Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2210178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:603451 original size:22 final size:22
Alignment explanation
Indices: 603426--603501 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
603416 AATTTAACCA
603426 TTTTTATTTTTATTTTTTTATG
1 TTTTTATTTTTATTTTTTTATG
*
603448 TTTTTATTTTTATTTTTACTATG
1 TTTTTATTTTTATTTTT-TTATG
* * * *
603471 -TTTTATTTATCTTTGTTTATC
1 TTTTTATTTTTATTTTTTTATG
603492 TATTTTATTT
1 T-TTTTATTT
603502 ATTTTATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.07
22 30 0.67
23 12 0.27
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTTATTTTTTTATG
Found at i:603452 original size:23 final size:23
Alignment explanation
Indices: 603426--603478 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
603416 AATTTAACCA
*
603426 TTTTTATTTTTATTTTT-TTATG
1 TTTTTATTTTTATTTTTACTATG
603448 TTTTTATTTTTATTTTTACTATG
1 TTTTTATTTTTATTTTTACTATG
603471 -TTTTATTT
1 TTTTTATTT
603479 ATCTTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTACTATG
Found at i:603518 original size:23 final size:23
Alignment explanation
Indices: 603428--603561 Score: 80
Period size: 23 Copynumber: 5.7 Consensus size: 23
603418 TTTAACCATT
* *
603428 TTTATTTTTATTTTTTTATGTT-
1 TTTATTTTTATTTTATTATTTTA
*
603450 TTTATTTTTATTTTTACTATGTTTTA
1 TTTATTTTTA-TTTTA-T-TATTTTA
* *
603476 TTTATCTTT-GTTTATCTATTTTA
1 TTTATTTTTATTTTAT-TATTTTA
*
603499 TTTA-TTTTATTATTATTATTATA
1 TTTATTTTTATT-TTATTATTTTA
* * *
603522 TTAATATTTTT-TTCT-TTCTTCATA
1 TT--TATTTTTATTTTATTATT-TTA
603546 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
603562 AATCTAATAA
Statistics
Matches: 87, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
22 20 0.23
23 31 0.36
24 16 0.18
25 8 0.09
26 12 0.14
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTATTTTTATTTTATTATTTTA
Found at i:605195 original size:23 final size:25
Alignment explanation
Indices: 605149--605195 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
605139 CATTCAAACT
* *
605149 AAAATAAATATATGTAATTCTTATC
1 AAAATAAATATATCTAATTATTATC
605174 AAAAT-AATA-ATCTAATTATTAT
1 AAAATAAATATATCTAATTATTAT
605196 ACTATGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 4 0.20
25 5 0.25
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAATAAATATATCTAATTATTATC
Found at i:606349 original size:17 final size:18
Alignment explanation
Indices: 606314--606349 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
606304 AAATAATTAA
606314 ATTAAATACTAACAAAAT
1 ATTAAATACTAACAAAAT
*
606332 ATTAAATA-TAATAAAAT
1 ATTAAATACTAACAAAAT
606349 A
1 A
606350 CACCTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAATACTAACAAAAT
Found at i:606802 original size:17 final size:17
Alignment explanation
Indices: 606780--606815 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
606770 CTCTAAAGGT
*
606780 TAATAATAATGTATCCA
1 TAATAATAATATATCCA
606797 TAATAATAATATATCCA
1 TAATAATAATATATCCA
606814 TA
1 TA
606816 CTTACTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAATAATATATCCA
Found at i:607155 original size:108 final size:108
Alignment explanation
Indices: 607033--607304 Score: 309
Period size: 108 Copynumber: 2.5 Consensus size: 108
607023 TATTTATAAC
* * *
607033 AAAATAAGA-AATTAACATAATTTGTTGTTGTGAGATTT-TGAAGGCCCCATCAACTTAAACTTT
1 AAAATAA-ATAATTAACATATTTTGTTATTGTGAGATTTCT-AAGACCCCATCAACTTAAACTTT
*
607096 -AGTAACATTTTAGACGCTACTTAATATGTTGATAATATTAACAAA
64 GA-TAACATTTTAGACGCTACCTAATATGTTGATAATATTAACAAA
* * * ** *
607141 AAAATAAATAATTAACCTATTTTGTTATCGTCAGATTTCTAAGATTCCATCAGCTTAAACTTTGA
1 AAAATAAATAATTAACATATTTTGTTATTGTGAGATTTCTAAGACCCCATCAACTTAAACTTTGA
* * * * *
607206 TAATATTTTAGGCGCTACCTAATATGTTGATAATATTGATAAC
66 TAACATTTTAGACGCTACCTAATATGTTGATAATATTAACAAA
* * * *
607249 AAATTAAGTAGTTAACATATTTTGTTATTATCG-GATTTCTAAGACCCCATCAACTT
1 AAAATAAATAATTAACATATTTTGTTATTGT-GAGATTTCTAAGACCCCATCAACTT
607305 TAAAAAGGTA
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
107 1 0.01
108 132 0.98
109 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (108 bp):
AAAATAAATAATTAACATATTTTGTTATTGTGAGATTTCTAAGACCCCATCAACTTAAACTTTGA
TAACATTTTAGACGCTACCTAATATGTTGATAATATTAACAAA
Found at i:607421 original size:226 final size:226
Alignment explanation
Indices: 607150--607609 Score: 688
Period size: 226 Copynumber: 2.0 Consensus size: 226
607140 AAAAATAAAT
* * *
607150 AATTAACCTATTTTGTTATCGTCAGATTTCTAAGATTCCATCAGCTTAAACTTTGATAATATTTT
1 AATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAAATTTGATAACATTTT
* * *
607215 AGGCGCTACCTAATATGTTGATAATATTGATAACAAATTAAGTAGTTAACATATTTTGTTATTAT
66 AGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCAT
* * *
607280 CGGATTTCTAAGACCCCATCAACTTTAAAAAGGTACTATCTATTACATTAAATAAGCGTTA-CTT
131 CGGATTTCTAAGACCCCATCAACTTTAAAAAGGCACTACCTATTACATTAAATAAGCGCTATC-T
607344 GTTATATTATTATGGTTGATAATGTTTCCAGC
195 GTTATATTATTATGGTTGATAATGTTTCCAGC
* * * * *
607376 AATTAGCCTATTTTGTTATTGTCGGATTTCTAAGGCTCCATCAGCTTAAAATTTGGTAACATTTT
1 AATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAAATTTGATAACATTTT
*
607441 AGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCGT
66 AGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCAT
* * * ** *
607506 TGGATTTCTAAGGCCCCGTCAGTTTTAAAAAGGCGCTACCTATTACATTAAATAAGCGCTATCTG
131 CGGATTTCTAAGACCCCATCAACTTTAAAAAGGCACTACCTATTACATTAAATAAGCGCTATCTG
* * *
607571 TTATGTTATTATGGTTGATAATGTTTCTAGT
196 TTATATTATTATGGTTGATAATGTTTCCAGC
607602 AATTAACC
1 AATTAACC
607610 GATTATTTAA
Statistics
Matches: 208, Mismatches: 25, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
226 207 1.00
227 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (226 bp):
AATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAAATTTGATAACATTTT
AGGCGCTACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCAT
CGGATTTCTAAGACCCCATCAACTTTAAAAAGGCACTACCTATTACATTAAATAAGCGCTATCTG
TTATATTATTATGGTTGATAATGTTTCCAGC
Found at i:607718 original size:13 final size:13
Alignment explanation
Indices: 607700--607724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
607690 CAAAGTTAAC
607700 ATTTTCGGTGAAT
1 ATTTTCGGTGAAT
607713 ATTTTCGGTGAA
1 ATTTTCGGTGAA
607725 AACATATAAT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
ATTTTCGGTGAAT
Found at i:607772 original size:16 final size:16
Alignment explanation
Indices: 607751--607797 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
607741 GGTAACGCTT
* *
607751 TTAACCTGTCACTTAC
1 TTAACCAGTCACGTAC
607767 TTAACCAGTCACGTAC
1 TTAACCAGTCACGTAC
607783 TTAACCAGTCACGTA
1 TTAACCAGTCACGTA
607798 TTTTTTAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (16 bp):
TTAACCAGTCACGTAC
Found at i:608444 original size:31 final size:31
Alignment explanation
Indices: 608325--608444 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 31
608315 CTTCCAAAAG
* * * *
608325 TTATAAAACAATAATT-AATTTTTTAAATAA
1 TTATAAAATAATTATTAAATTTATTAAATTA
*
608355 TTATAAAATAATTATTAAATTTATT-GATCTA
1 TTATAAAATAATTATTAAATTTATTAAAT-TA
* * * *
608386 TTATAAAATGATCAGTGAAA-TTCTTAAATTA
1 TTATAAAATAATTA-TTAAATTTATTAAATTA
*
608417 TTATAAAATAATTATTAAACTTATTAAA
1 TTATAAAATAATTATTAAATTTATTAAA
608445 ATTCATTACT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
30 20 0.28
31 45 0.63
32 6 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
TTATAAAATAATTATTAAATTTATTAAATTA
Found at i:611164 original size:35 final size:35
Alignment explanation
Indices: 611124--611199 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
611114 TAAAATATTT
*
611124 GAATTTAAGGTTTAAAATATAATTGAAGTATTTTG
1 GAATTTAAGGTTTAAAATATAATTGAAGTATTTTA
** * * *
611159 GAATTTGGGGTTTAGAATGTAATTGAAGTGTTTTA
1 GAATTTAAGGTTTAAAATATAATTGAAGTATTTTA
611194 GAATTT
1 GAATTT
611200 TGAACATGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.43
Consensus pattern (35 bp):
GAATTTAAGGTTTAAAATATAATTGAAGTATTTTA
Found at i:613451 original size:9 final size:7
Alignment explanation
Indices: 613424--613456 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
613414 ATTTTGATAA
613424 AAGAGAT
1 AAGAGAT
613431 AAGAGAT
1 AAGAGAT
613438 AAGAGAT
1 AAGAGAT
*
613445 AAGAGAG
1 AAGAGAT
613452 AAGAG
1 AAGAG
613457 CAACAACGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (7 bp):
AAGAGAT
Found at i:620092 original size:17 final size:18
Alignment explanation
Indices: 620051--620089 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
620041 ATTATATTAC
620051 TAAAATA-TTAAATAAAG
1 TAAAATACTTAAATAAAG
*
620068 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAG
620086 TAAA
1 TAAA
620090 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAG
Found at i:620156 original size:12 final size:10
Alignment explanation
Indices: 620139--620167 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
620129 GAGAGAGTAT
620139 TTGAGAGAAA
1 TTGAGAGAAA
620149 TTGAGAGAAA
1 TTGAGAGAAA
620159 TTGAGAGAA
1 TTGAGAGAA
620168 TTTGGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:625616 original size:21 final size:22
Alignment explanation
Indices: 625590--625630 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
625580 CCAGGATAGG
625590 GAGTATCAGTAC-TCCTTTAAT
1 GAGTATCAGTACTTCCTTTAAT
*
625611 GAGTATCGGTACTTCCTTTA
1 GAGTATCAGTACTTCCTTTA
625631 TATTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (22 bp):
GAGTATCAGTACTTCCTTTAAT
Found at i:626450 original size:10 final size:10
Alignment explanation
Indices: 626435--626459 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
626425 ATCTATTTTA
626435 GAGACGAATT
1 GAGACGAATT
626445 GAGACGAATT
1 GAGACGAATT
626455 GAGAC
1 GAGAC
626460 AAAGCGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (10 bp):
GAGACGAATT
Found at i:628173 original size:23 final size:24
Alignment explanation
Indices: 628129--628182 Score: 92
Period size: 23 Copynumber: 2.2 Consensus size: 24
628119 TGTTATATCA
628129 AAAATAATTTAAATTTTAAAGTTCT
1 AAAAT-ATTTAAATTTTAAAGTTCT
628154 AAAATATTTAAA-TTTAAAGTTCT
1 AAAATATTTAAATTTTAAAGTTCT
628177 AAAATA
1 AAAATA
628183 ACTTTGGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 17 0.59
24 7 0.24
25 5 0.17
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATATTTAAATTTTAAAGTTCT
Found at i:630953 original size:20 final size:21
Alignment explanation
Indices: 630928--630967 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
630918 TTTTTGGTCA
630928 TTTCTAGCC-GTTGGGGATGT
1 TTTCTAGCCAGTTGGGGATGT
*
630948 TTTCTAGCCATTTGGGGATG
1 TTTCTAGCCAGTTGGGGATG
630968 AAATCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.15, G:0.33, T:0.40
Consensus pattern (21 bp):
TTTCTAGCCAGTTGGGGATGT
Found at i:634667 original size:18 final size:18
Alignment explanation
Indices: 634644--634679 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
634634 GCGACTTCAA
*
634644 TGAAGCGCAGCAAGGCGC
1 TGAAGCGCAGAAAGGCGC
*
634662 TGAAGCTCAGAAAGGCGC
1 TGAAGCGCAGAAAGGCGC
634680 CGCCTTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.36, T:0.08
Consensus pattern (18 bp):
TGAAGCGCAGAAAGGCGC
Found at i:635672 original size:23 final size:23
Alignment explanation
Indices: 635646--635718 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
635636 ATTTTTATTT
635646 ATTGTTTCAGTTTCTTATGTGGA
1 ATTGTTTCAGTTTCTTATGTGGA
* *
635669 ATTGTTTATTAGATTTC-TAT-T--T
1 ATTG-TT-TCAG-TTTCTTATGTGGA
635691 ATTGTTTCAGTTTCTTATGTGGA
1 ATTGTTTCAGTTTCTTATGTGGA
635714 ATTGT
1 ATTGT
635719 GGACCAAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.10
20 6 0.15
21 3 0.08
22 4 0.10
23 9 0.23
24 3 0.08
25 6 0.15
26 4 0.10
ACGTcount: A:0.19, C:0.07, G:0.18, T:0.56
Consensus pattern (23 bp):
ATTGTTTCAGTTTCTTATGTGGA
Found at i:635693 original size:45 final size:45
Alignment explanation
Indices: 635629--635718 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
635619 TGGCAACTCA
*
635629 TTATTAGATTTTTATTTATTGTTTCAGTTTCTTATGTGGAATTGT
1 TTATTAGATTTCTATTTATTGTTTCAGTTTCTTATGTGGAATTGT
635674 TTATTAGATTTCTATTTATTGTTTCAGTTTCTTATGTGGAATTGT
1 TTATTAGATTTCTATTTATTGTTTCAGTTTCTTATGTGGAATTGT
635719 GGACCAAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.59
Consensus pattern (45 bp):
TTATTAGATTTCTATTTATTGTTTCAGTTTCTTATGTGGAATTGT
Found at i:638035 original size:12 final size:12
Alignment explanation
Indices: 637939--638040 Score: 86
Period size: 12 Copynumber: 8.4 Consensus size: 12
637929 TTAATATATT
*
637939 TAATATAAATTAA
1 TAATATGAA-TAA
637952 TAATAAT-AATAA
1 TAAT-ATGAATAA
637964 TAATAAT-AATAA
1 TAAT-ATGAATAA
637976 TAATAAT-AATAA
1 TAAT-ATGAATAA
637988 TAATAAT-AATAA
1 TAAT-ATGAATAA
*
638000 TAATATTAATAA
1 TAATATGAATAA
*
638012 TAATATTAATAA
1 TAATATGAATAA
*
638024 TAATATGGATAA
1 TAATATGAATAA
*
638036 AAATA
1 TAATA
638041 ATATGGATAA
Statistics
Matches: 84, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
11 2 0.02
12 74 0.88
13 6 0.07
14 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
TAATATGAATAA
Found at i:638040 original size:15 final size:15
Alignment explanation
Indices: 638022--638053 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
638012 TAATATTAAT
638022 AATAATATGGATAAA
1 AATAATATGGATAAA
638037 AATAATATGGATAAA
1 AATAATATGGATAAA
638052 AA
1 AA
638054 ATAGTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAATATGGATAAA
Found at i:638043 original size:3 final size:3
Alignment explanation
Indices: 637949--638028 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
637939 TAATATAAAT
637949 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
637997 TAA TAA TAT TAA TAA TAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
638029 TGGATAAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:638823 original size:337 final size:337
Alignment explanation
Indices: 638334--638970 Score: 1080
Period size: 337 Copynumber: 1.9 Consensus size: 337
638324 AGATAATATC
* * *
638334 AAACAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTT
1 AAACAAAAGTTGAACAAGCTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
638399 CATTCATGAACTTTCTTTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
66 CATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
*
638464 AGTTCTTCTCATTATGACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
131 AATTCTTCTCATTATGACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
*
638529 GGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG-A
196 GGTAATGTTGATCCATCAAATGATG-ATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAA
638593 CCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATC
260 CCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATC
638658 AAATGATGAATTT
325 AAATGATGAATTT
*
638671 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGCTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *** *
638736 CATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAGGTAAAAGGTTGAACA
66 CATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
638800 AATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
131 AATTCTTCTCATTATG-ACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*** *
638865 TGGTAATGTTGATCCATCAAATGATGATTTAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
195 TGGTAATGTTGATCCATCAAATGATGATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAA
*
638930 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
260 CCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
638971 TCTACCTTGC
Statistics
Matches: 280, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
336 100 0.36
337 180 0.64
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (337 bp):
AAACAAAAGTTGAACAAGCTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
AATTCTTCTCATTATGACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
GGTAATGTTGATCCATCAAATGATGATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAAC
CTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATCA
AATGATGAATTT
Found at i:639001 original size:112 final size:113
Alignment explanation
Indices: 638334--638970 Score: 1077
Period size: 112 Copynumber: 5.7 Consensus size: 113
638324 AGATAATATC
* * *
638334 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
638398 TCATTCATGAACTTTCTTTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*
638447 AAACAAAAAGTTGAACAAGTTCTTCTCATTATG-ACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638511 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*
638559 AAACAAAAAGTTGAACAAGTTCTTCTCATTATG-ACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638623 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
638671 AAACAAAA-GTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638735 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** *
638783 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638848 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATG-ATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * *
638895 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638960 TCATTATGAAC
66 TCATTATGAAC
638971 TCTACCTTGC
Statistics
Matches: 509, Mismatches: 12, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
111 24 0.05
112 323 0.63
113 136 0.27
114 26 0.05
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
Found at i:639001 original size:225 final size:225
Alignment explanation
Indices: 638334--638970 Score: 1075
Period size: 225 Copynumber: 2.8 Consensus size: 225
638324 AGATAATATC
* * *
638334 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
638398 TCATTCATGAACTTTCTTTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAAC
66 TCATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAAC-AAAAGTTGAAC
638463 AAGTTCTTCTCATTATG-ACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
129 AAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
638527 CTGGTAATGTTGATCCATCAAATGATGAATTT
194 CTGGTAATGTTGATCCATCAAATGATGAATTT
*
638559 AAACAAAAAGTTGAACAAGTTCTTCTCATTATG-ACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
638623 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAA
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAA
638688 GTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
131 GTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
638753 GGTAATGTTGATCCATCAAATGATGAATTT
196 GGTAATGTTGATCCATCAAATGATGAATTT
*** *
638783 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
***
638848 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATG-ATTTAGGTAAAAGGTTGAACA
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAA-GTTGAACA
* *
638912 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
130 AGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
638971 TCTACCTTGC
Statistics
Matches: 391, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
223 28 0.07
224 160 0.41
225 177 0.45
226 26 0.07
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (225 bp):
AAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAA
GTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCT
GGTAATGTTGATCCATCAAATGATGAATTT
Found at i:639705 original size:52 final size:52
Alignment explanation
Indices: 639639--639831 Score: 377
Period size: 52 Copynumber: 3.7 Consensus size: 52
639629 ATTCTGTCCA
*
639639 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
639691 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
639743 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
639795 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
639832 TGGCAAATTC
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 140 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:639882 original size:182 final size:182
Alignment explanation
Indices: 639691--640025 Score: 661
Period size: 182 Copynumber: 1.8 Consensus size: 182
639681 GTCCAACCAG
639691 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
639756 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
66 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
639821 GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
131 GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
639873 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
639938 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
66 AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
640003 GAAGATGCTATTGGCATATTCAT
131 GAAGATGCTATTGGCAAATTCAT
640026 TTGTTCCAGT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 152 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (182 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCA
AAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATTGGCAAATTCATATTCTAAATTCAATGCTTGATTCTGTCCA
Found at i:639944 original size:52 final size:52
Alignment explanation
Indices: 639873--640013 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
639863 ATTCTGTCCA
639873 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
639925 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
639977 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
640014 TGGCATATTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:639975 original size:234 final size:234
Alignment explanation
Indices: 639560--640013 Score: 872
Period size: 234 Copynumber: 1.9 Consensus size: 234
639550 CACTTCTTCG
* *
639560 GATCAAATAACTCAAATAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
*
639625 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
639690 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
131 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
639755 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
196 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
639794 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
1 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
639859 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
639924 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
131 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
639989 AAAGAACACTTCCAGAAGATGCTAT
196 AAAGAACACTTCCAGAAGATGCTAT
640014 TGGCATATTC
Statistics
Matches: 216, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 216 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (234 bp):
GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:640822 original size:16 final size:17
Alignment explanation
Indices: 640784--640828 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
640774 AATATAAAAG
*
640784 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
640802 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
640818 AATAAATTGAA
1 AATAAATTGAA
640829 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:652507 original size:24 final size:22
Alignment explanation
Indices: 652475--652523 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
652465 TTACTATTAT
* *
652475 ATATATATTTATGAATATATAAAA
1 ATATATATTCAT-AA-AAATAAAA
*
652499 ATATTTATTCATAAAAATAAAA
1 ATATATATTCATAAAAATAAAA
652521 ATA
1 ATA
652524 CTATTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATTCATAAAAATAAAA
Found at i:653968 original size:15 final size:15
Alignment explanation
Indices: 653950--653981 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
653940 TAATATTAAT
653950 AATAATATGGATAAA
1 AATAATATGGATAAA
653965 AATAATATGGATAAA
1 AATAATATGGATAAA
653980 AA
1 AA
653982 ATAGTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAATATGGATAAA
Found at i:653971 original size:3 final size:3
Alignment explanation
Indices: 653897--653956 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
653887 TAATATAAAT
*
653897 TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
*
653943 TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TA
653957 TGGATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:657894 original size:24 final size:24
Alignment explanation
Indices: 657867--657919 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
657857 TATTAGTTTA
657867 TTGTTTTAAAAGTG-TTTATTTCAT
1 TTGTTTTAAAAGTGTTTTA-TTCAT
**
657891 TTG-TTTAGCAGTGTTTTATTCAT
1 TTGTTTTAAAAGTGTTTTATTCAT
657914 TTGTTT
1 TTGTTT
657920 AGCATTGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (24 bp):
TTGTTTTAAAAGTGTTTTATTCAT
Found at i:657903 original size:23 final size:23
Alignment explanation
Indices: 657877--657923 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
657867 TTGTTTTAAA
657877 AGTG-TTTATTTCATTTGTTTAGC
1 AGTGTTTTA-TTCATTTGTTTAGC
657900 AGTGTTTTATTCATTTGTTTAGC
1 AGTGTTTTATTCATTTGTTTAGC
657923 A
1 A
657924 TTGCGAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.19, C:0.09, G:0.17, T:0.55
Consensus pattern (23 bp):
AGTGTTTTATTCATTTGTTTAGC
Found at i:658574 original size:174 final size:170
Alignment explanation
Indices: 658252--658591 Score: 635
Period size: 174 Copynumber: 2.0 Consensus size: 170
658242 TTCTCACATG
658252 TCACGTTTTGTTCATTTAGATCCCTATTTACAGAGATTGATTGTATACCCGGGCATCGGGTTTGT
1 TCACGTTTTGTTCATTTAGATCCCTATTTACAGAGATTGATTGTATACCCGGGCATCGGGTTTGT
658317 TTTGTAATTTATGAGGAGGGTATGCAATAGCAAAGGGGTGGAGGTGGTGGTGGTTAGGCCACATG
66 TTTGTAATTTATGAGGAGGGTATGCAATAGCAAAGGGGTGGAGGTGGTGGTGGTTAGGCCACATG
658382 TTTGGTCTTAAATGCAAAAAGAATCCCAGGGTCAGGATGT
131 TTTGGTCTTAAATGCAAAAAGAATCCCAGGGTCAGGATGT
658422 TCACGTTTTGTTCATTTAGATCCCTATTTACAGAGATTGATTGTATACCCTGGGCATCGGGTTTT
1 TCACGTTTTGTTCATTTAGATCCCTATTTACAGAGATTGATTGTATACCC-GGGCATCGGG-TTT
*
658487 GTTTTGTAATTTATGAGGAGGGTATGCAATAGCAAGTCGGGGTGGAGGTGGTGGTGGTTAGGCCA
64 GTTTTGTAATTTATGAGGAGGGTATGCAATAGCAA--AGGGGTGGAGGTGGTGGTGGTTAGGCCA
658552 CATGTTTGGTCTTAAATGCAAAAAGAATCCCAGGGTCAGG
127 CATGTTTGGTCTTAAATGCAAAAAGAATCCCAGGGTCAGG
658592 GGGGGGCTGC
Statistics
Matches: 165, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
170 50 0.30
171 10 0.06
172 38 0.23
174 67 0.41
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (170 bp):
TCACGTTTTGTTCATTTAGATCCCTATTTACAGAGATTGATTGTATACCCGGGCATCGGGTTTGT
TTTGTAATTTATGAGGAGGGTATGCAATAGCAAAGGGGTGGAGGTGGTGGTGGTTAGGCCACATG
TTTGGTCTTAAATGCAAAAAGAATCCCAGGGTCAGGATGT
Found at i:661045 original size:2 final size:2
Alignment explanation
Indices: 661038--661081 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
661028 ATTATACATC
661038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
661080 AT
1 AT
661082 GATCATATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:663426 original size:20 final size:21
Alignment explanation
Indices: 663396--663434 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
663386 ATTACAAGTA
663396 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
*
663417 CAAA-ATGACAAAATCGGT
1 CAAATATGACAAAACCGGT
663435 AAAACGCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:663844 original size:166 final size:164
Alignment explanation
Indices: 663526--664217 Score: 524
Period size: 183 Copynumber: 4.0 Consensus size: 164
663516 TAGCGCCTAT
* *
663526 AAAGTGTCGATACTTTAAAAAAATATATCGATCCATAACAATATAACATGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * * * *
663591 ACATGTCTCAAAATTGACAAAACCAGTAAAACGATACCGGATATGTTGAAAGTGACGATACTTTA
66 ACAAGTCTAAAAAATGAAAAAACCAGAAAAACGATACAGGATATGTTGAAAGTGACGATAATTTA
663656 ATATAAGTATCAACACTTTCTGAAATTAAACTAA
131 ATATAAGTATCAACACTTTCTGAAATTAAACTAA
** * * *
663690 AAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAATAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
663755 ACAAGTCTAAAAAAAATGAAAAAACCAGAAAAATGATACAGGATATGTTGAAAGTGTCGATAATT
66 ACAAGTCT--AAAAAATGAAAAAACCAGAAAAACGATACAGGATATGTTGAAAGTGACGATAATT
** **
663820 TAATATAAGTATTGACACTTTCTGATTTTAAAAGAGAAGAAATTATAACGCCTA
129 TAATATAAGTATCAACACTTTC------T---------GAAATTA-AA--CTAA
* * * * **
663874 AAAAGTGTCGACACTTTATAAAAATGTATCGATCTATAACAATATAACAACTAAAAATATGATAA
1 AAAG-TGTCGACACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAA
** * * * *
663939 AACCGGTCTCAACAATGAAAAAACC-GATAAAACGATACCA-GATATGTTGAAAGTGTCGATACT
65 AACAAGTCTAAAAAATGAAAAAACCAGA-AAAACGATA-CAGGATATGTTGAAAGTGACGATAAT
* * * * *
664002 TTAATATAACTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAT
128 TTAATATAAGTATCAACAC--TT----TCT------G-A-AA-TTA-A---ACTAA
* * *
664058 AAAGTGTTGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * ** * * *
664123 ACAGGTCTCAAAATTGACAAAACCATTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
66 ACAAGTCTAAAAAATGAAAAAACCAGAAAAACGATACAGGATATGTTGAAAGTGACGATAATTTA
* * *
664188 ATATAAGTATCGACACTTTATGAATTTAAA
131 ATATAAGTATCAACACTTTCTGAAATTAAA
664218 AGAGAAGAAG
Statistics
Matches: 428, Mismatches: 63, Indels: 74
0.76 0.11 0.13
Matches are distributed among these distances:
164 65 0.15
166 67 0.16
167 1 0.00
168 3 0.01
169 1 0.00
170 1 0.00
171 1 0.00
172 1 0.00
177 2 0.00
180 4 0.01
181 10 0.02
182 7 0.02
183 190 0.44
184 11 0.03
185 63 0.15
189 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (164 bp):
AAAGTGTCGACACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACAAGTCTAAAAAATGAAAAAACCAGAAAAACGATACAGGATATGTTGAAAGTGACGATAATTTA
ATATAAGTATCAACACTTTCTGAAATTAAACTAA
Found at i:664037 original size:183 final size:182
Alignment explanation
Indices: 663686--664372 Score: 907
Period size: 183 Copynumber: 3.7 Consensus size: 182
663676 TGAAATTAAA
* * *
663686 CTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAATAATATAATAGGTAAAAATATGA
1 CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* * *
663751 TAAAACAAGTCTAAAAAAAATGAAAAAACCAGA-AAAATGATA-CAGGATATGTTGAAAGTGTCG
66 TAAAACAGGTCT---CAAAATGAAAAAACC-GATAAAACGATACCA-GATATGTTGAAAGTGTCG
* * * * *
663814 ATAATTTAATATAAGTATTGACACTTTCTGATTTTAAAAGAGAAGAAATTATAACGC
126 ATAATTTAATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGC
* **
663871 CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCTATAACAATATAACAACTAAAAATATGA
1 CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* *
663936 TAAAACCGGTCTCAACAATGAAAAAACCGATAAAACGATACCAGATATGTTGAAAGTGTCGATAC
66 TAAAACAGGTCTCAA-AATGAAAAAACCGATAAAACGATACCAGATATGTTGAAAGTGTCGATAA
*
664001 TTTAATATAACTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGC
130 TTTAATATAAGTATCGACACTTTAT-GAATTTAAAAGAGAAGAAGTTATAGCGC
* * * *
664054 CTATAAAGTGTTGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
1 CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* * *
664119 TAAAACAGGTCTCAAAATTGACAAAACC-ATTAAAACGCTACCGGATATGTTGAAAGTGTCGATA
66 TAAAACAGGTCTCAAAA-TGAAAAAACCGA-TAAAACGATACCAGATATGTTGAAAGTGTCGATA
664183 ATTTAATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGC
129 ATTTAATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGC
* * * *
664237 CTATATAGTGTCGATACTTT-TAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATG
1 CTAAAAAGTGTCGACACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
* * * * * * * * * *
664301 ACAAAACCGATCTCAAAATGACAAAACCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATAC
65 ATAAAACAGGTCTCAAAATGAAAAAACCGATAAAACGATACCAGATATGTTGAAAGTGTCGATAA
664366 TTTAATA
130 TTTAATA
664373 AGTACGTGTA
Statistics
Matches: 453, Mismatches: 40, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
182 57 0.13
183 324 0.72
184 3 0.01
185 69 0.15
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
TAAAACAGGTCTCAAAATGAAAAAACCGATAAAACGATACCAGATATGTTGAAAGTGTCGATAAT
TTAATATAAGTATCGACACTTTATGAATTTAAAAGAGAAGAAGTTATAGCGC
Found at i:664786 original size:19 final size:19
Alignment explanation
Indices: 664762--664807 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
664752 TATTTAATAT
664762 TTATAGGTAAAAAATGATA
1 TTATAGGTAAAAAATGATA
*
664781 TTATAGGTAGAAAATGATA
1 TTATAGGTAAAAAATGATA
*
664800 TTTTAGGT
1 TTATAGGT
664808 TGTATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (19 bp):
TTATAGGTAAAAAATGATA
Found at i:666828 original size:19 final size:18
Alignment explanation
Indices: 666795--666834 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
666785 GAAAAAATTT
*
666795 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
666813 GAAGAAGAAAAAGATGGAG
1 GAAGAAG-AAAAGATGGAG
666832 GAA
1 GAA
666835 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:668318 original size:19 final size:19
Alignment explanation
Indices: 668294--668342 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
668284 AATGCAGAGT
668294 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
668313 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
668332 TAATTTTGTAT
1 TAATTTTGTAT
668343 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:669179 original size:200 final size:200
Alignment explanation
Indices: 668688--669274 Score: 923
Period size: 200 Copynumber: 2.9 Consensus size: 200
668678 GTAAACTTAT
*
668688 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
* * **
668753 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTATGAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* * * *
668818 TCGACACAAATCAAATAAGTGTCGATAC-TTTTGGTCCAGAA-TGTA-TTTCAAAACCAAGTGCA
131 TCGACACAAATAAAAAAAGTGTCGATACATCTT-GTCCA-AATTGTATTTTAAAAACCAAGTGCA
668880 CTAAAAA
194 CTAAAAA
668887 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATC-AAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAA-CATAATTATAATGTAAT
*
668951 AGGTAAATTAGCAATATAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGT
65 AGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGT
* *
669016 ATCGACACAAATAAAAAAAGTGTTGATACATCTTGTTCAAATTGTATTTTAAAAACCAAGTGCAC
130 ATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCAAGTGCAC
669081 -AACAAA
195 TAA-AAA
* *
669087 GTGTCGATACATTTATAACAAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
** * *
669152 GGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* *
669217 TCGACACAAATAAAGAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAA
131 TCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCAA
669275 CAAGTGTCGA
Statistics
Matches: 359, Mismatches: 23, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
198 6 0.02
199 154 0.43
200 194 0.54
201 5 0.01
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (200 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
TCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCAAGTGCACT
AAAAA
Found at i:669391 original size:170 final size:171
Alignment explanation
Indices: 669103--669646 Score: 705
Period size: 201 Copynumber: 3.0 Consensus size: 171
669093 ATACATTTAT
*
669103 AACAAGTGTCGATTCC-GAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
1 AACAAGTGTCGA-TCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
* *
669167 TAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAAT-AAA
65 TAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAA
*
669231 GAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
130 AAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
669273 AACAAGTGTCGATCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
1 AACAAGTGTCGATCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
* * *
669338 ACCCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAATTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
669403 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTT--AAA--AA---C-C
* *
669452 AACAAAGTGTCGATACATTTATAACAAGTGTTGATCCCGAAAACATCGAAAAACATAATTATAAT
1 AAC-AAGTGTCGAT-C--CT-GAA-AA----T-AT-----------CGAAAAACATAATTATAAT
*
669517 GTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAA
44 GTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
669582 AAAGTATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
109 AAAGTATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
669645 AA
1 AA
669647 GTGCACAAAA
Statistics
Matches: 329, Mismatches: 13, Indels: 41
0.86 0.03 0.11
Matches are distributed among these distances:
169 3 0.01
170 115 0.35
171 37 0.11
173 3 0.01
175 2 0.01
178 1 0.00
179 4 0.01
180 10 0.03
181 1 0.00
183 1 0.00
184 2 0.01
185 2 0.01
189 1 0.00
190 2 0.01
193 3 0.01
194 1 0.00
197 2 0.01
199 3 0.01
201 136 0.41
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (171 bp):
AACAAGTGTCGATCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
AACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
Found at i:669818 original size:772 final size:779
Alignment explanation
Indices: 668688--670317 Score: 2490
Period size: 772 Copynumber: 2.1 Consensus size: 779
668678 GTAAACTTAT
*
668688 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
* **
668753 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTATGAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * * *
668818 TCGACACAAATCAAATAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAAAAAGTGTCGATACTCTTGGTCCAGAATGTATTTAAAAACCAAGTGCACAA
* *
668883 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATGT
196 AAAAATGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATAATGT
*
668948 AATAGGTAAATTAGCAATATAACCAGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAA
261 AATAGGTAAATTAGCAATATAACCAGTCTAAATATACAGATTTTTGAGAAAACAAGTGTACAAAA
* * *
669013 AGTATCGACACAAATAAAAAAAGTGTTGATACATCTTGTTCAAATTGTATTTTAAAAACCAAGTG
326 AGTATCGACACAAATAAAAAAAGCGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCAAGTG
* * *
669078 CACAACAAAGTGTCGATACATTTATAACAAGTGTCGATTCCGAAAACATCGAAAAACATAATTAT
391 CACAACAAAGTGTCGATACATTTATAACAAATATCGATCCCGAAAACATCGAAAAACATAATTAT
*
669143 AATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACATGTGTA
456 AATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTA
*
669208 CAAAAAGTATCGACACAAATAAAGAAAGTGTCGATACATCTTGTCCAGATTGTATTTT-AAA-AA
521 CAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAACAA
*
669271 -C-CAAC-AAGTGTCGAT-C-C-T-GAAAATATCGAAAAACATAATTATAATGTAATAGGTAAAT
586 GCACAACAAAGTGTCGATACTCATCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAAT
* * *
669329 TATTAATGTACCCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAATTATCGACAC
651 TATTAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACAC
*
669394 AAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
716 AAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCAAAACAAA
* *
669458 GTGTCGATACATTTATAACAAGTGTTGATCCCGAAAACATCGAAAAACATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
** *
669523 GGTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
669588 TCGACACAAATAAAAAAAAGTGTCGATACATCTT-GTCCAGATTGTATTTTAAAAACCAAGTGCA
131 TCGACACAAAT-AAAAAAAGTGTCGATAC-TCTTGGTCCAGAATGTA-TTTAAAAACCAAGTGCA
*
669652 CAAAAAAATGTCGATACATTTATAACATGTGTCGATCCCAAAAACATCAAAAAACATAATTATAA
193 CAAAAAAATGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATAA
* ** * * *
669717 TGTAATATGTAAATTATTAATGTAACCGGTCTAAATATACTAG-TTTTTGAGAAAACATGTGTAC
258 TGTAATAGGTAAATTAGCAATATAACCAGTCTAAATATAC-AGATTTTTGAGAAAACAAGTGTAC
* *
669781 AAAAAGTATCGACACAAATAAAAAATGCGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
322 AAAAAGTATCGACACAAATAAAAAAAGCGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCA
669846 AGTGCACAACAAAGTGTCGATACATTTATAACAAATATCGATCCCGAAAACATCGAAAAACATAA
387 AGTGCACAACAAAGTGTCGATACATTTATAACAAATATCGATCCCGAAAACATCGAAAAACATAA
* * *
669911 TTATAATGTAATATGTAAATTATTAATGTAACCGGTCTAAATATACGGGTTTTTGAGAAAACAAG
452 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAG
*
669976 TGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTTTATTTTAAA
517 TGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTT-AA
670041 AACCAAGTGCACAACAAAGTGTCGATACATTTATAATAAGTGTCGATCCCGAAAACATCGAAAAA
581 AA-CAA--GCACAACAAAGTGTCGATAC--------------TC-AT--CGAAAACATCGAAAAA
* *
670106 CATAATTATAATGTAATAGGTAAATTATTAATTTAACCGGTCTAAATATACCAGTTTTTGAGAAA
626 CATAATTATAATGTAATAGGTAAATTATTAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAA
* * *
670171 ACATGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTTGATACATCTTGTCCAGGTTGTAT
691 ACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTAT
670236 TTTAAAAACCAAGTGCAAAACAAA
756 TTTAAAAACCAAGTGCAAAACAAA
* * *
670260 GTTTCGATACATTTATAACAATTGTCGATCCCAAAAACATCGAAATACATAATTATAA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
670318 CCAAATGTCT
Statistics
Matches: 772, Mismatches: 54, Indels: 36
0.90 0.06 0.04
Matches are distributed among these distances:
770 132 0.17
771 26 0.03
772 378 0.49
773 1 0.00
774 3 0.00
776 2 0.00
779 1 0.00
780 4 0.01
781 10 0.01
782 1 0.00
797 1 0.00
799 1 0.00
802 212 0.27
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (779 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAAAAAGTGTCGATACTCTTGGTCCAGAATGTATTTAAAAACCAAGTGCACAA
AAAAATGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATAATGT
AATAGGTAAATTAGCAATATAACCAGTCTAAATATACAGATTTTTGAGAAAACAAGTGTACAAAA
AGTATCGACACAAATAAAAAAAGCGTCGATACATCTTGTCCAAATTGTATTTTAAAAACCAAGTG
CACAACAAAGTGTCGATACATTTATAACAAATATCGATCCCGAAAACATCGAAAAACATAATTAT
AATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTA
CAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAACAA
GCACAACAAAGTGTCGATACTCATCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAAT
TATTAATGTAACCAGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACAC
AAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCAAAACAAA
Found at i:669921 original size:200 final size:201
Alignment explanation
Indices: 669273--670317 Score: 1770
Period size: 201 Copynumber: 5.2 Consensus size: 201
669263 TTTAAAAACC
* *
669273 AACAAGTGTCGATCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
* * * *
669338 ACCCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAATTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
669403 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
669468 ATTTAT
196 ATTTAT
*
669474 AACAAGTGTTGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
669539 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
* *
669604 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAATGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
669669 ATTTAT
196 ATTTAT
* * * *
669675 AACATGTGTCGATCCCAAAAACATCAAAAAACATAATTATAATGTAATATGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
* *
669740 AACCGGTCTAAATATACTAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAAT-AAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
* *
669804 AATGCGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
669869 ATTTAT
196 ATTTAT
* * *
669875 AACAAATATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
** *
669940 AACCGGTCTAAATATACGGGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAAT-AAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
*
670004 AAAGTGTCGATACATCTTGTCCAGATTTTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
670069 ATTTAT
196 ATTTAT
* *
670075 AATAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATTT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
*
670140 AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
* * * *
670205 AAAGTGTTGATACATCTTGTCCAGGTTGTATTTTAAAAACCAAGTGCAAAACAAAGTTTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
670270 ATTTAT
196 ATTTAT
* * *
670276 AACAATTGTCGATCCCAAAAACATCGAAATACATAATTATAA
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
670318 CCAAATGTCT
Statistics
Matches: 795, Mismatches: 48, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
200 377 0.47
201 418 0.53
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (201 bp):
AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
AACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA
AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
ATTTAT
Found at i:670219 original size:401 final size:402
Alignment explanation
Indices: 669273--670317 Score: 1779
Period size: 401 Copynumber: 2.6 Consensus size: 402
669263 TTTAAAAACC
* *
669273 AACAAGTGTCGATCCTGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
* * * * *
669338 ACCCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAATTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
669403 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
* *
669468 ATTTATAACAAGTGTTGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
196 ATTTATAACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
*
669533 TAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAA
261 TAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAA
669598 TAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAATGT
326 TAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAATGT
669663 CGATACATTTAT
391 CGATACATTTAT
* * * *
669675 AACATGTGTCGATCCCAAAAACATCAAAAAACATAATTATAATGTAATATGTAAATTATTAATGT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
*
669740 AACCGGTCTAAATATACTAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAAT-AAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
* *
669804 AATGCGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
* *
669869 ATTTATAACAAATATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTAT
196 ATTTATAACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
**
669934 TAATGTAACCGGTCTAAATATACGGGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAA
261 TAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAA
* * *
669999 T-AAAAAAAGTGTCGATACATCTTGTCCAGATTTTATTTTAAAAACCAAGTGCACAACAAAGTGT
326 TAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAATGT
670063 CGATACATTTAT
391 CGATACATTTAT
* *
670075 AATAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATTT
1 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
670140 AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
66 AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
* * * *
670205 AAAGTGTTGATACATCTTGTCCAGGTTGTATTTTAAAAACCAAGTGCAAAACAAAGTTTCGATAC
131 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
* * *
670270 ATTTATAACAATTGTCGATCCCAAAAACATCGAAATACATAATTATAA
196 ATTTATAACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAA
670318 CCAAATGTCT
Statistics
Matches: 601, Mismatches: 41, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
400 190 0.32
401 298 0.50
402 113 0.19
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (402 bp):
AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
AACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAA
AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
ATTTATAACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
TAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAA
TAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAATGT
CGATACATTTAT
Found at i:671128 original size:87 final size:87
Alignment explanation
Indices: 671026--671238 Score: 381
Period size: 87 Copynumber: 2.4 Consensus size: 87
671016 AAATAGGTCA
*
671026 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGATATTGTACTTGATAATATTT
*
671091 CCGGTTAAATGGCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
671113 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGATATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGATATTGTACTTGATAATATTT
671178 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
671200 ATATAAGCGCTACATATTACATTATATAAGCGTTACCTA
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
671239 TTACATTATA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 120 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGATATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:671255 original size:23 final size:23
Alignment explanation
Indices: 671197--671270 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
671187 TGCCTATTTT
* *
671197 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGTTACCTATTAC
671220 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAGCGTTACCTATTAC
* *
671243 ATTATATAAGCGTTACCTAATAT
1 ATTATATAAGCGTTACCTATTAC
671266 ATTAT
1 ATTAT
671271 TGTGATTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCGTTACCTATTAC
Found at i:675232 original size:31 final size:32
Alignment explanation
Indices: 675178--675270 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 32
675168 TTCGAATCTT
675178 TTTTCTCTCTTGCT-ATTCGAACCAAAACTGCA-
1 TTTT-TCTC-TGCTCATTCGAACCAAAACTGCAC
* *
675210 TTTTTCTCTGCTCATTCAAACC-AAACTACAC
1 TTTTTCTCTGCTCATTCGAACCAAAACTGCAC
*
675241 TGTTTTC-CTGCACTATTCGAACCAAAACTG
1 T-TTTTCTCTGCTC-ATTCGAACCAAAACTG
675271 TTTTTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
30 11 0.22
31 18 0.35
32 17 0.33
33 5 0.10
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (32 bp):
TTTTTCTCTGCTCATTCGAACCAAAACTGCAC
Found at i:675264 original size:32 final size:31
Alignment explanation
Indices: 675190--675266 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
675180 TTCTCTCTTG
* *
675190 CTATTCGAACCAAAACTGCATTTTTCTCTGCT
1 CTATTCGAACC-AAACTACATTTTTCTCTGCA
*
675222 C-ATTCAAACCAAACTACACTGTTTTC-CTGCA
1 CTATTCGAACCAAACTACA-T-TTTTCTCTGCA
675253 CTATTCGAACCAAA
1 CTATTCGAACCAAA
675267 ACTGTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
30 7 0.18
31 14 0.37
32 17 0.45
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (31 bp):
CTATTCGAACCAAACTACATTTTTCTCTGCA
Found at i:676474 original size:24 final size:24
Alignment explanation
Indices: 676429--676478 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
676419 TGGTGGTTGG
676429 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
676453 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
676477 TT
1 TT
676479 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:680916 original size:20 final size:20
Alignment explanation
Indices: 680891--680933 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
680881 ACCGTGCCAG
* *
680891 CACTAGTGTCTGAGGCGTCA
1 CACTAGTGTATGAGGCATCA
680911 CACTAGTGTATGAGGCATCA
1 CACTAGTGTATGAGGCATCA
680931 CAC
1 CAC
680934 ATAAGCTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (20 bp):
CACTAGTGTATGAGGCATCA
Found at i:704993 original size:17 final size:16
Alignment explanation
Indices: 704964--704998 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
704954 CATTAGAATT
*
704964 ATAATATATTATTTTA
1 ATAATATATTATTCTA
704980 ATAATATGATTATTCTA
1 ATAATAT-ATTATTCTA
704997 AT
1 AT
704999 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
ATAATATATTATTCTA
Found at i:710874 original size:61 final size:61
Alignment explanation
Indices: 710779--710902 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
710769 GTATTTTATG
710779 ACTTGAAAATGCTCCAATTAGCCCCTAGAATGCAATCCCAAGGAATCAATTTTGACAAACA
1 ACTTGAAAATGCTCCAATTAGCCCCTAGAATGCAATCCCAAGGAATCAATTTTGACAAACA
*
710840 ACTTGAAAATGTTCCAATTAGCCCCTAGAATGCAATCCCAAGGAATCAATTTTGACAAACA
1 ACTTGAAAATGCTCCAATTAGCCCCTAGAATGCAATCCCAAGGAATCAATTTTGACAAACA
710901 AC
1 AC
710903 AATATCCCAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (61 bp):
ACTTGAAAATGCTCCAATTAGCCCCTAGAATGCAATCCCAAGGAATCAATTTTGACAAACA
Found at i:712467 original size:13 final size:13
Alignment explanation
Indices: 712430--712469 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
712420 TTGATATTGA
712430 AAAATAAATA-TT
1 AAAATAAATATTT
*
712442 AAAATAATTTATTT
1 AAAATAA-ATATTT
712456 AAAATAAATATTT
1 AAAATAAATATTT
712469 A
1 A
712470 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:713855 original size:14 final size:15
Alignment explanation
Indices: 713836--713865 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
713826 GGGCTTTGTA
713836 ATTTAATAT-TATTT
1 ATTTAATATATATTT
713850 ATTTAATATATATTT
1 ATTTAATATATATTT
713865 A
1 A
713866 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAATATATATTT
Found at i:713872 original size:3 final size:3
Alignment explanation
Indices: 713864--713958 Score: 145
Period size: 3 Copynumber: 31.7 Consensus size: 3
713854 AATATATATT
* * *
713864 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TGA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
713912 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
713959 TGGGTAAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:714413 original size:116 final size:116
Alignment explanation
Indices: 714274--714865 Score: 1041
Period size: 116 Copynumber: 5.1 Consensus size: 116
714264 GATAGAATTA
714274 TTGAACAAGTTCTTCTT-ATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
1 TTGAACAAGTTCTT-TTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
714338 TGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
65 TGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
714390 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
714455 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
66 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
*
714506 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
714571 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
66 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
*
714622 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTATTCTCATTAT
1 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
714687 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
66 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
*
714738 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * ** *
714800 GAACT-TTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
66 GAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
*
714851 TTGAACAAATTCTTT
1 TTGAACAAGTTCTTT
714866 CTTCAGATGA
Statistics
Matches: 461, Mismatches: 13, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
112 3 0.01
113 69 0.15
115 2 0.00
116 387 0.84
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (116 bp):
TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
Found at i:714973 original size:90 final size:90
Alignment explanation
Indices: 714774--714954 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 90
714764 TTCTTCTTCC
* *
714774 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGGAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATAATCCATCAAATGATGAAT
*
714839 TCAAGTAAAAGGTTGAACAAATTCT
66 TCAAGCAAAAGGTTGAACAAATTCT
* * *
714864 TTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAAAT-CTAATTCATCAAGTGATGA
1 TTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGG-AAATGATAATCCATCAAATGATGA
**
714927 ATTTGAGCAAAAGGTTGAACAAATTCT
64 ATTCAAGCAAAAGGTTGAACAAATTCT
714954 T
1 T
714955 CTCATTATGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
90 75 0.93
91 6 0.07
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (90 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATAATCCATCAAATGATGAAT
TCAAGCAAAAGGTTGAACAAATTCT
Found at i:715040 original size:203 final size:203
Alignment explanation
Indices: 714671--715042 Score: 543
Period size: 203 Copynumber: 1.8 Consensus size: 203
714661 TTCAGATGAC
* * *
714671 GAGTTATTCTCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAA
1 GAGTTATTCTCATTATGAACTCTTCCTGGAAATGCTAATCCATCAAATGATGAATTCAAACAAAA
*
714736 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
66 AGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
*
714801 AACTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTT
131 AACTTTCTCTGGAAATGATAATCCATCAAATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTT
714866 CTTCAGAT
196 CTTCAGAT
* * * * ** *
714874 GAGTTCTTCTCATTATGAACTCTTTCTGGAAAAT-CTAATTCATCAAGTGATGAATTTGAGCAAA
1 GAGTTATTCTCATTATGAACTCTTCCTGG-AAATGCTAATCCATCAAATGATGAATTCAAACAAA
* *
714938 AGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
65 AAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * *
715003 GAACTCTT-TCTGGAAAAT-CTAATTCATCAAGTGATGGATT
130 GAACT-TTCTCTGG-AAATGATAATCCATCAAATGATGGATT
715043 TAAATCTTTG
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
203 140 0.94
204 9 0.06
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (203 bp):
GAGTTATTCTCATTATGAACTCTTCCTGGAAATGCTAATCCATCAAATGATGAATTCAAACAAAA
AGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTTCTCTGGAAATGATAATCCATCAAATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTT
CTTCAGAT
Found at i:716064 original size:83 final size:83
Alignment explanation
Indices: 715750--716049 Score: 582
Period size: 83 Copynumber: 3.6 Consensus size: 83
715740 GTTCTGTAGT
*
715750 TTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
1 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
715815 TCCAAATTCAATGATTGG
66 TCCAAATTCAATGATTGG
715833 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
1 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
715898 TCCAAATTCAATGATTGG
66 TCCAAATTCAATGATTGG
*
715916 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAACACATTCATCT
1 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
715981 TCCAAATTCAATGATTGG
66 TCCAAATTCAATGATTGG
715999 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
716050 TGGCCAATTC
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 214 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (83 bp):
TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCT
TCCAAATTCAATGATTGG
Found at i:717207 original size:1 final size:1
Alignment explanation
Indices: 717203--717273 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
717193 TTGACCCCCC
* * * * * * * * *
717203 TTTTTTCTTTTTTTCTCTTTTTTTTTTTCTTTTTTCTCTTTTTTTCTTTTTTTCTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
717268 TCTTTT
1 TTTTTT
717274 CTTCAAGCAT
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:717224 original size:18 final size:18
Alignment explanation
Indices: 717203--717275 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
717193 TTGACCCCCC
717203 TTTTTTCTTTTTTTCTCTTT
1 TTTTTTCTTTTTTTCTC--T
*
717223 TTTTTTTTCTTTTTTCTCT
1 TTTTTTCT-TTTTTTCTCT
717242 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTTTTTTTCTCT
717260 TTTTTT-TTTCTTTTCT
1 TTTTTTCTTT-TTTTCT
717276 TCAAGCATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.06
18 22 0.45
19 8 0.16
20 7 0.14
21 9 0.18
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCT
Found at i:717229 original size:21 final size:21
Alignment explanation
Indices: 717203--717273 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
717193 TTGACCCCCC
717203 TTTTTTCTTTTTTTCTCTTTT
1 TTTTTTCTTTTTTTCTCTTTT
717224 TTTTTT-TCTTTTTTCTC---T
1 TTTTTTCT-TTTTTTCTCTTTT
717242 TTTTTTCTTTTTTTCTCTTTT
1 TTTTTTCTTTTTTTCTCTTTT
717263 TTTTTTCTTTT
1 TTTTTTCTTTT
717274 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
18 16 0.36
19 1 0.02
20 1 0.02
21 27 0.60
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTCTTTTTTTCTCTTTT
Found at i:717244 original size:29 final size:31
Alignment explanation
Indices: 717202--717273 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 31
717192 CTTGACCCCC
*
717202 CTTTTTTCTTTTTTTCTCTTTTTTT-T-TTT
1 CTTTTTTCTCTTTTTCTCTTTTTTTCTCTTT
*
717231 CTTTTTTCTCTTTTTTTCTTTTTTTCTCTTT
1 CTTTTTTCTCTTTTTCTCTTTTTTTCTCTTT
717262 -TTTTTT-TCTTTT
1 CTTTTTTCTCTTTT
717274 CTTCAAGCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 29 0.74
30 7 0.18
31 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (31 bp):
CTTTTTTCTCTTTTTCTCTTTTTTTCTCTTT
Found at i:727976 original size:25 final size:25
Alignment explanation
Indices: 727922--727978 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
727912 GAATATTAAT
727922 AATATATATAAATACTATAAAAATA
1 AATATATATAAATACTATAAAAATA
* * *
727947 TATATATATAAATAAT-TATAAATTA
1 AATATATATAAATACTATA-AAAATA
727972 AATATAT
1 AATATAT
727979 GAAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AATATATATAAATACTATAAAAATA
Found at i:728536 original size:12 final size:12
Alignment explanation
Indices: 728521--728546 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
728511 TTTAAATTAA
728521 ATAATTTTTTTT
1 ATAATTTTTTTT
728533 ATAATTTTTTTT
1 ATAATTTTTTTT
728545 AT
1 AT
728547 TTTAAAATAC
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATAATTTTTTTT
Found at i:729955 original size:3 final size:3
Alignment explanation
Indices: 729947--730033 Score: 129
Period size: 3 Copynumber: 28.7 Consensus size: 3
729937 AATATATATT
* *
729947 TAA TAA TAA TATA TGA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
729993 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
730034 TGGGTAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
3 73 0.97
4 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:729958 original size:15 final size:15
Alignment explanation
Indices: 729925--730021 Score: 69
Period size: 18 Copynumber: 6.3 Consensus size: 15
729915 GCTTTGTAAT
*
729925 TAAT-TATTTATTAA
1 TAATATATTTAATAA
729939 T-ATATATTTAATAA
1 TAATATATTTAATAA
*
729953 TAATATATGATAATAA
1 TAATATAT-TTAATAA
729969 TAATA-A--TAATAA
1 TAATATATTTAATAA
*
729981 TAATGATAATAATAATAA
1 TAAT-AT-AT-TTAATAA
729999 TAATAATAATTATAATAA
1 TAAT-AT-ATT-TAATAA
730017 TAATA
1 TAATA
730022 ATAATTATAA
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.14
13 3 0.04
14 11 0.16
15 8 0.12
16 11 0.16
17 1 0.01
18 25 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TAATATATTTAATAA
Found at i:737013 original size:210 final size:212
Alignment explanation
Indices: 736643--737064 Score: 766
Period size: 210 Copynumber: 2.0 Consensus size: 212
736633 GGACGATGGG
736643 GTTATGATGATGCACGTCTCTATCGACGTCGATGCTCCATCCTCATATATCCTCGGAAAACAGAA
1 GTTATGATGATGCACGTCTCTATCGACGTCGATGCTCCATCCTCATATATCCTCGGAAAACAGAA
736708 ACAATTTTCCGTTACTGTTGAAACAACTTGTAATAATCATCTGCAACCGTTCAAATGGTCCACAT
66 ACAATTTTCCGTTACTGTTGAAACAACTTGTAATAATCATCTGCAACCGTTCAAATGGTCCACAT
736773 AAATGGGTTTTCTATGGGGAATGCGCCGATGTCGATCCTCCCATATCATGACCCACTCATAA-GC
131 AAATGGGTTTTCTATGGGGAATGCGCCGATGTCGATCCTCCCATATCATGACCCACTCATAATGC
736837 TTA-GCAACCAA-CTAT
196 TTATGCAACCAATCTAT
736852 GTTATGATGATGCACGTCTCTATCGACGTCGATGAATGCTCCAT-CTCATATATCCTCGGAAAAC
1 GTTATGATGATGCACGTCTCTATCGACGTC---G-ATGCTCCATCCTCATATATCCTCGGAAAAC
736916 AGAAACAATTTTCCGTTACTGTTG-AACAACTTGTAATAATCATCTGCAACCG-TCAAATGGTCC
62 AGAAACAATTTTCCGTTACTGTTGAAACAACTTGTAATAATCATCTGCAACCGTTCAAATGGTCC
736979 ACATAAATGGGTTTTCTATGGGGAATGCGCCGATGTCGATCCTCCCATATCATGACCCACTCATA
127 ACATAAATGGGTTTTCTATGGGGAATGCGCCGATGTCGATCCTCCCATATCATGACCCACTCATA
737044 ATGCTTATGCAACCAATCTAT
192 ATGCTTATGCAACCAATCTAT
737065 ATATGTCTTA
Statistics
Matches: 206, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
209 30 0.15
210 77 0.37
211 33 0.16
212 53 0.26
213 13 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (212 bp):
GTTATGATGATGCACGTCTCTATCGACGTCGATGCTCCATCCTCATATATCCTCGGAAAACAGAA
ACAATTTTCCGTTACTGTTGAAACAACTTGTAATAATCATCTGCAACCGTTCAAATGGTCCACAT
AAATGGGTTTTCTATGGGGAATGCGCCGATGTCGATCCTCCCATATCATGACCCACTCATAATGC
TTATGCAACCAATCTAT
Found at i:738450 original size:8 final size:8
Alignment explanation
Indices: 738424--738466 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
738414 TATAGCTGCA
738424 AAAAAATT
1 AAAAAATT
738432 AAATAAA-T
1 AAA-AAATT
*
738440 AAAATATT
1 AAAAAATT
738448 AAAAAATT
1 AAAAAATT
*
738456 AAATAATT
1 AAAAAATT
738464 AAA
1 AAA
738467 TAAAATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 2 0.07
8 25 0.83
9 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAAAATT
Found at i:738495 original size:28 final size:28
Alignment explanation
Indices: 738436--738501 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
738426 AAAATTAAAT
* *
738436 AAATAAAATATTAAAAAATTAAATAATT
1 AAATAAAATACTAAAAAATTAAATAATA
738464 AAATAAAATACT-AAAAA-TAAATAGAATA
1 AAATAAAATACTAAAAAATTAAAT--AATA
*
738492 AAATATAATA
1 AAATAAAATA
738502 TATTACCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.15
27 5 0.15
28 23 0.70
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
AAATAAAATACTAAAAAATTAAATAATA
Found at i:743149 original size:62 final size:62
Alignment explanation
Indices: 743052--743230 Score: 340
Period size: 62 Copynumber: 2.9 Consensus size: 62
743042 AGATTTCATT
*
743052 TTATTTTTATTTTATTGTTGATCGGAGGAAGGTATTCTTGCATGTCATTGTTTAATTCCATA
1 TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGTCATTGTTTAATTCCATA
743114 TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGTCATTGTTTAATTCCATA
1 TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGTCATTGTTTAATTCCATA
*
743176 TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGCCATTGTTTAA
1 TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGTCATTGTTTAA
743231 GAAGAAAATT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.50
Consensus pattern (62 bp):
TTATTTTTATTTTATTGTTGATCGAAGGAAGGTATTCTTGCATGTCATTGTTTAATTCCATA
Found at i:743837 original size:19 final size:18
Alignment explanation
Indices: 743803--743865 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
743793 TTTATTGAAA
*
743803 AACCGATAAACCGAACCG
1 AACCGAAAAACCGAACCG
743821 AACCGAAAAACCCGAACCG
1 AACCGAAAAA-CCGAACCG
743840 TTAA---AAAAACCGAACCG
1 --AACCGAAAAACCGAACCG
743857 AACC-AAAAA
1 AACCGAAAAA
743866 AACCGGTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 2 0.05
17 13 0.33
18 14 0.36
19 8 0.21
21 2 0.05
ACGTcount: A:0.52, C:0.30, G:0.13, T:0.05
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:743864 original size:17 final size:17
Alignment explanation
Indices: 743810--743865 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
743800 AAAAACCGAT
743810 AAACCGAACCGAACCGAA
1 AAACCGAACCGAACC-AA
743828 AAACCCGAACCGTTAA--AA
1 AAA-CCGAACCG--AACCAA
743846 AAACCGAACCGAACCAA
1 AAACCGAACCGAACCAA
743863 AAA
1 AAA
743866 AACCGGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
15 2 0.06
17 13 0.39
18 8 0.24
19 8 0.24
21 2 0.06
ACGTcount: A:0.54, C:0.30, G:0.12, T:0.04
Consensus pattern (17 bp):
AAACCGAACCGAACCAA
Found at i:743866 original size:19 final size:19
Alignment explanation
Indices: 743810--743870 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
743800 AAAAACCGAT
*
743810 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCAAAA
* **
743829 AACCCGAACCG--TTAAAA
1 AAACCGAACCGAACCAAAA
743846 AAACCGAACCGAACCAAAA
1 AAACCGAACCGAACCAAAA
743865 AAACCG
1 AAACCG
743871 GTTTCGATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 13 0.39
19 20 0.61
ACGTcount: A:0.52, C:0.31, G:0.13, T:0.03
Consensus pattern (19 bp):
AAACCGAACCGAACCAAAA
Found at i:744401 original size:30 final size:31
Alignment explanation
Indices: 744322--744425 Score: 158
Period size: 31 Copynumber: 3.4 Consensus size: 31
744312 TAACAATTGT
*
744322 TAACATTGAGTGATCATTTTGTAATAAACGA
1 TAACATTGAGTGATCATTTTGTAACAAACGA
744353 TAACATTGAGTGATCATTTTGTAACAAACGA
1 TAACATTGAGTGATCATTTTGTAACAAACGA
* **
744384 TAACATT-AGTAATCATTTTGTAACAAATAA
1 TAACATTGAGTGATCATTTTGTAACAAACGA
744414 TAACA-TGAGTGA
1 TAACATTGAGTGA
744426 CTGATTTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
29 1 0.01
30 29 0.43
31 37 0.55
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (31 bp):
TAACATTGAGTGATCATTTTGTAACAAACGA
Found at i:745024 original size:17 final size:17
Alignment explanation
Indices: 745002--745036 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
744992 AACCAAACAA
745002 TATCATTTGTTATATTT
1 TATCATTTGTTATATTT
745019 TATCATTTGTTATATTT
1 TATCATTTGTTATATTT
745036 T
1 T
745037 TTAACCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (17 bp):
TATCATTTGTTATATTT
Found at i:745976 original size:18 final size:19
Alignment explanation
Indices: 745955--745994 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
745945 ACTAACTTTT
745955 ATATT-AATAACAAAAATA
1 ATATTAAATAACAAAAATA
* *
745973 ATATTAAATAATAAAATTA
1 ATATTAAATAACAAAAATA
745992 ATA
1 ATA
745995 GTCAAAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATTAAATAACAAAAATA
Found at i:751690 original size:25 final size:25
Alignment explanation
Indices: 751656--751703 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
751646 AAAAGTATAT
751656 TAAAAGTTTA-AATAATAAAAAATTA
1 TAAAAGTTTAGAA-AATAAAAAATTA
* *
751681 TAAAATTTTAGAAGATAAAAAAT
1 TAAAAGTTTAGAAAATAAAAAAT
751704 AGATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (25 bp):
TAAAAGTTTAGAAAATAAAAAATTA
Found at i:751740 original size:17 final size:18
Alignment explanation
Indices: 751720--751763 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
751710 TTAATAAAAA
751720 TATAAAAATG-TTTAAAT
1 TATAAAAATGATTTAAAT
* *
751737 TATATAAATGATTTAATT
1 TATAAAAATGATTTAAAT
*
751755 TTTAAAAAT
1 TATAAAAAT
751764 TACGATCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TATAAAAATGATTTAAAT
Found at i:752220 original size:27 final size:26
Alignment explanation
Indices: 752190--752260 Score: 63
Period size: 29 Copynumber: 2.5 Consensus size: 26
752180 AAAATGTTAG
752190 AGAAAAAAATAAATCAAATA-ATAAAAA
1 AGAAAAAAATAAATCAAA-AGA-AAAAA
* *
752217 AGAAATCAAAATGAAAACAAAAGAAAAAG
1 AGAAA--AAAAT-AAATCAAAAGAAAAAA
752246 AGAAAAAAATTAAAT
1 AGAAAAAAA-TAAAT
752261 AAGGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
27 12 0.33
28 1 0.03
29 15 0.42
30 8 0.22
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (26 bp):
AGAAAAAAATAAATCAAAAGAAAAAA
Found at i:753714 original size:11 final size:11
Alignment explanation
Indices: 753695--753753 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
753685 ATGATAGACC
*
753695 TAAAAAATAAA
1 TAAATAATAAA
753706 TAAATAATAAA
1 TAAATAATAAA
* *
753717 TAAACGAGTAAA
1 TAAA-TAATAAA
753729 T-AATAATAAA
1 TAAATAATAAA
*
753739 CAAGA-AATAAA
1 TAA-ATAATAAA
753750 TAAA
1 TAAA
753754 AAAATAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
10 6 0.16
11 25 0.66
12 7 0.18
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:753752 original size:18 final size:18
Alignment explanation
Indices: 753706--753748 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
753696 AAAAAATAAA
*
753706 TAAATAATAAATAAACGAG
1 TAAATAAT-AATAAACAAG
753725 TAAATAATAATAAACAAG
1 TAAATAATAATAAACAAG
753743 -AAATAA
1 TAAATAA
753749 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
TAAATAATAATAAACAAG
Found at i:753799 original size:27 final size:27
Alignment explanation
Indices: 753769--753820 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
753759 AAAATATATA
*
753769 ATATAT-TTTAAAAAATGTTTTAAAACT
1 ATATATATTTAAAAAAT-ATTTAAAACT
*
753796 ATATATATTTCAAAAATATTTAAAA
1 ATATATATTTAAAAAATATTTAAAA
753821 TGTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATATATTTAAAAAATATTTAAAACT
Found at i:753828 original size:37 final size:38
Alignment explanation
Indices: 753780--753858 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 38
753770 TATATTTTAA
753780 AAAATGTTTTAAAACTATATATATTTCAAAAATATTT-
1 AAAATGTTTTAAAACTATATATATTTCAAAAATATTTC
753817 AAAATGTTTTAAAACTATATATATTTCAAAAATATTTC
1 AAAATGTTTTAAAACTATATATATTTCAAAAATATTTC
753855 AAAA
1 AAAA
753859 CCATATACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 37 0.90
38 4 0.10
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (38 bp):
AAAATGTTTTAAAACTATATATATTTCAAAAATATTTC
Found at i:753869 original size:35 final size:36
Alignment explanation
Indices: 753789--753892 Score: 106
Period size: 37 Copynumber: 2.9 Consensus size: 36
753779 AAAAATGTTT
***
753789 TAAAACTATATATATTTCAAAAATATTTAAAATGTTT
1 TAAAACTATATATATTTCAAAAATATTTAAAA-GCCA
753826 TAAAACTATATATATTTCAAAAATATTTCAAAA-CCA
1 TAAAACTATATATATTTCAAAAATATTT-AAAAGCCA
* * *
753862 T-ATACTATATA-ATTTTAAAAATGTTTTAAAA
1 TAAAACTATATATATTTCAAAAAT-ATTTAAAA
753893 ACTATATGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.24
35 12 0.20
36 1 0.02
37 28 0.47
38 4 0.07
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (36 bp):
TAAAACTATATATATTTCAAAAATATTTAAAAGCCA
Found at i:753978 original size:33 final size:34
Alignment explanation
Indices: 753917--754169 Score: 105
Period size: 36 Copynumber: 7.2 Consensus size: 34
753907 TTTTCAAAAC
**
753917 TTTTAAAACTA-TATTATAT--G-TTTCAAAATTT
1 TTTT-AAACTATTATTATATAAGATTTCAAAATGA
*
753948 TTTTCAACTA-TATATATATAA-ATTTCAAAATGA
1 TTTTAAACTATTAT-TATATAAGATTTCAAAATGA
* *
753981 TTTTAAACTATTATTATATAAGTTTTCAAAATGG
1 TTTTAAACTATTATTATATAAGATTTCAAAATGA
* * * **
754015 TTTTAAAAACTA-TATAATATATGGTTTCAAAAACA
1 TTTT--AAACTATTATTATATAAGATTTCAAAATGA
* * * *
754050 TCTTCAAAAACTATATAATATATATGTTTTCAAAAAAATG-
1 T-TT--TAAACTAT-TATTATATAAGATTTC---AAAATGA
* *
754090 TTTTCAAAACTA-TA-TATATATGTTTTCAAAAATG-
1 TTTT--AAACTATTATTATATAAGATTTC-AAAATGA
*
754124 TTTTCAAAAACTATATATATATATAAGTTTTCAAAATGA
1 TTTT---AAACTAT-TAT-TATATAAGATTTCAAAATGA
754163 TTTTAAA
1 TTTTAAA
754170 AATTATATAT
Statistics
Matches: 177, Mismatches: 21, Indels: 43
0.73 0.09 0.18
Matches are distributed among these distances:
30 8 0.05
31 9 0.05
33 25 0.14
34 28 0.16
35 25 0.14
36 30 0.17
37 4 0.02
38 19 0.11
39 24 0.14
40 1 0.01
41 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (34 bp):
TTTTAAACTATTATTATATAAGATTTCAAAATGA
Found at i:754027 original size:36 final size:35
Alignment explanation
Indices: 753867--754272 Score: 242
Period size: 34 Copynumber: 11.5 Consensus size: 35
753857 AACCATATAC
*
753867 TATATAA-TTTTAAAAATGTTTTAAAAACTA-TAT
1 TATATAAGTTTTCAAAATGTTTTAAAAACTATTAT
*
753900 GT-TAT-AGTTTTCAAAA-CTTTT-AAAACTA-TAT
1 -TATATAAGTTTTCAAAATGTTTTAAAAACTATTAT
***
753931 TATAT--G-TTTCAAAAT-TTTTTTCAACTA-TAT
1 TATATAAGTTTTCAAAATGTTTTAAAAACTATTAT
*
753961 ATATATAA-ATTTCAAAATGATTTT--AAACTATTAT
1 -TATATAAGTTTTCAAAATG-TTTTAAAAACTATTAT
753995 TATATAAGTTTTCAAAATGGTTTTAAAAACTA-TAT
1 TATATAAGTTTTCAAAAT-GTTTTAAAAACTATTAT
* * * ** * *
754030 AATATATGGTTTCAAAAACATCTTCAAAAACTATATAA
1 TATATAAGTTTTC-AAAATGT-TTTAAAAACTAT-TAT
* *
754068 TATATATGTTTTCAAAAAAATGTTTTCAAAACTA-TA-
1 TATATAAGTTTTC---AAAATGTTTTAAAAACTATTAT
*
754104 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATAT
1 TATATAAGTTTTC-AAAATGTTTT-AAAAACTAT-TAT
*
754142 ATATATAAGTTTTCAAAATGATTTTAAAAATTATATAT
1 -TATATAAGTTTTCAAAATG-TTTTAAAAACTAT-TAT
**
754180 TATATATA-TTTTCTAAAATGTTTTTTTTAAACTATATAT
1 TATATA-AGTTTTC-AAAATG--TTTTAAAAACTAT-TAT
** *
754219 TATAT-AGTTTT-AAAAACTATTAAAAACTATATAT
1 TATATAAGTTTTCAAAATGTTTTAAAAACTAT-TAT
*
754253 TATATACGTAGTTTCAAAAT
1 TATATAAGT--TTTCAAAAT
754273 ATGTATATAT
Statistics
Matches: 304, Mismatches: 33, Indels: 66
0.75 0.08 0.16
Matches are distributed among these distances:
29 12 0.04
30 10 0.03
31 18 0.06
32 5 0.02
33 32 0.11
34 47 0.15
35 28 0.09
36 37 0.12
37 19 0.06
38 46 0.15
39 44 0.14
40 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (35 bp):
TATATAAGTTTTCAAAATGTTTTAAAAACTATTAT
Found at i:754099 original size:39 final size:38
Alignment explanation
Indices: 753851--754234 Score: 182
Period size: 39 Copynumber: 10.9 Consensus size: 38
753841 TTCAAAAATA
* * *
753851 TTTCAAAACCATATACTATATA-ATTTT--AAAAATGT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATGT
* * *
753886 TTTAAAAACTATAT-GT-TATA-GTTTTC--AAAA-CT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATGT
* *
753918 TTT-AAAAC--TAT-AT-TATATG-TTTC-AAAATTTT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATGT
**
753949 TTTC--AACTATAT-ATATATA-AATTTC--AAAATGAT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATG-T
* *
753982 TTT--AAACTAT-TATTATATAAGTTTTC--AAAATGGT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAAT-GT
* *
754016 TTTAAAAACTATAT-A-ATATATGGTTTCAAAAACA--T
1 TTTCAAAACTATATAATATATATGTTTTCAAAAA-ATGT
*
754051 CTTCAAAAACTATATAATATATATGTTTTCAAAAAAATGT
1 TTTC-AAAACTATATAATATATATGTTTTC-AAAAAATGT
754091 TTTCAAAAC--TAT-ATATATATGTTTTC-AAAAATGT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATGT
*
754125 TTTCAAAAACTATATATATATATAAGTTTTC--AAAATGAT
1 TTTC-AAAACTATATA-ATATATATGTTTTCAAAAAATG-T
* * * * *
754164 TTTAAAAATTATATATTATATATATTTTC-TAAAATGTTT
1 TTTCAAAACTATATAATATATATGTTTTCAAAAAATG--T
** *
754203 TTTTTAAACTATATATTATATA-GTTTT-AAAAA
1 TTTCAAAACTATATAATATATATGTTTTCAAAAA
754235 CTATTAAAAA
Statistics
Matches: 281, Mismatches: 33, Indels: 67
0.74 0.09 0.18
Matches are distributed among these distances:
29 12 0.04
30 7 0.02
31 9 0.03
32 14 0.05
33 36 0.13
34 26 0.09
35 31 0.11
36 31 0.11
37 22 0.08
38 42 0.15
39 47 0.17
40 4 0.01
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (38 bp):
TTTCAAAACTATATAATATATATGTTTTCAAAAAATGT
Found at i:754126 original size:12 final size:12
Alignment explanation
Indices: 754109--754133 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
754099 CTATATATAT
754109 ATGTTTTCAAAA
1 ATGTTTTCAAAA
754121 ATGTTTTCAAAA
1 ATGTTTTCAAAA
754133 A
1 A
754134 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:754130 original size:74 final size:75
Alignment explanation
Indices: 753953--754234 Score: 241
Period size: 74 Copynumber: 3.8 Consensus size: 75
753943 AATTTTTTTC
* *
753953 AACTATATATATATAAATTTC-AAAATGATTTT---AAACTAT-TATTATATAAGTTTTC---AA
1 AACTATATATATAT-GATTTCAAAAATG-TTTTCAAAAACTATATAATATATAAGTTTTCAAAAA
754010 AATGGTTTTAAA
64 AATGGTTTTAAA
* ** * *
754022 AACTATATAATATATGGTTTCAAAAACATCTTCAAAAACTATATAATATATATGTTTTCAAAAAA
1 AACTATAT-ATATATGATTTCAAAAATGTTTTCAAAAACTATATAATATATAAGTTTTCAAAAAA
*
754087 AT-GTTTTCAA
65 ATGGTTTTAAA
*
754097 AACTATATATATATGTTTTCAAAAATGTTTTCAAAAACTATATATATATATAAGTTTTC---AAA
1 AACTATATATATATGATTTCAAAAATGTTTTCAAAAACTATATA-ATATATAAGTTTTCAAAAAA
*
754159 ATGATTTTAAA
65 ATGGTTTTAAA
* * * *** *
754170 AATTATATATTATATATATTTTCTAAAATGTTTTTTTTAAACTATATATTATAT-AGTTTT-AAA
1 AACTATATA-TATAT-GA-TTTCAAAAATG-TTTTCAAAAACTATATAATATATAAGTTTTCAAA
754233 AA
62 AA
754235 CTATTAAAAA
Statistics
Matches: 172, Mismatches: 23, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
69 15 0.09
70 10 0.06
72 12 0.07
73 28 0.16
74 37 0.22
75 34 0.20
76 20 0.12
77 16 0.09
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.44
Consensus pattern (75 bp):
AACTATATATATATGATTTCAAAAATGTTTTCAAAAACTATATAATATATAAGTTTTCAAAAAAA
TGGTTTTAAA
Found at i:754179 original size:75 final size:75
Alignment explanation
Indices: 753832--754276 Score: 296
Period size: 73 Copynumber: 6.3 Consensus size: 75
753822 GTTTTAAAAC
* * * * *
753832 TATATAT-ATTTCAAAAAT-ATTTC-AAAACCATATACTATATAA-TTTTAAAAATG-TTTTAAA
1 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAA
*
753892 AACTATAT-G
66 AACTATATAT
* ***
753901 T-TATA-GTTTTC-AAAA-CTTTT--AAAAC--TATATTATAT--G-TTTCAAAAT--TTTTTTC
1 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAA
753953 AACTATATA-
66 AACTATATAT
** *
753962 TATATA-AATTTC-AAAATGATTTT---AAACTAT-TATTATATAAGTTTTCAAAATGGTTTTAA
1 TATATATGTTTTCAAAAATG-TTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAA
754021 AAACTATATA-
65 AAACTATATAT
* ** * * *
754031 -ATATATGGTTTCAAAAACATCTTCAAAAACTATATAATATATATGTTTTCAAAAAAATG-TTTT
1 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTC---AAAATGATTTT
*
754094 CAAAAC--TATA-
63 AAAAACTATATAT
754104 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATATATATATAAGTTTTCAAAATGATTTTAA
1 TATATATGTTTTCAAAAATGTTTTCAAAAACTATATAT-TATATAAGTTTTCAAAATGATTTTAA
*
754169 AAATTATATAT
65 AAACTATATAT
* * *** *
754180 TATATATATTTTCTAAAATGTTTTTTTTAAACTATATATTATAT-AGTTTT-AAAA--ACTATTA
1 TATATATGTTTTCAAAAATG-TTTTCAAAAACTATATATTATATAAGTTTTCAAAATGA-TTTTA
754241 AAAACTATATAT
64 AAAACTATATAT
*
754253 TATATACGTAGTTTCAAAATATGT
1 TATATATGT--TTTCAAAA-ATGT
754277 ATATATATAA
Statistics
Matches: 303, Mismatches: 39, Indels: 62
0.75 0.10 0.15
Matches are distributed among these distances:
61 13 0.04
62 20 0.07
63 4 0.01
64 21 0.07
65 1 0.00
66 6 0.02
67 16 0.05
68 13 0.04
69 21 0.07
70 4 0.01
72 14 0.05
73 48 0.16
74 36 0.12
75 39 0.13
76 32 0.11
77 15 0.05
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (75 bp):
TATATATGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAA
AACTATATAT
Found at i:755024 original size:84 final size:84
Alignment explanation
Indices: 754876--755624 Score: 722
Period size: 84 Copynumber: 9.0 Consensus size: 84
754866 GCTATGTTGT
* * * * * ** *
754876 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
* *
754938 TCGACTTAAGTTGTGCTAC
66 TCGACTTAAGTTATGCTGC
* * * * *
754957 AAATGATATG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTGGGCAGACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GGCAGATAACCCTT
* *
755021 CTCGACTTCAGGTATGCTGC
65 CTCGACTTAAGTTATGCTGC
* * * ** *
755041 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
* *
755103 TCGACTTAAGCTATGCTGG
66 TCGACTTAAGTTATGCTGC
* * * * **
755122 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGACTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTT
*** * *
755186 CTATCCTTGAGTTATGCTGT
65 CTCGACTTAAGTTATGCTGC
* * * ** *
755206 AAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
* *
755268 TCGACTTAAGCTATACTGC
66 TCGACTTAAGTTATGCTGC
* * * * * *
755287 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGAAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTT
* *
755351 CTTGACTTAAGTTATACTGC
65 CTCGACTTAAGTTATGCTGC
* * ** * *
755371 AAATTATGTGCCCTCGAAGCTGAGTGT-GATCGAACTCGGGGGTC-CT--TGGCAGATAGCCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAG-TCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTT
*
755432 CTCGACTTAAGCTATGCTGC
65 CTCGACTTAAGTTATGCTGC
* * * *
755452 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GTGGCAGATAACCCTT
755516 CTCGACTTAAGTTATGCTGC
65 CTCGACTTAAGTTATGCTGC
* * **
755536 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTCGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GGCAGATAACCCTT
755601 CTCGACTTAAGTTATGCTGC
65 CTCGACTTAAGTTATGCTGC
755621 AAAT
1 AAAT
755625 AGTTTGTTTA
Statistics
Matches: 537, Mismatches: 108, Indels: 42
0.78 0.16 0.06
Matches are distributed among these distances:
80 96 0.18
81 129 0.24
82 5 0.01
83 4 0.01
84 164 0.31
85 139 0.26
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (84 bp):
AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
TCGACTTAAGTTATGCTGC
Found at i:755128 original size:165 final size:165
Alignment explanation
Indices: 754876--755624 Score: 1106
Period size: 165 Copynumber: 4.5 Consensus size: 165
754866 GCTATGTTGT
* * *
754876 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
* * * * * *
754941 ACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGT
* * * *
755006 GGGCAGACAACCCTTCTCGACTTCAGGTATGCTGC
131 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
755041 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
* *
755106 ACTTAAGCTATGCTGGAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGACTTTTG
66 ACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTG
** *** * *
755170 G-TCACAGATAACCCTTCTATCCTTGAGTTATGCTGT
129 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
755206 AAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
* *
755271 ACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGT
* * * *
755336 TAGAAGATAACCCTTCTTGACTTAAGTTATACTGC
131 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* * *
755371 AAATTATGTGCCCTCGAAGCTGAGTGTGATCGAACTCGGGGGTCCTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
*
755436 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGT
755501 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
131 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
755536 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTCGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--T-GGCAGATAGCCCTT
*
755601 CTCGACTTAAGTTATGCTGCAAAT
62 CTCGACTTAAGCTATGCTGCAAAT
755625 AGTTTGTTTA
Statistics
Matches: 525, Mismatches: 51, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
164 6 0.01
165 474 0.90
166 8 0.02
168 1 0.00
169 36 0.07
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGT
TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
Found at i:755653 original size:18 final size:19
Alignment explanation
Indices: 755630--755666 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
755620 CAAATAGTTT
755630 GTTT-AAAAAATGGCTTCC
1 GTTTAAAAAAATGGCTTCC
755648 GTTTAAAAAAATGGCTTCC
1 GTTTAAAAAAATGGCTTCC
755667 CTTAACGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
GTTTAAAAAAATGGCTTCC
Found at i:755671 original size:18 final size:19
Alignment explanation
Indices: 755634--755671 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
755624 TAGTTTGTTT
*
755634 AAAAAATGGCTTCCGTTTA
1 AAAAAATGGCTTCCGCTTA
755653 AAAAAATGGCTTCC-CTTA
1 AAAAAATGGCTTCCGCTTA
755671 A
1 A
755672 CGGGTCGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAAAATGGCTTCCGCTTA
Found at i:758960 original size:21 final size:21
Alignment explanation
Indices: 758934--758987 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
758924 TTATGCGGAT
758934 GGGGTGTGTCCAATGCTTGAG
1 GGGGTGTGTCCAATGCTTGAG
758955 GGGGTGTGTCCAATGCTTGAG
1 GGGGTGTGTCCAATGCTTGAG
* *
758976 GCGGTGTATCCA
1 GGGGTGTGTCCA
758988 GTATTTGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.17, G:0.41, T:0.28
Consensus pattern (21 bp):
GGGGTGTGTCCAATGCTTGAG
Found at i:759056 original size:19 final size:20
Alignment explanation
Indices: 759032--759078 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
759022 AGTTAATGTG
*
759032 AATGCAAAGAAAAT-AACAA
1 AATGCAAAGAAAATAAAAAA
759051 AATGCAAAGAAAATAAAAAA
1 AATGCAAAGAAAATAAAAAA
759071 AATGCAAA
1 AATGCAAA
759079 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (20 bp):
AATGCAAAGAAAATAAAAAA
Found at i:762381 original size:4 final size:4
Alignment explanation
Indices: 762372--762435 Score: 53
Period size: 4 Copynumber: 16.8 Consensus size: 4
762362 ATAGACCTAA
* * * * *
762372 AAAT AAAT AAAT AAAT AAAT AAAC GAGT AAAT -AAT -AAT AAA- CAAG
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
762417 AAAT AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
762436 ATACTATATA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
3 8 0.17
4 39 0.83
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:762671 original size:37 final size:37
Alignment explanation
Indices: 762483--762920 Score: 288
Period size: 37 Copynumber: 12.2 Consensus size: 37
762473 ACTATATATA
* * *
762483 TTTCAAAAAT-ATTTTCAAAACCATATACTATATAA-T
1 TTTC-AAAATGATTTTAAAAACTATATATTATATAAGT
* *
762519 TTTAAAAATG-TTTT-AAAACTATAT-GT-TAT-AGT
1 TTTCAAAATGATTTTAAAAACTATATATTATATAAGT
*
762551 TTTCAAAAACG-TTTT-AAAAC--TATATTATAT--G-
1 TTTC-AAAATGATTTTAAAAACTATATATTATATAAGT
*** *
762582 TTTCAAAA--ATTTTTTCAACTATATA-TATATAA-A
1 TTTCAAAATGATTTTAAAAACTATATATTATATAAGT
*
762615 TTTCAAAATGATTTT-AAAACTATTTATTATATAAGT
1 TTTCAAAATGATTTTAAAAACTATATATTATATAAGT
* * * *
762651 TTTCAAAATGGTTTTAAAAACTATATAATATATATGG
1 TTTCAAAATGATTTTAAAAACTATATATTATATAAGT
* * *
762688 TTTCAAAAAT-ATCTTCAAAAACTATATAATATATATGT
1 TTTC-AAAATGAT-TTTAAAAACTATATATTATATAAGT
* *
762726 TTTCAAAAAAATG-TTTTCAAAACTATA-A-TATATATGT
1 TTTC---AAAATGATTTTAAAAACTATATATTATATAAGT
762763 TTTCAAAAATG-TTTTCAAAAACTATATA-TATATAAGT
1 TTTC-AAAATGATTTT-AAAAACTATATATTATATAAGT
*
762800 TTTCAAAATGATTTTAAAAATTATATATTATATATA-T
1 TTTCAAAATGATTTTAAAAACTATATATTATATA-AGT
* ** *
762837 TTTCTAAAATGTTTTTTTTAAACTATATATTATA-CAGT
1 TTTC-AAAATG-ATTTTAAAAACTATATATTATATAAGT
* *
762875 TTT-AAAA--ACTATTAAAAACTATATATTATATACGT
1 TTTCAAAATGA-TTTTAAAAACTATATATTATATAAGT
762910 AGTTTCAAAAT
1 --TTTCAAAAT
762921 ATGTATATAT
Statistics
Matches: 330, Mismatches: 36, Indels: 69
0.76 0.08 0.16
Matches are distributed among these distances:
29 4 0.01
30 7 0.02
31 13 0.04
32 13 0.04
33 26 0.08
34 35 0.11
35 34 0.10
36 47 0.14
37 67 0.20
38 48 0.15
39 29 0.09
40 7 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTCAAAATGATTTTAAAAACTATATATTATATAAGT
Found at i:762722 original size:75 final size:75
Alignment explanation
Indices: 762630--762834 Score: 265
Period size: 75 Copynumber: 2.7 Consensus size: 75
762620 AAATGATTTT
* *
762630 AAAACTATTTATTATATAAGTTTTCAAAATGGTTTTAAAAACTATATAATATATATGGTTTCAAA
1 AAAACTATATAATATATAAGTTTTCAAAATGGTTTTAAAAACTATATAATATATATGGTTTCAAA
762695 AATATCTTCA
66 AATATCTTCA
* * *
762705 AAAACTATATAATATATATGTTTTCAAAAAAAT-GTTTTCAAAAC--TATAATATATATGTTTTC
1 AAAACTATATAATATATAAGTTTTC---AAAATGGTTTTAAAAACTATATAATATATATGGTTTC
* *
762767 AAAAATGTTTTCA
63 AAAAATATCTTCA
* * *
762780 AAAACTATAT-ATATATAAGTTTTCAAAATGATTTTAAAAATTATATATTATATAT
1 AAAACTATATAATATATAAGTTTTCAAAATGGTTTTAAAAACTATATAATATATAT
762835 ATTTTCTAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
71 5 0.04
72 8 0.07
74 24 0.21
75 60 0.54
77 10 0.09
78 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (75 bp):
AAAACTATATAATATATAAGTTTTCAAAATGGTTTTAAAAACTATATAATATATATGGTTTCAAA
AATATCTTCA
Found at i:762776 original size:12 final size:12
Alignment explanation
Indices: 762759--762783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
762749 TATAATATAT
762759 ATGTTTTCAAAA
1 ATGTTTTCAAAA
762771 ATGTTTTCAAAA
1 ATGTTTTCAAAA
762783 A
1 A
762784 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:762916 original size:149 final size:146
Alignment explanation
Indices: 762598--762924 Score: 324
Period size: 149 Copynumber: 2.2 Consensus size: 146
762588 AAATTTTTTC
** *
762598 AACTATATATATATA-AATTTC-AAAATGATTTTAAAACTATTTATTATATAAGTTTTCAAAATG
1 AACTATA-ATATATACGTTTTCAAAAATG-TTTTAAAACTATATATTATATAAGTTTTCAAAATG
* * *
762661 GTTTTAAAAACTATATAATATATATGGTTTCAAAAATATCTTCAAAAACTATATAATATATATGT
64 ATTTTAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAAAACTATATAATATACATGT
* * *
762726 TTTCAAAAAAATGTTTTCAA
129 TTT--AAAAAATCTATTAAA
*
762746 AACTATAATATATATGTTTTCAAAAATGTTTTCAAAAACTATATA-TATATAAGTTTTCAAAATG
1 AACTATAATATATACGTTTTCAAAAATGTTTT--AAAACTATATATTATATAAGTTTTCAAAATG
* * * * * * *** *
762810 ATTTTAAAAATTATATATTATATATATTTTCTAAAATGTTTTTTTTAAACTATATATTATACA-G
64 ATTTTAAAAACTATATAATATATATAGTTTCAAAAAT-ATCTTCAAAAACTATATAATATACATG
762874 TTTT-AAAAA-CTATTAAA
128 TTTTAAAAAATCTATTAAA
762891 AACTATATATTATATACGTAGTTTCAAAATATGT
1 AACTATA-A-TATATACGT--TTTCAAAA-ATGT
762925 ATATATATAA
Statistics
Matches: 149, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
145 12 0.08
146 6 0.04
147 15 0.10
148 15 0.10
149 69 0.46
150 32 0.21
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (146 bp):
AACTATAATATATACGTTTTCAAAAATGTTTTAAAACTATATATTATATAAGTTTTCAAAATGAT
TTTAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAAAACTATATAATATACATGTTT
TAAAAAATCTATTAAA
Found at i:764216 original size:157 final size:158
Alignment explanation
Indices: 763996--764378 Score: 558
Period size: 157 Copynumber: 2.4 Consensus size: 158
763986 GTCTCTGATT
* * * *
763996 TCATTATTTCTTCAATTCCAAC-TTCATTTTAAGTCCATTTGTTTTACCAAATTTAAACCACATG
1 TCATTATTTCCTCAATT-CATCATTTATTTTAAGT-CATTT-TTTTACCAAATTTGAACCACATG
* * * *
764060 CTCGTAAACCATCGTAGAATAC-ATATGTACTTTCAATTCCTCATTTTGATAATAACTTTTCTAT
63 CTCCTAAACCATCATAAAATACAAT-TGTACTTCCAATTCCTCATTTTGATAATAACTTTTCTAT
*
764124 TTTTCAATTTATTCCCTCAATTTTTCATAATC
127 TTTTCAATTTACTCCCTCAATTTTTCATAATC
*
764156 TCCA-TATTTCCTCAATTCATCATTTATTTTAAGTC-TTTTTTTACCAAATTTGAACTACATGCT
1 T-CATTATTTCCTCAATTCATCATTTATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCT
764219 CCTAAACCATCATAAAATACAATTGTACTTCCAATTCCTCATTTTGATAATAACTTTTCTATTTT
65 CCTAAACCATCATAAAATACAATTGTACTTCCAATTCCTCATTTTGATAATAACTTTTCTATTTT
*
764284 TCAATTTACTCCCTCAGTTTTTCATAATC
130 TCAATTTACTCCCTCAATTTTTCATAATC
* * *
764313 TCATTATTTCTTCAATTCATCCTTTAGTTTAAGTCAATTTTTTTACCAAATTTGAACCACATGCT
1 TCATTATTTCCTCAATTCATCATTTATTTTAAGTC-ATTTTTTTACCAAATTTGAACCACATGCT
764378 C
65 C
764379 ATATACCACA
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
156 2 0.01
157 137 0.68
158 5 0.02
159 32 0.16
160 24 0.12
161 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.45
Consensus pattern (158 bp):
TCATTATTTCCTCAATTCATCATTTATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTC
CTAAACCATCATAAAATACAATTGTACTTCCAATTCCTCATTTTGATAATAACTTTTCTATTTTT
CAATTTACTCCCTCAATTTTTCATAATC
Found at i:766907 original size:132 final size:132
Alignment explanation
Indices: 766668--767376 Score: 972
Period size: 132 Copynumber: 5.4 Consensus size: 132
766658 TCCATTGAAA
* * * * * *
766668 TGTGATAGAATCAAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAA
1 TGTGATGGAATCGAACGAGATGTCGGTGTCGATCTACCTCATTCTGTGATAGAATCGGGCAAAAA
* * * *
766733 GTTGAAGCTTATCCAACTCCTTATGTGCTGGATTTGAGTGAAATGAAAATGTTGATCCACCTCTT
66 GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCCT
766798 TC
131 TC
* * *
766800 TGTGATAGAGTCGAACGAGATGTCGGTGTCGATCTACCTTATTCTGTGATAGAATCGGGCAAAAA
1 TGTGATGGAATCGAACGAGATGTCGGTGTCGATCTACCTCATTCTGTGATAGAATCGGGCAAAAA
* * * *
766865 GTTGAAGCTGATCCAACTCCTTATGTGTTAGATTTGAATGAAATGAAAATGTCAATCCACCTCAT
66 GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCCT
*
766930 TT
131 TC
* * * * *
766932 TGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCTGACAAAAA
1 TGTGATGGAATCGAACGAGATGTCGGTGTCGATCTACCTCATTCTGTGATAGAATCGGGCAAAAA
* * * * *
766997 GTTAAAGCTGATCCAAATCCTTATGTATTGGATTTGAGTGAAATGAAAATGTCGATTCACCTCAT
66 GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCCT
767062 TC
131 TC
* * * *
767064 TGTGATGGATTTGAACGAGATGTTGGTG-CTGATCTACCTCATTCTTTGATAGAATCGGGCAAAA
1 TGTGATGGAATCGAACGAGATGTCGGTGTC-GATCTACCTCATTCTGTGATAGAATCGGGCAAAA
** * *
767128 AGTTGAAGCTGATCCAACTTTTTATGTGCTAGATTTGAGTGAAATGAAAATGTCGATCCACCTCC
65 AGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCC
*
767193 TTA
130 TTC
* * * * * *
767196 TGTGATGGAATCGAACGAGATGTTGGTATTGATCTACCTCTTTCTGTGATAGAATCGAGCAGAAA
1 TGTGATGGAATCGAACGAGATGTCGGTGTCGATCTACCTCATTCTGTGATAGAATCGGGCAAAAA
*
767261 GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCTACCTCCT
66 GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCCT
767326 TC
131 TC
* *
767328 TGTGATGGAATCGAACGAGATGTTGGT-ACTGATCTACCTCATTCTGTGA
1 TGTGATGGAATCGAACGAGATGTCGGTGTC-GATCTACCTCATTCTGTGA
767377 GTAAAAAGTT
Statistics
Matches: 507, Mismatches: 67, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
132 507 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (132 bp):
TGTGATGGAATCGAACGAGATGTCGGTGTCGATCTACCTCATTCTGTGATAGAATCGGGCAAAAA
GTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATCCACCTCCT
TC
Found at i:766987 original size:44 final size:44
Alignment explanation
Indices: 766668--766987 Score: 156
Period size: 44 Copynumber: 7.3 Consensus size: 44
766658 TCCATTGAAA
* * * * *
766668 TGTGATAGAATCAAACGAGATATCGGTGTTGATCTACCTCCTTC
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
* * * * * * *
766712 TGTGATAGAATCGAGCAAAAAGTTGAAGCTT-ATCCAACTCCTTA
1 TGTGATAGAATCGAACGAAATGTCGATG-TTGATCCACCTCCTTC
* * * * ** *** *
766756 TGTGCTGGATTTGAGTGAAATGAAAATGTTGATCCACCTCTTTC
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
* * * * * **
766800 TGTGATAGAGTCGAACGAGATGTCGGTGTCGATCTACCTTATTC
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
** * * * * * * *
766844 TGTGATAGAATCGGGCAAAAAGTTGAAGCTGATCCAACTCCTTA
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
* * * * *** ** * *
766888 TGTGTTAGATTTGAATGAAATGAAAATGTCAATCCACCTCATTT
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
* * *
766932 TGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTC
1 TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
766976 TGTGATAGAATC
1 TGTGATAGAATC
766988 TGACAAAAAG
Statistics
Matches: 184, Mismatches: 90, Indels: 4
0.66 0.32 0.01
Matches are distributed among these distances:
43 2 0.01
44 180 0.98
45 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TGTGATAGAATCGAACGAAATGTCGATGTTGATCCACCTCCTTC
Found at i:767155 original size:264 final size:264
Alignment explanation
Indices: 766667--767376 Score: 1084
Period size: 264 Copynumber: 2.7 Consensus size: 264
766657 TTCCATTGAA
* * *
766667 ATGTGATAGAATCAAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAA
1 ATGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAA
* * * * *
766732 AGTTGAAGCTTATCCAACTCCTTATGTGCTGGATTTGAGTGAAATGAAAATGTTGATCCACCTCT
66 AGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATTCACCTCA
* * * *
766797 TTCTGTGATAGAGTCGAACGAGATGTCGGTG-TCGATCTACCTTATTCTGTGATAGAATCGGGCA
131 TTCTGTGATGGAATCGAACGAGATGTTGGTGCT-GATCTACCTCATTCTGTGATAGAATCGGGCA
*
766861 AAAAGTTGAAGCTGATCCAACTCCTTATGTGTTAGATTTGAATGAAATGAAAATGTCAATCCACC
195 AAAAGTTGAAGCTGATCCAACTCCTTATGTGCTAGATTTGAATGAAATGAAAATGTCAATCCACC
766926 TCATT
260 TCATT
* *
766931 TTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCTGA-CAAA
1 ATGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATC-GAGCAAA
* * *
766995 AAGTTAAAGCTGATCCAAATCCTTATGTATTGGATTTGAGTGAAATGAAAATGTCGATTCACCTC
65 AAGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATTCACCTC
* * *
767060 ATTCTGTGATGGATTTGAACGAGATGTTGGTGCTGATCTACCTCATTCTTTGATAGAATCGGGCA
130 ATTCTGTGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGGGCA
** * *
767125 AAAAGTTGAAGCTGATCCAACTTTTTATGTGCTAGATTTGAGTGAAATGAAAATGTCGATCCACC
195 AAAAGTTGAAGCTGATCCAACTCCTTATGTGCTAGATTTGAATGAAATGAAAATGTCAATCCACC
*
767190 TCCTT
260 TCATT
* * * *
767195 ATGTGATGGAATCGAACGAGATGTTGGTATTGATCTACCTCTTTCTGTGATAGAATCGAGCAGAA
1 ATGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAA
767260 AGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGA-TCTACCTC
66 AGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATTC-ACCTC
* *
767324 CTTCTGTGATGGAATCGAACGAGATGTTGGTACTGATCTACCTCATTCTGTGA
130 ATTCTGTGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTCATTCTGTGA
767377 GTAAAAAGTT
Statistics
Matches: 403, Mismatches: 39, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
263 4 0.01
264 396 0.98
265 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (264 bp):
ATGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAA
AGTTGAAGCTGATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAATGTCGATTCACCTCA
TTCTGTGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTCATTCTGTGATAGAATCGGGCAA
AAAGTTGAAGCTGATCCAACTCCTTATGTGCTAGATTTGAATGAAATGAAAATGTCAATCCACCT
CATT
Found at i:767235 original size:44 final size:44
Alignment explanation
Indices: 767182--767376 Score: 139
Period size: 44 Copynumber: 4.4 Consensus size: 44
767172 TGAAAATGTC
* * *
767182 GATCCACCTCCTTATGTGATGGAATCGAACGAGATGTTGGTATT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTACT
* * * * *
767226 GATCTACCTCTTTCTGTGATAGAATCGAGC-AGAAAGTT-GAAGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAG-ATGTTGGTA-CT
* * * * * * ** * *
767270 GATCCAACTCCTTATGTGTTGGATTTGAGTGAAATGAAAAT-GT-C-
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAGATG---TTGGTACT
767314 GATCTACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTACT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTACT
*
767358 GATCTACCTCATTCTGTGA
1 GATCTACCTCCTTCTGTGA
767377 GTAAAAAGTT
Statistics
Matches: 110, Mismatches: 32, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 5 0.05
44 98 0.89
45 2 0.02
47 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
GATCTACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTACT
Found at i:767654 original size:91 final size:91
Alignment explanation
Indices: 767499--767671 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
767489 CGAGGAAAAA
* *
767499 GTTGAATAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGACAAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTCATCGGACAAGTTCTTCTCATTATGAA
*
767564 CTCTCCACTGGAAATGTTAAGCCAAT
66 CTCTCCACCGGAAATGTTAAGCCAAT
* ** * * **
767590 GTTGAACAAATTCTTTTCATTATGAACTTATTCTCTTTCGTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTCATCGGACAAGTTCTTCTCATTATGAA
767655 CTCTCCACCGGAAATGT
66 CTCTCCACCGGAAATGT
767672 CGATACACCT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (91 bp):
GTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTCATCGGACAAGTTCTTCTCATTATGAA
CTCTCCACCGGAAATGTTAAGCCAAT
Found at i:767953 original size:96 final size:96
Alignment explanation
Indices: 767806--768067 Score: 402
Period size: 96 Copynumber: 2.7 Consensus size: 96
767796 CTCATTCTGT
* * * *
767806 GATGGATGAACCAAGTATTGATGTTGTTCCAACTCCATATGTGAAGGAATCGAGTAAGAATGACA
1 GATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATGACA
* * *
767871 ATGTTCATGACGAGGATCCATCTCCGTATGC
66 ATGTTCATAACGAGAATCCAACTCCGTATGC
767902 GATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATGACA
1 GATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATGACA
* * **
767967 ATGTTGATAATGCTAATCCAACTCCGTATGC
66 ATGTTCATAACGAGAATCCAACTCCGTATGC
767998 GATGGATGAG-CAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATGAAC
1 GATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATG-AC
768062 AA-GTTC
65 AATGTTC
768068 TTCTCATTAT
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
95 54 0.35
96 99 0.65
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (96 bp):
GATGGATGAGCCAAGTATTGGTGTTGTTCCAACTCCGTATGTGAAGGAATCGAGCAAGAATGACA
ATGTTCATAACGAGAATCCAACTCCGTATGC
Found at i:768459 original size:36 final size:36
Alignment explanation
Indices: 768419--768530 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
768409 GATAAAACTG
*
768419 TCTCAAGCGAGATGAAGTTGGTTTTAAGAAAAACCA
1 TCTCAAGCGAGATGAAGTTGGTTTTAAGAAAAATCA
* * * * * * **
768455 TCTCAAGTGAGAT-ACATTTTGTTTCAAGGGAAAGTTG
1 TCTCAAGCGAGATGA-AGTTGGTTTTAA-GAAAAATCA
*
768492 TCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAATCA
1 TCTCAAGCGAGATGAAGTTGGTTTTAAGAAAAATCA
768528 TCT
1 TCT
768531 TGAGTGAGAT
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
35 1 0.02
36 29 0.53
37 24 0.44
38 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (36 bp):
TCTCAAGCGAGATGAAGTTGGTTTTAAGAAAAATCA
Found at i:768500 original size:73 final size:76
Alignment explanation
Indices: 768417--768562 Score: 226
Period size: 73 Copynumber: 2.0 Consensus size: 76
768407 GAGATAAAAC
* *
768417 TGTCTCAAGCGAGATGAAGTTGGTTTTAAGAAAAACCATCTCAAGTGAGAT-ACA-TT-TTGTTT
1 TGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCATCTCAAGTGAGATAAAATTTCTTGTTT
768479 CAAGGGAAAGT
66 CAAGGGAAAGT
* **
768490 TGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAATCATCTTGAGTGAGATAAAATTTCTTGTTT
1 TGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCATCTCAAGTGAGATAAAATTTCTTGTTT
768555 CAAGGGAA
66 CAAGGGAA
768563 TCTCAAGAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
73 47 0.72
74 2 0.03
75 2 0.03
76 14 0.22
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (76 bp):
TGTCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCATCTCAAGTGAGATAAAATTTCTTGTTT
CAAGGGAAAGT
Found at i:768699 original size:36 final size:36
Alignment explanation
Indices: 768613--768869 Score: 286
Period size: 36 Copynumber: 7.1 Consensus size: 36
768603 AAAGATTTTG
* *
768613 TGTTTCAAGAAAAACTGTCTCAAGAGAAACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
768650 TATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
768686 TGTTTCAAGAGAAATTGTCTCAAGGGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
768722 TGTTTCAAG-GAAAACTATCTCAAGGGAGAAAAAATT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAATT
* * * *
768758 TGTTTCAAGGGAAACTATCTCAAGGGAGA-AAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
768793 TGTTTCCAAG-GAAACTATCTCAAGAGAGACAAAATT
1 TGTTT-CAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
768829 TATTTCAAGGGAAACTGTCTCAAGCGAGACGAAGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
768865 TGTTT
1 TGTTT
768870 TGAGAGAGAC
Statistics
Matches: 194, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
35 33 0.17
36 129 0.66
37 32 0.16
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:773653 original size:7 final size:7
Alignment explanation
Indices: 773637--773670 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
773627 GTCAAAGAAA
*
773637 GTCAATG
1 GTCAACG
773644 GTCAACG
1 GTCAACG
773651 GTCAACG
1 GTCAACG
773658 GTCAACG
1 GTCAACG
773665 GTCAAC
1 GTCAAC
773671 AGTCGGGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (7 bp):
GTCAACG
Done.