Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold118
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: 1286304
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 8
Found at i:683366 original size:91 final size:83
Alignment explanation
Indices: 683299--683598 Score: 355
Period size: 78 Copynumber: 3.6 Consensus size: 83
683289 CGTGGCAACC
683299 TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGAATCCTT
1 TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGAATCCTT
*
683364 TTAAAGTCCACAACTCTG
66 TTAAAGTCCACAACTCTA
* * *
683382 TGGCAACCTTTTAAGTCCACAACTCCGTGGGCATCCTTTTAAAGTCCACAACTCCGTGGGCATCC
1 TGGCATCCTTTTAAGTCCACAACTCCGT-GGCATCCTTTTAAAGTCCACAACTCCAT-GGAATCC
* * *
683447 TTTTAAAGTCCATAA-TTTCG
64 TTTTAAAGTCCACAACTCT-A
*
683467 TGGCATCCTTTTAAAGTCTACAACTCCGTGGCATCCTTTTAAAGT---C--C-CCATGGCAA-CC
1 TGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGG-AATCC
* **
683525 ATTTAAAGTCCACAACTCCG
64 TTTTAAAGTCCACAACTCTA
* * * *
683545 TAGCATCCTTTTAAAGTCCACAACTCCGTGGTATCCTTTTTAAGTCCATAACTC
1 TGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTC
683599 TCTAGTCTGG
Statistics
Matches: 187, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
78 59 0.32
79 5 0.03
80 1 0.01
82 1 0.01
83 28 0.15
84 30 0.16
85 48 0.26
86 15 0.08
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (83 bp):
TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGAATCCTT
TTAAAGTCCACAACTCTA
Found at i:685687 original size:19 final size:19
Alignment explanation
Indices: 685663--685712 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
685653 AAACAGTAAC
685663 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
685682 TGTATCGATACGTAAGTGT
1 TGTATCGATACATAAGTGT
*
685701 TGTAACGATACA
1 TGTATCGATACA
685713 ATGTATCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:685762 original size:13 final size:13
Alignment explanation
Indices: 685744--685771 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
685734 GTCAAGGAAA
685744 TGTATCGATACAT
1 TGTATCGATACAT
685757 TGTATCGATACAT
1 TGTATCGATACAT
685770 TG
1 TG
685772 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:689026 original size:20 final size:20
Alignment explanation
Indices: 689001--689051 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
688991 GTAAACCCAG
689001 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
689021 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAC
689041 AATGTATCGAT
1 AATGTATCGAT
689052 TCAAATTGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:689367 original size:30 final size:29
Alignment explanation
Indices: 689294--689503 Score: 203
Period size: 30 Copynumber: 7.1 Consensus size: 29
689284 TGGCAACTCC
* *
689294 TTTCAAAGCC-CATAAGTCAGTAGCATCT
1 TTTCAAAGCCACACAAGTCAGTGGCATCT
689322 CTTTCAAAG-CACACAAGTCAGTGGCATCT
1 -TTTCAAAGCCACACAAGTCAGTGGCATCT
*
689351 TTTCAAAGCCCACACAAGTCAGTGACAACTCT
1 TTTCAAAG-CCACACAAGTCAGTGGC-A-TCT
*
689383 TTTCAAAGCC-CATAAGTCAGTGGCATCT
1 TTTCAAAGCCACACAAGTCAGTGGCATCT
* *
689411 TTTCAAAGCCCACACAAGTCAGTGGTAACTCC
1 TTTCAAAG-CCACACAAGTCAGTGG-CA-TCT
* * *
689443 TTTCAAAGCC-CACAAGTCTGTGGCACCC
1 TTTCAAAGCCACACAAGTCAGTGGCATCT
* * * *
689471 CTTCAAAGCCCACATAAGTTAGTGGCACCT
1 TTTCAAAG-CCACACAAGTCAGTGGCATCT
689501 TTT
1 TTT
689504 TTTAAAAAGC
Statistics
Matches: 153, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
28 29 0.19
29 30 0.20
30 67 0.44
31 6 0.04
32 21 0.14
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
TTTCAAAGCCACACAAGTCAGTGGCATCT
Found at i:689487 original size:90 final size:88
Alignment explanation
Indices: 689287--689503 Score: 253
Period size: 90 Copynumber: 2.4 Consensus size: 88
689277 CTACAGGTGG
* * * *
689287 CAACTCCTTTCAAAGCCCATAAGTCAGTAGCATCTCTTTCAAAGCACACAAGTCAGTGGCATCTT
1 CAACTCCCTTCAAAGCCCATAAGTCAGTGGCATCT-TTTCAAAGCACACAAGTCAGTGGAATCCT
689352 TTCAAAGCCCACACAAGTCAGTGA
65 TTCAAAGCCCACACAAGTCAGTGA
**
689376 CAACTCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGTAACT
1 CAACTCCCTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAG--CACACAAGTCAGTGG-AA-T
* *
689441 CCTTTCAAAG-CC-CACAAGTCTGTGG
62 CCTTTCAAAGCCCACACAAGTCAGTGA
* *
689466 C-AC-CCCTTCAAAGCCCACATAAGTTAGTGGCACCTTTT
1 CAACTCCCTTCAAAG-CC-CATAAGTCAGTGGCATCTTTT
689504 TTTAAAAAGC
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
88 16 0.14
89 37 0.33
90 46 0.41
91 3 0.03
92 10 0.09
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (88 bp):
CAACTCCCTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCACACAAGTCAGTGGAATCCTT
TCAAAGCCCACACAAGTCAGTGA
Found at i:689495 original size:60 final size:60
Alignment explanation
Indices: 689294--689497 Score: 261
Period size: 60 Copynumber: 3.5 Consensus size: 60
689284 TGGCAACTCC
* * * *
689294 TTTCAAAG-CC-CATAAGTCAGTAGCATCT-CTTTCAAAGCACACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
689351 TTTCAAAGCCCACACAAGTCAGTGACAACTCTTTTCAAAGCCCATAAGTCAGTGGCATCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
689411 TTTCAAAGCCCACACAAGTCAGTGGTAACTCCTTTCAAAGCCCACAAGTCTGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
689471 CTTCAAAGCCCACATAAGTTAGTGGCA
1 TTTCAAAGCCCACACAAGTCAGTGGCA
689498 CCTTTTTTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
57 8 0.06
58 2 0.02
59 14 0.11
60 102 0.81
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTCAGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:689646 original size:25 final size:24
Alignment explanation
Indices: 689577--689647 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 24
689567 TCCGATATCA
689577 CTGGCCTTGAATCAGCACATTGTC
1 CTGGCCTTGAATCAGCACATTGTC
* * * * *
689601 C--ACCTT-TATTAGCTCAATGTC
1 CTGGCCTTGAATCAGCACATTGTC
689622 GCTGGCCTTGAATCAGCACATTGTC
1 -CTGGCCTTGAATCAGCACATTGTC
689647 C
1 C
689648 ACTTTTCCCT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
21 11 0.33
22 5 0.15
24 6 0.18
25 11 0.33
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (24 bp):
CTGGCCTTGAATCAGCACATTGTC
Found at i:689680 original size:48 final size:48
Alignment explanation
Indices: 689577--689788 Score: 275
Period size: 48 Copynumber: 4.5 Consensus size: 48
689567 TCCGATATCA
* *
689577 CTGGCCTTGAATCAGCACATTGTCCACCTTT--ATTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
* *
689623 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCCCAACGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
* * * * *
689671 TTGGCCTTGAATCAGCATATTGTCTACTTGTCCCTTAGCTCAATGCCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
* * *
689719 CTGGCCTTGAATCAGTACATTGTCCACTCTTCCCTTAGCTCGATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
* **
689767 TTGGCCTTGAATTGGCACATTG
1 CTGGCCTTGAATCAGCACATTG
689789 GCACTCCTCT
Statistics
Matches: 141, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
46 30 0.21
48 111 0.79
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
Found at i:690526 original size:20 final size:20
Alignment explanation
Indices: 690498--690574 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
690488 TTTTACCTAG
* *
690498 ATGTTTCGACACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
690518 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
690538 ATGTATCGATACATTCTTCG
1 ATGTATCGATACATTTTTCA
*
690558 ATGTATTGATACATTTT
1 ATGTATCGATACATTTT
690575 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:700453 original size:52 final size:52
Alignment explanation
Indices: 700391--700516 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 52
700381 ATCGATACGT
*
700391 TGAAGAATGTATTGATACATTTAGGTCAAAAACCCAGAATATATCT-ATACAA
1 TGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATAT-TGATACAA
* * * * *
700443 TGAAGAATGTATCAATATATTTGGGTCAAAAACCTAGAATGTATTGATACAA
1 TGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATTGATACAA
*
700495 TGAAAAATGTATCGATACATTT
1 TGAAGAATGTATCGATACATTT
700517 TTTTCCAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 1 0.02
52 63 0.98
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (52 bp):
TGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATTGATACAA
Found at i:700609 original size:21 final size:19
Alignment explanation
Indices: 700570--700611 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
700560 ACAGTTCAAG
*
700570 CATTACTTATGTATTGATA
1 CATTACTTATGTATCGATA
700589 CATTCACTTATTGTATCGATA
1 CATT-ACTTA-TGTATCGATA
700610 CA
1 CA
700612 AATTATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (19 bp):
CATTACTTATGTATCGATA
Found at i:702839 original size:78 final size:79
Alignment explanation
Indices: 702752--702897 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 79
702742 AAAAAAAACA
* * ** * ** *
702752 AGTTGGAGTATCCCCGAGAATGTAAATTCAAGATTATTTGTAA-AAAAATGAGGTTGGAGTATCC
1 AGTTAGAGTATCCCCAAGAACATAAATTCAAGATTATTTATAAGAAAAACAAAGTTGGAGTATCC
702816 TTTAAGAGAGATGG
66 TTTAAGAGAGATGG
* *
702830 AGTTAGAGTATCCTCAAGAACATAAATTCAAGATTTTTTATAAGAAAAACAAAGTTGGAGTATCC
1 AGTTAGAGTATCCCCAAGAACATAAATTCAAGATTATTTATAAGAAAAACAAAGTTGGAGTATCC
702895 TTT
66 TTT
702898 CGAAAAGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 36 0.63
79 21 0.37
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (79 bp):
AGTTAGAGTATCCCCAAGAACATAAATTCAAGATTATTTATAAGAAAAACAAAGTTGGAGTATCC
TTTAAGAGAGATGG
Found at i:702926 original size:79 final size:78
Alignment explanation
Indices: 702774--702926 Score: 177
Period size: 79 Copynumber: 1.9 Consensus size: 78
702764 CCCGAGAATG
* ** * * *
702774 TAAATTCAAGATTATTTGTAAAAAAATGAGGTTGGAGTATCCTTTAAGAGAGATGGAGTTAGAGT
1 TAAATTCAAGATTATTTATAAAAAAACAAAGTTGGAGTATCCTTTAAGAGAGATAGAGTTAAAGT
*
702839 ATCCTCAAGAACA
66 ACCCTCAAGAACA
*
702852 TAAATTCAAGATTTTTTATAAGAAAAACAAAGTTGGAGTATCCTTTCGAA-A-AGATAGA-TTAA
1 TAAATTCAAGATTATTTATAA-AAAAACAAAGTTGGAGTATCCTTT--AAGAGAGATAGAGTTAA
702914 AGTACCCTTCAAG
63 AGTACCC-TCAAG
702927 GATGAAAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
78 28 0.44
79 32 0.51
80 1 0.02
81 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.30
Consensus pattern (78 bp):
TAAATTCAAGATTATTTATAAAAAAACAAAGTTGGAGTATCCTTTAAGAGAGATAGAGTTAAAGT
ACCCTCAAGAACA
Found at i:703203 original size:23 final size:23
Alignment explanation
Indices: 703173--703220 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
703163 TTTGAAGACA
*
703173 ATACAATTTTGTTCTAAGCCTTG
1 ATACAATTTTGGTCTAAGCCTTG
703196 ATACAATTTTGGTCTAAGCCTTG
1 ATACAATTTTGGTCTAAGCCTTG
703219 AT
1 AT
703221 CCGAAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (23 bp):
ATACAATTTTGGTCTAAGCCTTG
Found at i:706661 original size:23 final size:24
Alignment explanation
Indices: 706627--706671 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
706617 GATGCATGAA
*
706627 TTTTGATTAAAAATA-AATCCAGG
1 TTTTGATAAAAAATATAATCCAGG
*
706650 TTTTGATAAAAATTATAATCCA
1 TTTTGATAAAAAATATAATCCA
706672 ATATGTGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (24 bp):
TTTTGATAAAAAATATAATCCAGG
Found at i:707357 original size:13 final size:13
Alignment explanation
Indices: 707339--707365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
707329 ACATTATGCT
707339 TTGTATCGATACA
1 TTGTATCGATACA
707352 TTGTATCGATACA
1 TTGTATCGATACA
707365 T
1 T
707366 GTTCATTGTA
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:707440 original size:20 final size:20
Alignment explanation
Indices: 707415--707464 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
707405 TACCACTATT
707415 TGTATCGATACATGGCACAA
1 TGTATCGATACATGGCACAA
707435 TGTATCGATACATGGCACAA
1 TGTATCGATACATGGCACAA
707455 TGTATCGATA
1 TGTATCGATA
707465 TAATGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATGGCACAA
Found at i:707492 original size:33 final size:33
Alignment explanation
Indices: 707433--707497 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
707423 TACATGGCAC
* *
707433 AATGTATCGATACATGGCACAATGTATCGATAT
1 AATGTATCAATACATGGAACAATGTATCGATAT
*
707466 AATGTATCAATACAT-GAAGAATTGTATCGATA
1 AATGTATCAATACATGGAACAA-TGTATCGATA
707498 CATTACCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
AATGTATCAATACATGGAACAATGTATCGATAT
Found at i:715189 original size:33 final size:33
Alignment explanation
Indices: 715147--715213 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
715137 CGAGAGTTGA
715147 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
715180 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGCACT
715213 T
1 T
715214 TAGTTCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (33 bp):
TCACTTCACTTTCGCAGCGCATGGATGAGCACT
Found at i:715514 original size:14 final size:12
Alignment explanation
Indices: 715481--715506 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
715471 GGAGAGAGTT
715481 TTTGAAAATAAA
1 TTTGAAAATAAA
715493 TTTGAAAATAAA
1 TTTGAAAATAAA
715505 TT
1 TT
715507 CTTGAAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (12 bp):
TTTGAAAATAAA
Found at i:716212 original size:20 final size:20
Alignment explanation
Indices: 716186--716239 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
716176 CTGCCACTGT
*
716186 TTGTATCGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
716207 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
716226 TTGTATCGATACAT
1 TTGTATCGATACAT
716240 TGCCTCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:720305 original size:19 final size:20
Alignment explanation
Indices: 720264--720314 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
720254 CACACCCAGA
*
720264 TGTAACGATACATATTGCTT
1 TGTATCGATACATATTGCTT
*
720284 TGTATCGATACATGTT-CTT
1 TGTATCGATACATATTGCTT
720303 TGTATCGATACA
1 TGTATCGATACA
720315 CCATAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:722286 original size:13 final size:13
Alignment explanation
Indices: 722268--722292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
722258 ACCTAGTCAG
722268 CATAAATTTGTTT
1 CATAAATTTGTTT
722281 CATAAATTTGTT
1 CATAAATTTGTT
722293 CAAATGAAAA
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:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
CATAAATTTGTTT
Found at i:725831 original size:52 final size:52
Alignment explanation
Indices: 725753--725880 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
725743 CGAAATATGA
*
725753 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
725805 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
725857 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
725881 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:725907 original size:13 final size:13
Alignment explanation
Indices: 725889--725913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725879 CAAAGATCAG
725889 TGTATCGATACAA
1 TGTATCGATACAA
725902 TGTATCGATACA
1 TGTATCGATACA
725914 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:725995 original size:13 final size:13
Alignment explanation
Indices: 725977--726001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725967 CAAAAAAATA
725977 TGTATCGATACAT
1 TGTATCGATACAT
725990 TGTATCGATACA
1 TGTATCGATACA
726002 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:725997 original size:33 final size:33
Alignment explanation
Indices: 725955--726021 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
725945 AGTAGCTTAA
725955 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
725988 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
726021 A
1 A
726022 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:726541 original size:32 final size:33
Alignment explanation
Indices: 726489--726550 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
726479 CACCTAAACG
726489 TATCGATACATATTGCTTTGTATCGATACATTA
1 TATCGATACATATTGCTTTGTATCGATACATTA
* *
726522 TATCTATACATGTT-CTTTGTATCGATACA
1 TATCGATACATATTGCTTTGTATCGATACA
726551 CCTTAAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (33 bp):
TATCGATACATATTGCTTTGTATCGATACATTA
Found at i:735612 original size:27 final size:27
Alignment explanation
Indices: 735581--735728 Score: 143
Period size: 27 Copynumber: 5.2 Consensus size: 27
735571 CTTAAAAGGA
*
735581 AAAAGAGTTCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
* *
735608 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
* *
735635 AAAAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGA-GTGCCACGGAGTTGTGGACTT
* * *
735663 AAAAGGGAAAAAGATGCCATGGAGTTGTTGAATT
1 AAAA--G----AG-TGCCACGGAGTTGTGGACTT
*
735697 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
735724 AAAAG
1 AAAAG
735729 GAAAAAAAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
27 50 0.51
28 26 0.26
32 1 0.01
33 1 0.01
34 21 0.21
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:735715 original size:89 final size:88
Alignment explanation
Indices: 735561--736007 Score: 386
Period size: 89 Copynumber: 4.9 Consensus size: 88
735551 ACTCGACCTG
* * *
735561 GAGTTGTGGACTTAAAAGGAAAAAGAGTTCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
735626 TGTGGACTTAAAAAAGGTGCCACA
65 TGTGGACTTAAAAAAGGTGCCACA
* * *
735650 GAGTTGTGGACTTAAAAGGGAAAAAGATGCCATGGAGTTGTTGAATTAAAAGGGTGCCACGGAGT
1 GAGTTGTGGACTTAAAA-GGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
735715 TGTGGACTTAAAAGGAAAAAAAAGGTGCAATA
65 TGTGGACTT--------AAAAAAGGTGCCACA
*** ** *
735747 GAGTTGTGGACTTAAAAGG-AAAAGGTGCCACAAAGTCATGGACTTAAAAGGAAAAGGTGCCACC
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCATGGAGTTGTGGACTTAAAA-G----GGTGCCACG
*
735811 GAGTTGTGGACGTAAAGAAAAAAGGTGCCACA
61 GAGTTGTGGAC-T---TAAAAAAGGTGCCACA
* * * * *
735843 GAGTTATGGACTT------AAAAAGGTGCCATAGAATTGTGGACTTAAAGGAAAAAGGTGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCATGGAGTTGTGGACTT-----AAAAGGGTGCCACG
*
735902 GAGTTGTGGACTTAAAAAAGGTGCCACG
61 GAGTTGTGGACTTAAAAAAGGTGCCACA
* * * *
735930 GAGTAGTGGACTTAAAAAGGAAAAGGGTGCCATGGAGTTGTGGACCTAAAAGGGTGCCACGAAGT
1 GAGTTGTGGACTT-AAAAGGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
735995 TGTGGACTCAAAA
65 TGTGGACTTAAAA
736008 GGAAAAAGGC
Statistics
Matches: 286, Mismatches: 41, Indels: 62
0.74 0.11 0.16
Matches are distributed among these distances:
87 25 0.09
89 86 0.30
90 9 0.03
91 39 0.14
94 23 0.08
95 22 0.08
96 32 0.11
97 30 0.10
100 19 0.07
101 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (88 bp):
GAGTTGTGGACTTAAAAGGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
GTGGACTTAAAAAAGGTGCCACA
Found at i:735789 original size:32 final size:32
Alignment explanation
Indices: 735560--736195 Score: 505
Period size: 32 Copynumber: 20.4 Consensus size: 32
735550 CACTCGACCT
*
735560 GGAGTTGTGGACTTAAAAGGAAAAAGAGTTCCAC
1 GGAGTTGTGGACTTAAAAGG-AAAAG-GTGCCAC
735594 GGAGTTGTGGACTTAAAA-G----GGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
*
735621 AGAGTTGTGGACTT--AA--AAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* * *
735649 AGAGTTGTGGACTTAAAAGGGAAAAAGATGCCAT
1 GGAGTTGTGGACTTAAAA-GG-AAAAGGTGCCAC
* *
735683 GGAGTTGTTGAATTAAAA-G----GGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* *
735710 GGAGTTGTGGACTTAAAAGGAAAAAAAAGGTGCAAT
1 GGAGTTGTGGACTTAAAAGG----AAAAGGTGCCAC
*
735746 AGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
** **
735778 AAAGTCATGGACTTAAAAGGAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* * *
735810 CGAGTTGTGGACGT-AAAGAAAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAG-GAAAAGGTGCCAC
* * *
735842 AGAGTTATGGACTT---A--AAAAGGTGCCAT
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* * *
735869 AGAATTGTGGACTT-AAAGGAAAAAGGTGCCAT
1 GGAGTTGTGGACTTAAAAGG-AAAAGGTGCCAC
735901 GGAGTTGTGGACTT--AA--AAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* *
735929 GGAGTAGTGGACTTAAAAAGGAAAAGGGTGCCAT
1 GGAGTTGTGGACTT-AAAAGGAAAA-GGTGCCAC
*
735963 GGAGTTGTGGACCTAAAA-G----GGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* * * *
735990 GAAGTTGTGGACTCAAAAGGAAAAAGGCTACCAT
1 GGAGTTGTGGACTTAAAAGG-AAAAGG-TGCCAC
** * *
736024 GGAGTCATGGACTTAAAAAGAAAAGGCGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* *
736056 GGAGTTATGGACTTAAAAGGAAAAAGGGTTCCAC
1 GGAGTTGTGGACTTAAAAGG-AAAA-GGTGCCAC
*
736090 GGAGTTGTGGACTTAAAAAGAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* *
736122 GAAGTTGTGGACTT--AA--AAAAGATGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
* *
736150 AGAGCTGTGGACTT-AAAGGAAAAAGGTGCCAC
1 GGAGTTGTGGACTTAAAAGG-AAAAGGTGCCAC
736182 GGAGTTGTGGACTT
1 GGAGTTGTGGACTT
736196 GGAGGAAAAA
Statistics
Matches: 491, Mismatches: 67, Indels: 90
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.00
27 86 0.18
28 71 0.14
29 3 0.01
30 5 0.01
31 8 0.02
32 161 0.33
33 25 0.05
34 105 0.21
36 25 0.05
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (32 bp):
GGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC
Found at i:735980 original size:27 final size:27
Alignment explanation
Indices: 735950--736009 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
735940 CTTAAAAAGG
* *
735950 AAAAGGGTGCCATGGAGTTGTGGAC-C
1 AAAAGGGTGCCACGAAGTTGTGGACTC
735976 TAAAAGGGTGCCACGAAGTTGTGGACTC
1 -AAAAGGGTGCCACGAAGTTGTGGACTC
736004 AAAAGG
1 AAAAGG
736010 AAAAAGGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.35, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTGTGGACTC
Found at i:736077 original size:66 final size:64
Alignment explanation
Indices: 735697--736195 Score: 424
Period size: 60 Copynumber: 7.9 Consensus size: 64
735687 TTGTTGAATT
* * * **
735697 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAAGGTGCAATAGAGTTGTGGACTTAA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAA-G----AAAAGGTGCCACGGAGTTGTGGACTTAA
735762 AAGG
61 AAGG
** * * * *
735766 -AAAAGGTGCCACAAAGTCATGGACTTAAAAGGAAAAGGTGCCACCGAGTTGTGGACGT-AAAGA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAA-GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* ** *
735829 AAAAAGGTGCCACAGAGTTATGGACTT---A-AAAAGGTGCCATAGAATTGTGGACTT-AAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
735888 AAAAAGGTGCCATGGAGTTGTGGACTT--AA-AAAAGGTGCCACGGAGTAGTGGACTTAAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGG
* * * * * *
735950 AAAAGGGTGCCATGGAGTTGTGGACCTAAAAG----GGTGCCACGAAGTTGTGGACTCAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * * *
736010 AAAAAGGCTACCATGGAGTCATGGACTTAAAAAGAAAAGGCGCCACGGAGTTATGGACTTAAAAG
1 AAAAAGG-TGCCACGGAGTTATGGACTT-AAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
736075 G
64 G
* * *
736076 AAAAAGGGTTCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGAAGTTGTGGACTT---A-
1 AAAAA-GGTGCCACGGAGTTATGGACTT-AAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
736137 -
64 G
* * * * *
736137 AAAAAGATGCCACAGAGCTGTGGACTTAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAG-AAAAGGTGCCACGGAGTTGTGGACTT
736196 GGAGGAAAAA
Statistics
Matches: 364, Mismatches: 51, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
59 54 0.15
60 78 0.21
61 41 0.11
62 35 0.10
63 5 0.01
64 48 0.13
66 74 0.20
67 2 0.01
68 27 0.07
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (64 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:736116 original size:280 final size:279
Alignment explanation
Indices: 735608--736195 Score: 806
Period size: 280 Copynumber: 2.1 Consensus size: 279
735598 TTGTGGACTT
* * * *
735608 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGGAAA
* * * *
735673 AAGATGCCATGGAGTTGTTGAATTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAA
66 AAGATGCCATGGAGTTGTGGAACTAAAAGGGTGCCACGAAGTTGTGGACTCAAAAGG--AAAAAA
* ** * *
735738 GGTGCAATAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACAAAGTCATGGACTTAAAAGGAAAAG
129 GGTACAATAGAGTCATGGACTTAAAAAGAAAAGGCGCCACAAAGTCATGGACTTAAAAGGAAAAG
*
735803 GTGCCACCGAGTTGTGGACGTAAAGAAAAAAGGTGCCAC-AGAGTTATGGACTT-AAAAAGGTGC
194 GTGCCACCGAGTTGTGGACGTAAAGAAAAAAGGTGCCACGA-AGTTATGGACTTAAAAAAGATGC
* *
735866 CATAGAATTGTGGACTTAAAGG
258 CACAGAACTGTGGACTTAAAGG
* *
735888 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTAGTGGACTTAAAAAGGAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGGAAA
* * *
735953 AGGGTGCCATGGAGTTGTGGACCTAAAAGGGTGCCACGAAGTTGTGGACTCAAAAGG-AAAAAGG
66 AAGATGCCATGGAGTTGTGGAACTAAAAGGGTGCCACGAAGTTGTGGACTCAAAAGGAAAAAAGG
* * ** *
736017 CTACCATGGAGTCATGGACTTAAAAAGAAAAGGCGCCACGGAGTTATGGACTTAAAAGGAAAAAG
131 -TACAATAGAGTCATGGACTTAAAAAGAAAAGGCGCCACAAAGTCATGGACTTAAAAGG-AAAA-
* * * *
736082 GGTTCCACGGAGTTGTGGACTTAAA-AAGAAAAGGTGCCACGAAGTTGTGGACTTAAAAAAGATG
193 GGTGCCACCGAGTTGTGGACGTAAAGAA-AAAAGGTGCCACGAAGTTATGGACTTAAAAAAGATG
*
736146 CCACAGAGCTGTGGACTTAAAGG
257 CCACAGAACTGTGGACTTAAAGG
736169 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
736196 GGAGGAAAAA
Statistics
Matches: 270, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
277 7 0.03
278 48 0.18
279 6 0.02
280 154 0.57
281 55 0.20
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (279 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGGAAA
AAGATGCCATGGAGTTGTGGAACTAAAAGGGTGCCACGAAGTTGTGGACTCAAAAGGAAAAAAGG
TACAATAGAGTCATGGACTTAAAAAGAAAAGGCGCCACAAAGTCATGGACTTAAAAGGAAAAGGT
GCCACCGAGTTGTGGACGTAAAGAAAAAAGGTGCCACGAAGTTATGGACTTAAAAAAGATGCCAC
AGAACTGTGGACTTAAAGG
Found at i:736215 original size:35 final size:33
Alignment explanation
Indices: 736136--736354 Score: 122
Period size: 30 Copynumber: 6.8 Consensus size: 33
736126 TTGTGGACTT
* **
736136 AAAAAAGATGCCACAGAGCTGTGGACTTAAAGG
1 AAAAAAGATGCCACAGAGTTGTGGACTTGGAGG
* *
736169 -AAAAAGGTGCCACGGAGTTGTGGACTTGGAGG
1 AAAAAAGATGCCACAGAGTTGTGGACTTGGAGG
*
736201 AAAAAAAAGATGCCACTA-AGTCGTGGACTTGGA-G
1 --AAAAAAGATGCCAC-AGAGTTGTGGACTTGGAGG
* * *
736235 --AAGAGATGCCACTGAGTCGTGGACTT--AGG
1 AAAAAAGATGCCACAGAGTTGTGGACTTGGAGG
** * **
736264 -AAGGAGATGCCACTGAGTCATGGACTTTGGGAGG
1 AAAAAAGATGCCACAGAGTTGTGGAC-TT-GGAGG
* *
736298 -AAAAGGATGCCACTA-AGTCGTGGACTT--A-G
1 AAAAAAGATGCCAC-AGAGTTGTGGACTTGGAGG
* * *
736327 AAAAGAGATGCCACTGAGTCGTGGACTT
1 AAAAAAGATGCCACAGAGTTGTGGACTT
736355 TTTGGAAAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.01
29 2 0.01
30 69 0.45
31 2 0.01
32 27 0.18
33 2 0.01
34 23 0.15
35 26 0.17
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAAAAGATGCCACAGAGTTGTGGACTTGGAGG
Found at i:736242 original size:30 final size:31
Alignment explanation
Indices: 736208--736354 Score: 183
Period size: 30 Copynumber: 4.7 Consensus size: 31
736198 AGGAAAAAAA
*
736208 AGATGCCACTAAGTCGTGGACTT-GGAGAAG
1 AGATGCCACTGAGTCGTGGACTTAGGAGAAG
*
736238 AGATGCCACTGAGTCGTGGACTTAGGA-AGG
1 AGATGCCACTGAGTCGTGGACTTAGGAGAAG
* * *
736268 AGATGCCACTGAGTCATGGACTTTGGGAGGAAA
1 AGATGCCACTGAGTCGTGGAC-TTAGGA-GAAG
* *
736301 AGGATGCCACTAAGTCGTGGACTTA-GAAAAG
1 A-GATGCCACTGAGTCGTGGACTTAGGAGAAG
736332 AGATGCCACTGAGTCGTGGACTT
1 AGATGCCACTGAGTCGTGGACTT
736355 TTTGGAAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
30 65 0.65
31 11 0.11
32 2 0.02
33 4 0.04
34 18 0.18
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (31 bp):
AGATGCCACTGAGTCGTGGACTTAGGAGAAG
Found at i:736320 original size:64 final size:61
Alignment explanation
Indices: 736108--736355 Score: 218
Period size: 64 Copynumber: 4.0 Consensus size: 61
736098 GGACTTAAAA
* * * * *
736108 AGAAAAGGTGCCACGAAGTTGTGGACTTA-AAAA-AGATGCCACAGAG-CTGTGGACTTAAAGG
1 AGAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTC-GTGGACTT--TGG
* ** * * *
736169 A-AAAAGGTGCCACGGAGTTGTGGACTTGGAGGAAAAAAAAGATGCCACTAAGTCGTGGAC-TTG
1 AGAAAAGATGCCACTAAGTCGTGGACTT--A-G--AAAAGAGATGCCACTGAGTCGTGGACTTTG
736232 G
61 G
* * * * *
736233 AGAAGAGATGCCACTGAGTCGTGGACTTAGGAAGGAGATGCCACTGAGTCATGGACTTTGGG
1 AGAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT-GG
736295 AGGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT
1 A-GAAAA-GATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT
736356 TTGGAAAAAG
Statistics
Matches: 156, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
60 46 0.29
61 3 0.02
62 5 0.03
63 5 0.03
64 52 0.33
65 22 0.14
66 5 0.03
67 17 0.11
68 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (61 bp):
AGAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGG
Found at i:736333 original size:94 final size:96
Alignment explanation
Indices: 736107--736354 Score: 301
Period size: 94 Copynumber: 2.6 Consensus size: 96
736097 TGGACTTAAA
* * *
736107 AAGAAAAGG-TGCCACGAAGTTGTGGACTTA-AAAA-AGATGCCACAGAG-CTGTGGACTTAAAG
1 AAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTC-GTGGACTT-AAG
* **
736168 GAAAAAGGTGCCACGGAGTTGTGGACTTGGAGG
64 GAAAAAGATGCCACGGAGTCATGGACTTGGAGG
* * * *
736201 AAAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGGACTT-AGGA
1 AAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTAAGGA
** * *
736265 AGGAGATGCCACTGAGTCATGGACTTTG-GG
66 AAAAGATGCCACGGAGTCATGGACTTGGAGG
*
736295 AGGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTT
1 AAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTT
736355 TTTGGAAAAA
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
94 64 0.49
95 43 0.33
96 3 0.02
97 20 0.15
98 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.19
Consensus pattern (96 bp):
AAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTAAGGA
AAAAGATGCCACGGAGTCATGGACTTGGAGG
Found at i:742380 original size:167 final size:163
Alignment explanation
Indices: 742184--742784 Score: 561
Period size: 166 Copynumber: 3.6 Consensus size: 163
742174 TTTTTAGGAA
* * *
742184 GATTTTTTTTGGTTTATAATTTTTAAAATTCATCAAATATCACCATTTAATTCATAATAAAATT-
1 GATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTCATAGT-AAATTA
*
742248 TTTTTGAAAATTTTAATTATTCTCATGAGTTTTTCATTTTTTATTAAAATTCCCCTATTTCCAAA
65 GTTTTGAAAA-TTTAATTATT-TCATGAGTTTTTCATTTTTT-TTAAAATTCCCCTATTT-CAAA
* * * *
742313 AATATATAGTTTGGTACTCTGTAAATGTTTTCGAG-GG
126 AAAATAGAATTTGCTACTCTGTAAATGTTTTCGAGAGG
* * * *
742350 GGTTTTCTCTTGGTTTATAATTTTTAAAATTCATCAAATATCATTATTTAGTTCACAGTAAATTA
1 GATTTT-TCTTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTA
* * * * *
742415 GTTTTGAAAATTCATTTATTTCTTGAGTTTTTCATTTTTTTTAAAATT-CCATATTTGAAAAAAA
65 GTTTTGAAAATTTAATTATTTCATGAGTTTTTCATTTTTTTTAAAATTCCCCTATTTCAAAAAAA
* *
742479 TAGAATTTTCTACTCTGTAAATGTTTTTGAGAGG
130 TAGAATTTGCTACTCTGTAAATGTTTTCGAGAGG
* * * * *
742513 GATTTTTTTTAGTTCA-AA-ATTTAAATTTTCATCAAATATCATCATTTAATTCATAGTAAATTA
1 GATTTTTCTTGGTTTATAATTTTTAAA-ATTCATCAAATATCATCATTTAATTCATAGTAAATTA
* * * *
742576 GTTTTGAAAAATTAATTTATTTTCATGAGTTTTTCATTTTTTTCTTAAAATTCTCCTATTCGCGA
65 GTTTTGAAAATTTAA-TTA-TTTCATGAGTTTTTCA-TTTTTT-TTAAAATTCCCCTATT-TCAA
** * * * ** * *
742641 AAAACCA-AGTTTTCTATTCCATAAATATTTTCGA-AGA
125 AAAAATAGAATTTGCTACTCTGTAAATGTTTTCGAGAGG
* * * * * * *
742678 GATTTTT-TTGGGTTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTCACATTAAATCA
1 GATTTTTCTT-GGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTA
* * * * **
742742 ATTTTGAAAAATTCAAATTATTTCAAGAATTTTGAATTTTTTT
65 GTTTTG-AAAATT-TAATTATTTCATGAGTTTTTCATTTTTTT
742785 GTATATATTG
Statistics
Matches: 357, Mismatches: 63, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
160 6 0.02
161 47 0.13
162 42 0.12
163 29 0.08
164 17 0.05
165 46 0.13
166 93 0.26
167 75 0.21
168 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (163 bp):
GATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAATTAG
TTTTGAAAATTTAATTATTTCATGAGTTTTTCATTTTTTTTAAAATTCCCCTATTTCAAAAAAAT
AGAATTTGCTACTCTGTAAATGTTTTCGAGAGG
Found at i:744815 original size:20 final size:20
Alignment explanation
Indices: 744792--744863 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
744782 ACAACTCAAA
744792 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
***
744812 GTATCGATACATG-AAAAGAT
1 GTATCGATACATGTTGCA-AT
744832 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
744852 GTATCGATACAT
1 GTATCGATACAT
744864 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:744836 original size:40 final size:41
Alignment explanation
Indices: 744792--744884 Score: 170
Period size: 40 Copynumber: 2.3 Consensus size: 41
744782 ACAACTCAAA
*
744792 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
744832 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
744873 GTATCGATACAT
1 GTATCGATACAT
744885 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 32 0.63
41 19 0.37
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:744941 original size:13 final size:13
Alignment explanation
Indices: 744923--744948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
744913 TACAGCAAGT
744923 ATGTATCGATACA
1 ATGTATCGATACA
744936 ATGTATCGATACA
1 ATGTATCGATACA
744949 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:749030 original size:15 final size:15
Alignment explanation
Indices: 749010--749040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
749000 TAAAAATGTC
*
749010 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
749025 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
749040 C
1 C
749041 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:751133 original size:20 final size:21
Alignment explanation
Indices: 751055--751132 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
751045 ATGTCCAAAA
*
751055 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
751075 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
751099 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
751120 TGTATCGATACAT
1 TGTATCGATACAT
751133 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:751137 original size:13 final size:13
Alignment explanation
Indices: 751119--751157 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
751109 ACATTTTTTG
751119 TTGTATCGATACA
1 TTGTATCGATACA
751132 TTGTATCGATACA
1 TTGTATCGATACA
*
751145 CTGTATCGATACA
1 TTGTATCGATACA
751158 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:752986 original size:18 final size:16
Alignment explanation
Indices: 752945--752990 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
752935 AATTACTTGA
752945 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
752961 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
752977 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
752991 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:753619 original size:20 final size:20
Alignment explanation
Indices: 753596--753668 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
753586 ACAACTCAAA
753596 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
753616 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
753637 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
753657 GTATCGATACAT
1 GTATCGATACAT
753669 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:753647 original size:41 final size:42
Alignment explanation
Indices: 753596--753690 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
753586 ACAACTCAAA
*
753596 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
753637 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
753679 GTATCGATACAT
1 GTATCGATACAT
753691 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:753747 original size:13 final size:13
Alignment explanation
Indices: 753729--753754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
753719 TACAGCAAGT
753729 ATGTATCGATACA
1 ATGTATCGATACA
753742 ATGTATCGATACA
1 ATGTATCGATACA
753755 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:761528 original size:13 final size:13
Alignment explanation
Indices: 761510--761537 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
761500 ACAATTCTTC
761510 ATGTATCGATACA
1 ATGTATCGATACA
761523 ATGTATCGATACA
1 ATGTATCGATACA
761536 AT
1 AT
761538 ATGCCATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:761546 original size:33 final size:32
Alignment explanation
Indices: 761488--761556 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
761478 CCATTTGAGT
761488 CAATGTATCAATACAATTCTTCATGTATCGATA
1 CAATGTATCAATACAATTC-TCATGTATCGATA
* *
761521 CAATGTATCGATACAATATGC-CATGTATTGATA
1 CAATGTATCAATACAAT-T-CTCATGTATCGATA
761554 CAA
1 CAA
761557 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (32 bp):
CAATGTATCAATACAATTCTCATGTATCGATA
Found at i:762620 original size:33 final size:33
Alignment explanation
Indices: 762578--762646 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
762568 TCGGTTAAGA
* *
762578 GAACTAAAGTGCTTATCCATGCACTGTGAAAGT
1 GAACTAAAGTGCTCATCCATGCACTATGAAAGT
**
762611 GAACTAAAGTGCTCATCCATGTGCTATGAAAGT
1 GAACTAAAGTGCTCATCCATGCACTATGAAAGT
762644 GAA
1 GAA
762647 GTGATCAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (33 bp):
GAACTAAAGTGCTCATCCATGCACTATGAAAGT
Found at i:764034 original size:31 final size:31
Alignment explanation
Indices: 763963--764037 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
763953 TATTGATGAT
* * *
763963 TTTGATGAAAAATGAAATGTTTTGATGTAAA
1 TTTGATGAAATATGAAATGATTTGAAGTAAA
* * *
763994 ATTGCTGAAATTTGAAAATGATTTGAAG-AAA
1 TTTGATGAAATATG-AAATGATTTGAAGTAAA
764025 TTTGATGAAATAT
1 TTTGATGAAATAT
764038 TGTTAGGGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (31 bp):
TTTGATGAAATATGAAATGATTTGAAGTAAA
Found at i:770332 original size:20 final size:20
Alignment explanation
Indices: 770307--770360 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
770297 ATTTGAGTCA
770307 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
770327 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
770347 ATGTATCGATACAA
1 ATGTATCGATACAA
770361 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:770636 original size:20 final size:20
Alignment explanation
Indices: 770590--770636 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
770580 AACTTTCTAT
* * *
770590 TTAAAGCTCAAAAACATTTG
1 TTAAAACTCAAAAACAGTTA
770610 TTCAAAACTCAAAAACAGTTA
1 TT-AAAACTCAAAAACAGTTA
770631 TTAAAA
1 TTAAAA
770637 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (20 bp):
TTAAAACTCAAAAACAGTTA
Found at i:774531 original size:52 final size:52
Alignment explanation
Indices: 774333--774513 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
774323 CGAAATATGA
* *
774333 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGG
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
774385 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
774437 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
774489 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
774514 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:774621 original size:32 final size:33
Alignment explanation
Indices: 774585--774651 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
774575 GGCAGTAGCT
* *
774585 TACATTGTATTGATATAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
774617 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
774650 TA
1 TA
774652 AAAATCGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:774627 original size:13 final size:13
Alignment explanation
Indices: 774609--774633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
774599 ATAAAACTTA
774609 TGTATCGATACAT
1 TGTATCGATACAT
774622 TGTATCGATACA
1 TGTATCGATACA
774634 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:775549 original size:67 final size:68
Alignment explanation
Indices: 775427--775553 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
775417 ATTGGGTTTT
* * *
775427 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
775492 AGA
66 AGA
* * * *
775495 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
775554 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:775678 original size:21 final size:21
Alignment explanation
Indices: 775611--775678 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
775601 AAAGATGGAA
775611 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* * *
775632 AA-G-GCCAGCTATACTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
*
775654 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
775675 AAGG
1 AAGG
775679 CCAGCTACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 6 0.17
21 10 0.29
22 6 0.17
23 5 0.14
24 4 0.11
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:775747 original size:92 final size:92
Alignment explanation
Indices: 775557--776708 Score: 1812
Period size: 92 Copynumber: 12.5 Consensus size: 92
775547 AAGATGAGAA
* * *
775557 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACATAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
775622 ATGCTGATTCAAGGCCAGCTATACTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
775653 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGAAGAAGGTGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
775718 TGATTCAAGGCTAGCAATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
775745 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
775810 TAATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
775837 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
775902 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
775929 AAAGGTTCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
775994 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
776021 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
776086 TGATTCAAGGCGAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
776113 AAAGGTGCCAAAGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
776178 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
776205 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
776270 TGATTCAAGGCGAGCGATGTTGGACTA
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
776297 AAAGGTGCCAATGTGCTGATTAAAGGCCAGCTGCATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
776362 AGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
776389 AAAGGTGCCAATGTGCTGATTGAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
776448 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
776475 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* *
776540 ATATGCTGATTCAAGGCAAACGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
** * *
776573 GGAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
776638 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
776665 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
776709 GAAGGGTTGC
Statistics
Matches: 976, Mismatches: 68, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
86 37 0.04
87 2 0.00
88 2 0.00
89 1 0.00
91 1 0.00
92 847 0.87
93 1 0.00
94 1 0.00
95 40 0.04
96 7 0.01
98 37 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:776436 original size:22 final size:22
Alignment explanation
Indices: 776411--776478 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
776401 GTGCTGATTG
776411 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
776433 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
776454 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
776476 AAG
1 AAG
776479 ATGAAGATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:776849 original size:32 final size:32
Alignment explanation
Indices: 776708--776877 Score: 277
Period size: 33 Copynumber: 5.2 Consensus size: 32
776698 CATTGGACTT
776708 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
*
776741 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
776774 AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
776807 AAGAAGGTTGCCATCGACTTATGTGGGCTTTAG
1 -AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
776840 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
776872 AGAAGG
1 AGAAGG
776878 AAAAAGAGTG
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
32 36 0.28
33 89 0.69
34 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.28
Consensus pattern (32 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:777217 original size:34 final size:34
Alignment explanation
Indices: 776860--778279 Score: 1388
Period size: 34 Copynumber: 42.5 Consensus size: 34
776850 CACCGACTTG
* *
776860 TGTGGGCTTTAGAGAAGGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTT-GA-AAAGAAAAAG-GTGCCACGGAGT
*
776897 TGTGGGCTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
776928 CGTGGAC-TT-AAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGT
*
776961 TGTGGACTTT-AAAAGGGAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAA--G-AAAAAGGTGCCACGGAGT
*
776997 TGTGGGCTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
** * * *
777028 CATGGAC-TT-AAAAGGAACAAGGTGCCATAGG-GT
1 TGTGGGCTTTGAAAA-GAAAAAGGTGCCA-CGGAGT
* * **
777061 TGTGGACTTT-AAAAGGGAAAAACAGTGTGACGGAGT
1 TGTGGGCTTTGAAAA--GAAAAA-GGTGCCACGGAGT
* *
777097 TGTGGGCTTTGAAAAG---AAGGAGCCACAGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
777128 TGTGGACTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
777159 CGTGGAC-TTAAAAAG-AAAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
777191 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777225 TGTAGACTTTAAAAAGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAA-GGTGCCACGGAGT
* *
777260 TGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777294 TGTGGGCTTT-AAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777327 CGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
777359 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777393 TGTGGGCTTT-AAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777426 CGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
777458 GGTGGGCTTTGGAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
777492 TGTGGGGC-TTAAAAAGAAAAAGGGTGCCACGAAGT
1 TGT-GGGCTTTGAAAAGAAAAA-GGTGCCACGGAGT
* *
777527 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777561 TGTGGGCTTT-AAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777594 CGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTGAAAA--GAAAAAG-GTGCCACGGAGT
777630 TGTGGGCTTTGAAAAG---AAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
777661 TGTGGACTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
777692 CGTGGAC-TTAAAAAG-AAAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
777724 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
777758 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
777792 TGTGGGCTTTAAAAAGAAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGG-TGCCACGGAGT
* *
777827 TGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
777861 TGTGGGCTTT-AAAGGAACAAGGTGCCAC-GAGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGA-GT
* * * *
777894 CGTGGAC-TTAAAAAG-AAAAGGTGCTACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
777926 GGTGGGTTTTGAAAAGAAAAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
777960 TGTGGACTTTGAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * * *
777994 CGTGGAC-TTAAAAAG-AAAAGGTGCCATGAAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
778026 GGTGGGCTTTGAAAAGAAAAAGGTGCCAGGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
778060 TGTGGGCCTTAAAAAGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAA-GGTGCCACGGAGT
*
778095 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * * * *
778129 TGTGGGCTTT-AGAGGAACAAGGTGCCATGGGGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
778162 CGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
*
778194 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
* *
778228 TATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAA-GGTGCCACGGAGT
778263 TGTGGGC-TTGAAAAGAA
1 TGTGGGCTTTGAAAAGAA
778280 GATGCCACTG
Statistics
Matches: 1163, Mismatches: 167, Indels: 109
0.81 0.12 0.08
Matches are distributed among these distances:
29 8 0.01
30 20 0.02
31 120 0.10
32 147 0.13
33 232 0.20
34 391 0.34
35 163 0.14
36 60 0.05
37 22 0.02
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
Found at i:777348 original size:168 final size:168
Alignment explanation
Indices: 776861--778281 Score: 1501
Period size: 168 Copynumber: 8.5 Consensus size: 168
776851 ACCGACTTGT
* * *
776861 GTGGGCTTTAGAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCAC
1 GTGGGCTTT-GA-AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
* * * * * * *
776923 GGGGTCGTGGAC-TT-AAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAAGG
63 GGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-GG-AAAAAGG
* * * * *
776986 TGCCACGGAGTTGTGGGCTTTGAAAAG--AAGGTGCCACGGGGTC
125 TGCCACGGAGTCGTGGAC-TTAAAAAGAAAAGGTGCCACGGAGTG
* * * * * * * **
777029 ATGGAC-TT-AAAAGGAACAAGGTGCCATAGG-GTTGTGGACTTTAAAAGGGAAAAACAGTGTGA
1 GTGGGCTTTGAAAA-GAAAAAGGTGCCA-CGGAGTTGTGGGCTTTAAAA-AGAAAAA-GGTGCCA
* * * *
777091 CGGAGTTGTGGGCTTTG--AA-AAGAAGGAGCCACAGAGTTGTGGACTTTG-AA--AAGAAGGTG
62 CGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTG
* *
777150 CCACGGGGTCGTGGACTTAAAAAGAAAAGGTGCCACGAAGTG
127 CCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
* *
777192 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTTAAAAAGAAAAAGGGTGCCACGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GGTGCCACGG
* *
777257 AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTT-AAAGGAACAAGGTGCCA
65 AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTGCCA
*
777321 CGGGGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
130 CGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
* * *
777360 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAACAAGGTGCCACGGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
* * * *
777424 GTCGTGGAC-TTAAAAAGAA-AAGGTGCCACGGAGTGGTGGGCTTTGGAAA-GAAAAAGGTGCCA
66 GTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-GAAAGGAAAAAGGTGCCA
* * * *
777486 CGGAGTTGTGGGGCTTAAAAAGAAAAAGGGTGCCACGAAGTT
130 CGGAGTCGT-GGACTTAAAAAG-AAAA-GGTGCCACGGAGTG
* * * * *
777528 GTGGGCTTTGAAAAGAAGAAGGTGCCACGAAGTTGTGGGCTTT-AAAGGAACAAGGTGCCACGGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
* * * * *
777592 GTCGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTG-AA--AAGAAGGTGC
66 GTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTGC
* * * *
777653 CACGGAGTTGTGGACTTTGAAAAG--AAGGTGCCACGGGGTC
128 CACGGAGTCGTGGAC-TTAAAAAGAAAAGGTGCCACGGAGTG
* * * * *
777693 GTGGAC-TTAAAAAG-AAAAGGTGCCACGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGA
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
* * * *
777756 GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGATGCCA
66 GTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGG-TGCCA
* * * * *
777821 CGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGTT
130 CGGAGTCGTGGAC-TTAAAAAGAA-AAGGTGCCACGGAGTG
* * * * *
777862 GTGGGCTTT-AAAGGAACAAGGTGCCAC-GAGGTCGTGGAC-TTAAAAAG-AAAAGGTGCTACGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGA-GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* * * * * *
777923 AGTGGTGGGTTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAGGAACAAGGTGCCA
65 AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTGCCA
* * *
777988 CGGGGTCGTGGACTTAAAAAGAAAAGGTGCCATGAAGTG
130 CGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
* *
778027 GTGGGCTTTGAAAAGAAAAAGGTGCCAGGGAGTTGTGGGCCTTAAAAAGAAAAAGGGTGCCACGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GGTGCCACGG
* *
778092 AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AGAGGAACAAGGTGCCA
65 AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTGCCA
* *
778156 TGGGGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
130 CGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
*
778195 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGGTGCCACGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GGTGCCACGG
778260 AGTTGTGGGC-TTGAAAAGAAGA
65 AGTTGTGGGCTTTGAAAAGAAGA
778282 TGCCACTGAG
Statistics
Matches: 1080, Mismatches: 125, Indels: 97
0.83 0.10 0.07
Matches are distributed among these distances:
161 7 0.01
162 42 0.04
163 80 0.07
164 109 0.10
165 93 0.09
166 118 0.11
167 75 0.07
168 379 0.35
169 126 0.12
170 27 0.03
171 4 0.00
172 20 0.02
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (168 bp):
GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGA
GTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAAGGTGCCAC
GGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTG
Found at i:777915 original size:533 final size:533
Alignment explanation
Indices: 776861--778279 Score: 1724
Period size: 533 Copynumber: 2.7 Consensus size: 533
776851 ACCGACTTGT
* * * * * *
776861 GTGGGCTTTAGAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCAC
1 GTGGGCTTT-GA-AAAGAAAAAG-GTGCCACGAAGTCGTGGACTTTAAAAAGAACAAGGTGCCAC
* * * * *
776923 GGGGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAAGGTG
63 GGAGTCGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAAAGGTG
* ** * *
776988 CCACGGAGTTGTGGGCTTTG--AA-AAGAAGGTGCCACGGGGTCATGGACTTAAAAGGAACAAGG
125 CCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGG
** * **
777050 TGCCATAGGGTTGTGGACTTTAAAAGGGAAAAACAGTGTGACGGAGTTGTGGGCTTTGAAAAGAA
190 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* *
777115 GGAGCCACAGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGG
255 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGG
777180 TGCCACGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTTAAAAAGAAAA
320 TGCCACGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTTAAAAAGAAAA
* * * *
777245 AGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTTAAAGGA
385 AGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
* * * *
777310 ACAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
450 ACAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTAAAAAG
*
777375 AAAAAGGTGCCACGGAGTT
515 AAAAAGGTGCCACGGAGTG
* * **
777394 GTGGGCTTT-AAAGGAACAAGGTGCCACGGGGTCGTGGAC-TTAAAAAGAA-AAGGTGCCACGGA
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTCGTGGACTTTAAAAAGAACAAGGTGCCACGGA
* * **
777456 GTGGTGGGCTTTGGAAAGAAAAAGGTGCCACGGAGTTGTGGGGC-TTAAAAAGAAAAAGGGTGCC
66 GTCGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTTGT-GGGCTTTAAAAAGAAAAA-GGTGCC
* *
777520 ACGAAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGAAGTTGTGGGCTTTAAAGGAACAAGGTG
127 ACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGTG
* *
777585 CCACGGGGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
192 CCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
777650 TGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGGTG
257 TGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGGTG
* *
777715 CCACGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-
322 CCACGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTTAAAAAGAAAAAG
777779 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGA
387 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTT-AAAAGA
* * * * * *
777844 AGAAGGTGCCATGGAGTTGTGGGCTTTAAAGGAACAAGGTGCCAC-GAGGTCGTGGAC-TTAAAA
450 ACAAGGTGCCACGGAGTCGTGGACTTAAAAAGAA-AAGGTGCCACGGA-GTCGTGGACTTTAAAA
*
777907 AG-AAAAGGTGCTACGGAGTG
513 AGAAAAAGGTGCCACGGAGTG
* * * * *
777927 GTGGGTTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGG
1 GTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTCGTGGACTTTAAAAAGAACAAGGTGCCACGGA
* * * * *
777992 GTCGTGGACTTAAAAAGAAAAGGTGCCATGAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCAGGG
66 GTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* * * * *
778057 AGTTGTGGGCCTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCC
131 AGTTGTGGGCTTTGAAAAGAAGAA-GGTGCCACGGAGTTGTGGGCTTT-AAAGGAACAAGGTGCC
* * * * * * * * *
778122 ACGGAGTTGTGGGCTTT-AGA-GGAACAAG-GTGCCATGGGGTCGTGGAC-TTAAAAAGAAAAGG
194 ACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--AAGG
* * * ** *
778183 TGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAA
257 TGCCACGGAGTTGTGGACTTTGAAAAG---AAGGTGCCACGGGGTCGTGGAC-TTAAAAAG-AAA
* *
778248 AGGGTGCCACGGAGTTGTGGGC-TTGAAAAGAA
317 A-GGTGCCACGAAGTGGTGGGCTTTGAAAAGAA
778280 GATGCCACTG
Statistics
Matches: 766, Mismatches: 93, Indels: 49
0.84 0.10 0.05
Matches are distributed among these distances:
528 7 0.01
529 20 0.03
530 52 0.07
531 36 0.05
532 55 0.07
533 341 0.45
534 119 0.16
535 59 0.08
536 37 0.05
537 8 0.01
538 14 0.02
539 18 0.02
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (533 bp):
GTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTCGTGGACTTTAAAAAGAACAAGGTGCCACGGA
GTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
AGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGTGCCAC
GGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCC
ACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAAAGAAAAGGTGCCAC
GAAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTTAAAAAGAAAAAGGGTG
CCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAACAAGG
TGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTAAAAAGAAAAAG
GTGCCACGGAGTG
Found at i:778316 original size:31 final size:31
Alignment explanation
Indices: 778281--778431 Score: 191
Period size: 31 Copynumber: 4.9 Consensus size: 31
778271 TGAAAAGAAG
*
778281 ATGCCACTGAGTCGTGCACTTTGAAGAAAAA
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAAA
* *
778312 ATGCCATTGAGTCGTGGACTTTG-AGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAAA
* * *
778342 ATGCCACTGAGTTGTGGACTATGAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAA-A
*
778374 ATGCCACTGAGTCGTGGACTTTG-AGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAAGAA-AAA
*
778405 TTGCCACTGAGTCGTGGACTTT-AAGAA
1 ATGCCACTGAGTCGTGGACTTTGAAGAA
778432 GGTATATGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
30 26 0.25
31 55 0.53
32 22 0.21
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAAGAAAAA
Found at i:778387 original size:93 final size:91
Alignment explanation
Indices: 778252--778426 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 91
778242 AGAAAAAGGG
*
778252 TGCCACGGAGTTGTGGGCTTGAAAAGAAGATGCCACTGAGTCGTGCACTTTGAAGAA-AAAATGC
1 TGCCACGGAGTTGTGGACTTGAAAAGAAGATGCCACTGAGTCGTGCACTTTG-AGAAGAAAATGC
*
778316 CATTGAGTCGTGGACTTTGAGACAAAA
65 CACTGAGTCGTGGACTTTGAGACAAAA
* * * *
778343 TGCCACTGAGTTGTGGACTATGAAGAA-AAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATT
1 TGCCACGGAGTTGTGGACT-TGAA-AAGAA-GATGCCACTGAGTCGTGCACTTTGAGAAGAAAAT
778407 GCCACTGAGTCGTGGACTTT
63 GCCACTGAGTCGTGGACTTT
778427 AAGAAGGTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
91 17 0.23
92 10 0.14
93 47 0.64
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (91 bp):
TGCCACGGAGTTGTGGACTTGAAAAGAAGATGCCACTGAGTCGTGCACTTTGAGAAGAAAATGCC
ACTGAGTCGTGGACTTTGAGACAAAA
Found at i:778395 original size:62 final size:62
Alignment explanation
Indices: 778281--778424 Score: 202
Period size: 61 Copynumber: 2.3 Consensus size: 62
778271 TGAAAAGAAG
* * *
778281 ATGCCACTGAGTCGTGCACTTTGAAGAAAAAATGCCATTGAGTCGTGGACTTTGAGACA-A-A
1 ATGCCACTGAGTCGTGGACTATGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGA-AGAGA
* *
778342 ATGCCACTGAGTTGTGGACTATGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTATGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
778405 TTGCCACTGAGTCGTGGACT
1 ATGCCACTGAGTCGTGGACT
778425 TTAAGAAGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
61 28 0.38
62 26 0.36
63 19 0.26
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (62 bp):
ATGCCACTGAGTCGTGGACTATGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:778432 original size:31 final size:30
Alignment explanation
Indices: 778252--778432 Score: 168
Period size: 31 Copynumber: 5.9 Consensus size: 30
778242 AGAAAAAGGG
* * * *
778252 TGCCACGGAGTTGTGGGCTTGAA-AAGAAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAG-AGA
* * *
778282 TGCCACTGAGTCGTGCACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTT-AAGAAGAGA
* * *
778313 TGCCATTGAGTCGTGGACTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGACTTTAAGA-AGAGA
* * *
778343 TGCCACTGAGTTGTGGACTATGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACT-TTAAGAAGA-GA
*
778375 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
778405 TTGCCACTGAGTCGTGGACTTTAAGAAG
1 -TGCCACTGAGTCGTGGACTTTAAGAAG
778433 GTATATGAAG
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
30 42 0.34
31 61 0.49
32 21 0.17
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTAAGAAGAGA
Found at i:786728 original size:13 final size:13
Alignment explanation
Indices: 786710--786734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
786700 CAAAGATCAG
786710 TGTATCGATACAA
1 TGTATCGATACAA
786723 TGTATCGATACA
1 TGTATCGATACA
786735 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:786802 original size:19 final size:19
Alignment explanation
Indices: 786778--786862 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
786768 TAGCTTACAT
786778 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
786797 TGTATCGATAGAACACTTA
1 TGTATCGATACAAAACTTA
786816 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
786829 TGTATCGATACAAGACTTTA
1 TGTATCGATACAAAAC-TTA
786849 TGTATCGATACAAA
1 TGTATCGATACAAA
786863 TCGTTGAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
19 28 0.51
20 13 0.24
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:786834 original size:13 final size:13
Alignment explanation
Indices: 786816--786840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
786806 AGAACACTTA
786816 TGTATCGATACAT
1 TGTATCGATACAT
786829 TGTATCGATACA
1 TGTATCGATACA
786841 AGACTTTATG
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:786838 original size:32 final size:33
Alignment explanation
Indices: 786797--786860 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
786787 ACAAAACTTA
*
786797 TGTATCGATAGAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
*
786829 TGTATCGATACAAGACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
786861 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:791845 original size:22 final size:24
Alignment explanation
Indices: 791815--791858 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
791805 CCTCACAATC
*
791815 TCTTCAAG-AATTATACCCCAAAT
1 TCTTCAAGAAATTATAACCCAAAT
791838 TCTT-AAGAAATTATAACCCAA
1 TCTTCAAGAAATTATAACCCAA
791859 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAAATTATAACCCAAAT
Found at i:792293 original size:13 final size:13
Alignment explanation
Indices: 792275--792304 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
792265 AGTTTTTACC
792275 ATGTATCGATACA
1 ATGTATCGATACA
*
792288 ATGTATCGATGCA
1 ATGTATCGATACA
792301 ATGT
1 ATGT
792305 CCCATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:795329 original size:31 final size:31
Alignment explanation
Indices: 795259--795333 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
795249 TACATTGAAG
* *
795259 AATGTATGGATGCATTTGGGTCAAAAACATA
1 AATGTATCGATACATTTGGGTCAAAAACATA
**
795290 GAATGTATCGATACATTTGGGTCAAATCCCAT-
1 -AATGTATCGATACATTTGGGTCAAA-AACATA
795322 AATGTATCGATA
1 AATGTATCGATA
795334 TAATGAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 12 0.32
32 23 0.61
33 3 0.08
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (31 bp):
AATGTATCGATACATTTGGGTCAAAAACATA
Found at i:797872 original size:27 final size:27
Alignment explanation
Indices: 797842--797915 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
797832 TCCACAATCG
*
797842 GGGATACTCTAACCCCGTTAATCATCA
1 GGGATACTCCAACCCCGTTAATCATCA
*
797869 GGGATACTCCAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCATCA
797896 GGGATACTCCAACCCCGTTA
1 GGGATACTCCAACCCCGTTA
797916 TTTCCGAGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATCA
Found at i:797935 original size:28 final size:27
Alignment explanation
Indices: 797841--797939 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
797831 CTCCACAATC
* *
797841 GGGGATACTCTAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCA-GA
**
797869 -GGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
797895 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
797923 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
797940 TGCTTTATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 43 0.69
28 19 0.31
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:797998 original size:51 final size:51
Alignment explanation
Indices: 797923--798145 Score: 193
Period size: 52 Copynumber: 4.3 Consensus size: 51
797913 TTATTTCCGA
* * * * *
797923 GGGGATACTCCAACCCCTG-CTTTATTCTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAA-CCC-GATTTTATTCTTAAAACACTAATTTCTCCACAATC
*
797974 GGGGATACTCCAACCTCGATTTTATTGC-TAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACC-CGATTTTATT-CTTAAAACACTAATTTCTCCACAATC
* * **
798026 GGGGATACTCCAATCCCGATTTTATTTTTAAAACACCAATTT-TCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTCTTAAAACACTAATTTCTCC-ACAATC
* ** * * *
798078 GGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTA-TTCTTAAAACACTAATTTCTCCACAATC
*
798131 GAGGATACTCCAACC
1 GGGGATACTCCAACC
798146 TCGTTATCTC
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
50 3 0.02
51 36 0.25
52 69 0.48
53 33 0.23
54 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCGATTTTATTCTTAAAACACTAATTTCTCCACAATC
Found at i:798046 original size:52 final size:51
Alignment explanation
Indices: 797970--798145 Score: 210
Period size: 52 Copynumber: 3.4 Consensus size: 51
797960 GATTTCTCAT
* *
797970 AATCGGGGATACTCCAACCTCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACC-CGATTTTATTCCTAAAACACCAATTTTTCCAC
** **
798022 AATCGGGGATACTCCAATCCCGATTTTATTTTTAAAACACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAA-CCCGATTTTATTCCTAAAACACCAATTTTTCC-AC
* * *
798074 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAAC-CCGATTTTA-TTCCTAAAACACCAATTTTTCCAC
*
798127 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
798146 TCGTTATCTC
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
51 7 0.07
52 63 0.60
53 30 0.29
54 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCGATTTTATTCCTAAAACACCAATTTTTCCAC
Found at i:798164 original size:28 final size:28
Alignment explanation
Indices: 798128--798204 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
798118 TTTTTTCACA
* * *
798128 ATCGAGGATACTCCAACCTCGTTATCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
798156 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
*
798184 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
798205 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:798336 original size:80 final size:79
Alignment explanation
Indices: 798158--798363 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 79
798148 GTTATCTCAT
**
798158 CGGGGATACTCCAACCCCGTTA-CCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
* * *
798222 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * ** * * *
798237 TGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-GCTTTATTCCCAAAAT-
798301 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * * * *
798317 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACCCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
798364 TTATTATCTC
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
79 42 0.41
80 61 0.59
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:809743 original size:180 final size:184
Alignment explanation
Indices: 809396--810375 Score: 1428
Period size: 180 Copynumber: 5.4 Consensus size: 184
809386 NNNNNNNNNA
809396 TGCCAATAATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-CAATGTGCTGATTCAAGG
1 TGCCAAT-ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
809460 CCAGCTACA-TGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAAATTGGACT
65 CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-
* *
809524 TTAAAGGTG-CAAAGTGCTGATTCAAGG-CAGCTACATTGGACTT-AAGATGAAGG
129 TGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
809577 TGGGCCAATA-GCTGATTC-AGGCCAGCGAT-TTGGACTTAAAAGTGCCAATGTGCTGTTTCACG
1 T--GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAG
*
809639 GCCAGCT-CATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGGA
64 GCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGA
* * * *
809703 CTGAAAGGTGCCAATGT-CTTATTAAAGGCCAGC-GCATTGGACTTAAAGATGAAGA
128 CTGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
809758 TGCCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
809823 CAGCTACATTGGACTTAAAGATGAAGGTGTCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
66 CAGCTACATTGGACTTAAAGATGAAGGTG-CCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* *
809888 -TAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
130 GAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
809942 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG-
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
*
810006 CAGCTACATTGGACTTAAAGATGAAGGTGCC-A-ATGCTGATTCAAGGCCAGCGATA-TGGACTT
66 CAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTG
810068 AAA-GTGCCAATGTGCT--TTCAAGGCCAGCTA-ATTGGACTTAAAGATGAAGG
131 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
810118 TGCCAATATGCTGATTCAA-GCCAGCG--ATTGGACTTGAAAGGTGCCAATGTGCTTA-TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAGG
* * * *
810179 GCAGCTGCATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGAC
65 CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* * *
810244 TTG-GAGGTTGCTAAT-TGCTGATTCAAGGCCAGCTACATTGGAC-TAAAGA--AGGG
129 -TGAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
810297 TGCCAATCTGCTGATTCAAGGCCAGCGAT-TT-GACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
810360 CAGCTACATTGGACTT
66 CAGCTACATTGGACTT
810376 CGAAGGGTTG
Statistics
Matches: 730, Mismatches: 37, Indels: 65
0.88 0.04 0.08
Matches are distributed among these distances:
173 14 0.02
174 47 0.06
175 8 0.01
176 60 0.08
177 15 0.02
178 5 0.01
179 87 0.12
180 178 0.24
181 66 0.09
182 60 0.08
183 77 0.11
184 113 0.15
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (184 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTG
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:809903 original size:92 final size:92
Alignment explanation
Indices: 809396--810375 Score: 1453
Period size: 91 Copynumber: 10.9 Consensus size: 92
809386 NNNNNNNNNA
809396 TGCCAATAATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-CAATGTGCTGATTCAAGG
1 TGCCAAT-ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
809460 CCAGCTACA-TGGACTTAAAGATGAAGG
65 CCAGCTACATTGGACTTAAAGATGAAGG
* *
809487 TGCCAATATGCTGATTCAAGGCCAGCGAAATTGGACTTTAAAGGTG-CAAAGTGCTGATTCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TTAAAGGTGCCAATGTGCTGATTCAAGG
809551 -CAGCTACATTGGACTT-AAGATGAAGG
65 CCAGCTACATTGGACTTAAAGATGAAGG
* * *
809577 TGGGCCAATA-GCTGATTC-AGGCCAGCGAT-TTGGACTTAAAAGTGCCAATGTGCTGTTTCACG
1 T--GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAG
809639 GCCAGCT-CATTGGACTTAAAGATGAAGG
64 GCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
809667 TGCCAATATGCTGATTCAAGGCCAGCGATGTTGGGACTGAAAGGTGCCAATGT-CTTATTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGGTGCCAATGTGCTGATTCAAGG
* *
809731 CCAGC-GCATTGGACTTAAAGATGAAGA
65 CCAGCTACATTGGACTTAAAGATGAAGG
*
809758 TGCCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
809823 CAGCTACATTGGACTTAAAGATGAAGG
66 CAGCTACATTGGACTTAAAGATGAAGG
809850 TGTCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGGTGCCAATGTGCTGATTCAAGG
1 TG-CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
809914 CCAGCTACATTGGACTTAAAGATGAAGA
65 CCAGCTACATTGGACTTAAAGATGAAGG
809942 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG-
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
810006 CAGCTACATTGGACTTAAAGATGAAGG
66 CAGCTACATTGGACTTAAAGATGAAGG
810033 TGCC-A-ATGCTGATTCAAGGCCAGCGATA-TGGACTTAAA-GTGCCAATGTGCT--TTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
810092 CAGCTA-ATTGGACTTAAAGATGAAGG
66 CAGCTACATTGGACTTAAAGATGAAGG
* *
810118 TGCCAATATGCTGATTCAA-GCCAGCG--ATTGGACTTGAAAGGTGCCAATGTGCTTA-TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAGG
* * *
810179 GCAGCTGCATTGGACTTAAAGATGAAGA
65 CCAGCTACATTGGACTTAAAGATGAAGG
* ** *
810207 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGACTTGGAGGTTGCTAAT-TGCTGATTCAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGG-TGCCAATGTGCTGATTCAAG
*
810271 GCCAGCTACATTGGAC-TAAAGA--AGGG
64 GCCAGCTACATTGGACTTAAAGATGAAGG
*
810297 TGCCAATCTGCTGATTCAAGGCCAGCGAT-TT-GACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
810360 CAGCTACATTGGACTT
66 CAGCTACATTGGACTT
810376 CGAAGGGTTG
Statistics
Matches: 813, Mismatches: 43, Indels: 69
0.88 0.05 0.07
Matches are distributed among these distances:
84 1 0.00
85 38 0.05
86 23 0.03
87 74 0.09
88 36 0.04
89 102 0.13
90 139 0.17
91 192 0.24
92 143 0.18
93 65 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGG
Found at i:810350 original size:41 final size:41
Alignment explanation
Indices: 809396--810363 Score: 620
Period size: 43 Copynumber: 21.6 Consensus size: 41
809386 NNNNNNNNNA
809396 TGCCAATAATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 TGCCAAT-ATGCTGATTCAAGGCCAGCG--ATTGGACTTAAAGG
* * *
809440 TG-CAATGTGCTGATTCAAGGCCAGCTACATGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGA-TTGGACTT----A--AAGG
809487 TGCCAATATGCTGATTCAAGGCCAGCGAAATTGGACTTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCG--ATTGGAC-TTAAAGG
*
809531 TG-CAA-AGTGCTGATTCAAGG-CAGCTACATTGGACTTAAGATGAAGG
1 TGCCAATA-TGCTGATTCAAGGCCAGC--GATTGGACTT---A--AAGG
*
809577 TGGGCCAATA-GCTGATTC-AGGCCAGCGATTTGGACTTAAAAG
1 T--GCCAATATGCTGATTCAAGGCCAGCGA-TTGGACTTAAAGG
* * * *
809619 TGCCAATGTGCTGTTTCACGGCCAGCTCATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGC-GATTGGACTT----A--AAGG
*
809667 TGCCAATATGCTGATTCAAGGCCAGCGATGTTGGGACTGAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGA--TT-GGACTTAAAGG
* * *
809711 TGCCAATGT-CTTATTAAAGGCCAGCGCATTGGACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCG-ATTGGACTT-AA-A-G--G
*
809757 ATGCCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCG--ATTGGACTTAAAGG
* *
809801 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGC--GATTGGACTT----A--AAGG
809850 TGTCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGG
1 TG-CCAATATGCTGATTCAAGGCCAGCG--ATTGGACTTAAAGG
* *
809893 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGC--GATTGGACTT-AA-A-G--G
809941 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCG--ATTGGACTTAAAGG
* *
809985 TGCCAATGTGCTGATTCAAGG-CAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGC--GATTGGACTT----A--AAGG
810033 TGCC-A-ATGCTGATTCAAGGCCAGCGATATGGACTTAAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCGAT-TGGACTTAAAGG
* *
810072 TGCCAATGTGCT--TTCAAGGCCAGCTAATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGC-GATTGGACTT----A--AAGG
810118 TGCCAATATGCTGATTCAA-GCCAGCGATTGGACTTGAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATTGGACTT-AAAGG
* * * *
810159 TGCCAATGTGCTTA-TAAAGGGCAGCTGCATTGGACTTAAAGATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGC-G-ATTGGACTT-AA-A-G--G
* **
810206 ATGCCAATATGCTGATTCAAGGCCAACGATATTGGGACTTGGAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCG--ATT-GGACTTAAAGG
* * *
810251 TTGCTAAT-TGCTGATTCAAGGCCAGCTACATTGGACTAAAGAAGGG
1 -TGCCAATATGCTGATTCAAGGCCAGC--GATTGGACT-TA-AA-GG
* *
810297 TGCCAATCTGCTGATTCAAGGCCAGCGATTTGACTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATTGGACTTAAAGG
*
810338 TGCCAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGC
810364 TACATTGGAC
Statistics
Matches: 747, Mismatches: 70, Indels: 217
0.72 0.07 0.21
Matches are distributed among these distances:
39 24 0.03
40 15 0.02
41 73 0.10
42 102 0.14
43 116 0.16
44 55 0.07
45 21 0.03
46 75 0.10
47 42 0.06
48 107 0.14
49 70 0.09
50 47 0.06
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATTGGACTTAAAGG
Found at i:810710 original size:28 final size:28
Alignment explanation
Indices: 810679--810732 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
810669 AAACAGTGTG
*
810679 ACGAGTTGTGGGCTTTGAAAAGAAGGCC
1 ACGAGTTGTGGACTTTGAAAAGAAGGCC
810707 ACGAGTTGTGGACTTTGAAAAGAAGG
1 ACGAGTTGTGGACTTTGAAAAGAAGG
810733 TGCCACGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.22
Consensus pattern (28 bp):
ACGAGTTGTGGACTTTGAAAAGAAGGCC
Found at i:811090 original size:34 final size:33
Alignment explanation
Indices: 810451--811863 Score: 998
Period size: 33 Copynumber: 42.5 Consensus size: 33
810441 GCCAGACTTG
* * *
810451 TGTGGGCTTTCGAGAAGGAAAAGAGTGCCATGGAGT
1 TGTGGGC-TT-GAAAAGAAAAAG-GTGCCACGGAGT
810487 TGTGGGCTTTGAAAAG---AAGGTGCCACGG-GT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
810517 CGTGGACTT-AAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTGAAAA-GAAAAAGGTGCCACGGAGT
* *
810550 TGTGGACTTTAAAAGGGAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTGAAAA--G-AAAAAGGTGCCACGGAGT
*
810586 TGTGGGCTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
** * * *
810617 CATGGACTT-AAAAGGAACAAGGTGCCATAGG-GT
1 TGTGGGCTTGAAAA-GAAAAAGGTGCCA-CGGAGT
* * * **
810650 TGTGGACTTTAAAAGGGAAAAACAGTGTGAC-GAGT
1 TGTGGGCTTGAAAA--GAAAAA-GGTGCCACGGAGT
810685 TGTGGGCTTTGAAAAG---AA-G-GCCAC-GAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* *
810713 TGTGGACTTTGAAAAG---AAGGTGCCACGGGGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
810744 CGTGGACTTAAAAAG-AAAAGGTGCCACGAAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
*
810776 GGTGGGCTTTGAAAAG-AAAAGGTGCCACGGAG-
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * *
810808 TGTAGACTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* *
810842 TGTGGGCTTGAAAAGAAGAAGGTGCCATGGAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
810875 TGTGGGCTTTAAAGGAACAAGGTGCCACGGGGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
810908 CGTGGACTTAAAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
*
810940 GGTGGGCTTTGAAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * *
810973 TGTGGGCTTTAAAGGAACAAGGTGCCACGG-GT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* *
811005 CGTGGACTT-AAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* *
811036 GGTGGGCTTTGGAAAG-AAAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* *
811069 TGTGGGGCTTAAAAAGAAAAAGGGTGCCACGAAGT
1 TGT-GGGCTTGAAAAGAAAAA-GGTGCCACGGAGT
* *
811104 TGTGGGCTTTG-AAAGAAGAAGGGTGCCACGAAGTT
1 TGTGGGC-TTGAAAAGAA-AAAGGTGCCACGGAG-T
* * * *
811139 TGTGGGCTCTTAAAGGAACAAGGTGCCAACGGTGT
1 TGTGGGCT-TGAAAAGAAAAAGGTGCC-ACGGAGT
* ** * * *
811174 CGTGCCTCTTTAAAAGGGAAAAGAGTGCCACGAAGT
1 TGTG-GGCTTGAAAA-GAAAAAG-GTGCCACGGAGT
811210 TGTGGGCTTTGAAAAG---AAGGTGCCAACGGAGTT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCC-ACGGAG-T
*
811243 TGTGGACTTTGAAAAG---AAGGTGCCACAGG-GT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCAC-GGAGT
** *
811274 TCGTGACCTT-AAAAGAAAAAGGTGGCCACGAAG-
1 T-GTGGGCTTGAAAAGAAAAAGGT-GCCACGGAGT
*
811307 TG-GGGCCTGTTG-AAAGAAAAAGGTGCCACGAAGT
1 TGTGGG-C--TTGAAAAGAAAAAGGTGCCACGGAGT
*
811341 TGTGGGCTTAAAAAGAAAAAGGTG-CACGG-GTT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAG-T
*
811373 GTGGTGGGCCTTTAAAAAGAAAAAGGGTGCCACGGAGT
1 -T-GTGGG-C-TTGAAAAGAAAAA-GGTGCCACGGAGT
* *
811411 TGTGGGCTTGAAAAGAAGAAGGTGCCATGGAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
811444 TGTGGGCTTTAAAGGAACAAGGTGCCAC-GAGGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGA-GT
* * * *
811477 CGTGGACTTAAAAAG-AAAAGGTGCTACGGAGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
*
811509 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
811543 TGTGGACTTTGAAAGGAACAAGGTG-CACGGGGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * * * *
811576 CGTGGACTTAAAAAG-AAAAGATTGCCATGAAGT
1 TGTGGGCTTGAAAAGAAAAAG-GTGCCACGGAGT
* *
811609 GGTGGGCTTTGAAAAG-AAAAGGTGCCACAGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
*
811642 TGTGGGCCTTAAAAAGAAAAAGGGTGCCACGGAGT
1 TGTGGG-CTTGAAAAGAAAAA-GGTGCCACGGAGT
*
811677 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * * * *
811711 TGTGGGCTTTAGAGGAACAAGGTGCCATGGGGT
1 TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
* * *
811744 CGTGGACTTAAAAAG-AAAAGGTTGCCACGGAGT
1 TGTGGGCTTGAAAAGAAAAAGG-TGCCACGGAGT
*
811777 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGC-TTGAAAAGAAAAAGGTGCCACGGAGT
* * * *
811811 TATGGGCTTTTAAAAAGAAAAAGGGTTCCACAGAGT
1 TGTGGGC--TTGAAAAGAAAAA-GGTGCCACGGAGT
811847 TGTGGGCTTGAAAAGAA
1 TGTGGGCTTGAAAAGAA
811864 GATGCACTGA
Statistics
Matches: 1124, Mismatches: 168, Indels: 172
0.77 0.11 0.12
Matches are distributed among these distances:
28 28 0.02
29 9 0.01
30 40 0.04
31 63 0.06
32 138 0.12
33 401 0.36
34 194 0.17
35 121 0.11
36 107 0.10
37 16 0.01
38 6 0.01
39 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (33 bp):
TGTGGGCTTGAAAAGAAAAAGGTGCCACGGAGT
Found at i:811905 original size:30 final size:30
Alignment explanation
Indices: 811868--812012 Score: 181
Period size: 30 Copynumber: 4.8 Consensus size: 30
811858 AAAGAAGATG
811868 CACTGAGTCGTGGACTTTGAAGAAAAATGC
1 CACTGAGTCGTGGACTTTGAAGAAAAATGC
* *
811898 CATTGAGTCGTGGACTTTGAGACAAAAATG-
1 CACTGAGTCGTGGACTTTGA-AGAAAAATGC
*
811928 CACTGAGTTGTGGACTTTGAAGAAAAGGATGC
1 CACTGAGTCGTGGACTTTGAAGAAAA--ATGC
*
811960 CACTGAGTCGTGGACTTTG-AGAAGAGATTGC
1 CACTGAGTCGTGGACTTTGAAGAA-A-AATGC
811991 CACTG-GTCGTGGACTTT-AAGAA
1 CACTGAGTCGTGGACTTTGAAGAA
812013 GGTATATGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.05
30 53 0.52
31 23 0.23
32 19 0.19
33 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (30 bp):
CACTGAGTCGTGGACTTTGAAGAAAAATGC
Found at i:811970 original size:92 final size:89
Alignment explanation
Indices: 811843--812007 Score: 228
Period size: 92 Copynumber: 1.8 Consensus size: 89
811833 GGGTTCCACA
* *
811843 GAGTTGTGGGCTTGAAAAGAAGATGCACTGAGTCGTGGACTTTGAAGAA-A-AATGCCATTGAGT
1 GAGTTGTGGACTTGAAAAGAAGATGCACTGAGTCGTGGACTTTG-AGAAGAGAATGCCACTG-GT
811906 CGTGGACTTTGAGACAAAAATGCACT
64 CGTGGACTTTGAGACAAAAATGCACT
*
811932 GAGTTGTGGACTTTGAAGAA-AAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTG
1 GAGTTGTGGAC-TTGAA-AAGAA-GATG-CACTGAGTCGTGGACTTTGAGAAGAGAATGCCACTG
811996 GTCGTGGACTTT
62 GTCGTGGACTTT
812008 AAGAAGGTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
89 10 0.15
90 7 0.10
91 10 0.15
92 32 0.48
93 8 0.12
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (89 bp):
GAGTTGTGGACTTGAAAAGAAGATGCACTGAGTCGTGGACTTTGAGAAGAGAATGCCACTGGTCG
TGGACTTTGAGACAAAAATGCACT
Found at i:812003 original size:62 final size:60
Alignment explanation
Indices: 811865--812012 Score: 203
Period size: 62 Copynumber: 2.5 Consensus size: 60
811855 TGAAAAGAAG
*
811865 ATGCACTGAGTCGTGGACTTTGAAGAAAAATGCCATTGAGTCGTGGACTTTGAGACAAAA
1 ATGCACTGAGTCGTGGACTTTGAAGAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
* *
811925 ATGCACTGAGTTGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGAGA
1 ATGCACTGAGTCGTGGACTTTGAAGAAAA--ATGCCACTGAGTCGTGGACTTTGAGACA-AAA
*
811987 TTGCCACTG-GTCGTGGACTTT-AAGAA
1 ATG-CACTGAGTCGTGGACTTTGAAGAA
812013 GGTATATGAA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
60 28 0.35
61 6 0.08
62 40 0.51
63 5 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (60 bp):
ATGCACTGAGTCGTGGACTTTGAAGAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:820371 original size:52 final size:52
Alignment explanation
Indices: 820221--820351 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 52
820211 CCCGAAATAT
*
820221 GAAAATTTGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
*
820273 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
* *
820325 GCAAATTTGCCTACATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
820352 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
Found at i:820378 original size:13 final size:13
Alignment explanation
Indices: 820360--820384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
820350 CAAAGATCAG
820360 TGTATCGATACAA
1 TGTATCGATACAA
820373 TGTATCGATACA
1 TGTATCGATACA
820385 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:820452 original size:19 final size:19
Alignment explanation
Indices: 820428--820512 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
820418 TAGCTTACAT
820428 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
820447 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
820466 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
820479 TGTATCGATACAAGACTTTA
1 TGTATCGATACAAAAC-TTA
820499 TGTATCGATACAAA
1 TGTATCGATACAAA
820513 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
19 30 0.53
20 13 0.23
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:820484 original size:13 final size:13
Alignment explanation
Indices: 820466--820490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
820456 ACAACACTTA
820466 TGTATCGATACAT
1 TGTATCGATACAT
820479 TGTATCGATACA
1 TGTATCGATACA
820491 AGACTTTATG
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:820488 original size:32 final size:33
Alignment explanation
Indices: 820447--820510 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
820437 ACAAAACTTA
820447 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
*
820479 TGTATCGATACAAGACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
820511 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:825947 original size:13 final size:13
Alignment explanation
Indices: 825929--825958 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
825919 AGTTTTTACC
825929 ATGTATCGATACA
1 ATGTATCGATACA
*
825942 ATGTATCGATGCA
1 ATGTATCGATACA
825955 ATGT
1 ATGT
825959 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:828964 original size:31 final size:32
Alignment explanation
Indices: 828892--828968 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
828882 GATACATTGA
* * *
828892 AGAATGTATGGATGCATTTGGGTCAAAAACCT
1 AGAATGTATCGATACATTTGGGTCAAAAACCC
*
828924 AGAATGTATCGATACATTTGGGTC-AAATCCC
1 AGAATGTATCGATACATTTGGGTCAAAAACCC
*
828955 ATAATGTATCGATA
1 AGAATGTATCGATA
828969 TAATGAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 18 0.45
32 22 0.55
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (32 bp):
AGAATGTATCGATACATTTGGGTCAAAAACCC
Found at i:831510 original size:27 final size:27
Alignment explanation
Indices: 831480--831553 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
831470 TCCACAATCG
*
831480 GGGATACTCTAACCCCGTTAATCATCA
1 GGGATACTCCAACCCCGTTAATCATCA
*
831507 GGGATACTCCAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCATCA
831534 GGGATACTCCAACCCCGTTA
1 GGGATACTCCAACCCCGTTA
831554 TTTCCGAGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATCA
Found at i:831573 original size:28 final size:27
Alignment explanation
Indices: 831479--831577 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
831469 CTCCACAATC
* *
831479 GGGGATACTCTAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCA-GA
**
831507 -GGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
831533 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
831561 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
831578 TGCTTTATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 43 0.69
28 19 0.31
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:831636 original size:51 final size:51
Alignment explanation
Indices: 831561--831782 Score: 216
Period size: 51 Copynumber: 4.3 Consensus size: 51
831551 TTATTTCCGA
* * * * *
831561 GGGGATACTCCAACCCCTG-CTTTATTCTTAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCC-GATTTTATTCTTAAAACACTAATTTTC-CACAATC
*
831612 GGGGATACTCCAACCTCGATTTTATTGC-TAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATT-CTTAAAACACTAATTTTCCACAATC
* * **
831663 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTCTTAAAACACTAATTTTCC-ACAATC
* * ** * *
831715 GGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTA-TTCTTAAAACACTAA-TTTTCCACAATC
*
831768 GAGGATACTCCAACC
1 GGGGATACTCCAACC
831783 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 77 0.54
52 31 0.22
53 28 0.20
54 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTCTTAAAACACTAATTTTCCACAATC
Found at i:831801 original size:28 final size:28
Alignment explanation
Indices: 831765--831841 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
831755 TTTTTTCACA
* * **
831765 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
831793 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
*
831821 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
831842 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:844383 original size:16 final size:16
Alignment explanation
Indices: 844362--844410 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
844352 CCTTCTCTTC
844362 AAAAAAAAAAGCAAAA
1 AAAAAAAAAAGCAAAA
*
844378 AAAAAAAAAAACAAAA
1 AAAAAAAAAAGCAAAA
*
844394 AACAAAACAAAG-AAAA
1 AA-AAAAAAAAGCAAAA
844410 A
1 A
844411 GAGAGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGCAAAA
Found at i:844404 original size:12 final size:11
Alignment explanation
Indices: 844361--844400 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
844351 ACCTTCTCTT
844361 CAAAAAAAAAA
1 CAAAAAAAAAA
844372 GCAAAAAAAAAA
1 -CAAAAAAAAAA
*
844384 AAAAACAAAAAA
1 CAAAA-AAAAAA
844396 CAAAA
1 CAAAA
844401 CAAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:845528 original size:55 final size:55
Alignment explanation
Indices: 845419--845967 Score: 865
Period size: 55 Copynumber: 10.0 Consensus size: 55
845409 GATGCTTTTT
845419 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
*
845475 CCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
845530 CCTTTCAAAGCCCACCCAAGTTGGTGCCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* * *
845585 CCTCTT-AAAGCTCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
*
845640 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
845695 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
*
845750 CCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
845805 CCTTTCAAATCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
845860 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
* * * *
845915 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TACTCCTCAATGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
845968 TACACTTTAT
Statistics
Matches: 460, Mismatches: 26, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
54 7 0.02
55 415 0.90
56 38 0.08
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
Found at i:845701 original size:26 final size:26
Alignment explanation
Indices: 845612--845701 Score: 65
Period size: 26 Copynumber: 3.3 Consensus size: 26
845602 AAGTTGGTGG
*
845612 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * **
845638 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCACA-AAG-AGCAGGA
** *
845667 CATTTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
845693 CACCTTTCA
1 CACCTTTCA
845702 AAGCCCACAC
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
25 3 0.07
26 18 0.40
27 6 0.13
28 6 0.13
29 9 0.20
30 3 0.07
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:846750 original size:19 final size:19
Alignment explanation
Indices: 846726--846780 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
846716 AATTCAACAA
846726 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
846745 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
846764 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
846781 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:849305 original size:26 final size:27
Alignment explanation
Indices: 849242--849314 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
849232 TCCACAATCG
*
849242 GGGATACTCTAACCCCGTTAATCATCA
1 GGGATACTCCAACCCCGTTAATCATCA
849269 GGGATACTCCAACCCCGTTAATCATC-
1 GGGATACTCCAACCCCGTTAATCATCA
849295 GGGATACTCCAACCCCGTTA
1 GGGATACTCCAACCCCGTTA
849315 TTTCCGAGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 20 0.44
27 25 0.56
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.23
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATCA
Found at i:849388 original size:51 final size:52
Alignment explanation
Indices: 849322--849544 Score: 148
Period size: 52 Copynumber: 4.3 Consensus size: 52
849312 TTATTTCCGA
* * * *
849322 GGGGATACTCCAACCCCTG-CTTTATT-CTTAAACTATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCC-GACTTTATTGCTAAAAC-ACTAATTTCTCCACAATC
* *
849373 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCCACAATC
* * ** * * ** *
849425 GGGGATACTCCAACCTCGATTTTATTTTTAAAATACCAATTT-TCCTTTAATA
1 GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCC-ACAATC
* * * * * * * * *
849477 GGGGATACTTCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTA-TTGCTAAAACACTAATTTCTCCACAATC
**
849530 AAGGATACTCCAACC
1 GGGGATACTCCAACC
849545 TCGTTATTTC
Statistics
Matches: 135, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
50 1 0.01
51 33 0.24
52 72 0.53
53 27 0.20
54 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCCACAATC
Found at i:849445 original size:52 final size:52
Alignment explanation
Indices: 849369--849547 Score: 182
Period size: 52 Copynumber: 3.4 Consensus size: 52
849359 GATTTCTCAT
* * *
849369 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCTCGATTTTATTCCTAAAACACCAATTTTTCCAC
** * **
849421 AATCGGGGATACTCCAACCTCGATTTTATTTTTAAAATACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAACCTCGATTTTATTCCTAAAACACCAATTTTTCC-AC
* * * * *
849473 AATAGGGGATACTTC-AGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCT-CGATTTTA-TTCCTAAAACACCAATTTTTCCAC
**
849526 AATCAAGGATACTCCAACCTCG
1 AATCGGGGATACTCCAACCTCG
849548 TTATTTCATC
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
51 9 0.09
52 59 0.59
53 24 0.24
54 8 0.08
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCTCGATTTTATTCCTAAAACACCAATTTTTCCAC
Found at i:849564 original size:28 final size:28
Alignment explanation
Indices: 849532--849603 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
849522 TCACAATCAA
* ** *
849532 GGATACTCCAACCTCGTTATTTCAT-CGG
1 GGATACTCCAACCCCGTTACCTC-TGAGG
849560 GGATACTCCAACCCCGTTACCTCTGAGG
1 GGATACTCCAACCCCGTTACCTCTGAGG
849588 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
849604 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCTGAGG
Found at i:849706 original size:79 final size:79
Alignment explanation
Indices: 849557--849760 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
849547 GTTATTTCAT
** **
849557 CGGGGATACTCCAACCCCGTTA-CCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCAACTTTATTCCCAAAATA
* * *
849621 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * * * *
849636 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCAATTTTTTTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCCAAAAT-A
849700 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * *
849715 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACCCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
849761 GTTATTATCT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.03
79 98 0.95
80 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:850805 original size:21 final size:21
Alignment explanation
Indices: 850781--850834 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
850771 CATGGTCCTA
850781 TATCGATACATTTCAAACATG
1 TATCGATACATTTCAAACATG
***
850802 TATCGATACA-TTCACTTATG
1 TATCGATACATTTCAAACATG
850822 TATCGATACATTT
1 TATCGATACATTT
850835 GCTTATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (21 bp):
TATCGATACATTTCAAACATG
Found at i:850846 original size:21 final size:20
Alignment explanation
Indices: 850799--850853 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
850789 CATTTCAAAC
850799 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
**
850819 ATGTATCGATACATTTGCTT
1 ATGTATCGATACATTCACTT
850839 ATTGTATCGATACAT
1 A-TGTATCGATACAT
850854 GAAAGGCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:853585 original size:20 final size:21
Alignment explanation
Indices: 853541--853614 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
853531 TTTTACAATT
* *
853541 TGTATTGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
853562 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* *
853582 TGTATCGATACATGC-CTAAAA
1 TGTATCGATACATACAGT-AAA
853603 TGTATCGATACA
1 TGTATCGATACA
853615 AAATTACCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 19 0.42
21 26 0.58
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:856233 original size:98 final size:98
Alignment explanation
Indices: 856089--856372 Score: 270
Period size: 98 Copynumber: 2.9 Consensus size: 98
856079 TTCATCTAGA
*
856089 TTTAAACCTCATTTTTGCTCAAATTTTCATCATTAGGGGTACTCCAACCCCA-TCTATCCGAGGA
1 TTTAAACCTCATTTTTGCTCAAATTTTCATCATGAGGGGTACTCCAACCCCATTCT-TCCGAGGA
856153 GATACTCCAACCCTATTTTTAAACTCATCAATTT
65 GATACTCCAACCCTATTTTTAAACTCATCAATTT
* * * *
856187 TTTAAACCTC-TTTTTCGCTGAAATTTTTATCATCGA-GGGTACTCCAACCCTATTCTTCCTAGG
1 TTTAAACCTCATTTTT-GCTCAAATTTTCATCAT-GAGGGGTACTCCAACCCCATTCTTCCGAGG
* * * * *
856250 GGATACTCCAACCTTGTTTTTAAACTTATCAA-TA
64 AGATACTCCAACCCTATTTTTAAACTCATCAATTT
*** * ** * * ** * * * * *
856284 TTTAATTTTTATTTTTGCTCAAATTGCCATCATTAAGGACACTTCAACTCTATTCCTCCGAGGGG
1 TTTAAACCTCATTTTTGCTCAAATTTTCATCATGAGGGGTACTCCAACCCCATTCTTCCGAGGAG
* *
856349 ATACTCTAACCCTATTTTTCAACT
66 ATACTCCAACCCTATTTTTAAACT
856373 AAAAATTAAA
Statistics
Matches: 152, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
96 1 0.01
97 68 0.45
98 79 0.52
99 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (98 bp):
TTTAAACCTCATTTTTGCTCAAATTTTCATCATGAGGGGTACTCCAACCCCATTCTTCCGAGGAG
ATACTCCAACCCTATTTTTAAACTCATCAATTT
Found at i:859725 original size:8 final size:8
Alignment explanation
Indices: 859712--859749 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
859702 TTTCTTTGTG
859712 AAAGAAAA
1 AAAGAAAA
859720 AAAGAAAA
1 AAAGAAAA
859728 AGAAGAAAA
1 A-AAGAAAA
*
859737 GAA-AAAA
1 AAAGAAAA
859744 AAAGAA
1 AAAGAA
859750 TGAAAGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:859731 original size:14 final size:14
Alignment explanation
Indices: 859712--859746 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
859702 TTTCTTTGTG
859712 AAAGAAAAAAAGAA
1 AAAGAAAAAAAGAA
*
859726 AAAGAAGAAAAGAA
1 AAAGAAAAAAAGAA
859740 AAA-AAAA
1 AAAGAAAA
859747 GAATGAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:859755 original size:18 final size:18
Alignment explanation
Indices: 859713--859777 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
859703 TTCTTTGTGA
859713 AAGAAA-AAAAGAAAAAG
1 AAGAAAGAAAAGAAAAAG
859730 AAGAAAAGAAAA-AAAAAG
1 AAG-AAAGAAAAGAAAAAG
* * *
859748 AATGAAAGGAATGAAAATG
1 AA-GAAAGAAAAGAAAAAG
859767 AA-AAAGCAAAA
1 AAGAAAG-AAAA
859778 AGAGAATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.18
18 19 0.50
19 12 0.32
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGAAAGAAAAGAAAAAG
Done.