Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007718.1 Hibiscus syriacus cultivar Beakdansim tig00109949_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: 1062497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:563722 original size:21 final size:21
Alignment explanation
Indices: 563698--563743 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
563688 ATTCCATATG
* *
563698 AAATAATATTTATT-ATATACT
1 AAATAA-AATTATTAATATACA
563719 AAATAAAATTATTAATATACA
1 AAATAAAATTATTAATATACA
563740 AAAT
1 AAAT
563744 CAGTGTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATAAAATTATTAATATACA
Found at i:564540 original size:17 final size:15
Alignment explanation
Indices: 564514--564555 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
564504 AATACTAAAC
564514 AAATT-AAATAAATA
1 AAATTAAAATAAATA
*
564528 AATATTAACAATAATTA
1 AA-ATTAA-AATAAATA
564545 AAATTAAAATA
1 AAATTAAAATA
564556 GATTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 6 0.25
17 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTAAAATAAATA
Found at i:564787 original size:27 final size:25
Alignment explanation
Indices: 564740--564795 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
564730 GTTAATAGAA
564740 TTTGAGCTTTAAGAGAATTTGAGAGTG
1 TTTGAGCTTTAAGAGAATTTG-GA-TG
* **
564767 TTTGAGCTTTGAGAGGGTTTGGATG
1 TTTGAGCTTTAAGAGAATTTGGATG
564792 TTTG
1 TTTG
564796 TGTTTGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 6 0.23
26 2 0.08
27 18 0.69
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (25 bp):
TTTGAGCTTTAAGAGAATTTGGATG
Found at i:564840 original size:24 final size:24
Alignment explanation
Indices: 564808--564856 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
564798 TTTGGTTTAT
564808 GAAGAGGGGAGAGGGTATTCATAG
1 GAAGAGGGGAGAGGGTATTCATAG
564832 GAAGAGGGGAGAGGGTATTCATAG
1 GAAGAGGGGAGAGGGTATTCATAG
564856 G
1 G
564857 GGTAAGTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.47, T:0.16
Consensus pattern (24 bp):
GAAGAGGGGAGAGGGTATTCATAG
Found at i:565496 original size:19 final size:21
Alignment explanation
Indices: 565474--565512 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
565464 TTTTAAGTAT
565474 TTTAA-TTAGGATTT-TCTTC
1 TTTAATTTAGGATTTATCTTC
565493 TTTAATTTAGGATTTATCTT
1 TTTAATTTAGGATTTATCTT
565513 TACCTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTAATTTAGGATTTATCTTC
Found at i:569357 original size:13 final size:13
Alignment explanation
Indices: 569339--569371 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
569329 CCATTATTAT
569339 TTTATTTTTTTGA
1 TTTATTTTTTTGA
569352 TTTATTTTTTTGA
1 TTTATTTTTTTGA
569365 TTT-TTTT
1 TTTATTTT
569372 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTATTTTTTTGA
Found at i:569369 original size:10 final size:9
Alignment explanation
Indices: 569355--569388 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
569345 TTTTTGATTT
*
569355 ATTTTTTTG
1 ATTTTTTTA
569364 ATTTTTTTA
1 ATTTTTTTA
569373 ATTTTTTTA
1 ATTTTTTTA
569382 ATTTTTT
1 ATTTTTT
569389 AGGTACACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:570709 original size:34 final size:31
Alignment explanation
Indices: 570663--570733 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 31
570653 AAAAAAGTCG
570663 AAAAAAATTTCATTGTTTCGAACATAAGAAAA
1 AAAAAAATTTCATTGTTTCGAACA-AAGAAAA
* *
570695 AAAAAAATTGTTCATTGTTTCGAACAGAGAAAG
1 AAAAAAA-T-TTCATTGTTTCGAACAAAGAAAA
570728 AAAAAA
1 AAAAAA
570734 GAAGGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 7 0.20
33 12 0.34
34 16 0.46
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.25
Consensus pattern (31 bp):
AAAAAAATTTCATTGTTTCGAACAAAGAAAA
Found at i:572612 original size:12 final size:12
Alignment explanation
Indices: 572595--572621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
572585 TTAAATGATT
572595 TTTATTTAATTA
1 TTTATTTAATTA
572607 TTTATTTAATTA
1 TTTATTTAATTA
572619 TTT
1 TTT
572622 TATTCTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTTAATTA
Found at i:573750 original size:3 final size:3
Alignment explanation
Indices: 573742--573780 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
573732 TAAAATACTA
573742 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
573781 TCCTACCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:574489 original size:77 final size:78
Alignment explanation
Indices: 574391--574547 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 78
574381 TTGAGTTTAT
* * **
574391 AAAATTTGAGTCGAATTGAATAAAAACTTTAA-TT-TTCGAGTTGAAGAGTCTTATTTTATAATT
1 AAAATTTAAGTCGAATCGAATAAAAACTTTAAGTTATTCGAGCCGAAGAGTCTTATTTTATAATT
*
574454 CAAAATTTATTAA
66 CAAAATTTACTAA
* **** * *
574467 AAAATTTCAAGTCGAGTCGAATAATTTTTTTAAGTTATTTGAGCCGATGAGTCTTATTTTATAAT
1 AAAATTT-AAGTCGAATCGAATAAAAACTTTAAGTTATTCGAGCCGAAGAGTCTTATTTTATAAT
*
574532 TCAAACTTTACTAA
65 TCAAAATTTACTAA
574546 AA
1 AA
574548 TTTTCCGAGT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
76 7 0.11
77 18 0.28
78 2 0.03
79 38 0.58
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (78 bp):
AAAATTTAAGTCGAATCGAATAAAAACTTTAAGTTATTCGAGCCGAAGAGTCTTATTTTATAATT
CAAAATTTACTAA
Found at i:574693 original size:2 final size:2
Alignment explanation
Indices: 574686--574721 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
574676 TACAATGTAA
574686 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
574722 TCATTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:575372 original size:22 final size:20
Alignment explanation
Indices: 575334--575379 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
575324 CTTAGAATTC
* *
575334 TAAAAAATTATTTTAAATAA
1 TAAAAAAATATTTTAAAAAA
575354 TAAAAAAATATTTTCTAAAAAA
1 TAAAAAAATA-TTT-TAAAAAA
575376 TAAA
1 TAAA
575380 CTATTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAAAATATTTTAAAAAA
Found at i:578529 original size:2 final size:2
Alignment explanation
Indices: 578522--578550 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
578512 AATCGACATA
578522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
578551 GGGTAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:579146 original size:23 final size:23
Alignment explanation
Indices: 579120--579186 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
579110 TAAAGTGGAA
579120 AATAAAATAATAATTAACTTTTT
1 AATAAAATAATAATTAACTTTTT
*
579143 AATAAAATAATAGTTAACTTTTT
1 AATAAAATAATAATTAACTTTTT
579166 AATAAAATAATAATTAACTTT
1 AATAAAATAATAATTAACTTT
579187 AAACCCTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (23 bp):
AATAAAATAATAATTAACTTTTT
Found at i:581200 original size:154 final size:157
Alignment explanation
Indices: 580971--581267 Score: 564
Period size: 154 Copynumber: 1.9 Consensus size: 157
580961 TATTAATTCA
580971 TACGCCAATTGTGATATATAAATCAATTTAGTTATCTAATAATTATTAATTAAATGTAGAATTTA
1 TACGCCAATTGTGATATATAAATCAATTTAGTTATCTAATAATTATTAATTAAATGTAGAATTTA
581036 ATATATGCACTGGGTACATTGTTTTCAGAAGCAGAGCATAGA-TTTGTGTC-ACA-TTGCATAAC
66 ATATATGCACTGGGTACATTGTTTTCAGAAGCAGAGCATAGATTTTGTGTCAACATTTGCATAAC
581098 AATTTCAAAAATGATGGGTTTTCAAGG
131 AATTTCAAAAATGATGGGTTTTCAAGG
581125 TACGCCAATTGTGATATATAAATCAATTTAGTTATCTAATAATTATTAATTAAATGTAGAATTTA
1 TACGCCAATTGTGATATATAAATCAATTTAGTTATCTAATAATTATTAATTAAATGTAGAATTTA
581190 ATATATGCACTGGGTACATTGTTTTCAGAAGCAGAGCATAGATTTTGTGTCAGACATTTGCATAA
66 ATATATGCACTGGGTACATTGTTTTCAGAAGCAGAGCATAGATTTTGTGTCA-ACATTTGCATAA
581255 CAATTTCAAAAAT
130 CAATTTCAAAAAT
581268 TCGAACATGG
Statistics
Matches: 139, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 107 0.77
155 8 0.06
157 3 0.02
158 21 0.15
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (157 bp):
TACGCCAATTGTGATATATAAATCAATTTAGTTATCTAATAATTATTAATTAAATGTAGAATTTA
ATATATGCACTGGGTACATTGTTTTCAGAAGCAGAGCATAGATTTTGTGTCAACATTTGCATAAC
AATTTCAAAAATGATGGGTTTTCAAGG
Found at i:595026 original size:9 final size:9
Alignment explanation
Indices: 595012--595042 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
595002 GAATTTTTAG
595012 TTGAAGAAT
1 TTGAAGAAT
595021 TTGAAGAAT
1 TTGAAGAAT
595030 TTG-AGAAT
1 TTGAAGAAT
595038 TTGAA
1 TTGAA
595043 TGATAAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (9 bp):
TTGAAGAAT
Found at i:605963 original size:22 final size:21
Alignment explanation
Indices: 605935--605975 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
605925 TATAAAAAAT
605935 TATTTTTATTAAATGTTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
605957 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
605976 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:607360 original size:60 final size:60
Alignment explanation
Indices: 607275--607388 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
607265 TCTATGACTA
* * *
607275 TCATTCTAAATTAGTCCTTAAACTTTTGAAA-ATTTCAATTTCATCCTCAAACTACGACCT
1 TCATTCTAAATTAGTCATCAAACTTTTGAAACATTACAATTTCATCC-CAAACTACGACCT
* * * *
607335 TCATTCTAAATTGGTCATCAGACTTTTTAAACATTACAATTTTATCCCAAACTA
1 TCATTCTAAATTAGTCATCAAACTTTTGAAACATTACAATTTCATCCCAAACTA
607389 TACATAGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 33 0.72
61 13 0.28
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
TCATTCTAAATTAGTCATCAAACTTTTGAAACATTACAATTTCATCCCAAACTACGACCT
Found at i:608888 original size:24 final size:24
Alignment explanation
Indices: 608861--608907 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
608851 ACGGATATAT
* *
608861 CAAAAATCAAAACATAATTCAGGC
1 CAAAAATCAAAACAGAATCCAGGC
* *
608885 CAAATATCATAACAGAATCCAGG
1 CAAAAATCAAAACAGAATCCAGG
608908 TCAGGTATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.21, G:0.11, T:0.17
Consensus pattern (24 bp):
CAAAAATCAAAACAGAATCCAGGC
Found at i:613102 original size:13 final size:13
Alignment explanation
Indices: 613084--613108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
613074 AACGATACAA
613084 ATATTTTTAAAAC
1 ATATTTTTAAAAC
613097 ATATTTTTAAAA
1 ATATTTTTAAAA
613109 TTCAGAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTTTAAAAC
Found at i:613318 original size:24 final size:24
Alignment explanation
Indices: 613291--613354 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
613281 TATATCAAAA
613291 ATCAAAACATAATTCAGG-CTAGGT
1 ATCAAAACATAATTCAGGTC-AGGT
* *
613315 ATCAGAACAGAA-TCTAGGTCAGGT
1 ATCAAAACATAATTC-AGGTCAGGT
**
613339 ATCTTAACATAATTCA
1 ATCAAAACATAATTCA
613355 AATCAGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.06
24 27 0.84
25 3 0.09
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (24 bp):
ATCAAAACATAATTCAGGTCAGGT
Found at i:620185 original size:23 final size:23
Alignment explanation
Indices: 620159--620211 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
620149 TGCTCTTTAA
** *
620159 GCTCGTTACTTGTTAAGTTCGAT
1 GCTCGTTACTCATTAAGCTCGAT
*
620182 GCTCGTTGCTCATTAAGCTCGAT
1 GCTCGTTACTCATTAAGCTCGAT
620205 GCTCGTT
1 GCTCGTT
620212 GTTTGGCTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCGTTACTCATTAAGCTCGAT
Found at i:620236 original size:28 final size:28
Alignment explanation
Indices: 620205--620264 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
620195 TAAGCTCGAT
* *
620205 GCTCGTTGTTTGGCTCGTTTCTCGTTAA
1 GCTCGTTGCTTGGCTCGTTGCTCGTTAA
*
620233 GCTCGTTGCTTGTCTCGTTGCTCGTTAA
1 GCTCGTTGCTTGGCTCGTTGCTCGTTAA
620261 GCTC
1 GCTC
620265 ACTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.07, C:0.25, G:0.25, T:0.43
Consensus pattern (28 bp):
GCTCGTTGCTTGGCTCGTTGCTCGTTAA
Found at i:629576 original size:14 final size:14
Alignment explanation
Indices: 629557--629595 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
629547 GTCAATGTCA
629557 ACGAGTTGACTTGG
1 ACGAGTTGACTTGG
629571 ACGAGTTGACTTGG
1 ACGAGTTGACTTGG
**
629585 GTGAGTTGACT
1 ACGAGTTGACT
629596 CGAACAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.31
Consensus pattern (14 bp):
ACGAGTTGACTTGG
Found at i:638056 original size:56 final size:54
Alignment explanation
Indices: 637976--638166 Score: 224
Period size: 56 Copynumber: 3.4 Consensus size: 54
637966 CCAAAATATA
* *
637976 AGGGCCCCAAAATCGAATATATCTATCAGTTGTTACCATTAATAAGCATAAAAAT
1 AGGGGCCCAAAATCG-ATATATCTATCAGTTGTTACCATTAAGAAGCATAAAAAT
*
638031 AGGGGTCCCAAAATCGAGTATATCTATCAGTTGTTGA-CATTAAGAAGTATAAAAAT
1 AGGGG-CCCAAAATCGA-TATATCTATCAGTTGTT-ACCATTAAGAAGCATAAAAAT
* * * *
638087 AGGGGCCCTAAAATCGA-ATATATATCAATTATTGCCATTAAGAAGCATAAAAAT
1 AGGGGCCC-AAAATCGATATATCTATCAGTTGTTACCATTAAGAAGCATAAAAAT
**
638141 AGGGGCCACGGAATCGAATATATCTA
1 AGGGGCC-CAAAATCG-ATATATCTA
638167 GAAAATAGGG
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
54 43 0.37
55 10 0.09
56 63 0.54
57 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (54 bp):
AGGGGCCCAAAATCGATATATCTATCAGTTGTTACCATTAAGAAGCATAAAAAT
Found at i:639227 original size:25 final size:25
Alignment explanation
Indices: 639199--639247 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
639189 TTTGGAATAT
* *
639199 GGTATGTGTATTACAAAGTCCAAAC
1 GGTAGGTGCATTACAAAGTCCAAAC
639224 GGTAGGTGCATTACAAAGTCCAAA
1 GGTAGGTGCATTACAAAGTCCAAA
639248 TGACATTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (25 bp):
GGTAGGTGCATTACAAAGTCCAAAC
Found at i:645990 original size:24 final size:24
Alignment explanation
Indices: 645872--645987 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
645862 TTCAATTTGA
645872 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
645896 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
645920 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
645944 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
645968 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
645988 CTGATTTATG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:646122 original size:35 final size:35
Alignment explanation
Indices: 646076--646169 Score: 161
Period size: 35 Copynumber: 2.7 Consensus size: 35
646066 ACCTGGAGGC
*
646076 TCCTCAGCTGTGTGCTCAGGGCCTTATTTACCGGT
1 TCCTCGGCTGTGTGCTCAGGGCCTTATTTACCGGT
*
646111 TCCTCGGCTGTGTGCTCAAGGCCTTATTTACCGGT
1 TCCTCGGCTGTGTGCTCAGGGCCTTATTTACCGGT
*
646146 TCCTCGGCTGTGTGCACAGGGCCT
1 TCCTCGGCTGTGTGCTCAGGGCCT
646170 ACTGGACTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.11, C:0.30, G:0.28, T:0.32
Consensus pattern (35 bp):
TCCTCGGCTGTGTGCTCAGGGCCTTATTTACCGGT
Found at i:650464 original size:59 final size:60
Alignment explanation
Indices: 650370--650483 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 60
650360 TGGTCTTATG
* *
650370 ACTATAAGATATTGCTTTGTTGAGTCCCTAAACTATTAAAAGTTACAAAATGGTCCCTCA
1 ACTATAAGATATTGCTTTGTTAAGTCCCTAAACTATTAAAAGTAACAAAATGGTCCCTCA
**
650430 ACTATAAGA-AGTTGC-TTGTTAAGTCCCTTGACTATTAAAAGTAACAAAATGGTC
1 ACTATAAGATA-TTGCTTTGTTAAGTCCCTAAACTATTAAAAGTAACAAAATGGTC
650484 ACCCGACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 36 0.73
60 13 0.27
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (60 bp):
ACTATAAGATATTGCTTTGTTAAGTCCCTAAACTATTAAAAGTAACAAAATGGTCCCTCA
Found at i:655443 original size:20 final size:20
Alignment explanation
Indices: 655420--655482 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
655410 GCGCAATGTA
655420 AAAATGCAGGATGCAAATGC
1 AAAATGCAGGATGCAAATGC
* * *
655440 AAAATGTAAGATGCAAATAC
1 AAAATGCAGGATGCAAATGC
*
655460 ACAATGCAGGATGCAAATG-
1 AAAATGCAGGATGCAAATGC
655479 AAAA
1 AAAA
655483 AGGCATTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.51, C:0.13, G:0.21, T:0.16
Consensus pattern (20 bp):
AAAATGCAGGATGCAAATGC
Found at i:661100 original size:48 final size:48
Alignment explanation
Indices: 661048--661140 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
661038 TGTATATGAT
*
661048 GGTTATCGATCGATTTTGTTTAATGCATAAGTTGCATTTTCGTATAAA
1 GGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTCGTATAAA
* *
661096 GGTTATCGATCGATTTTGTTTAATGCCTATGTTACATTTTCGTAT
1 GGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTCGTAT
661141 CAGTACTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (48 bp):
GGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTCGTATAAA
Found at i:662010 original size:24 final size:25
Alignment explanation
Indices: 661983--662029 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
661973 TGTTTATATT
661983 GCACCTATG-GTGCAAATATACGGG
1 GCACCTATGAGTGCAAATATACGGG
* * *
662007 GCACTTTTGAGTGCAAATCTACG
1 GCACCTATGAGTGCAAATATACG
662030 AGACAATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GCACCTATGAGTGCAAATATACGGG
Found at i:663185 original size:140 final size:140
Alignment explanation
Indices: 662933--663206 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
662923 TTTCATTATA
662933 AATTTGTGTAATTAAGTAATTTAATAATAAATGTTAAATTTGGAAGTTTTGAAAGAAGAAAAATT
1 AATTTGTGTAATTAAGTAATTTAATAATAAATGTTAAATTTGGAAGTTTTGAAAGAAGAAAAATT
*
662998 CTTACCAGTTTCAAGTAGGAAACGTTATACAAAAACAATGTGGCATCTTTAATTTGTATTTGGGT
66 CTTACCAGTTTCAAGTAGGAAACGTTATACAAAAACAATGTGGCATCTTTAACTTGTATTTGGGT
663063 TTGAATGTGG
131 TTGAATGTGG
663073 AATTTGTGTAATTAAGTAATTTAATAATAAATGTTAAATTTGGAAGTTTTGAAAGAAGAAAAATT
1 AATTTGTGTAATTAAGTAATTTAATAATAAATGTTAAATTTGGAAGTTTTGAAAGAAGAAAAATT
*
663138 CTTACCAGTTTCAAGTAGGAAACGTTATACAGAAACAATGTGGCATCTTTAACTTGTATTTGGGT
66 CTTACCAGTTTCAAGTAGGAAACGTTATACAAAAACAATGTGGCATCTTTAACTTGTATTTGGGT
663203 TTGA
131 TTGA
663207 CGGAGAGACA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 132 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (140 bp):
AATTTGTGTAATTAAGTAATTTAATAATAAATGTTAAATTTGGAAGTTTTGAAAGAAGAAAAATT
CTTACCAGTTTCAAGTAGGAAACGTTATACAAAAACAATGTGGCATCTTTAACTTGTATTTGGGT
TTGAATGTGG
Found at i:669109 original size:3 final size:3
Alignment explanation
Indices: 669094--669175 Score: 78
Period size: 3 Copynumber: 26.7 Consensus size: 3
669084 TAGAATCAAA
* * * *
669094 AAT AAT AAG AAT AAT ATAT AGT AAT AGT AAT AATT AAT ATT AAT AA-
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
669140 AAT AAT ATAT AA- AAT AAT AAAT AAT AAT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT -AAT AAT AAT AAT AAT AA
669176 ATCGTTAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
2 4 0.06
3 49 0.75
4 12 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:669162 original size:16 final size:17
Alignment explanation
Indices: 669095--669177 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 17
669085 AGAATCAAAA
*
669095 ATAATAAGAATAATATAT
1 ATAATAATAATAA-ATAT
* *
669113 AGTAATAGTAATAATTAAT
1 A-TAATAATAATAAAT-AT
669132 ATTAATAA-AAT-AATAT
1 A-TAATAATAATAAATAT
669148 ATAA-AATAATAAATA-
1 ATAATAATAATAAATAT
669163 ATAATAATAATAAAT
1 ATAATAATAATAAAT
669178 CGTTAGAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 2 0.04
15 10 0.19
16 17 0.31
17 2 0.04
18 5 0.09
19 18 0.33
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAAATAT
Found at i:669170 original size:13 final size:13
Alignment explanation
Indices: 669097--669172 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
669087 AATCAAAAAT
*
669097 AATAAGAATAATA
1 AATAATAATAATA
* * *
669110 TATAGTAATAGT-
1 AATAATAATAATA
*
669122 AATAATTAAT-ATT
1 AATAA-TAATAATA
669135 AATAA-AATAATA
1 AATAATAATAATA
*
669147 TATAA-AATAATA
1 AATAATAATAATA
669159 AATAATAATAATA
1 AATAATAATAATA
669172 A
1 A
669173 TAAATCGTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
11 3 0.06
12 21 0.43
13 25 0.51
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:671151 original size:16 final size:17
Alignment explanation
Indices: 671130--671166 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
671120 CATCACTTAG
*
671130 TTTTC-TAATTTGATTT
1 TTTTCTTAAGTTGATTT
671146 TTTTCTTAAGTTGATTT
1 TTTTCTTAAGTTGATTT
671163 TTTT
1 TTTT
671167 TATTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.70
Consensus pattern (17 bp):
TTTTCTTAAGTTGATTT
Found at i:675463 original size:22 final size:21
Alignment explanation
Indices: 675434--675474 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
675424 TTACTATGAT
*
675434 AATTTGGAGGTAATTCCAAAC
1 AATTTGGAGGTAAGTCCAAAC
675455 AATTATGGAGGTAAGTCCAA
1 AATT-TGGAGGTAAGTCCAA
675475 GCTTCACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (21 bp):
AATTTGGAGGTAAGTCCAAAC
Found at i:680192 original size:258 final size:257
Alignment explanation
Indices: 679723--680260 Score: 606
Period size: 258 Copynumber: 2.1 Consensus size: 257
679713 TTTAATATTC
* * * * * * * * *
679723 TAAATGAGAAAATTTTAAATTCGCTTTCTCATTATCTCATAAATTATATGAAAACATCTTGCCCA
1 TAAATGAGAAACTTTGAAAATCGCTTACTAATT-TTTCACAATTTATATGAAAACATCCTGCCCA
* * * * * * *
679788 GAAGTCTTATGATGGCCTATATGACTTATCATCTTACTCGAAAGACTTACATAGGACCTAGAGGA
65 GAAGTCTTATGATGGCCCAGAGGACTTATCACCTTACTCAAAAGACTTACAGAGGACCGAGAGGA
* * *
679853 TATAATCATCAAGCTCAGAAGACTTACTGATGGCCCAGAAGACTTACTAATTTCGAAAATAGTTT
130 TATAATCATCAAGCTCAGAAGACTTACTAATGGCACAGAAGACTTACTAATTTCGAAAATAATTT
* ** * *
679918 ATTGGGTAATAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTCT-ATTTTC-AGAAAATCT
195 ACTAAGTAAGAAACTTTGGAAATCGCTTTCTTACTTTT-AAAAATTCTCATTTTCGA-AAAAGCT
*
679981 TAAATGAGACACTTTGAAAATCGCTTACTAATTTTTCACAATTTATATGAAAACATCCTGCCC-G
1 TAAATGAGAAACTTTGAAAATCGCTTACTAATTTTTCACAATTTATATGAAAACATCCTGCCCAG
* * *
680045 AAGGTCTTATAGATGGCCCAGAGGACTTATCACCTTGCTCAAAAGACTTATAGATGACCCGA-AG
66 AA-GTCTTAT-GATGGCCCAGAGGACTTATCACCTTACTCAAAAGACTTACAGAGGA-CCGAGAG
* * *
680109 GATTTAATCATCAAGCTC-GAGAGACTTACTAAT-G-ACATGAAGGA-TGTACTAATTTTGGAAA
128 GATATAATCATCAAGCTCAGA-AGACTTACTAATGGCACA-GAA-GACT-TACTAATTTCGAAAA
* * *
680170 TAATTTACTAAGTAAGAAACTTTGGAAATCTCTTTCTTACTTTTTAAAATTTTCATTTTCGAAAA
189 TAATTTACTAAGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAATTCTCATTTTCGAAAA
*
680235 AGGT
254 AGCT
*
680239 TAAATGATAAACTTTGAAAATC
1 TAAATGAGAAACTTTGAAAATC
680261 ACTTTCCCAT
Statistics
Matches: 234, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
256 5 0.02
257 47 0.20
258 178 0.76
259 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (257 bp):
TAAATGAGAAACTTTGAAAATCGCTTACTAATTTTTCACAATTTATATGAAAACATCCTGCCCAG
AAGTCTTATGATGGCCCAGAGGACTTATCACCTTACTCAAAAGACTTACAGAGGACCGAGAGGAT
ATAATCATCAAGCTCAGAAGACTTACTAATGGCACAGAAGACTTACTAATTTCGAAAATAATTTA
CTAAGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAATTCTCATTTTCGAAAAAGCT
Found at i:682014 original size:19 final size:18
Alignment explanation
Indices: 681990--682103 Score: 105
Period size: 19 Copynumber: 6.4 Consensus size: 18
681980 ATCTTAAACC
681990 CTCTTTTTTTCTTTTTCTT
1 CTCTTTTTTTCTTTTT-TT
682009 CTCTTTTTTTCTTTTTTT
1 CTCTTTTTTTCTTTTTTT
* *
682027 -TCTTTTCTTTCTTATTTG
1 CTCTTTT-TTTCTTTTTTT
682045 CTCATTTTTCTT-TTTTTTT
1 CTC-TTTTT-TTCTTTTTTT
*
682064 CTC-ATTTTTC--TTTTT
1 CTCTTTTTTTCTTTTTTT
* *
682079 CTCATTTTTT-TTTTTCT
1 CTCTTTTTTTCTTTTTTT
682096 CTCTTTTT
1 CTCTTTTT
682104 ATTTTTCTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
15 8 0.10
16 7 0.09
17 20 0.25
18 11 0.14
19 27 0.34
20 6 0.08
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (18 bp):
CTCTTTTTTTCTTTTTTT
Found at i:682026 original size:27 final size:26
Alignment explanation
Indices: 681991--682112 Score: 90
Period size: 27 Copynumber: 4.7 Consensus size: 26
681981 TCTTAAACCC
681991 TCTTTTTTTCTTTTTCTTCTCTTTTTT
1 TCTTTTTTTCTTTTTCTT-TCTTTTTT
*
682018 TCTTTTTTT-TCTTTTCTTTCTTATTT
1 TCTTTTTTTCT-TTTTCTTTCTTTTTT
* * * *
682044 GCTCATTTTTCTTTTTTTTTCTCATTTT
1 TCT-TTTTTTCTTTTTCTTTCT-TTTTT
* * *
682072 TCTTTTTCTC-ATTT-TTT-TTTTTC
1 TCTTTTTTTCTTTTTCTTTCTTTTTT
* *
682095 TCTCTTTTTATTTTTCTT
1 TCTTTTTTTCTTTTTCTT
682113 CAAGTGTAGT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
23 10 0.14
24 4 0.05
25 5 0.07
26 13 0.18
27 35 0.48
28 6 0.08
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (26 bp):
TCTTTTTTTCTTTTTCTTTCTTTTTT
Found at i:682079 original size:15 final size:14
Alignment explanation
Indices: 682055--682111 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 14
682045 CTCATTTTTC
682055 TTTTTTTTTCTCAT
1 TTTTTTTTTCTCAT
682069 TTTTCTTTTTCTCATT
1 TTTT-TTTTTCTCA-T
*
682085 TTTTTTTTTCTCTCT
1 TTTTTTTTTCTC-AT
682100 TTTTATTTTTCT
1 TTTT-TTTTTCT
682112 TCAAGTGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 4 0.11
15 22 0.58
16 12 0.32
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTCTCAT
Found at i:683910 original size:26 final size:27
Alignment explanation
Indices: 683859--683913 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
683849 AATAAAATAG
683859 TAAAAATGTAAAAAAATGTACAGAATGA
1 TAAAAATGT-AAAAAATGTACAGAATGA
*
683887 TAAAAATGT-AAATATGTACAGAATGA
1 TAAAAATGTAAAAAATGTACAGAATGA
683913 T
1 T
683914 TGTTACTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.65
28 9 0.35
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAAAATGTAAAAAATGTACAGAATGA
Found at i:694185 original size:102 final size:102
Alignment explanation
Indices: 694011--694560 Score: 528
Period size: 102 Copynumber: 5.5 Consensus size: 102
694001 TCTGAAAGTT
* * * * * *
694011 GACTTAACTTGCAATGGAGGAGTCATACACAATCTAACTTAACTCAGAACGAGGAGCTAATTTTC
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACGAGGAGCTAATTTTC
* * *
694076 ACTTGACTAAACCTATAGAGGAGAGTCATCCAAATTT
66 ACTTGACTTAACCCATAGAGGAGAGTCATCCAAATTC
* * ** * * *
694113 GACTTAACTAGCAATGGAGGATTTGTCCACAATTTAGCTTAACTTACAACGATGAGCTAAATTTC
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACGAGGAGCTAATTTTC
* *
694178 ACTTGACTTAACCCGTAG-GAATGAGTCATCCAAATTC
66 ACTTGACTTAACCCATAGAGGA-GAGTCATCCAAATTC
* * * * * * * *
694215 AACGTAACTCGTAATGGAGGAGGAGTCCATAATTTAGCTTAAATCGCAA-GAAGGAGCTAATTTT
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACG-AGGAGCTAATTTT
*
694279 CACTT-A---ACCCACATA-AGG-GAGTCATCCAAATTC
65 CACTTGACTTAACC-CATAGAGGAGAGTCATCCAAATTC
* * * *
694312 AACTTAACTTGCAATGGAGGAGTAATCCA-AATTTAGCTTAACTCACAATGATGAGCTAATTTTC
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACGAGGAGCTAATTTTC
* * * *
694376 ACTTGTA-TTAACCCATAGAGGGGAGTTATCGAAATTT
66 ACTTG-ACTTAACCCATAGAGGAGAGTCATCCAAATTC
* ** ** *
694413 GAATTAACTCGCAATGGAGGAGTCTTCCACAATTTAGCTTAACTTGCAACGAGAAGCTAATTTTC
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACGAGGAGCTAATTTTC
*** *
694478 ACTTGACTTAACTTGTAGAGGGGAGTCATCCAAATTC
66 ACTTGACTTAACCCATAGAGGAGAGTCATCCAAATTC
* * * * *
694515 GACTTAACTCACAAGGGATGAGTCATCCACAACTT-GACTTAACTCA
1 GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAG-CTTAACTCA
694561 TAAAGGAAGA
Statistics
Matches: 366, Mismatches: 68, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
96 34 0.09
97 40 0.11
98 4 0.01
99 8 0.02
100 6 0.02
101 42 0.11
102 232 0.63
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (102 bp):
GACTTAACTCGCAATGGAGGAGTAATCCACAATTTAGCTTAACTCACAACGAGGAGCTAATTTTC
ACTTGACTTAACCCATAGAGGAGAGTCATCCAAATTC
Found at i:694361 original size:34 final size:34
Alignment explanation
Indices: 694296--694361 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
694286 CCCACATAAG
* **
694296 GGAGTCATCCAAATTCAACTTAACTTGCAATGGA
1 GGAGTAATCCAAATTCAACTTAACTCACAATGGA
* *
694330 GGAGTAATCCAAATTTAGCTTAACTCACAATG
1 GGAGTAATCCAAATTCAACTTAACTCACAATG
694362 ATGAGCTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (34 bp):
GGAGTAATCCAAATTCAACTTAACTCACAATGGA
Found at i:694380 original size:198 final size:204
Alignment explanation
Indices: 694015--694560 Score: 535
Period size: 198 Copynumber: 2.7 Consensus size: 204
694005 AAAGTTGACT
* * * * * *
694015 TAACTTGCAATGGAGGAGTCA-TACACAATCTAACTTAACTCAG-AACGAGGAGCTAATTTTCAC
1 TAACTCGCAATGGAGGAG-GAGTCCACAATTTAGCTTAAATC-GCAACGAGGAGCTAATTTTCAC
* ** * **
694078 TTGACTAAACCTATAGAGGAGAGTCATCCAAATTTGACTTAACTAGCAATGGAGGATTTGTCCAC
64 TTAACTAAACCTATAGAGGAGAGTCATCCAAATTCAACTTAACTAGCAATGGAGGAGTAATCCAC
* * *
694143 AATTTAGCTTAACTTACAACGATGAGCTAAATTTCACTTG-ACTTAACCCGTAG-GAATGAGTCA
129 AATTTAGCTTAACTCACAACGATGAGCTAAATTTCACTTGTA-TTAACCCATAGAG-AGGAGTCA
694206 TCCAAA-TTCAACG
192 TCCAAATTTCAA-G
* *
694219 TAACTCGTAATGGAGGAGGAGTCCATAATTTAGCTTAAATCGCAA-GAAGGAGCTAATTTTCACT
1 TAACTCGCAATGGAGGAGGAGTCCACAATTTAGCTTAAATCGCAACG-AGGAGCTAATTTTCACT
** *
694283 TAAC-CCA-C-ATA-AGG-GAGTCATCCAAATTCAACTTAACTTGCAATGGAGGAGTAATCCA-A
65 TAACTAAACCTATAGAGGAGAGTCATCCAAATTCAACTTAACTAGCAATGGAGGAGTAATCCACA
* * * * *
694342 ATTTAGCTTAACTCACAATGATGAGCTAATTTTCACTTGTATTAACCCATAGAGGGGAGTTATCG
130 ATTTAGCTTAACTCACAACGATGAGCTAAATTTCACTTGTATTAACCCATAGAGAGGAGTCATCC
* *
694407 AAATTTGAAT
195 AAATTTCAAG
*** * * *
694417 TAACTCGCAATGGAGGAGTCTTCCACAATTTAGCTTAACTTGCAACGAGAAGCTAATTTTCACTT
1 TAACTCGCAATGGAGGAGGAGTCCACAATTTAGCTTAAATCGCAACGAGGAGCTAATTTTCACTT
* * * * * * * * *
694482 GACTTAACTTGTAGAGGGGAGTCATCCAAATTCGACTTAACTCA-CAAGGGATGAGTCATCCACA
66 AACTAAACCTATAGAGGAGAGTCATCCAAATTCAACTTAACT-AGCAATGGAGGAGTAATCCACA
*
694546 ACTT-GACTTAACTCA
130 ATTTAG-CTTAACTCA
694561 TAAAGGAAGA
Statistics
Matches: 281, Mismatches: 46, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
198 114 0.41
199 46 0.16
200 3 0.01
201 5 0.02
202 4 0.01
203 43 0.15
204 66 0.23
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (204 bp):
TAACTCGCAATGGAGGAGGAGTCCACAATTTAGCTTAAATCGCAACGAGGAGCTAATTTTCACTT
AACTAAACCTATAGAGGAGAGTCATCCAAATTCAACTTAACTAGCAATGGAGGAGTAATCCACAA
TTTAGCTTAACTCACAACGATGAGCTAAATTTCACTTGTATTAACCCATAGAGAGGAGTCATCCA
AATTTCAAG
Found at i:694583 original size:35 final size:35
Alignment explanation
Indices: 694515--694584 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
694505 ATCCAAATTC
* * *
694515 GACTTAACTCACAAGGGATGAGTCATCCACAACTT
1 GACTTAACTCACAAAGGAAGAGTCAACCACAACTT
* * *
694550 GACTTAACTCATAAAGGAAGAGTTAACCTCAACTT
1 GACTTAACTCACAAAGGAAGAGTCAACCACAACTT
694585 CATTTCCTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (35 bp):
GACTTAACTCACAAAGGAAGAGTCAACCACAACTT
Found at i:695366 original size:45 final size:45
Alignment explanation
Indices: 695296--695587 Score: 273
Period size: 45 Copynumber: 6.5 Consensus size: 45
695286 GTAATCTCCA
* * * *
695296 TTTCTGTTTATAATACA-CCATTATGCACTTTAAACTATAACAT-CT
1 TTTCTGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACT
* *
695341 TATCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* ** * * *
695386 TTTCTGTTGATAATGTACCCCCATACATTTCAACCATAGTATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * ** * * *
695431 TTTCTGTTGATAATGTAACCATACACATTTCAACTCTAGAATGCT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* *
695476 CTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* * * * * * **
695521 TTTCTGTTGATAATGTATCCATATACATTTAAACTAAAGTATGTT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
* *
695566 TTTATGTTGATAATGTACCCAT
1 TTTCTGTTGATAATGCACCCAT
695588 TTCAACCACA
Statistics
Matches: 206, Mismatches: 39, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
44 12 0.06
45 191 0.93
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACT
Found at i:695488 original size:135 final size:135
Alignment explanation
Indices: 695343--695587 Score: 382
Period size: 135 Copynumber: 1.8 Consensus size: 135
695333 TAACATCTTA
* *
695343 TCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACCCCC
1 TCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCAC
* * *
695408 ATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTAACCATACACATTTCAACTCTAGAAT
66 ATACATTTAAACCAAAGTATACTTTTATGTTGATAATGTAACCATACACATTTCAACTCTAGAAT
695473 GCTCT
131 GCTCT
* * *
695478 TCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTATCCAT
1 TCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCAC
* ** *
695543 ATACATTTAAACTAAAGTATGTTTTTATGTTGATAATGTACCCAT
66 ATACATTTAAACCAAAGTATACTTTTATGTTGATAATGTAACCAT
695588 TTCAACCACA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 98 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (135 bp):
TCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCCAC
ATACATTTAAACCAAAGTATACTTTTATGTTGATAATGTAACCATACACATTTCAACTCTAGAAT
GCTCT
Found at i:695587 original size:90 final size:90
Alignment explanation
Indices: 695296--695587 Score: 313
Period size: 90 Copynumber: 3.2 Consensus size: 90
695286 GTAATCTCCA
* * * * * *
695296 TTTCTGTTTATAA--TACACCATTATGCACTTTAAACTATAACAT-CTTATCTGTTGATAATGCA
1 TTTCTGTTGATAATGTAC-CCA-TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGTA
* * *
695358 CCCATATGCATTTCAACTATAGTATACT
63 ACCATATACATTTCAACTATAGTATGCT
** * *
695386 TTTCTGTTGATAATGTACCCCCATACATTTCAAC-CATAGTATACTTTTCTGTTGATAATGTAAC
1 TTTCTGTTGATAATGTACCCATATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGTAAC
* * *
695450 CATACACATTTCAACTCTAGAATGCT
65 CATATACATTTCAACTATAGTATGCT
* * *
695476 CTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTATCC
1 TTTCTGTTGATAATGTACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTAACC
* * *
695541 ATATACATTTAAACTAAAGTATGTT
66 ATATACATTTCAACTATAGTATGCT
*
695566 TTTATGTTGATAATGTACCCAT
1 TTTCTGTTGATAATGTACCCAT
695588 TTCAACCACA
Statistics
Matches: 165, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
89 10 0.06
90 149 0.90
91 3 0.02
92 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (90 bp):
TTTCTGTTGATAATGTACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTAACC
ATATACATTTCAACTATAGTATGCT
Found at i:696205 original size:93 final size:94
Alignment explanation
Indices: 696074--696244 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 94
696064 TTATGGAATT
*
696074 GATACCCCCTTCCAGTATCAATACCAAAATTAGCTTCGATGTAGT-CTAGTATCGATACCCTCAC
1 GATACCCCCTTCCAGTATCAATACCAAAATTAGATTCGATGT-GTCCTAGTATCGATACCCTCAC
*
696138 CATGGTATCGATACCCTATGCTATGGTACC
65 CATGGTAGCGATACCCTATGCTATGGTACC
* * * * *
696168 GATACCCCCTT-CGGTATCGATACCAAAATTAGATTCGATGTTTCCTGGTATCGATACCCTTACC
1 GATACCCCCTTCCAGTATCAATACCAAAATTAGATTCGATGTGTCCTAGTATCGATACCCTCACC
*
696232 ATGTTAGCGATAC
66 ATGGTAGCGATAC
696245 TACATCGCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 1 0.01
93 56 0.82
94 11 0.16
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (94 bp):
GATACCCCCTTCCAGTATCAATACCAAAATTAGATTCGATGTGTCCTAGTATCGATACCCTCACC
ATGGTAGCGATACCCTATGCTATGGTACC
Found at i:703425 original size:24 final size:25
Alignment explanation
Indices: 703389--703437 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
703379 TAATAAACCA
703389 ATATAAAGTAATT-AAACCAAATAT
1 ATATAAAGTAATTCAAACCAAATAT
703413 ATATATAAG-AATTCAAACCAAATAT
1 ATATA-AAGTAATTCAAACCAAATAT
703438 CAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (25 bp):
ATATAAAGTAATTCAAACCAAATAT
Found at i:704914 original size:14 final size:14
Alignment explanation
Indices: 704883--704926 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
704873 TCCTAATGGG
704883 CAAT-TTTG-AAAA
1 CAATGTTTGAAAAA
*
704895 CTATGTTTGAAAAA
1 CAATGTTTGAAAAA
*
704909 CAATGTTTGAAAAT
1 CAATGTTTGAAAAA
704923 CAAT
1 CAAT
704927 ATGGAGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 3 0.11
13 4 0.15
14 20 0.74
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (14 bp):
CAATGTTTGAAAAA
Found at i:706513 original size:3 final size:3
Alignment explanation
Indices: 706505--706534 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
706495 ATATTTGATT
706505 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
706535 AGTGATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:706755 original size:18 final size:18
Alignment explanation
Indices: 706732--706784 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
706722 AATTCTAAAT
706732 ATTTACAGTTATCAGATG
1 ATTTACAGTTATCAGATG
706750 ATTTACAGTTAT-ATGATG
1 ATTTACAGTTATCA-GATG
706768 ATTTACAGTTATCAGAT
1 ATTTACAGTTATCAGAT
706785 AATTACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
ATTTACAGTTATCAGATG
Found at i:706808 original size:35 final size:36
Alignment explanation
Indices: 706732--706816 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
706722 AATTCTAAAT
* **
706732 ATTTACAGTTATCAGATGATTTACAGTTATATGATG
1 ATTTACAGTTATCAGATGAATTACAAATATATGATG
706768 ATTTACAGTTATCAGAT-AATTACAAATATAAT-AT-
1 ATTTACAGTTATCAGATGAATTACAAATAT-ATGATG
706802 ATTTTACAGTTATCA
1 A-TTTACAGTTATCA
706817 TATACAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
34 1 0.02
35 24 0.55
36 19 0.43
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (36 bp):
ATTTACAGTTATCAGATGAATTACAAATATATGATG
Found at i:706819 original size:18 final size:17
Alignment explanation
Indices: 706730--706820 Score: 85
Period size: 18 Copynumber: 5.2 Consensus size: 17
706720 CGAATTCTAA
*
706730 ATATTTACAGTTATCAG
1 ATATTTACAGTTATCAT
706747 ATGATTTACAGTTAT-AT
1 AT-ATTTACAGTTATCAT
*
706764 GATGATTTACAGTTATCAG
1 -AT-ATTTACAGTTATCAT
* ** *
706783 ATAATTACAAATATAAT
1 ATATTTACAGTTATCAT
706800 ATATTTTACAGTTATCAT
1 ATA-TTTACAGTTATCAT
706818 ATA
1 ATA
706821 CAAATTAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
17 16 0.27
18 42 0.71
19 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (17 bp):
ATATTTACAGTTATCAT
Found at i:710394 original size:134 final size:134
Alignment explanation
Indices: 710175--710464 Score: 420
Period size: 134 Copynumber: 2.2 Consensus size: 134
710165 TGAAAATTTG
* * *
710175 TTCCACTACTATTTCTTGGAGATCGAACTTTTGATCTAACATTGCTTCAATACTATTTTGTGAAG
1 TTCCACTACTCTTTCGTGGAGATCGAACTTTTGATCTAACACTGCTTCAATACTATTTTGTGAAG
* *
710240 GCTTGAATTGACTTGAGAAGAATCTGTTTCACTACTCTTCTGTGAAGATCATATTCAAGGTTAAT
66 GCTTGAATTGACTTGAGAAGAATCTGTTTCACTACTCTTCCGTGAAGATCAGATTCAAGGTTAAT
710305 TTAC
131 TTAC
* * * * * *
710309 TTCCACTACTCTTCCGTGGAGATCGAACTTTTGGTTTATTC-CTGCTTCACTACTCTTTTGTGAA
1 TTCCACTACTCTTTCGTGGAGATCGAACTTTTGATCTA-ACACTGCTTCAATACTATTTTGTGAA
* * * *
710373 GGCTTGAATTGACTTGAGAAGAATTTGTTTCACTACTCTTCCGTGAAGATCAGATTCGATGTTGA
65 GGCTTGAATTGACTTGAGAAGAATCTGTTTCACTACTCTTCCGTGAAGATCAGATTCAAGGTTAA
710438 TTTAC
130 TTTAC
*
710443 TTCCACTACTCTTTTGTGGAGA
1 TTCCACTACTCTTTCGTGGAGA
710465 CCAAGTCTTC
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
134 137 0.99
135 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (134 bp):
TTCCACTACTCTTTCGTGGAGATCGAACTTTTGATCTAACACTGCTTCAATACTATTTTGTGAAG
GCTTGAATTGACTTGAGAAGAATCTGTTTCACTACTCTTCCGTGAAGATCAGATTCAAGGTTAAT
TTAC
Found at i:721941 original size:2 final size:2
Alignment explanation
Indices: 721934--721959 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
721924 TTACCTTAAG
721934 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
721960 GACAGTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:723115 original size:3 final size:3
Alignment explanation
Indices: 723109--723145 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
723099 TGTAATAATT
723109 TAA TAA TAA TAA TATA TAA -AA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
723146 CTTATAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:725645 original size:7 final size:8
Alignment explanation
Indices: 725618--725651 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
725608 AGGGTATTTA
725618 AAAAGGAG
1 AAAAGGAG
725626 AAAAGGAG
1 AAAAGGAG
725634 AAAAGG-G
1 AAAAGGAG
725641 AAAAGGGAG
1 AAAA-GGAG
725650 AA
1 AA
725652 CAAGCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.21
8 16 0.67
9 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
AAAAGGAG
Found at i:726846 original size:46 final size:46
Alignment explanation
Indices: 726775--727090 Score: 409
Period size: 46 Copynumber: 6.9 Consensus size: 46
726765 AAATGAATGA
*
726775 ATAAATGAAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
** * *
726821 ATAAATGAAAATGCATAACATTGCATTATTGGCATGAAGGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
726867 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
** **
726913 ATAAATGAAAATGCATAACATTTTATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
726959 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAA-GATTCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * **
727004 ATAAATGAAAATACGTAATGGTGCATAATCGAAATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * ** * *
727050 ACAAATGAAAATGCATAGCGGTATATTAACGGCATGTAAGG
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGG
727091 TGTCACTCAT
Statistics
Matches: 228, Mismatches: 41, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 38 0.17
46 190 0.83
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:730413 original size:3 final size:3
Alignment explanation
Indices: 730405--730437 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
730395 TATTTTGATT
730405 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
730438 AGTGATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:730661 original size:18 final size:18
Alignment explanation
Indices: 730634--730686 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
730624 AATTCTAAAT
730634 ATTTACAGTTATCAGATG
1 ATTTACAGTTATCAGATG
**
730652 ATTTTTAGTTATCAGATG
1 ATTTACAGTTATCAGATG
730670 ATTTACAGTTATCAGAT
1 ATTTACAGTTATCAGAT
730687 AATTACAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (18 bp):
ATTTACAGTTATCAGATG
Found at i:737714 original size:18 final size:17
Alignment explanation
Indices: 737683--737755 Score: 74
Period size: 18 Copynumber: 4.2 Consensus size: 17
737673 TGAATTCTAA
* *
737683 ATATTTATAGTTATCAG
1 ATATTTACAATTATCAG
737700 ATGATTTACAATTATCAG
1 AT-ATTTACAATTATCAG
* * *
737718 ATAATTACAAATATCAT
1 ATATTTACAATTATCAG
*
737735 ATATTTTACAGTTATCAG
1 ATA-TTTACAATTATCAG
737753 ATA
1 ATA
737756 CAAATTAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 17 0.38
18 28 0.62
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (17 bp):
ATATTTACAATTATCAG
Found at i:738066 original size:19 final size:20
Alignment explanation
Indices: 738026--738066 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
738016 TATACATTGG
*
738026 GTTATAACAATAAATGTGAAA
1 GTTATAACAAT-AATATGAAA
738047 GTTATAACAAT-ATATGAAA
1 GTTATAACAATAATATGAAA
738066 G
1 G
738067 AAAATAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
GTTATAACAATAATATGAAA
Found at i:739533 original size:18 final size:18
Alignment explanation
Indices: 739510--739550 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
739500 CTTCACCCTC
*
739510 TGTAAGAAGTCTATTGGG
1 TGTAAGAAGTCTATTAGG
739528 TGTAAGAAGTCTATTAGG
1 TGTAAGAAGTCTATTAGG
739546 TGTAA
1 TGTAA
739551 ATGGGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (18 bp):
TGTAAGAAGTCTATTAGG
Found at i:752277 original size:14 final size:16
Alignment explanation
Indices: 752260--752293 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
752250 TTAAAAACCT
752260 AACAAAGAAA-AT-CA
1 AACAAAGAAATATACA
752274 AACAAAGAAATATACA
1 AACAAAGAAATATACA
752290 AACA
1 AACA
752294 GATCTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 2 0.11
16 6 0.33
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.09
Consensus pattern (16 bp):
AACAAAGAAATATACA
Found at i:754692 original size:13 final size:13
Alignment explanation
Indices: 754692--754766 Score: 69
Period size: 13 Copynumber: 5.3 Consensus size: 13
754682 CCGTTGACCC
754692 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
754705 TACCCGACCCATT
1 GACCCGACCCGTT
754718 GACCGACCCGACCCGTT
1 ----GACCCGACCCGTT
754735 GACCCGACCCGTT
1 GACCCGACCCGTT
*
754748 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
754763 GACC
1 GACC
754767 GTTGACCGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
13 28 0.55
15 12 0.24
17 11 0.22
ACGTcount: A:0.17, C:0.44, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:754693 original size:18 final size:18
Alignment explanation
Indices: 754670--754745 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
754660 ACCGGTCACA
754670 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
754688 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
754706 ACCCGACCC-A----TTG
1 ACCCGACCCGACCCGTTG
754719 A-CCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
754736 ACCCGACCCG
1 ACCCGACCCG
754746 TTGACCGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
12 7 0.14
13 4 0.08
17 5 0.10
18 34 0.68
ACGTcount: A:0.18, C:0.50, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:754726 original size:30 final size:30
Alignment explanation
Indices: 754674--754752 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
754664 GTCACAACCC
754674 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGA-CCGACCCGACCCGTT
* *
754705 TACCCGACCCATTGACCGACCCGACCCGTT
1 GACCCGACCCGTTGACCGACCCGACCCGTT
754735 GACCCGACCCGTTGACCG
1 GACCCGACCCGTTGACCG
754753 TTGACCCGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 31 0.70
31 13 0.30
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.14
Consensus pattern (30 bp):
GACCCGACCCGTTGACCGACCCGACCCGTT
Found at i:754738 original size:8 final size:8
Alignment explanation
Indices: 754727--754773 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
754717 TGACCGACCC
754727 GACCCGTT
1 GACCCGTT
754735 GACCC---
1 GACCCGTT
754740 GACCCGTT
1 GACCCGTT
754748 GA-CCGTT
1 GACCCGTT
754755 GACCCGTT
1 GACCCGTT
754763 GA-CCGTT
1 GACCCGTT
754770 GACC
1 GACC
754774 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:754755 original size:7 final size:7
Alignment explanation
Indices: 754743--754774 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
754733 TTGACCCGAC
754743 CCGTTGA
1 CCGTTGA
754750 CCGTTGA
1 CCGTTGA
754757 CCCGTTGA
1 -CCGTTGA
754765 CCGTTGA
1 CCGTTGA
754772 CCG
1 CCG
754775 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:754760 original size:15 final size:15
Alignment explanation
Indices: 754727--754773 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
754717 TGACCGACCC
*
754727 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
754740 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
754755 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
754770 GACC
1 GACC
754774 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:757337 original size:24 final size:24
Alignment explanation
Indices: 757236--757344 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
757226 GAATATTTTA
* * *
757236 TCTGATTTTTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
757260 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
757284 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
757308 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
757332 TTTGATTTCTGAT
1 TCTGATATCTGAT
757345 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:759498 original size:13 final size:13
Alignment explanation
Indices: 759498--759573 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 13
759488 CCGTTGACCC
759498 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
759511 TACCCGACCCATT
1 GACCCGACCCGTT
759524 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
759542 GACCCGACCCGTT
1 GACCCGACCCGTT
*
759555 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
759570 GACC
1 GACC
759574 GTTGACCGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
13 27 0.53
15 12 0.24
18 12 0.24
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:759499 original size:18 final size:18
Alignment explanation
Indices: 759476--759552 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
759466 ACCGGTCACA
759476 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
759494 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
759512 ACCCGACCC-A----TTG
1 ACCCGACCCGACCCGTTG
759525 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
759543 ACCCGACCCG
1 ACCCGACCCG
759553 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.21
14 1 0.02
17 1 0.02
18 39 0.75
ACGTcount: A:0.18, C:0.51, G:0.19, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:759519 original size:31 final size:31
Alignment explanation
Indices: 759480--759558 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
759470 GTCACAACCC
759480 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
759511 TACCCGACCCATTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
759542 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
759559 GTTGACCCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.48, G:0.20, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:759545 original size:8 final size:8
Alignment explanation
Indices: 759534--759580 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
759524 GACCCGACCC
759534 GACCCGTT
1 GACCCGTT
759542 GACCC---
1 GACCCGTT
759547 GACCCGTT
1 GACCCGTT
759555 GA-CCGTT
1 GACCCGTT
759562 GACCCGTT
1 GACCCGTT
759570 GA-CCGTT
1 GACCCGTT
759577 GACC
1 GACC
759581 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:759562 original size:7 final size:7
Alignment explanation
Indices: 759550--759581 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
759540 TTGACCCGAC
759550 CCGTTGA
1 CCGTTGA
759557 CCGTTGA
1 CCGTTGA
759564 CCCGTTGA
1 -CCGTTGA
759572 CCGTTGA
1 CCGTTGA
759579 CCG
1 CCG
759582 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:759567 original size:15 final size:15
Alignment explanation
Indices: 759534--759580 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
759524 GACCCGACCC
*
759534 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
759547 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
759562 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
759577 GACC
1 GACC
759581 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:762138 original size:24 final size:24
Alignment explanation
Indices: 762042--762150 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
762032 GAATATTTTA
* *
762042 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
762066 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
762090 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
762114 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
762138 TTTGATTTCTGAT
1 TCTGATATCTGAT
762151 ATCTCCGTTT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:770383 original size:22 final size:22
Alignment explanation
Indices: 770357--770439 Score: 64
Period size: 23 Copynumber: 3.8 Consensus size: 22
770347 TTGGTGCAGA
770357 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
770379 GGGAA-CTGATTTCCCCTTTGAAG
1 GGGAATC-GA-TACCCCCTTGAAG
* * *
770402 GGGAACCGATTCTCCC-T-ATAG
1 GGGAATCGATACCCCCTTGA-AG
*
770423 GGGAATCAATACCCCCT
1 GGGAATCGATACCCCCT
770440 GGGGGTTCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 12 0.25
23 18 0.38
24 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:770399 original size:23 final size:24
Alignment explanation
Indices: 770368--770417 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
770358 GGAATCGATA
*
770368 CCCCCTTGAAGGGGAACTGATT-T
1 CCCCCTTGAAGGGGAACCGATTCT
*
770391 CCCCTTTGAAGGGGAACCGATTCT
1 CCCCCTTGAAGGGGAACCGATTCT
770415 CCC
1 CCC
770418 TATAGGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (24 bp):
CCCCCTTGAAGGGGAACCGATTCT
Found at i:774249 original size:19 final size:19
Alignment explanation
Indices: 774227--774270 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
774217 AACTCGTTAT
*
774227 TTTTTATAAAAATAATATG
1 TTTTTATAAAAATAATACG
* *
774246 -TTTTATTAAAATCATACG
1 TTTTTATAAAAATAATACG
774264 TTTTTAT
1 TTTTTAT
774271 GTTGTCCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (19 bp):
TTTTTATAAAAATAATACG
Found at i:776381 original size:28 final size:28
Alignment explanation
Indices: 776331--776387 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
776321 ATTTAAGTCG
*
776331 AGTTATAAAATATAAATCGAATAATTCA
1 AGTTATAAAATATAAATCGAATAACTCA
**
776359 AGTTATAAAATA-AAACTTTAATAACTCA
1 AGTTATAAAATATAAA-TCGAATAACTCA
776387 A
1 A
776388 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (28 bp):
AGTTATAAAATATAAATCGAATAACTCA
Found at i:778152 original size:56 final size:55
Alignment explanation
Indices: 778066--778175 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 55
778056 CTAGCATTCG
778066 TGATACTCGAACCCAGGATAATAAAGAATAACAAAAAAAATTTACCACCGAAATCA
1 TGATACTCGAACCCAGGATAATAAAGAATAAC-AAAAAAATTTACCACCGAAATCA
*
778122 TGATACTCGAACCCAGGATAATAAAGAATAACAAAAAAATTTACCACTGAAATC
1 TGATACTCGAACCCAGGATAATAAAGAATAACAAAAAAATTTACCACCGAAATC
778176 GTTTGATTCG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 21 0.40
56 32 0.60
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (55 bp):
TGATACTCGAACCCAGGATAATAAAGAATAACAAAAAAATTTACCACCGAAATCA
Found at i:778518 original size:23 final size:23
Alignment explanation
Indices: 778488--778571 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
778478 AATGATTCAA
* *
778488 TGCTGACTGATTCAGTAAAATAG
1 TGCTGAATGATTCAGTAAAACAG
* *
778511 TGCTGACTGATTCAGTAAAACAA
1 TGCTGAATGATTCAGTAAAACAG
* *
778534 TGTTGAATGATTCAGCAAAACAG
1 TGCTGAATGATTCAGTAAAACAG
778557 TGCTGAATGATTCAG
1 TGCTGAATGATTCAG
778572 CACAGAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (23 bp):
TGCTGAATGATTCAGTAAAACAG
Found at i:778597 original size:27 final size:27
Alignment explanation
Indices: 778560--778646 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
778550 AAAACAGTGC
* *
778560 TGAATGATTCAGCACAGAAATACATTC
1 TGAATGATTCAGCACAGAAATAAATTA
*
778587 TGAATGATTCAG--CAGAAGTAAATTA
1 TGAATGATTCAGCACAGAAATAAATTA
* *
778612 TGAATGATTCAACACAGAATTAAATTA
1 TGAATGATTCAGCACAGAAATAAATTA
778639 TGAATGAT
1 TGAATGAT
778647 ACAGAGTCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
25 21 0.40
27 32 0.60
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (27 bp):
TGAATGATTCAGCACAGAAATAAATTA
Found at i:784756 original size:20 final size:21
Alignment explanation
Indices: 784731--784782 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
784721 TTTTCCCAAT
*
784731 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
784751 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
784772 TCGCAATGCGA
1 TCGCAATGCGA
784783 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:784796 original size:20 final size:20
Alignment explanation
Indices: 784771--784885 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
784761 AATTGGGAAA
*
784771 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
784791 ATCGCAATGCGATAC-GTACT
1 ATCGCAACGCGATACTG-ACT
* * *
784811 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
784832 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
784852 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
784872 TTCGCAACGCGATA
1 ATCGCAACGCGATA
784886 ATACATAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.04
20 62 0.77
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:784815 original size:61 final size:61
Alignment explanation
Indices: 784768--784899 Score: 167
Period size: 61 Copynumber: 2.2 Consensus size: 61
784758 GCGAATTGGG
* * *
784768 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACGTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACGTACTATCGCAACGCGATAATAC
* * * *
784829 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTC-TGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACGT-ACTATCGCAACGCGATAATAC
* *
784890 ATAATTGCAA
1 AAAATCGCAA
784900 TGCGATTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 60 0.98
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAATGCGATACGTACTATCGCAACGCGATAATAC
Found at i:785101 original size:22 final size:22
Alignment explanation
Indices: 785073--785116 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
785063 CACTCTCTCA
785073 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
785095 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
785117 TATCTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:785389 original size:20 final size:20
Alignment explanation
Indices: 785360--785403 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
785350 ACGATTTTAG
785360 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
785380 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
785400 TTTC
1 TTTC
785404 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:785594 original size:25 final size:24
Alignment explanation
Indices: 785540--785594 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
785530 TGTTTATTAT
* *
785540 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
785564 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
785590 TGTTT
1 TGTTT
785595 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:786746 original size:18 final size:18
Alignment explanation
Indices: 786725--786769 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
786715 TTCACTTCGG
*
786725 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
786743 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
786761 GAGCCATCA
1 GAGCCATCA
786770 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:787305 original size:19 final size:20
Alignment explanation
Indices: 787251--787317 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
787241 TAGTTTACTT
* *
787251 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
787271 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
787291 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
787310 TCGCAACG
1 TCGCAACG
787318 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:787325 original size:14 final size:14
Alignment explanation
Indices: 787306--787363 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
787296 ATGCGAAATG
787306 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
787320 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
787336 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
787352 AAAATCGCAACG
1 AAAATCGCAACG
787364 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:787348 original size:32 final size:33
Alignment explanation
Indices: 787290--787380 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
787280 GGAAATGGCT
787290 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
787323 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
787355 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
787381 TGCAATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:787416 original size:14 final size:14
Alignment explanation
Indices: 787397--787468 Score: 99
Period size: 14 Copynumber: 4.9 Consensus size: 14
787387 TTGTGTTTCG
787397 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
787411 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
787427 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
787443 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
787457 CGTTGCGATTTT
1 CGTTGCGATTTT
787469 CATTTCGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 35 0.67
16 8 0.15
18 9 0.17
ACGTcount: A:0.10, C:0.17, G:0.25, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:787435 original size:32 final size:32
Alignment explanation
Indices: 787392--787453 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
787382 GCAATTTGTG
*
787392 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
787424 TTTCGCATTGCGATTTTGTCGTTGCGATTT
1 TTTCGCATTGCGATTTTGTCGTTGCGATTT
787454 TGTCGTTGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (32 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
Found at i:787503 original size:20 final size:20
Alignment explanation
Indices: 787469--787524 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
787459 TTGCGATTTT
*
787469 CATTT-CGCATTGCGATAAC
1 CATTTCCGCGTTGCGATAAC
* **
787488 CATTTCCGTGTTGCGATAGT
1 CATTTCCGCGTTGCGATAAC
*
787508 CATTTTCGCGTTGCGAT
1 CATTTCCGCGTTGCGAT
787525 TTTAAGTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAAC
Found at i:787621 original size:27 final size:26
Alignment explanation
Indices: 787557--787623 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
787547 TAAACTATTC
*
787557 TTCTTCTGGAATGTTTATATATGTTG
1 TTCTTCTGGAATGTTTATATAAGTTG
**
787583 TTCTT-TTAAATGTTTATATAAG-TG
1 TTCTTCTGGAATGTTTATATAAGTTG
787607 CTTACTTCTGGAATGTT
1 -TT-CTTCTGGAATGTT
787624 ATCTGAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.48
26 8 0.24
27 7 0.21
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.52
Consensus pattern (26 bp):
TTCTTCTGGAATGTTTATATAAGTTG
Found at i:787987 original size:41 final size:41
Alignment explanation
Indices: 787891--787978 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
787881 GACTCACCTG
* * *
787891 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
787933 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
787974 TCATC
1 TCATC
787979 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:789412 original size:14 final size:14
Alignment explanation
Indices: 789393--789428 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
789383 ATTGTTTAAT
789393 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
789407 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
789421 TGATTTGT
1 TGATTTGT
789429 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:789589 original size:19 final size:19
Alignment explanation
Indices: 789565--789632 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
789555 ATCGCAACTA
789565 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
789584 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
789603 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
789617 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
789633 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:789683 original size:40 final size:40
Alignment explanation
Indices: 789633--789714 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
789623 CGCAATGCGA
*
789633 TTTTCATTTCGCATTGCAATAGCCATTTTCGCGTTGCAAT
1 TTTTCATTTCGAATTGCAATAGCCATTTTCGCGTTGCAAT
* *
789673 TTTTCATTTCGAATTGCGATAGCCATTTTCGCGTTGCGAT
1 TTTTCATTTCGAATTGCAATAGCCATTTTCGCGTTGCAAT
789713 TT
1 TT
789715 CGCGTTGCCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (40 bp):
TTTTCATTTCGAATTGCAATAGCCATTTTCGCGTTGCAAT
Found at i:789712 original size:20 final size:20
Alignment explanation
Indices: 789639--789709 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
789629 GCGATTTTCA
789639 TTTCGCATTGCAATAGCCAT
1 TTTCGCATTGCAATAGCCAT
* ***
789659 TTTCGCGTTGCAATTTTTCA-
1 TTTCGCATTGCAA-TAGCCAT
* *
789679 TTTCGAATTGCGATAGCCAT
1 TTTCGCATTGCAATAGCCAT
*
789699 TTTCGCGTTGC
1 TTTCGCATTGC
789710 GATTTCGCGT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
19 3 0.08
20 31 0.84
21 3 0.08
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (20 bp):
TTTCGCATTGCAATAGCCAT
Found at i:789956 original size:20 final size:20
Alignment explanation
Indices: 789931--789980 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
789921 TTGAAGATGA
789931 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
789951 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
789971 TTGCGATTTT
1 TTGCGATTTT
789981 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:790858 original size:24 final size:24
Alignment explanation
Indices: 790831--790884 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
790821 GTATTCGAAA
*
790831 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
790855 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
790879 TTTGAT
1 TTTGAT
790885 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:791075 original size:12 final size:12
Alignment explanation
Indices: 791058--791082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
791048 ATATAATCCT
791058 GAAGAAGAAAAA
1 GAAGAAGAAAAA
791070 GAAGAAGAAAAA
1 GAAGAAGAAAAA
791082 G
1 G
791083 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:793396 original size:19 final size:19
Alignment explanation
Indices: 793374--793504 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
793364 GGAAATTACT
793374 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
793393 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
793407 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
793426 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
793440 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
793459 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
793473 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
793492 ATCGCAACGCGAA
1 ATCGCAATGCGAA
793505 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:793416 original size:33 final size:33
Alignment explanation
Indices: 793374--793500 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
793364 GGAAATTACT
793374 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
793407 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
793439 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
793473 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
793501 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:793481 original size:66 final size:66
Alignment explanation
Indices: 793375--793507 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
793365 GAAATTACTA
*
793375 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
793440 T
66 T
*
793441 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
793506 T
66 T
793507 T
1 T
793508 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:793532 original size:14 final size:14
Alignment explanation
Indices: 793515--793571 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
793505 TTTAATTTCG
793515 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
793529 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
793548 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
793562 CGTTACGATT
1 CGTTGCGATT
793572 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:793551 original size:33 final size:33
Alignment explanation
Indices: 793500--793589 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
793490 AAATCGCAAC
* *
793500 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
793533 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
* *
793566 ACGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
793590 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:793553 original size:19 final size:19
Alignment explanation
Indices: 793529--793589 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
793519 GCGATTCTCT
793529 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
793548 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
793562 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
793581 CATTGCGAT
1 CGTTGCGAT
793590 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:793715 original size:14 final size:14
Alignment explanation
Indices: 793696--793732 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
793686 CATCAATTAA
793696 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
793710 ACAAATCACCTTTT
1 ACAAATCAACTTTT
793724 ACAAATCAA
1 ACAAATCAA
793733 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:795147 original size:42 final size:41
Alignment explanation
Indices: 795088--795293 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
795078 GTGAATCGGG
*
795088 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * * *
795130 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
795172 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAATGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * * *
795214 CTCTTGAAGGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
795256 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAATGGTGGGAG-GGACTCTTCAAGGATGACAG
795294 GCGAGTCAGG
Statistics
Matches: 125, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
41 9 0.07
42 105 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Done.