGGACAATGGACTTAAA
1 CGATATCGGACATAAGGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
951083 GATGACAAAGGTGCCAATAT-C
66 GATGACAAAGGTGCCAATATGC
*
951104 CGATATCGGACTTAAGGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AA
1 CGATATCGGACATAAGGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
951168 -A-GACAAAGGTGCCAATATGC
66 GATGACAAAGGTGCCAATATGC
* * * * *
951188 TGAT-TCAAGGCCAGCGATATTGGGCTTAAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATT
1 CGATATC--GG--A-C-ATA-AGGG--TGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATT
951252 GGTCTTAAAGATG---AAGGTGCCAATA
57 GGTCTTAAAGATGACAAAGGTGCCAATA
951277 AGCTGATTCA
Statistics
Matches: 146, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
83 19 0.13
84 5 0.03
85 4 0.03
86 54 0.37
87 1 0.01
88 1 0.01
89 2 0.01
90 3 0.02
92 53 0.36
93 2 0.01
94 1 0.01
95 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (87 bp):
CGATATCGGACATAAGGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
GATGACAAAGGTGCCAATATGC
Found at i:951177 original size:49 final size:49
Alignment explanation
Indices: 951124--952281 Score: 1206
Period size: 49 Copynumber: 24.9 Consensus size: 49
951114 CTTAAGGGTG
* *
951124 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951173 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * **
951216 AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * *
951265 AAGGTGCCAATAAGCTGATTCAAGGCCAGCGATATTGGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * *
951308 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGGCATTGGTCTTAAAGAC-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951356 AAGGTGCCAATAAGCTGATTCAAGGCCAGCG-CTATTAGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGAC-ATTGGTCTTAAAGACA
* *
951405 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * * *
951448 AAGGTGCCAATGTGCCGATTCAAGGCTAGCGACATTGGTCTTAAAAACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* **
951497 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGGTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * * **
951540 AAGGTGCCAATGTGCTAAGTCAAGGCCAGCGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * * *
951589 AAGGTGCCAATATGCTTATTCAAGGCAAGCGATATTGGACTT---G---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951632 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGAC-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951680 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G---
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951723 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTGAAAGAC-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* *
951771 AAGGTGCCAATATGCTGATTCATGGCCAACGATC-TTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGA-CATTGGTCTTAAAGACA
* *
951820 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
*** * *
951863 AAGGTGCCAATGCACCGATTCAAGGCCAGCGACATTGGTCTTAAAGGCA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
*
951912 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * *
951961 AAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
*
952004 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * *
952053 GAGGTGCCAATATGCTGATTCAAGGCC-GACGATATTGGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGACA
* *
952096 AAGGTGCCAATGTGCTGATTCACGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * *
952145 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* **
952188 AAGGTGCCAATGTGCTGATTCAAGGTTAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
* * * *
952237 AAGGTGCCAATATGCCGATTGAAGGCCAGCGATATTGGGCTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
952282 AGAAAATGCT
Statistics
Matches: 923, Mismatches: 120, Indels: 132
0.79 0.10 0.11
Matches are distributed among these distances:
43 373 0.40
44 1 0.00
45 1 0.00
46 3 0.00
47 1 0.00
48 123 0.13
49 421 0.46
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
Found at i:951236 original size:92 final size:88
Alignment explanation
Indices: 951124--952283 Score: 1102
Period size: 92 Copynumber: 12.5 Consensus size: 88
951114 CTTAAGGGTG
* * * * *
951124 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--AAAGGTGCCAATGTGCT
* *
951189 GATTCAAGGCCAGCGATATTGGGCTT-A
61 GATTCAAGGCCAGCGACATTGGTCTTAA
* * * * **
951216 AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATAAGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---GA--AAGGTGCCAATGTGCT
* *
951281 GATTCAAGGCCAGCGATATTGGACTT-A
61 GATTCAAGGCCAGCGACATTGGTCTTAA
* * ** * **
951308 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGGCATTGGTCTTAAAGACAAGGTGCCAATAAGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---GA-AAGGTGCCAATGTGCTG
*
951373 ATTCAAGGCCAGCG-CTATTAGTCTTAAAGACA
62 ATTCAAGGCCAGCGAC-ATTGGTCTT----A-A
*
951405 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCCGATTC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATTC
*
951469 AAGGCTAGCGACATTGGTCTTAAAAACA
66 AAGGCCAGCGACATTGGTCTT----A-A
** * *
951497 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGGTT-AAAGGTGCCAATGTGCTAAGTC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATTC
951561 AAGGCCAGCGACATTGGTCTTAAAGA
66 AAGGCCAGCGACATTGGTCTT--A-A
* *
951587 TGAAGGTGCCAATATGCTTATTCAAGGCAAGCGATATTGGACTTG-AAGGTGCCAATGTGCTGAT
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGAT
*
951651 TCAAGGCCAGCAACATTGGTCTTAAAGA
64 TCAAGGCCAGCGACATTGGTCTT--A-A
951679 CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTG-AAGGTGCCAATGTGCTGATT
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATT
*
951743 CAAGGCCAGCGACATTGGTCTGAAAGA
65 CAAGGCCAGCGACATTGGTCT--TA-A
* * * * *
951770 CAAGGTGCCAATATGCTGATTCATGGCCAACGATCTTGGTCTTAAAGACAAAGGTGCCAATATGC
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--AAAGGTGCCAATGTGC
* *
951835 TGATTCAAGGCCAGCGATATTGGACTT-A
60 TGATTCAAGGCCAGCGACATTGGTCTTAA
*** * * * *
951863 AAGGTGCCAATGCACCGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----G-AAAGGTGCCAATGTGCT
*
951928 GATTCAAGGCCAGCGATATTGGTCTTAAAGACA
61 GATTCAAGGCCAGCGACATTGGTCTT----A-A
*
951961 AAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATTC
952025 AAGGCCAGCGACATTGGTCTTAAAGA
66 AAGGCCAGCGACATTGGTCTT--A-A
952051 CAGAGGTGCCAATATGCTGATTCAAGGCC-GACGATATTGGACTT-AAAGGTGCCAATGTGCTGA
1 -A-AGGTGCCAATATGCTGATTCAAGGCCAG-CGATATTGGACTTGAAAGGTGCCAATGTGCTGA
*
952114 TTCACGGCCAGCGACATTGGTCTTAAAGACA
63 TTCAAGGCCAGCGACATTGGTCTT----A-A
*
952145 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT-AAAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATTC
**
952209 AAGGTTAGCGACATTGGTCTTAAAGACA
66 AAGGCCAGCGACATTGGTCTT----A-A
* * * *
952237 AAGGTGCCAATATGCCGATTGAAGGCCAGCGATATTGGGCTTAAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAG
952284 AAAATGCTAC
Statistics
Matches: 951, Mismatches: 82, Indels: 69
0.86 0.07 0.06
Matches are distributed among these distances:
90 8 0.01
91 163 0.17
92 652 0.69
93 12 0.01
94 4 0.00
97 76 0.08
98 36 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (88 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGTCTTAA
Found at i:952431 original size:67 final size:65
Alignment explanation
Indices: 952318--952857 Score: 481
Period size: 61 Copynumber: 8.3 Consensus size: 65
952308 TTTTGAAGGT
* * *
952318 TGCCACTGACTTGTGGGCTTTTGAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAATGGAA
1 TGCCACGGAGTTGTGGGC--TT-AAAAGGA-AAAGGTGCCACGGAGTTGTGGACTTAAAA-GG-A
952383 AAAAGA
60 AAAAGA
* * * * * * *
952389 TGTCGCGAAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTAGTGGGCTTTGAAAA-GAAAAA
1 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAA
*
952453 GG
64 GA
* * * *
952455 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAA
1 TGCCACGGAGTTGTGGGC-TTAAAAGGAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAA
952520 AG-
63 AGA
* *
952522 TGCCACAGAGTTGT--GCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAA
1 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
952584 GG
64 GA
* * * *
952586 TGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAGTTGTGGGCTTAAAAAGGAAAA
1 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGGAAAA
952651 AGA
63 AGA
* * *
952654 CTGCCACAGAGTTGTGGGCTTAAAA-G----GGTGCCATGGAGTTGTGGACTTAGAAGGAAAAAG
1 -TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
952714 A
65 A
*
952715 GTGCCACGGAGTTGTGGGCTTAAAA-G----GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 -TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
952775 A
65 A
* *
952776 GTGTCACGGAGTTGTGGGCTTAAAA-G---A-GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAG
1 -TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
952836 A
65 A
** *
952837 GTGCCACAAAATTGTGGGCTT
1 -TGCCACGGAGTTGTGGGCTT
952858 TGCAGAAAAT
Statistics
Matches: 411, Mismatches: 46, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
61 144 0.35
62 21 0.05
63 5 0.01
64 17 0.04
65 7 0.02
66 81 0.20
67 80 0.19
68 22 0.05
69 22 0.05
71 12 0.03
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (65 bp):
TGCCACGGAGTTGTGGGCTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:952447 original size:34 final size:34
Alignment explanation
Indices: 952313--952859 Score: 399
Period size: 34 Copynumber: 16.8 Consensus size: 34
952303 TGGGCTTTTG
* * *
952313 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGAGA
1 AAGG-TGCCACGGAGTTGTGGGC-TTTGAAAA-GAAA
* *
952350 AAGATGCCACGGAGTTGTGGAC-TT-AAAATGGAAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G-AAA
* * * * * *
952385 AAGATGTCGCGAAGTTGTGGAC-TT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* *
952417 AAGGTGCCATGGAGTAGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
952451 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
952484 AAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * *
952518 AAAGTGCCACAGAGTTGT--GCTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* *
952550 AAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
952582 AAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* *
952616 AAGGTGCCATGGAGTTGTGGGC-TTAAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAA
* *
952650 AAGACTGCCACAGAGTTGTGGGC-TT-AAAAG---
1 AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * * *
952680 --GGTGCCATGGAGTTGTGGACTTAG-AAGGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
952711 AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG---
1 AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * *
952741 --GGTGCCACGGAGTTGTGGACTTAG-AAGGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
952772 AAGAGTGTCACGGAGTTGTGGGC-TT-AAAAG---
1 AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* *
952802 -A-GTGCCACGAAGTTGTGGAC-TT-AAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAA
** *
952833 AAGAGTGCCACAAAATTGTGGGCTTTG
1 AAG-GTGCCACGGAGTTGTGGGCTTTG
952860 CAGAAAATGA
Statistics
Matches: 410, Mismatches: 62, Indels: 77
0.75 0.11 0.14
Matches are distributed among these distances:
27 55 0.13
28 11 0.03
29 1 0.00
32 74 0.18
33 59 0.14
34 145 0.35
35 47 0.11
36 15 0.04
37 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
Found at i:952686 original size:27 final size:27
Alignment explanation
Indices: 952648--952828 Score: 146
Period size: 27 Copynumber: 6.2 Consensus size: 27
952638 TTAAAAAGGA
* * *
952648 AAAAGACTGCCACAGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
* *
952675 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
*
952702 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGGAGTTGTGGACTT
*
952736 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
* *
952763 AGAAGGAAAAAGAGTGTCACGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGGAGTTGTGGACTT
*
952797 AAAAGAGTGCCACGAAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
952824 AAAAG
1 AAAAG
952829 GAAAAAGAGT
Statistics
Matches: 124, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
27 76 0.61
34 48 0.39
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:952874 original size:32 final size:32
Alignment explanation
Indices: 952797--952988 Score: 90
Period size: 32 Copynumber: 6.0 Consensus size: 32
952787 TTGTGGGCTT
* * * **
952797 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAAGA-TGCCACAAAATCGTGGACTTTGAA-GA
* * *
952831 AAAAGAGTGCCACAAAATTGTGGGCTTTGCAGA
1 AAAAGA-TGCCACAAAATCGTGGACTTTGAAGA
* * *
952864 AAATGATGCCACTAAGTCGTGGACTTTGAA-A
1 AAAAGATGCCACAAAATCGTGGACTTTGAAGA
* * *
952895 AAAAGGATGCCACTAAGTCATGGACTTTG-AGA
1 AAAA-GATGCCACAAAATCGTGGACTTTGAAGA
* ** * *
952927 TAAA-ATGCCACTGAGTCGTGGGCTTTG-AG-
1 AAAAGATGCCACAAAATCGTGGACTTTGAAGA
* ** *
952956 AAGAGATTGCCACTGAGTCGTGGACTTT-AAGA
1 AAAAGA-TGCCACAAAATCGTGGACTTTGAAGA
952988 A
1 A
952989 GGTATTTGAA
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.02
30 23 0.18
31 27 0.21
32 47 0.36
33 7 0.05
34 25 0.19
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (32 bp):
AAAAGATGCCACAAAATCGTGGACTTTGAAGA
Found at i:952970 original size:31 final size:31
Alignment explanation
Indices: 952850--952988 Score: 140
Period size: 32 Copynumber: 4.5 Consensus size: 31
952840 CCACAAAATT
* *
952850 GTGGGCTTTGCAGAAAATGATGCCACTAAGTC
1 GTGGACTTTG-AGAAAAGGATGCCACTAAGTC
*
952882 GTGGACTTTGAAAAAAAGGATGCCACTAAGTC
1 GTGGACTTTG-AGAAAAGGATGCCACTAAGTC
* *
952914 ATGGACTTTGAGATAAA--ATGCCACTGAGTC
1 GTGGACTTTGAGA-AAAGGATGCCACTAAGTC
* * *
952944 GTGGGCTTTGAGAAGA-GATTGCCACTGAGTC
1 GTGGACTTTGAGAAAAGGA-TGCCACTAAGTC
*
952975 GTGGACTTTAAGAA
1 GTGGACTTTGAGAA
952989 GGTATTTGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.02
30 24 0.26
31 26 0.28
32 40 0.43
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (31 bp):
GTGGACTTTGAGAAAAGGATGCCACTAAGTC
Found at i:952989 original size:31 final size:30
Alignment explanation
Indices: 952868--952989 Score: 120
Period size: 31 Copynumber: 4.0 Consensus size: 30
952858 TGCAGAAAAT
* *
952868 GATGCCACTAAGTCGTGGACTTTGAAAAAAA
1 GATGCCACTAAGTCGTGGACTTT-AAGAAGA
* *
952899 GGATGCCACTAAGTCATGGACTTTGAGATA-A
1 -GATGCCACTAAGTCGTGGACTTTAAGA-AGA
* * * *
952930 AATGCCACTGAGTCGTGGGCTTTGAGAAGA
1 GATGCCACTAAGTCGTGGACTTTAAGAAGA
*
952960 GATTGCCACTGAGTCGTGGACTTTAAGAAG
1 GA-TGCCACTAAGTCGTGGACTTTAAGAAG
952990 GTATTTGAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.01
30 25 0.32
31 28 0.36
32 23 0.30
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (30 bp):
GATGCCACTAAGTCGTGGACTTTAAGAAGA
Found at i:954004 original size:16 final size:15
Alignment explanation
Indices: 953983--954023 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
953973 CTCACCGATA
953983 TTTTCTGTTTTATTTT
1 TTTTCTGTTTT-TTTT
*
953999 TTTTCTCTTTTTTTT
1 TTTTCTGTTTTTTTT
*
954014 TTTTGTGTTT
1 TTTTCTGTTT
954024 GGAAAAGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTCTGTTTTTTTT
Found at i:954013 original size:15 final size:16
Alignment explanation
Indices: 953983--954017 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
953973 CTCACCGATA
*
953983 TTTTCTGTTTTATTTT
1 TTTTCTCTTTTATTTT
953999 TTTTCTCTTTT-TTTT
1 TTTTCTCTTTTATTTT
954014 TTTT
1 TTTT
954018 GTGTTTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTCTCTTTTATTTT
Found at i:954290 original size:6 final size:6
Alignment explanation
Indices: 954261--954318 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
954251 GTCTTCTCTC
954261 TTTTT- TTTTGTG TATTTT- TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTT-TG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
954309 TGTTTT- TTTT
1 T-TTTTG TTTT
954319 AACTTTTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
5 11 0.23
6 28 0.58
7 6 0.12
8 3 0.06
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:958117 original size:52 final size:52
Alignment explanation
Indices: 957973--958101 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
957963 CAAAATATGA
* *
957973 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGACACATCTAGGC
*
958025 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGACACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGACACATCTAGGC
*
958077 AAATTTGCCTGCATTTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
958102 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGACACATCTAGGC
Found at i:958128 original size:13 final size:13
Alignment explanation
Indices: 958110--958134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
958100 CAAAGATCAG
958110 TGTATCGATACAA
1 TGTATCGATACAA
958123 TGTATCGATACA
1 TGTATCGATACA
958135 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.