Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001574.1 Hibiscus syriacus cultivar Beakdansim tig00003126_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: 1705968
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 7
Found at i:728850 original size:2 final size:2
Alignment explanation
Indices: 728843--728880 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
728833 TAGTAAAATA
728843 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
728881 TATTTATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:729124 original size:22 final size:22
Alignment explanation
Indices: 729099--729153 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
729089 TAATACAATA
*
729099 AATAAAATAAATACATTTATAC
1 AATAAAATAAATACATATATAC
* * * *
729121 AATAATATATATATATATATAT
1 AATAAAATAAATACATATATAC
729143 AATAAAATAAA
1 AATAAAATAAA
729154 ACAATCAAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAAATAAATACATATATAC
Found at i:730751 original size:14 final size:14
Alignment explanation
Indices: 730732--730761 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
730722 GTCTATAATC
*
730732 AACAAGCCAAAAAA
1 AACAAGACAAAAAA
730746 AACAAGACAAAAAA
1 AACAAGACAAAAAA
730760 AA
1 AA
730762 GGATGAGCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.17, G:0.07, T:0.00
Consensus pattern (14 bp):
AACAAGACAAAAAA
Found at i:737688 original size:15 final size:15
Alignment explanation
Indices: 737657--737711 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
737647 TATTTGATTG
737657 ATTT-AATTTTTGTT
1 ATTTAAATTTTTGTT
*
737671 ATTT-AATTTTTTTCT
1 ATTTAAATTTTTGT-T
737686 ATTTAAATTTTTGTT
1 ATTTAAATTTTTGTT
*
737701 ATTTCAATTTT
1 ATTTAAATTTT
737712 GCCTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.33
15 16 0.44
16 8 0.22
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (15 bp):
ATTTAAATTTTTGTT
Found at i:738806 original size:139 final size:138
Alignment explanation
Indices: 738047--738779 Score: 972
Period size: 139 Copynumber: 5.3 Consensus size: 138
738037 TAAAAAAATG
* * *
738047 TTAATTATTCGAAT-ATTCAATGATTGATTAAAATTGACTAGGTTAATAATTAAAGCCTCCATTT
1 TTAATTATTCGAATCA---AATAATTGGTTAAAATTGACTAGGTTAACAATTAAAGCCTCCATTT
* * * * *
738111 TAGGTTTAATTTCAAACTTACTCTTTAAATTTAGAGGAA-TTTTAATTTGGT-TCTCGCTTTTGG
63 TAGGCTTAATTTCAAACTTAGTCCTTAAATTTAG-GGAATTTTTAATTTGGTCT-TCACTTTTGC
* *
738174 TGGAGGTTCTATT
126 TCGAGGTTCCATT
* *
738187 TTAATTATTCGAATCAAATAATTGGTTAAAATTGATTAGGTTAACAATTAGAGCCTCCATTTTAG
1 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAACAATTAAAGCCTCCATTTTAG
* *
738252 GCTTAATTTCATACTTAGTCCTTAAATTTAAGGG-ATTTTTCAATTTGGTCTTCAATTTTGCTCG
66 GCTTAATTTCAAACTTAGTCCTTAAATTT-AGGGAATTTTT-AATTTGGTCTTCACTTTTGCTCG
**
738316 AAATTCCATT
129 AGGTTCCATT
* * * *
738326 TTAATTATTCGAATCAAAGAATTGGTTAAAATTGACTAGGTTAACAATTAAAACCTCTACTTTAG
1 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAACAATTAAAGCCTCCATTTTAG
* * * *
738391 GCTTAATTTTAAACTTAGTCCTTAAATTTATGGGAATTTTTAGTTTGGTCGTCGCTTTTGCTCGA
66 GCTTAATTTCAAACTTAGTCCTTAAATTTA-GGGAATTTTTAATTTGGTCTTCACTTTTGCTCGA
738456 GGTTCCATT
130 GGTTCCATT
* *
738465 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGTTTAACAATTAGAGCCTCCATTTTAG
1 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAACAATTAAAGCCTCCATTTTAG
* ** *
738530 ACTTAATTTCAAACTTAGTCCTTAAATTTAGGGGAATTTTTAATTTTATCTTCATTTTTGCTCGA
66 GCTTAATTTCAAACTTAGTCCTTAAATTTA-GGGAATTTTTAATTTGGTCTTCACTTTTGCTCGA
738595 GGTTCCATT
130 GGTTCCATT
* * *
738604 TTAATTATTTGATTCACATAATTGGTTAAAATTGA-TCAGGTTAACAATTAAAGCCTCCATTTTA
1 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACT-AGGTTAACAATTAAAGCCTCCATTTTA
* * * * *
738668 GGCTTAATTTCAAACTCAGTCCTTAAAGTTAGGGAAATTTTTAATTTGGTCTTCATTTTTTCTTG
65 GGCTTAATTTCAAACTTAGTCCTTAAATTTAGGG-AATTTTTAATTTGGTCTTCACTTTTGCTCG
738733 AGGTTCCATT
129 AGGTTCCATT
* *
738743 TTAATTATTCAAATCAAATAATTGATTAAAATTGACT
1 TTAATTATTCGAATCAAATAATTGGTTAAAATTGACT
738780 TGGATTAATA
Statistics
Matches: 521, Mismatches: 62, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
137 1 0.00
138 80 0.15
139 417 0.80
140 22 0.04
141 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (138 bp):
TTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAACAATTAAAGCCTCCATTTTAG
GCTTAATTTCAAACTTAGTCCTTAAATTTAGGGAATTTTTAATTTGGTCTTCACTTTTGCTCGAG
GTTCCATT
Found at i:744500 original size:19 final size:19
Alignment explanation
Indices: 744476--744523 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
744466 ACCGGGTTTG
*
744476 TTTGACCCGACCCGTTGAC
1 TTTGACCCGACCCATTGAC
*
744495 TTTGACCCTACCCATTGAC
1 TTTGACCCGACCCATTGAC
*
744514 TTTAACCCGA
1 TTTGACCCGA
744524 GTTGACCGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (19 bp):
TTTGACCCGACCCATTGAC
Found at i:750901 original size:16 final size:16
Alignment explanation
Indices: 750880--750910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
750870 TAAGCCAGCT
*
750880 GCTGGTGCAAGATTTA
1 GCTGGTCCAAGATTTA
750896 GCTGGTCCAAGATTT
1 GCTGGTCCAAGATTT
750911 GCCTATCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (16 bp):
GCTGGTCCAAGATTTA
Found at i:751991 original size:20 final size:21
Alignment explanation
Indices: 751953--751991 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
751943 TTAATTAAAT
* *
751953 AAATATACATATTTTATATAA
1 AAATATACAAATTTAATATAA
751974 AAATATA-AAATTTAATAT
1 AAATATACAAATTTAATAT
751992 GAATATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATACAAATTTAATATAA
Found at i:753570 original size:17 final size:17
Alignment explanation
Indices: 753532--753584 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
753522 TTCTGATTTC
*
753532 TTTTTCTTT-TTTACCTT
1 TTTTTCTTTATTTA-ATT
753549 ATTTTTCTTTATTTAATT
1 -TTTTTCTTTATTTAATT
753567 TTTTTC-TTACTTTAATT
1 TTTTTCTTTA-TTTAATT
753584 T
1 T
753585 ACTTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 3 0.09
17 14 0.44
18 11 0.34
19 4 0.12
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTTTATTTAATT
Found at i:757913 original size:50 final size:47
Alignment explanation
Indices: 757797--757924 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 47
757787 TCGAATAAAT
* *
757797 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTTTTGAACAA
1 GCATGCGAAGTAGATATCATGCGGTTAGGATTTATTTTTTGGAACAA
* *
757843 GCATGCGAATTAGATATCATGCGGTTAGGATTTCTTTTTGTGGATAACAAA
1 GCATGCGAAGTAGATATCATGCGGTTAGGATTTATTTTT-TGG--AAC-AA
** *
757894 GCATG-GGGGTAGATATCATGTTGGTTAGGAT
1 GCATGCGAAGTAGATATCATG-CGGTTAGGAT
757925 CTGATAAAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
46 28 0.41
47 8 0.12
48 2 0.03
50 15 0.22
51 16 0.23
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (47 bp):
GCATGCGAAGTAGATATCATGCGGTTAGGATTTATTTTTTGGAACAA
Found at i:767564 original size:41 final size:39
Alignment explanation
Indices: 767513--767632 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 39
767503 TAAAAGAGAA
* *
767513 AAAATAAAAAAATGAGAAAAAAGAAAAATGATGGAAAAAA-CG
1 AAAATGAAAAAA-GAGAAAAAAGAAAAAT-AT--AAAAAATAG
*
767555 AAAA-GAAAAAAAAAGAAAAAATGGAAAAAATATAAAAAATAG
1 AAAATG-AAAAAAGAGAAAAAA--G-AAAAATATAAAAAATAG
* *
767597 AAAATGAAAAAAGAGAAAAATGAAAAAAATAAAAAA
1 AAAATGAAAAAAGAGAAAAAAGAAAAATATAAAAAA
767633 ATAAAAGGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
39 13 0.20
40 1 0.02
41 14 0.21
42 28 0.42
43 4 0.06
44 6 0.09
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (39 bp):
AAAATGAAAAAAGAGAAAAAAGAAAAATATAAAAAATAG
Found at i:767626 original size:9 final size:9
Alignment explanation
Indices: 767511--767638 Score: 75
Period size: 8 Copynumber: 15.3 Consensus size: 9
767501 AATAAAAGAG
767511 AAAAAAT-A
1 AAAAAATGA
767519 AAAAAATGA
1 AAAAAATGA
767528 GAAAAAA-GA
1 -AAAAAATGA
* *
767537 AAAATGATGG
1 AAAA-AATGA
*
767547 AAAAAACGA
1 AAAAAATGA
*
767556 AAAGAA--A
1 AAAAAATGA
767563 AAAAAA-G-
1 AAAAAATGA
*
767570 AAAAAATGG
1 AAAAAATGA
767579 AAAAAAT-A
1 AAAAAATGA
767587 TAAAAAAT--
1 -AAAAAATGA
*
767595 AGAAAATG-
1 AAAAAATGA
767603 AAAAAA-GA
1 AAAAAATGA
*
767611 GAAAAATGA
1 AAAAAATGA
767620 AAAAAAT-A
1 AAAAAATGA
767628 AAAAAAT-A
1 AAAAAATGA
767636 AAA
1 AAA
767639 GGAGAGTTCA
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
7 19 0.20
8 34 0.35
9 33 0.34
10 11 0.11
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.09
Consensus pattern (9 bp):
AAAAAATGA
Found at i:768862 original size:37 final size:37
Alignment explanation
Indices: 768812--768921 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
768802 GAAACAAGTT
* *
768812 AAACTTAAGCCTTCACGAAAGAGTTGTGAAGCAATTC
1 AAACTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATC
* *
768849 AAACTTAAGCCTTCACGGAAGAGTGGTGAAGCAAATC
1 AAACTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATC
* * *
768886 -ATCTATAAGCCTTCAGGAAAGAATAGTGAAGCAAAT
1 AAACT-TAAGCCTTCACGAAAGAGTAGTGAAGCAAAT
768922 ACGTTTGATG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 3 0.05
37 61 0.95
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (37 bp):
AAACTTAAGCCTTCACGAAAGAGTAGTGAAGCAAATC
Found at i:769487 original size:55 final size:55
Alignment explanation
Indices: 768923--769467 Score: 848
Period size: 55 Copynumber: 9.9 Consensus size: 55
768913 GAAGCAAATA
* * *
768923 CGTTTGATGAAGATTGTTCGAGTTCTATACT-TCCTGAATGAATAGGGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCT-CTGAAGGAATAGAGAGCGGACC
* *
768978 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGTGTACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
769033 TGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
769088 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCCGAAGGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
769143 CATTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
769198 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAAGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
769253 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
769308 TGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
* * * ** *
769363 CGTTTGT-TGAAGATTATTTGAG-TCTTATACTCTCTGAATGAATAGAGAGCATACA
1 CGTTT-TATGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACC
* *
769418 CATTTTATGAAGATTGTTCGAG-TCTTATACT-TCCTGAAGGAATATAGAGC
1 CGTTTTATGAAGATTGTTCGAGTTC-TATACTCT-CTGAAGGAATAGAGAGC
769468 AGGCTCCTCA
Statistics
Matches: 457, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
54 4 0.01
55 451 0.99
56 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (55 bp):
CGTTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
Found at i:773995 original size:18 final size:20
Alignment explanation
Indices: 773969--774006 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
773959 AATAAAATTT
773969 CCGGTTTTTTTC-GATTTTC
1 CCGGTTTTTTTCTGATTTTC
773988 CCGG-TTTTTTCTGATTTTC
1 CCGGTTTTTTTCTGATTTTC
774007 AGCCGGTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.05, C:0.21, G:0.16, T:0.58
Consensus pattern (20 bp):
CCGGTTTTTTTCTGATTTTC
Found at i:812386 original size:57 final size:57
Alignment explanation
Indices: 812264--812392 Score: 133
Period size: 57 Copynumber: 2.2 Consensus size: 57
812254 TATTAAATGG
*
812264 TAATAAACAAAATTAACCAAAATACATTAATAAAAAGTCCAACAATATTAACAAAATAAA
1 TAATAAA-AAAATTAACCAAAATACATTAAAAAAAAGT-C-ACAATATTAACAAAATAAA
**
812324 T--TAAAAAAATTAACCAAAATACATTAACGAAATAAAGT-A-AATATTAA-ATGATAAA
1 TAATAAAAAAATTAACCAAAATACATTAA--AAA-AAAGTCACAATATTAACAAAATAAA
*
812379 TAATAAAATAATTA
1 TAATAAAAAAATTA
812393 CAATAAAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
55 7 0.12
56 8 0.13
57 33 0.55
58 4 0.07
59 2 0.03
60 6 0.10
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (57 bp):
TAATAAAAAAATTAACCAAAATACATTAAAAAAAAGTCACAATATTAACAAAATAAA
Found at i:824249 original size:13 final size:13
Alignment explanation
Indices: 824222--824259 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
824212 TGTAGGAGTG
824222 TTTTTCTTTTC-TC
1 TTTTT-TTTTCTTC
824235 TTTTTTTTTCTTC
1 TTTTTTTTTCTTC
824248 TTTTTTTTTCTT
1 TTTTTTTTTCTT
824260 TTTGTTGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:826756 original size:26 final size:26
Alignment explanation
Indices: 826727--826776 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
826717 GAATGAAAAA
826727 GAAAAGAAAA-AATAACATAAAATCGT
1 GAAAAGAAAATAATAACA-AAAATCGT
* *
826753 GAAATGAAAATAATACCAAAAATC
1 GAAAAGAAAATAATAACAAAAATC
826777 CAAGAAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.16
Consensus pattern (26 bp):
GAAAAGAAAATAATAACAAAAATCGT
Found at i:827050 original size:24 final size:24
Alignment explanation
Indices: 827014--827064 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
827004 CATGGGTGAG
* *
827014 GCTGAACTGCTGGCAACTGCTGGA
1 GCTGAACTACTGGCAACTACTGGA
*
827038 GCTGGACTACTGGCAACTACTGGA
1 GCTGAACTACTGGCAACTACTGGA
827062 GCT
1 GCT
827065 AAAATGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (24 bp):
GCTGAACTACTGGCAACTACTGGA
Found at i:828436 original size:2 final size:2
Alignment explanation
Indices: 828429--828462 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
828419 ACTAGAGTTA
828429 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
828463 TTGATACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:828524 original size:21 final size:22
Alignment explanation
Indices: 828498--828538 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
828488 CGAATATTTA
828498 ATTTAAATAAATT-AAATAAAG
1 ATTTAAATAAATTGAAATAAAG
* *
828519 ATTTAATTAATTTGAAATAA
1 ATTTAAATAAATTGAAATAA
828539 TAAAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTAAATAAATTGAAATAAAG
Found at i:839267 original size:21 final size:21
Alignment explanation
Indices: 839241--839280 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
839231 ATAAGATTTT
839241 TTTTGAAA-ATATAATAAAATA
1 TTTTGAAATA-ATAATAAAATA
*
839262 TTTTGATATAATAATAAAA
1 TTTTGAAATAATAATAAAA
839281 CATTCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTGAAATAATAATAAAATA
Found at i:840416 original size:21 final size:21
Alignment explanation
Indices: 840390--840445 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
840380 GGAGCGTGGG
840390 GGGTATCGATACCTATCCATA
1 GGGTATCGATACCTATCCATA
840411 GGGTATCGATACCTATCCATA
1 GGGTATCGATACCTATCCATA
*
840432 GGGTATCGGTACCT
1 GGGTATCGATACCT
840446 GCAGTGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACCTATCCATA
Found at i:842738 original size:13 final size:13
Alignment explanation
Indices: 842720--842766 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
842710 ATGGGCAAAT
842720 TTTGAAAACTATG
1 TTTGAAAACTATG
842733 TTTGAAAACTATG
1 TTTGAAAACTATG
*
842746 TTTGAAAACAATG
1 TTTGAAAACTATG
842759 TTTGAAAA
1 TTTGAAAA
842767 TCAATGTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (13 bp):
TTTGAAAACTATG
Found at i:842773 original size:14 final size:13
Alignment explanation
Indices: 842720--842773 Score: 81
Period size: 13 Copynumber: 4.1 Consensus size: 13
842710 ATGGGCAAAT
*
842720 TTTGAAAACTATG
1 TTTGAAAACAATG
*
842733 TTTGAAAACTATG
1 TTTGAAAACAATG
842746 TTTGAAAACAATG
1 TTTGAAAACAATG
842759 TTTGAAAATCAATG
1 TTTGAAAA-CAATG
842773 T
1 T
842774 GTAGTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
13 33 0.85
14 6 0.15
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:843274 original size:23 final size:22
Alignment explanation
Indices: 843221--843292 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
843211 AATCCGTGGA
*
843221 GGGTATTGGTACCC--TCATGG
1 GGGTATTGGTACCCATTCAAGG
*
843241 GGGTATCGGTACCCATTCAAGG
1 GGGTATTGGTACCCATTCAAGG
* *
843263 ATGGTATTGGTACCCATGCAAAGG
1 -GGGTATTGGTACCCATTC-AAGG
843287 GGGTAT
1 GGGTAT
843293 CGATACCTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
20 13 0.31
22 5 0.12
23 20 0.48
24 4 0.10
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (22 bp):
GGGTATTGGTACCCATTCAAGG
Found at i:849003 original size:66 final size:66
Alignment explanation
Indices: 848919--849079 Score: 268
Period size: 66 Copynumber: 2.4 Consensus size: 66
848909 GAATACCATG
848919 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAAACAAAATCGATCGATAATTTTCAT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAAACAAAATCGATCGATAATTTTCAT
848984 T
66 T
* * * *
848985 ATTGGCACCTTTTATGCCGATAATGCACCGTTATGTATTAATCAAAATCGATTGATAATTTTCAT
1 AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAAACAAAATCGATCGATAATTTTCAT
849050 T
66 T
* *
849051 AGTGGCACCTTCTATGGCGATAATGCACC
1 AGTGGCACCTTTTATGCCGATAATGCACC
849080 TAGGACTCTC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 88 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (66 bp):
AGTGGCACCTTTTATGCCGATAATGCACCGTTATGCATTAAACAAAATCGATCGATAATTTTCAT
T
Found at i:854456 original size:17 final size:18
Alignment explanation
Indices: 854419--854460 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
854409 ATTGAAAGAA
*
854419 TTAAAAATTAACACACAT
1 TTAATAATTAACACACAT
*
854437 TTAATAATTAA-ACTCAT
1 TTAATAATTAACACACAT
854454 TTAATAA
1 TTAATAA
854461 AATAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATAATTAACACACAT
Found at i:855764 original size:29 final size:29
Alignment explanation
Indices: 855702--855770 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
855692 AATATGCAAT
*
855702 CTATATGATATGCTAACTATTTAAAATGAG
1 CTATATGATATGCTAACTATTT-AAATGAA
*
855732 CTATATGATATGC-AATTATTT-AATGGAAA
1 CTATATGATATGCTAACTATTTAAAT-G-AA
855761 CTATATGATA
1 CTATATGATA
855771 CACTATATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 18 0.51
30 13 0.37
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (29 bp):
CTATATGATATGCTAACTATTTAAATGAA
Found at i:860338 original size:15 final size:15
Alignment explanation
Indices: 860314--860392 Score: 77
Period size: 15 Copynumber: 5.3 Consensus size: 15
860304 TTAGTATATC
860314 AATATGTTATATGTG
1 AATATGTTATATGTG
* *
860329 AATGTGTTATACGTG
1 AATATGTTATATGTG
* * *
860344 AAAATGTTCTATATG
1 AATATGTTATATGTG
* *
860359 AAAATGTTATAGGTG
1 AATATGTTATATGTG
* *
860374 AATGTGTTTTATGTG
1 AATATGTTATATGTG
860389 AATA
1 AATA
860393 AATGATACTT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (15 bp):
AATATGTTATATGTG
Found at i:867795 original size:30 final size:30
Alignment explanation
Indices: 867759--867829 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
867749 CTTTTAGATG
867759 TATGAGCTCTTGGATATCCAAACCTCTCAT
1 TATGAGCTCTTGGATATCCAAACCTCTCAT
*
867789 TATGAGCTCTTGGATATCCAAACCTCTTAT
1 TATGAGCTCTTGGATATCCAAACCTCTCAT
*
867819 TCTGAGCTCTT
1 TATGAGCTCTT
867830 TCTAGAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (30 bp):
TATGAGCTCTTGGATATCCAAACCTCTCAT
Found at i:882101 original size:15 final size:15
Alignment explanation
Indices: 882081--882150 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 15
882071 ATTTTATTAG
*
882081 TATGTGAATATGTTA
1 TATGTGAATATGTTC
*
882096 TATGTGAATGTGTTC
1 TATGTGAATATGTTC
** *
882111 TACATGAAAATGTTC
1 TATGTGAATATGTTC
* * *
882126 TAGGTGAATGTGTTT
1 TATGTGAATATGTTC
882141 TATGTGAATA
1 TATGTGAATA
882151 ATGATACTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:885199 original size:66 final size:65
Alignment explanation
Indices: 885107--885479 Score: 335
Period size: 66 Copynumber: 5.6 Consensus size: 65
885097 TCAGTCTCCC
* *
885107 TTGAGATAGTTTCTCTAT-AAACAAATTTGATCTCACTTGAGACAGTTTCTCTTTAAACATAAAC
1 TTGAGATTGTTTCTCT-TGAAACAAATTTG-TCTCACTTGAGACAGTTTCTCTTGAAACATAAAC
885171 CT
64 CT
* *
885173 TTGAGATTGTTTCTCTTGAAATAAATTTTGTCTCGA-TTGAGATAGTTTCTCTTGAAACATAAAC
1 TTGAGATTGTTTCTCTTGAAACAAA-TTTGTCTC-ACTTGAGACAGTTTCTCTTGAAACATAAAC
885237 CT
64 CT
* * * * * * * *
885239 TTGCGATTGTTTCTCTTGAAATGAATTTTGTATCGC-T-AGATTATTTTCTCTTGAAACATAGAC
1 TTGAGATTGTTTCTCTTGAAA-CAAATTTGTCTCACTTGAGA-CAGTTTCTCTTGAAACATAAAC
885302 CT
64 CT
* * * * *
885304 TTGAGATTGTTTCTCTCGAAATAAAATTCCGTCTCGCTTGAGACAGTTTCTCTTGAAAATATAAA
1 TTGAGATTGTTTCTCTTGAAA-CAAATT-TGTCTCACTTGAGACAGTTTCTCTTG-AAACATAAA
885369 CCT
63 CCT
* * * * * **
885372 TTGAGACTGCTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAGCCCAAA-
1 TTGAGATTGTTTCTCTTGAAACAAA-TTT-GTCTCACTTGAGACAGTTTCTCTTGAAACATAAAC
*
885436 TT
64 CT
* * *
885438 TTGA-AGTTGTTTTTCTTAAAACAAAATTGATCTCACTTGAGA
1 TTGAGA-TTGTTTCTCTTGAAACAAATTTG-TCTCACTTGAGA
885480 TTATTTTCCT
Statistics
Matches: 256, Mismatches: 37, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
64 4 0.02
65 62 0.24
66 105 0.41
67 26 0.10
68 59 0.23
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (65 bp):
TTGAGATTGTTTCTCTTGAAACAAATTTGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCT
Found at i:885246 original size:36 final size:36
Alignment explanation
Indices: 885143--885247 Score: 84
Period size: 36 Copynumber: 3.1 Consensus size: 36
885133 TTGATCTCAC
* *
885143 TTGAGACAGTTTCTCTTTAAACATAAACC--T----
1 TTGAGATAGTTTCTCTTGAAACATAAACCTTTGCGA
* *
885173 TTGAGATTGTTTCTCTTG-AA-ATAAA-TTTTGTCTCGA
1 TTGAGATAGTTTCTCTTGAAACATAAACCTTTG---CGA
885209 TTGAGATAGTTTCTCTTGAAACATAAACCTTTGCGA
1 TTGAGATAGTTTCTCTTGAAACATAAACCTTTGCGA
885245 TTG
1 TTG
885248 TTTCTCTTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
28 5 0.09
29 3 0.05
30 15 0.26
36 23 0.40
37 2 0.04
38 5 0.09
39 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (36 bp):
TTGAGATAGTTTCTCTTGAAACATAAACCTTTGCGA
Found at i:885317 original size:30 final size:30
Alignment explanation
Indices: 885151--885324 Score: 89
Period size: 30 Copynumber: 5.4 Consensus size: 30
885141 ACTTGAGACA
* *
885151 GTTTCTCTTTAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAGACCTTTGAGATT
* * * * *
885181 GTTTCTCTTGAAATAAATTTTGTCTCGATTGAGATA
1 GTTTCTCTTG-AA-ACA--TAGAC-C-TTTGAGATT
* *
885217 GTTTCTCTTGAAACATAAACCTTTGCGATT
1 GTTTCTCTTGAAACATAGACCTTTGAGATT
* * * **
885247 GTTTCTCTTGAAATGAATTTTGTATCGCT-AGATT
1 GTTTCTCTTGAAA--CA--TAG-ACCTTTGAGATT
*
885281 ATTTTCTCTTGAAACATAGACCTTTGAGATT
1 -GTTTCTCTTGAAACATAGACCTTTGAGATT
*
885312 GTTTCTCTCGAAA
1 GTTTCTCTTGAAA
885325 TAAAATTCCG
Statistics
Matches: 102, Mismatches: 29, Indels: 26
0.65 0.18 0.17
Matches are distributed among these distances:
30 42 0.41
31 10 0.10
32 5 0.05
33 1 0.01
34 9 0.09
35 18 0.18
36 17 0.17
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (30 bp):
GTTTCTCTTGAAACATAGACCTTTGAGATT
Found at i:885354 original size:37 final size:36
Alignment explanation
Indices: 885312--885424 Score: 96
Period size: 37 Copynumber: 3.2 Consensus size: 36
885302 CTTTGAGATT
885312 GTTTCTCTCGAAATAAAATTCCGTCTCGCTTGAGACA
1 GTTTCTCTCGAAATAAAATT-CGTCTCGCTTGAGACA
* *
885349 GTTTCTCTTGAAAATATAAA--C--CT---TTGAGACT
1 GTTTCTCTCG-AAATA-AAATTCGTCTCGCTTGAGACA
* * *
885380 GCTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACA
1 GTTTCTCTCGAAATAAA-ATTCGTCTCGCTTGAGACA
885417 GTTTCTCT
1 GTTTCTCT
885425 TGAAGCCCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 15 0.26
32 1 0.02
34 4 0.07
36 1 0.02
37 23 0.40
38 5 0.09
39 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (36 bp):
GTTTCTCTCGAAATAAAATTCGTCTCGCTTGAGACA
Found at i:885386 original size:68 final size:66
Alignment explanation
Indices: 885107--885428 Score: 371
Period size: 66 Copynumber: 4.8 Consensus size: 66
885097 TCAGTCTCCC
* ** * * *
885107 TTGAGATAGTTTCTCTATAAACAAATTT-GATCTCACTTGAGACAGTTTCTCTTTAAACATAAAC
1 TTGAGATTGTTTCTCTCGAAATAAATTTCG-TCTCGCTTGAGACAGTTTCTCTTGAAACATAAAC
885171 CT
65 CT
* * * *
885173 TTGAGATTGTTTCTCTTGAAATAAATTTTGTCTCGATTGAGATAGTTTCTCTTGAAACATAAACC
1 TTGAGATTGTTTCTCTCGAAATAAATTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACC
885238 T
66 T
* * * * * * * *
885239 TTGCGATTGTTTCTCTTGAAATGAATTTTGTATCGC-T-AGATTATTTTCTCTTGAAACATAGAC
1 TTGAGATTGTTTCTCTCGAAATAAATTTCGTCTCGCTTGAGA-CAGTTTCTCTTGAAACATAAAC
885302 CT
65 CT
* *
885304 TTGAGATTGTTTCTCTCGAAATAAAATTCCGTCTCGCTTGAGACAGTTTCTCTTGAAAATATAAA
1 TTGAGATTGTTTCTCTCGAAAT-AAATTTCGTCTCGCTTGAGACAGTTTCTCTTG-AAACATAAA
885369 CCT
64 CCT
* * *
885372 TTGAGACTGCTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAA
1 TTGAGATTGTTTCTCTCGAAATAAA-TTTCGTCTCGCTTGAGACAGTTTCTCTTGAA
885429 GCCCAAATTT
Statistics
Matches: 221, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
64 3 0.01
65 43 0.19
66 98 0.44
67 17 0.08
68 60 0.27
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (66 bp):
TTGAGATTGTTTCTCTCGAAATAAATTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACC
T
Found at i:885513 original size:36 final size:36
Alignment explanation
Indices: 885455--885524 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
885445 TGTTTTTCTT
*
885455 AAAACAAAATTGATCTCACTTGAGATTATTTTCCTA
1 AAAACAAAATTGATCTCACTTGAGATAATTTTCCTA
* *
885491 AAAACAAATTTTGA-CTCGCTTGAGATAATTTTCC
1 AAAACAAA-ATTGATCTCACTTGAGATAATTTTCC
885525 CTTGAAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (36 bp):
AAAACAAAATTGATCTCACTTGAGATAATTTTCCTA
Found at i:886745 original size:20 final size:20
Alignment explanation
Indices: 886696--886748 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
886686 TGTTTCAATC
886696 GGTATCGATACCAAGAAGGGA
1 GGTATCGATACC-AGAAGGGA
886717 -GTA-CTGATACC-GAAGGGAA
1 GGTATC-GATACCAGAAGGG-A
886736 GGTATCGATACCA
1 GGTATCGATACCA
886749 TTTCAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 18 0.67
21 1 0.04
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (20 bp):
GGTATCGATACCAGAAGGGA
Found at i:886825 original size:22 final size:20
Alignment explanation
Indices: 886783--886843 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
886773 GGTATTAATG
* *
886783 CCATAATAGG-GTATCGGTA
1 CCATAGTAGGAGTATCGATA
886802 CCATAGTATGGTAGTATCGATA
1 CCATAGTA-GG-AGTATCGATA
* *
886824 CCATGGTAGGGGTATCGATA
1 CCATAGTAGGAGTATCGATA
886844 TTGAGGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 2 0.06
22 15 0.43
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
CCATAGTAGGAGTATCGATA
Found at i:886840 original size:20 final size:21
Alignment explanation
Indices: 886791--886843 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
886781 TGCCATAATA
*
886791 GGGTATCGGTACCATAGTATG
1 GGGTATCGATACCATAGTATG
* *
886812 GTAGTATCGATACCATGGTA-G
1 G-GGTATCGATACCATAGTATG
886833 GGGTATCGATA
1 GGGTATCGATA
886844 TTGAGGAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.28
Consensus pattern (21 bp):
GGGTATCGATACCATAGTATG
Found at i:887306 original size:46 final size:46
Alignment explanation
Indices: 887256--887676 Score: 628
Period size: 46 Copynumber: 9.2 Consensus size: 46
887246 ACTGATTTAC
887256 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
** *
887302 ATGCATGAATAGATGCATTAAGGCATGAAAGAATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
* * * *
887348 AAGCATGAATGGATGCATTAAGGCACGAAAGAATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
* *
887394 ATGCATGAGCAGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
* *
887440 ATGCATGAACAGATGCATTAAGGCATGAAAGGATGTCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
* ***
887486 ATACATGAATAAATGCATTAAGGCATGAAAGGATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
* * * * *
887532 ATGTATGAATGGATG-AGTTAAGGAATAAAAGGATGTCATGATTAAA
1 ATGCATGAACGGATGCA-TTAAGGCATGAAAGGATGCCATGATTAAA
* *
887578 ATTCATGAACGAATGCATTAAGGCATGAAAGGATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
887624 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
1 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
887670 ATGCATG
1 ATGCATG
887677 GTGGATGAAA
Statistics
Matches: 339, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 337 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (46 bp):
ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATGATTAAA
Found at i:887337 original size:20 final size:20
Alignment explanation
Indices: 887258--887474 Score: 80
Period size: 20 Copynumber: 9.7 Consensus size: 20
887248 TGATTTACAT
*
887258 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
887278 GCATGAAAGGATGCCATGATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
887304 GCATGAATA-GATGCATTAAG
1 GCATGAA-AGGATGCATTAAG
* *
887324 GCATGAAAGAATGCCATGATTAAAAA
1 GCATGAAAGGATG-C---ATT--AAG
*
887350 GCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
887370 GCACGAAAGAATGCCATGATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
887396 GCATGAGCA-GATGCATTAAG
1 GCATGA-AAGGATGCATTAAG
*
887416 GCATGAAAGGATGCCATGATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
887442 GCATGAACA-GATGCATTAAG
1 GCATGAA-AGGATGCATTAAG
887462 GCATGAAAGGATG
1 GCATGAAAGGATG
887475 TCATGATTAA
Statistics
Matches: 148, Mismatches: 19, Indels: 60
0.65 0.08 0.26
Matches are distributed among these distances:
19 3 0.02
20 61 0.41
21 4 0.03
22 12 0.08
24 12 0.08
25 4 0.03
26 49 0.33
27 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:887606 original size:20 final size:20
Alignment explanation
Indices: 887581--887659 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
887571 GATTAAAATT
*
887581 CATGAACGAATGCATTAAGG
1 CATGAACGGATGCATTAAGG
* *
887601 CATGAAAGGATGCCATGATTAAAATG
1 CATGAACGGATG-C---ATT--AAGG
887627 CATGAACGGATGCATTAAGG
1 CATGAACGGATGCATTAAGG
*
887647 CATGAAAGGATGC
1 CATGAACGGATGC
887660 CATGATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
20 25 0.53
21 1 0.02
22 3 0.06
24 3 0.06
25 1 0.02
26 14 0.30
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (20 bp):
CATGAACGGATGCATTAAGG
Found at i:889560 original size:11 final size:11
Alignment explanation
Indices: 889546--889570 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
889536 TTCTTTTTGT
889546 TTTAGTTTAGG
1 TTTAGTTTAGG
889557 TTTAGTTTAGG
1 TTTAGTTTAGG
889568 TTT
1 TTT
889571 TTTAGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (11 bp):
TTTAGTTTAGG
Found at i:890081 original size:23 final size:25
Alignment explanation
Indices: 890026--890081 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
890016 GGTCTTTGTT
* *
890026 TTATGTATATGTTATATCATATTAT
1 TTATATATATGTTATATCATATTAC
890051 TTATATATATGTGTATAT-AT-TTAC
1 TTATATATATGT-TATATCATATTAC
890075 TTA-ATAT
1 TTATATAT
890082 TCTTGACCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.14
24 6 0.21
25 13 0.46
26 5 0.18
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (25 bp):
TTATATATATGTTATATCATATTAC
Found at i:891026 original size:19 final size:20
Alignment explanation
Indices: 890980--891030 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
890970 ATATGTAATA
*
890980 ATGTACTATATAATGAAAATT
1 ATGTACTATATAAT-AAAACT
* *
891001 ATATACTATATACT-AAACT
1 ATGTACTATATAATAAAACT
891020 ATGTACTATAT
1 ATGTACTATAT
891031 GTTATATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 14 0.54
21 12 0.46
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (20 bp):
ATGTACTATATAATAAAACT
Found at i:892370 original size:5 final size:5
Alignment explanation
Indices: 892369--892480 Score: 52
Period size: 5 Copynumber: 21.4 Consensus size: 5
892359 TTTTTTTCTT
* * *
892369 TTTTC TTTTC TTTGTC ATTTTC TTTCCC TTTTC TTCTC ATTTC ATTTT-
1 TTTTC TTTTC TTT-TC -TTTTC TTT-TC TTTTC TTTTC TTTTC -TTTTC
** * *
892417 TTACC TTTTC TTTTC ATTAT- TTTTC TTTT- TATTCTC TTTTT TTATTCC
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC T-TT-TC TTTTC TT-TT-C
892465 TTTTC TTTT- TTTTC TT
1 TTTTC TTTTC TTTTC TT
892481 ACAACAATCT
Statistics
Matches: 80, Mismatches: 14, Indels: 26
0.67 0.12 0.22
Matches are distributed among these distances:
4 10 0.12
5 43 0.54
6 21 0.26
7 6 0.08
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTTC
Found at i:892389 original size:28 final size:27
Alignment explanation
Indices: 892358--892434 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 27
892348 TTCACTTTGT
** * *
892358 TTTTTTTTCTTTTTTCTTTTCTTTGTCA
1 TTTTTTTTCCCTTTTCTTCTCATT-TCA
*
892386 TTTTCTTTCCCTTTTCTTCTCATTTCA
1 TTTTTTTTCCCTTTTCTTCTCATTTCA
* *
892413 --TTTTTTACCTTTTCTTTTCATT
1 TTTTTTTTCCCTTTTCTTCTCATT
892435 ATTTTTCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 19 0.46
27 3 0.07
28 19 0.46
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTTTTTTCCCTTTTCTTCTCATTTCA
Found at i:892433 original size:25 final size:28
Alignment explanation
Indices: 892369--892434 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 28
892359 TTTTTTTCTT
* *
892369 TTTTCTTTTCTTTGTCATTTTCTTTCCC
1 TTTTCTTTTCATTGTCATTTTCTTTACC
*
892397 TTTTCTTCTCATT-TCA-TTT-TTTACC
1 TTTTCTTTTCATTGTCATTTTCTTTACC
892422 TTTTCTTTTCATT
1 TTTTCTTTTCATT
892435 ATTTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.50
26 3 0.09
27 3 0.09
28 11 0.32
ACGTcount: A:0.08, C:0.23, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTCTTTTCATTGTCATTTTCTTTACC
Found at i:893181 original size:14 final size:14
Alignment explanation
Indices: 893149--893190 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
893139 CCTTTTTCAT
*
893149 TTTTTCTATTT-TT
1 TTTTTCTATTTCTC
893162 TGTTTTCTATTTCTC
1 T-TTTTCTATTTCTC
893177 TTTTTCCTATTTCT
1 TTTTT-CTATTTCT
893191 ATTTCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 14 0.56
15 10 0.40
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTTCTATTTCTC
Found at i:905674 original size:226 final size:226
Alignment explanation
Indices: 905280--905757 Score: 776
Period size: 226 Copynumber: 2.1 Consensus size: 226
905270 AAAAAATATA
*
905280 GACGATAACATAACCAGTTAATTACTCAAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACCAGTTAATTACTCAAAACATTATCAAGCATAATAACATATTAGGTAGCACT
* ** *
905345 TATGTTATGTAATAAGTAACGCCTTTTTAAAGCTGATGGGGCTTTCGAAATCTGACGATAACAAA
66 TATGTAACATAATAAGTAACACCTTTTTAAAGCTGATGGGGCTTTCGAAATCTGACGATAACAAA
* *
905410 ATAGGTTAATTACTTAACTTGTTATTAGTATTATCAATATATTAGGTAACACCTAAAATGTTACC
131 ATAGGTTAATTACTTAACTTGTTATCAGTATTATCAATATATTAGGTAACACCTAAAATGTTAAC
*
905475 AAAGTTTAAGCTGATGGAGCCTTAGGTATCC
196 AAAGTTTAAGCTGATGGAGCCTTAGGAATCC
* * ** *
905506 GACGATAACATAACCAGTAAATTATTGGAAATATTATCAAGCATAATAACATATTAGGTAGCACT
1 GACGATAACATAACCAGTTAATTACTCAAAACATTATCAAGCATAATAACATATTAGGTAGCACT
* **
905571 TATGTAACATAATAGGTAACACCTTTTTAAAGCTGATGGGGCTTTCGAAATCTGGTGATAACAAA
66 TATGTAACATAATAAGTAACACCTTTTTAAAGCTGATGGGGCTTTCGAAATCTGACGATAACAAA
*
905636 ATAGGTTAATTACTTAATTTGTTATCAGTATTATCAATATATTAGGTAACACCTAAAATGTTAAC
131 ATAGGTTAATTACTTAACTTGTTATCAGTATTATCAATATATTAGGTAACACCTAAAATGTTAAC
*
905701 AAAGTTTAAGCTGATGGAGCCTTAGGAATTC
196 AAAGTTTAAGCTGATGGAGCCTTAGGAATCC
* *
905732 AACGATAACATAACCGGTTAATTACT
1 GACGATAACATAACCAGTTAATTACT
905758 TGATTTGTTA
Statistics
Matches: 230, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
226 230 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (226 bp):
GACGATAACATAACCAGTTAATTACTCAAAACATTATCAAGCATAATAACATATTAGGTAGCACT
TATGTAACATAATAAGTAACACCTTTTTAAAGCTGATGGGGCTTTCGAAATCTGACGATAACAAA
ATAGGTTAATTACTTAACTTGTTATCAGTATTATCAATATATTAGGTAACACCTAAAATGTTAAC
AAAGTTTAAGCTGATGGAGCCTTAGGAATCC
Found at i:905898 original size:2 final size:2
Alignment explanation
Indices: 905893--905931 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
905883 TGTATATATA
* * *
905893 TG TG TG TG TG TG TG TG TG TG TG TA CG CG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
905932 CGATACATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.05, G:0.46, T:0.46
Consensus pattern (2 bp):
TG
Found at i:908723 original size:19 final size:19
Alignment explanation
Indices: 908699--908736 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
908689 GTCTAATCGA
*
908699 TTTTGTCAAATTTTAACCG
1 TTTTGTCAAATATTAACCG
*
908718 TTTTGTTAAATATTAACCG
1 TTTTGTCAAATATTAACCG
908737 ATTTAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTTGTCAAATATTAACCG
Found at i:910121 original size:6 final size:6
Alignment explanation
Indices: 910112--910160 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
910102 ATAGTGAAGA
* * * *
910112 TGAAAT TGAAAT TGAAAT TCAAAC TCAAAT TAAAAT TGAAAT TGAAAT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
910160 T
1 T
910161 CAAACTCAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (6 bp):
TGAAAT
Found at i:910174 original size:24 final size:24
Alignment explanation
Indices: 910120--910166 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
910110 GATGAAATTG
*
910120 AAATTGAAATTCAAACTCAAATTA
1 AAATTGAAATTCAAACTCAAACTA
* *
910144 AAATTGAAATTGAAATTCAAACT
1 AAATTGAAATTCAAACTCAAACT
910167 CAACTTGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (24 bp):
AAATTGAAATTCAAACTCAAACTA
Found at i:913576 original size:200 final size:199
Alignment explanation
Indices: 913235--914020 Score: 956
Period size: 197 Copynumber: 4.1 Consensus size: 199
913225 TCAGTTTTTT
* * **
913235 CATACTGGACCAAAAGTAT-TAATACATATACAAAAGTATCGATACTTTATGTTTACATATTTTG
1 CATACTGGACAAAAAGTATCGAA-ACATATACAAAAGTATCGATACTTTATGTTTATGTATTTTG
* * * *
913299 TCATTAAACTC-GTATATTTTT-CGGTTTACATTGTAAATTTACCTATTACTTTATACTAATTGA
65 TCATTAAAC-CGGTATATTTTTACCGCTTACATTGTAAATTTACCTATTACTTTATACTAATCGG
* * *
913362 TCTCAAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTCCGTGCATCTAGTTT
129 TTTCGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTT
913427 GGAAAG
194 GGAAAG
* *
913433 CATACTGGACAAAAAGTATCGAAACATATACAAAAAATATCGATACTTTATTTTTATGTATTTTG
1 CATACTGGACAAAAAGTATCGAAACATATAC-AAAAGTATCGATACTTTATGTTTATGTATTTTG
*
913498 TCATTAAACCGGTATATTTTTACCGCTTACATTGTAACTTTACCTATTACTTTATACTAATCGGT
65 TCATTAAACCGGTATATTTTTACCGCTTACATTGTAAATTTACCTATTACTTTATACTAATCGGT
*
913563 TTTGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTG
130 TTCGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTG
913628 GAAAG
195 GAAAG
* * * *
913633 CACAC-AGA-AAAAAGTATCGATACAGATACAAAAGTATCGATACTTTATGTTTATGTATTTTGT
1 CATACTGGACAAAAAGTATCGAAACATATACAAAAGTATCGATACTTTATGTTTATGTATTTTGT
* * * **
913696 TATTAAATCGGTATGTTTTTATTGCTTACATTGTAAATTTACCTATTACTTTATACTAATCGGTT
66 CATTAAACCGGTATATTTTTACCGCTTACATTGTAAATTTACCTATTACTTTATACTAATCGGTT
* *
913761 TCGAAGTTTTAATAATCGATACTTCTCATACGTGTATTGATACTTTCTGCGTGCATCTAGTTTGG
131 TCGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGG
*
913826 AAAT
196 AAAG
* *
913830 CATACTGGACAAAAAGTATTGATAC-T-T-------TAT-G----TTTATG--TAT-T-TTTT-T
1 CATACTGGACAAAAAGTATCGAAACATATACAAAAGTATCGATACTTTATGTTTATGTATTTTGT
* * * * * *
913876 CATTAAGCCGATATATTTTTACCG-TTAACATTGTAAATTTACCTATTACATTAAATTAATCAGT
66 CATTAAACCGGTATATTTTTACCGCTT-ACATTGTAAATTTACCTATTACTTTATACTAATCGGT
* * * * * * * *
913940 TTTGAAGTTTTAAGAATTGATACTTTTCATACATGTATCGATATTTTATGCATGCATCTTGTTTG
130 TTCGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTG
* *
914005 GGATG
195 GAAAG
914010 CATACTGGACA
1 CATACTGGACA
914021 GAACAATATG
Statistics
Matches: 522, Mismatches: 59, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
179 2 0.00
180 119 0.23
181 4 0.01
182 1 0.00
183 3 0.01
185 6 0.01
189 1 0.00
190 3 0.01
197 161 0.31
198 48 0.09
199 66 0.13
200 108 0.21
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (199 bp):
CATACTGGACAAAAAGTATCGAAACATATACAAAAGTATCGATACTTTATGTTTATGTATTTTGT
CATTAAACCGGTATATTTTTACCGCTTACATTGTAAATTTACCTATTACTTTATACTAATCGGTT
TCGAAGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGG
AAAG
Found at i:913951 original size:180 final size:178
Alignment explanation
Indices: 913662--914214 Score: 623
Period size: 180 Copynumber: 3.1 Consensus size: 178
913652 ATACAGATAC
* * * * **
913662 AAAAGTATCGATACTTTATGTTTATGTATTTTGTT-ATTAAATCGGTATGTTTTTATTGCTT-AC
1 AAAAGTATCGATACTTTATGTTTATGTATTTTTTTCATTAAACCGATATATTTTTACCG-TTAAC
* * * *
913725 ATTGTAAATTTACCTATTACTTTATACTAATCGGTTTCGAAGTTTTAATAATCGATACTTCTCAT
65 ATTGTAAATTTACCTATTACTTTAAATTAATC-GTTTCGAAGTTTTAAGAATCGATACTTTTCAT
*
913790 ACGTGTATTGATACTTTCTGCGTGCATCTAGTTTGGAAATCATACTGGACA
129 ACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGG-AATCATACTGGACA
* *
913841 AAAAGTATTGATACTTTATGTTTATGTATTTTTTTCATTAAGCCGATATATTTTTACCGTTAACA
1 AAAAGTATCGATACTTTATGTTTATGTATTTTTTTCATTAAACCGATATATTTTTACCGTTAACA
* * *
913906 TTGTAAATTTACCTATTACATTAAATTAATCAGTTTTGAAGTTTTAAGAATTGATACTTTTCATA
66 TTGTAAATTTACCTATTACTTTAAATTAATC-GTTTCGAAGTTTTAAGAATCGATACTTTTCATA
* * * * * *
913971 CATGTATCGATATTTTATGCATGCATCTTGTTTGGGATGCATACTGGACA
130 CGTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAAT-CATACTGGACA
* * * * * * * *
914021 GAACAA-TATGGATACCTTATGCTTACGTA-TCTTGTCATTAAACC-AGTATCTTTTTACCGCTA
1 -AA-AAGTATCGATACTTTATGTTTATGTATTTTTTTCATTAAACCGA-TATATTTTTACCGTTA
* *
914083 ACATAGTAAATTTACCTATTACTTTAAATTAATCGATTTCGAAGTTTTAAGAATCGATACTTTTT
63 ACATTGTAAATTTACCTATTACTTTAAATTAATCG-TTTCGAAGTTTTAAGAATCGATACTTTTC
** * *
914148 ATACGTGTATCGATACTTTCTGCGTTTATCTA-TTTAGGGAAGCATAATGGACA
127 ATACGTGTATCGATACTTTCTGCGTGCATCTAGTTT--GGAATCATACTGGACA
* *
914201 AAACGTTTCGATAC
1 AAAAGTATCGATAC
914215 ATATACAAAA
Statistics
Matches: 314, Mismatches: 50, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
178 1 0.00
179 51 0.16
180 236 0.75
181 24 0.08
182 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (178 bp):
AAAAGTATCGATACTTTATGTTTATGTATTTTTTTCATTAAACCGATATATTTTTACCGTTAACA
TTGTAAATTTACCTATTACTTTAAATTAATCGTTTCGAAGTTTTAAGAATCGATACTTTTCATAC
GTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAATCATACTGGACA
Found at i:916954 original size:18 final size:19
Alignment explanation
Indices: 916931--916981 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
916921 TTGCTCATCT
*
916931 CATACATAATTT-CATTCA
1 CATACAAAATTTGCATTCA
*
916949 CATACAAAATTTGGCTTTCA
1 CATACAAAATTT-GCATTCA
916969 CATACAAAATTTG
1 CATACAAAATTTG
916982 TCTAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 1 0.03
20 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (19 bp):
CATACAAAATTTGCATTCA
Found at i:919142 original size:25 final size:24
Alignment explanation
Indices: 919112--919160 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
919102 ACCTGCATTT
*
919112 ATAATTAAATTTATCATTTTATATA
1 ATAATTAAA-CTATCATTTTATATA
*
919137 ATAATTATACTATCATTTTATATA
1 ATAATTAAACTATCATTTTATATA
919161 CAACCCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
ATAATTAAACTATCATTTTATATA
Found at i:923082 original size:16 final size:16
Alignment explanation
Indices: 923061--923097 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
923051 GACCATTATT
923061 TATAATATGC-AATCTA
1 TATAATATGCTAA-CTA
923077 TATAATATGCTAACTA
1 TATAATATGCTAACTA
923093 TATAA
1 TATAA
923098 CATGAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (16 bp):
TATAATATGCTAACTA
Found at i:923783 original size:21 final size:21
Alignment explanation
Indices: 923759--923799 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
923749 TGAAATTAGA
923759 TTTAATT-CAGATTCAGGTCAG
1 TTTAATTCCAG-TTCAGGTCAG
923780 TTTAATTCCAGTTCAGGTCA
1 TTTAATTCCAGTTCAGGTCA
923800 AACAAGTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
TTTAATTCCAGTTCAGGTCAG
Found at i:925872 original size:31 final size:31
Alignment explanation
Indices: 925844--925913 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
925834 CATGTGACTG
*
925844 ATTTATTATAAA-CCAATAACGTTAGTGACCA
1 ATTTATTATAAATCCAAT-ACATTAGTGACCA
*
925875 ATTTATTATAAATCGAATACATTAGTGACCA
1 ATTTATTATAAATCCAATACATTAGTGACCA
*
925906 ATTCATTA
1 ATTTATTA
925914 CTTTTGAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (31 bp):
ATTTATTATAAATCCAATACATTAGTGACCA
Found at i:926307 original size:14 final size:14
Alignment explanation
Indices: 926288--926317 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
926278 AATATAAAAA
926288 TTAAATTTAATAAT
1 TTAAATTTAATAAT
926302 TTAAATTTAATAAT
1 TTAAATTTAATAAT
926316 TT
1 TT
926318 GTTCTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATTTAATAAT
Found at i:932402 original size:18 final size:18
Alignment explanation
Indices: 932381--932417 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
932371 ATTTTATTTA
932381 GTTTTAAAATTTAAATGG
1 GTTTTAAAATTTAAATGG
932399 GTTTTAAAATTTAAATGG
1 GTTTTAAAATTTAAATGG
932417 G
1 G
932418 CAGTGGGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (18 bp):
GTTTTAAAATTTAAATGG
Found at i:932472 original size:2 final size:2
Alignment explanation
Indices: 932465--932534 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
932455 GTGGCTGAGT
932465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
932507 TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
932535 GTATTTAATT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:937830 original size:35 final size:35
Alignment explanation
Indices: 937784--937904 Score: 170
Period size: 35 Copynumber: 3.4 Consensus size: 35
937774 CTGATCAAGT
937784 TGGTAATTCCTTATATAGGTTCAGCACCGATCAGC
1 TGGTAATTCCTTATATAGGTTCAGCACCGATCAGC
* *** *
937819 TGGTAATTCCTTATTGTAGGTTCAATTCTGATCAAGC
1 TGGTAATTCCTTA-TATAGGTTCAGCACCGATC-AGC
*
937856 TGGTAATTCTTTATATAGGTTCAGCACCGATCAGC
1 TGGTAATTCCTTATATAGGTTCAGCACCGATCAGC
937891 TGGTAATTCCTTAT
1 TGGTAATTCCTTAT
937905 GGACCTAAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
35 29 0.40
36 28 0.39
37 15 0.21
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (35 bp):
TGGTAATTCCTTATATAGGTTCAGCACCGATCAGC
Found at i:937864 original size:72 final size:72
Alignment explanation
Indices: 937764--937904 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
937754 AAGTCGCTAC
* *
937764 AGGTTCAGTTCTGATCAAGTTGGTAATTCCTTATATAGGTTCAGCACCGATCAGCTGGTAATTCC
1 AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATCAGCTGGTAATTCC
937829 TTATTGT
66 TTATTGT
*
937836 AGGTTCAATTCTGATCAAGCTGGTAATTCTTTATATAGGTTCAGCACCGATCAGCTGGTAATTCC
1 AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATCAGCTGGTAATTCC
937901 TTAT
66 TTAT
937905 GGACCTAAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (72 bp):
AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATCAGCTGGTAATTCC
TTATTGT
Found at i:943640 original size:42 final size:42
Alignment explanation
Indices: 943594--943674 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
943584 GAGATGCATA
* * * *
943594 TGGTTCACATGGTCGTTCGTCTAAGAGAAGTCATGGTTTTTT
1 TGGTTCACATGGTCATCCATCGAAGAGAAGTCATGGTTTTTT
*
943636 TGGTTCGCATGGTCATCCATCGAAGAGAAGTCATGGTTT
1 TGGTTCACATGGTCATCCATCGAAGAGAAGTCATGGTTT
943675 GGTTCGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (42 bp):
TGGTTCACATGGTCATCCATCGAAGAGAAGTCATGGTTTTTT
Found at i:945308 original size:64 final size:64
Alignment explanation
Indices: 945229--945368 Score: 192
Period size: 64 Copynumber: 2.2 Consensus size: 64
945219 CGGATCTTGG
* *
945229 CAGGTCGGGTAAAATCGGGTACAGGTCA-ATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCGGGTCAAATC-AGTACAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
* * * * * *
945293 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTTAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCGGGTCAAATCAGTACAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
945357 CAGGTCGGGTCA
1 CAGGTCGGGTCA
945369 TTTTCAGTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
63 7 0.11
64 59 0.89
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (64 bp):
CAGGTCGGGTCAAATCAGTACAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
Found at i:945830 original size:19 final size:19
Alignment explanation
Indices: 945808--945910 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
945798 TTGATTTTAT
945808 TTGAGAATTTAGAGAGAAA
1 TTGAGAATTTAGAGAGAAA
945827 TTGAGAAATTTTGAGAATATAGAGAAA
1 TTGAG-AA-TTT-AG-----AGAGAAA
*
945854 TTGAGAATTTAGAGGGAAA
1 TTGAGAATTTAGAGAGAAA
*
945873 TTGAGAATTTAGAGGGAAA
1 TTGAGAATTTAGAGAGAAA
*
945892 TTGAGAAATATAGAGAGAA
1 TTGAG-AATTTAGAGAGAA
945911 TAAAAAAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 17
0.78 0.03 0.18
Matches are distributed among these distances:
19 35 0.49
20 13 0.18
21 3 0.04
22 2 0.03
24 2 0.03
25 3 0.04
26 2 0.03
27 12 0.17
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.26
Consensus pattern (19 bp):
TTGAGAATTTAGAGAGAAA
Found at i:945840 original size:29 final size:27
Alignment explanation
Indices: 945807--945860 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 27
945797 TTTGATTTTA
945807 TTTGAGAATTTAGAGAGAAATTGAGAAAT
1 TTTGAGAA--TAGAGAGAAATTGAGAAAT
*
945836 TTTGAGAATATAGAGAAATTGAGAA
1 TTTGAGAATAGAGAGAAATTGAGAA
945861 TTTAGAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
29 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (27 bp):
TTTGAGAATAGAGAGAAATTGAGAAAT
Found at i:946126 original size:2 final size:2
Alignment explanation
Indices: 946119--946229 Score: 106
Period size: 2 Copynumber: 56.5 Consensus size: 2
946109 TACTTTTAAT
946119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
946161 TA AA CTA TA TA TG TA TA -A AA TA TA TA TA -A AA TA TA TA GTT TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
946203 TA AA T- TA TA T- TA -A TA TA GTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
946230 GTATTTTAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
1 5 0.05
2 82 0.90
3 4 0.04
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:946702 original size:21 final size:21
Alignment explanation
Indices: 946677--946743 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
946667 ACAATATGCA
946677 TAAACCCTAAATCATAAATCC
1 TAAACCCTAAATCATAAATCC
* *
946698 TAAA--C---ATTA-AAAT-A
1 TAAACCCTAAATCATAAATCC
*
946712 TAAACCCTAAATCATAAAACC
1 TAAACCCTAAATCATAAATCC
946733 TAAACCCTAAA
1 TAAACCCTAAA
946744 CTAACCCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 14
0.64 0.09 0.26
Matches are distributed among these distances:
14 4 0.12
15 4 0.12
16 4 0.12
19 4 0.12
20 3 0.09
21 15 0.44
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAATCATAAATCC
Found at i:946767 original size:87 final size:87
Alignment explanation
Indices: 946659--946830 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
946649 TAAAACCTTA
* *
946659 AACCTTAAACAATATGCATAAACCCTAAATCATAAATCCTAAACATTAAAATATAAACCCTAAAT
1 AACCCTAAACAATATGCATAAACCCTAAATCATAAATCATAAACATTAAAATATAAACCCTAAAT
*
946724 CATAAAACCTAAACCCTAAACT
66 CATAAAACCTAAACCATAAACT
946746 AACCCTAAACAATATGCATAAACCCTAAATCATAAATCATAAACATTAAAATATAAACCCTAAAT
1 AACCCTAAACAATATGCATAAACCCTAAATCATAAATCATAAACATTAAAATATAAACCCTAAAT
*
946811 CATAAAACTTAAACCATAAA
66 CATAAAACCTAAACCATAAA
946831 TCAAAAACCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.53, C:0.23, G:0.01, T:0.23
Consensus pattern (87 bp):
AACCCTAAACAATATGCATAAACCCTAAATCATAAATCATAAACATTAAAATATAAACCCTAAAT
CATAAAACCTAAACCATAAACT
Found at i:946781 original size:14 final size:14
Alignment explanation
Indices: 946778--946830 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
946768 CCCTAAATCA
*
946778 TAAATCATAAACAT
1 TAAATCATAAACCT
*
946792 TAAAAT-ATAAACCC
1 T-AAATCATAAACCT
*
946806 TAAATCATAAAACT
1 TAAATCATAAACCT
*
946820 TAAACCATAAA
1 TAAATCATAAA
946831 TCAAAAACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 4 0.12
14 24 0.75
15 4 0.12
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAATCATAAACCT
Found at i:946788 original size:21 final size:21
Alignment explanation
Indices: 946768--946851 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 21
946758 TATGCATAAA
946768 CCCTAAATCATAAATCATAAA
1 CCCTAAATCATAAATCATAAA
*
946789 --C---ATTA-AAAT-ATAAA
1 CCCTAAATCATAAATCATAAA
* *
946803 CCCTAAATCATAAAACTTAAA
1 CCCTAAATCATAAATCATAAA
* * * *
946824 CCATAAATCAAAAACCCTAAA
1 CCCTAAATCATAAATCATAAA
946845 CCCTAAA
1 CCCTAAA
946852 CATTATGCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
14 5 0.11
15 4 0.09
16 4 0.09
19 4 0.09
20 3 0.06
21 27 0.57
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAAATCATAAATCATAAA
Found at i:946839 original size:35 final size:35
Alignment explanation
Indices: 946765--946844 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
946755 CAATATGCAT
* *
946765 AAACCCTAAATCATAAATCATAAACATTAAAATAT
1 AAACCCTAAATCATAAAACATAAACATTAAAATAA
*
946800 AAACCCTAAATCATAAAACTTAAACCA-T-AAATCAA
1 AAACCCTAAATCATAAAACATAAA-CATTAAAAT-AA
946835 AAACCCTAAA
1 AAACCCTAAA
946845 CCCTAAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.10
35 34 0.85
36 2 0.05
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (35 bp):
AAACCCTAAATCATAAAACATAAACATTAAAATAA
Found at i:946963 original size:20 final size:19
Alignment explanation
Indices: 946938--947030 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
946928 TACATGTATG
*
946938 TATAAACTATGTATACTATA
1 TATAAACTATATATA-TATA
946958 TATAAACTATATATATATA
1 TATAAACTATATATATATA
* * *
946977 -ACCTATAGTATATGTATATA
1 TA--TAAACTATATATATATA
* * * *
946997 TACAATCTATTTATATGTTA
1 TATAAACTATATATAT-ATA
947017 TATAAACTATATAT
1 TATAAACTATATAT
947031 GTAACTTATA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
18 1 0.02
19 12 0.22
20 41 0.75
21 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (19 bp):
TATAAACTATATATATATA
Found at i:946971 original size:57 final size:57
Alignment explanation
Indices: 946905--947042 Score: 174
Period size: 57 Copynumber: 2.4 Consensus size: 57
946895 TGTATACATG
*
946905 TAAACTATATATGTAACTTATAGTACATGTATGTATA-AA-CTATGTATACT-ATATA
1 TAAACTATATATGTAACTTATAGTACATGTATATATACAATCTATGTATA-TGATATA
* * * * *
946960 TAAACTATATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATA
1 TAAAC--TATATATGTAACTTATAGTACATGTATATATACAATCTATGTATATGATATA
947019 TAAACTATATATGTAACTTATAGT
1 TAAACTATATATGTAACTTATAGT
947043 TTATAAACAA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
55 5 0.07
57 45 0.64
58 3 0.04
59 17 0.24
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (57 bp):
TAAACTATATATGTAACTTATAGTACATGTATATATACAATCTATGTATATGATATA
Found at i:946974 original size:15 final size:16
Alignment explanation
Indices: 946949--946989 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
946939 ATAAACTATG
946949 TATACTATATATAAAC
1 TATACTATATATAAAC
*
946965 TATA-TATATATAACC
1 TATACTATATATAAAC
*
946980 TATAGTATAT
1 TATACTATAT
946990 GTATATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (16 bp):
TATACTATATATAAAC
Found at i:946977 original size:35 final size:39
Alignment explanation
Indices: 946938--947012 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 39
946928 TACATGTATG
946938 TATAAACTAT-GTATA-CTATATATA-AA-CTATATATA
1 TATAAACTATAGTATATCTATATATACAATCTATATATA
* * *
946973 TATAACCTATAGTATATGTATATATACAATCTATTTATA
1 TATAAACTATAGTATATCTATATATACAATCTATATATA
947012 T
1 T
947013 GTTATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 9 0.27
36 5 0.15
37 8 0.24
38 2 0.06
39 9 0.27
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (39 bp):
TATAAACTATAGTATATCTATATATACAATCTATATATA
Found at i:946994 original size:24 final size:22
Alignment explanation
Indices: 946969--947027 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
946959 ATAAACTATA
*
946969 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
946991 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
947014 T-TATATAAACTATA
1 TATATATAAACTATA
947028 TATGTAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:947061 original size:21 final size:20
Alignment explanation
Indices: 947036--947127 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 20
947026 TATATGTAAC
947036 TTATAGTTTATAAACAATAGT
1 TTATA-TTTATAAACAATAGT
**
947057 TTATA-TTAGTGTACTATATAGT
1 TTATATTTA-TAAAC-A-ATAGT
* * *
947079 TTATTCTTTATAACCTATAGT
1 TTA-TATTTATAAACAATAGT
* *
947100 ATATAATTTATAAACTATAGT
1 TTAT-ATTTATAAACAATAGT
947121 TTATATT
1 TTATATT
947128 AATGTACTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.06
20 7 0.13
21 30 0.56
22 8 0.15
23 3 0.06
24 3 0.06
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.49
Consensus pattern (20 bp):
TTATATTTATAAACAATAGT
Found at i:947138 original size:20 final size:21
Alignment explanation
Indices: 947052--947154 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 21
947042 TTTATAAACA
*
947052 ATAGTTTATATTAGTGTACTAT
1 ATAGTTTATATTAATGTAC-AT
* * * *
947074 ATAGTTTATTCTTTAT-AACCT
1 ATAGTTTA-TATTAATGTACAT
* * **
947095 ATAGTATATAATTTATAAAC-T
1 ATAGTTTAT-ATTAATGTACAT
947116 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTAC-AT
947138 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
947155 TAATTATCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 8 0.12
21 22 0.34
22 31 0.48
23 4 0.06
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (21 bp):
ATAGTTTATATTAATGTACAT
Found at i:947207 original size:14 final size:14
Alignment explanation
Indices: 947190--947250 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
947180 TAATATAGTA
947190 TATAGTTTATAAAC
1 TATAGTTTATAAAC
* * *
947204 TATACTATATTAA-
1 TATAGTTTATAAAC
* *
947217 TATTAATTATATTAAC
1 TA-TAGTT-TATAAAC
947233 TATAGTTTATAAAC
1 TATAGTTTATAAAC
947247 TATA
1 TATA
947251 CTATATAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 23 0.62
15 10 0.27
16 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (14 bp):
TATAGTTTATAAAC
Found at i:947223 original size:65 final size:64
Alignment explanation
Indices: 947143--947350 Score: 219
Period size: 65 Copynumber: 3.2 Consensus size: 64
947133 ACTATATAGT
* * *
947143 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* * *
947208 CTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTAT-AACATA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAA-TATAATATATAATTTATAAAC-TA
947270 TA
63 TA
* * *
947272 GTTTATATTAATATTAATT-TTATAGACTATATTTTATATTAATATTAAT-TACAAATTATAAAC
1 --TTATATTAATATTAATTATT-TA-ACTATAATTTATATTAATA-TAATATATAATTTATAAAC
947335 TATA
61 TATA
947339 TTATATTAATAT
1 TTATATTAATAT
947351 ATGTTAATAT
Statistics
Matches: 122, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
63 5 0.04
64 20 0.16
65 47 0.39
66 28 0.23
67 14 0.11
68 8 0.07
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (64 bp):
TTATATTAATATTAATTATTTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:947240 original size:43 final size:40
Alignment explanation
Indices: 947166--947278 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 40
947156 AATTATCTTA
*
947166 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTAT
1 ACTAT-ATTAATATTAATATAGTATATAGTTTATAAACTAT
*
947207 ACTATATTAATATTAATTATATTAACTATAGTTTATAAACTAT
1 ACTATATTAATATTAA-TATAGT-A-TATAGTTTATAAACTAT
*
947250 ACTATA-TAAT-TT-ATA-A-CATATAGTTTATA
1 ACTATATTAATATTAATATAGTATATAGTTTATA
947279 TTAATATTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
35 11 0.17
36 1 0.02
38 1 0.02
39 2 0.03
40 11 0.17
41 12 0.18
42 5 0.08
43 23 0.35
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAGTTTATAAACTAT
Found at i:947257 original size:14 final size:14
Alignment explanation
Indices: 947197--947258 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
947187 GTATATAGTT
947197 TATAAACTATACTA
1 TATAAACTATACTA
* *
947211 TATTAA-TATTAATTA
1 TATAAACTA-T-ACTA
* * *
947226 TATTAACTATAGTT
1 TATAAACTATACTA
947240 TATAAACTATACTA
1 TATAAACTATACTA
947254 TATAA
1 TATAA
947259 TTTATAACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (14 bp):
TATAAACTATACTA
Found at i:947289 original size:131 final size:132
Alignment explanation
Indices: 947101--947350 Score: 321
Period size: 131 Copynumber: 1.9 Consensus size: 132
947091 ACCTATAGTA
* * * *
947101 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATCT-T
1 TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATT-T-TAT
* * **
947165 A-ACTATAATTTATATTAATA-TAGTATATAGTTTATAAACTATACTATATTAATATTAATTATA
64 AGACTATAATTTATATTAATATTAAT-TACAAATTATAAACTATACTATATTAATATTAATTATA
947228 TTAAC
128 TTAAC
* *
947233 TATAGTTTATAAACTATACTATATAATTTAT-AAC-ATATAGTTTATATTAATATTAATTTTATA
1 TATAATTTATAAACTATACTATAT-ATTAATGAACTATATAGTTTATATTAATATTAATTTTATA
* *
947296 GACTATATTTTATATTAATATTAATTACAAATTATAAACTATATTATATTAATAT
65 GACTATAATTTATATTAATATTAATTACAAATTATAAACTATACTATATTAATAT
947351 ATGTTAATAT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
129 1 0.01
130 3 0.03
131 67 0.66
132 26 0.25
133 5 0.05
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (132 bp):
TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATTTTATAG
ACTATAATTTATATTAATATTAATTACAAATTATAAACTATACTATATTAATATTAATTATATTA
AC
Found at i:947308 original size:31 final size:30
Alignment explanation
Indices: 947137--947321 Score: 144
Period size: 31 Copynumber: 5.8 Consensus size: 30
947127 TAATGTACTA
*
947137 TATAGTTTATATTAATGTTAATTATCT-TAAC
1 TATAGTTTATATTAATATTAATT-T-TATAAC
*
947168 TATAATTTATATTAATATAGTATATAGTTTATAAAC
1 TATAGTTTATATTAATAT--TA-AT--TTTAT-AAC
* *
947204 TATA--CTATATTAATATTAATTATATTAAC
1 TATAGTTTATATTAATATTAATTTTA-TAAC
*
947233 TATAGTTTATAAACTATACTATATAA-TTTATAAC
1 TATAGTTTAT--A-T-TAATAT-TAATTTTATAAC
947267 ATATAGTTTATATTAATATTAATTTTATAGAC
1 -TATAGTTTATATTAATATTAATTTTATA-AC
*
947299 TATATTTTATATTAATATTAATT
1 TATAGTTTATATTAATATTAATT
947322 ACAAATTATA
Statistics
Matches: 127, Mismatches: 9, Indels: 36
0.74 0.05 0.21
Matches are distributed among these distances:
29 10 0.08
30 4 0.03
31 54 0.43
32 5 0.04
33 4 0.03
34 19 0.15
35 20 0.16
36 11 0.09
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.50
Consensus pattern (30 bp):
TATAGTTTATATTAATATTAATTTTATAAC
Found at i:947363 original size:6 final size:6
Alignment explanation
Indices: 947336--947456 Score: 77
Period size: 6 Copynumber: 21.3 Consensus size: 6
947326 ATTATAAACT
*
947336 ATATT- ATATTA ATA-T- ATGTTA ATATTA ATATTA ATATT- A-ATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
* *
947379 A-ATTA ATATTA ATATTA AT-TATA ATATATA ATAATT- ATTTTT ATATTA
1 ATATTA ATATTA ATATTA ATAT-TA ATAT-TA AT-ATTA ATATTA ATATTA
*
947427 AT-TATA ATA-TA CA-ATTA TTA-TA ATATTA AT
1 ATAT-TA ATATTA -ATATTA ATATTA ATATTA AT
947457 TATAAATACT
Statistics
Matches: 94, Mismatches: 7, Indels: 29
0.72 0.05 0.22
Matches are distributed among these distances:
4 5 0.05
5 25 0.27
6 55 0.59
7 7 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:947414 original size:37 final size:36
Alignment explanation
Indices: 947307--947436 Score: 96
Period size: 37 Copynumber: 3.6 Consensus size: 36
947297 ACTATATTTT
*
947307 ATATTAATATTAATTACAA-ATTATAAACTATATTATATTA
1 ATATT-ATATTAATTATAATATTAT-AA-TA-ATTA-ATTA
* *
947347 ATA-TATGTTAA-TATTAATATTAATATTAATTAAATTA
1 ATATTATATTAATTA-TAATATT-ATAATAATT-AATTA
947384 ATATTAATATTAATTATAATA-TATAATAATT-ATT-
1 ATATT-ATATTAATTATAATATTATAATAATTAATTA
947418 -T-TTATATTAATTATAATAT
1 ATATTATATTAATTATAATAT
947437 ACAATTATTA
Statistics
Matches: 77, Mismatches: 5, Indels: 24
0.73 0.05 0.23
Matches are distributed among these distances:
31 15 0.19
32 2 0.03
33 1 0.01
35 3 0.04
37 20 0.26
38 13 0.17
39 16 0.21
40 7 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (36 bp):
ATATTATATTAATTATAATATTATAATAATTAATTA
Found at i:947482 original size:28 final size:28
Alignment explanation
Indices: 947354--947482 Score: 99
Period size: 28 Copynumber: 4.5 Consensus size: 28
947344 TTAATATATG
947354 TTAATATTAATATTAA-TATTAAT-TA-AA
1 TTAATA-TAATATTAATTA-TAATATACAA
*
947381 TTAATATTAATATTAATTATAATATATAA
1 TTAATA-TAATATTAATTATAATATACAA
*
947410 -TAATTATTTTTATATTAATTATAATATACAA
1 TTAA-TA---TAATATTAATTATAATATACAA
* *
947441 TTATTATAATATTAATTATAA-ATACTCTA
1 TTAATATAATATTAATTATAATATA--CAA
947470 TTAATATAA-ATTA
1 TTAATATAATATTA
947483 TATAATGCGG
Statistics
Matches: 87, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
27 23 0.26
28 25 0.29
29 14 0.16
31 23 0.26
32 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAATATAATATTAATTATAATATACAA
Found at i:947666 original size:100 final size:101
Alignment explanation
Indices: 947475--947676 Score: 282
Period size: 100 Copynumber: 2.0 Consensus size: 101
947465 CTCTATTAAT
* * * * *
947475 ATAAATTATATAATGCGGTGACGCCAAATAACCAAACAAAAATTGTCATTTCCCTCCTATTTTTT
1 ATAAACTATATAAGGCGGTAACGCCAAATAACCAAACAAAAATTATCATTTCCCTCATATTTTTT
* * *
947540 ATTTTTCTTTTGCTCTTAATTGTTTTC-CTCTCCAA
66 ATTTTTCTTCTACTATTAATTGTTTTCTCTCTCCAA
* *
947575 ATAAACTATATAAGGCGGTAACGCCAAATAACCAAACCATAATTATCATTTCCCTCATA-TTTTT
1 ATAAACTATATAAGGCGGTAACGCCAAATAACCAAACAAAAATTATCATTTCCCTCATATTTTTT
*
947639 CTTTTTCTTCTACTATTAATTGTTTTTCTCTCTCCAA
66 ATTTTTCTTCTACTATTAATTG-TTTTCTCTCTCCAA
947676 A
1 A
947677 CAACCCATCG
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 23 0.26
100 57 0.64
101 9 0.10
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (101 bp):
ATAAACTATATAAGGCGGTAACGCCAAATAACCAAACAAAAATTATCATTTCCCTCATATTTTTT
ATTTTTCTTCTACTATTAATTGTTTTCTCTCTCCAA
Found at i:950197 original size:14 final size:14
Alignment explanation
Indices: 950178--950224 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
950168 ATTTTTTCTT
950178 TATATAAATTAAAC
1 TATATAAATTAAAC
950192 TATAT-AATT----
1 TATATAAATTAAAC
950201 TATATAAATTAAAC
1 TATATAAATTAAAC
*
950215 TATATTAATT
1 TATATAAATT
950225 TTCCTTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:950202 original size:23 final size:24
Alignment explanation
Indices: 950176--950225 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
950166 TTATTTTTTC
950176 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
950199 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
950223 TTT
1 TTT
950226 TCCTTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:950261 original size:28 final size:24
Alignment explanation
Indices: 950229--950304 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 24
950219 TTAATTTTCC
*
950229 TTTACATTATTAATAATGTTTTATCTAA
1 TTTACATT-TAAATAA--TTTTAT-TAA
950257 TTTACATTTAAATAATTTTATTAA
1 TTTACATTTAAATAATTTTATTAA
*
950281 TTT-TA-TTAAATAATTTTATATAA
1 TTTACATTTAAATAATTTTAT-TAA
950304 T
1 T
950305 AGGTCTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.31
23 5 0.11
24 6 0.13
25 6 0.13
27 6 0.13
28 8 0.18
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTACATTTAAATAATTTTATTAA
Found at i:950344 original size:29 final size:29
Alignment explanation
Indices: 950280--950347 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
950270 AATTTTATTA
* **
950280 ATTTTATTAAATAATTTTATATAATAGGT
1 ATTTTATTAAATAATTATATATAATAAAT
*
950309 CTATTTATTAATATAATTATA-ATAATAAAT
1 AT-TTTATTAA-ATAATTATATATAATAAAT
950339 ATTTTATTA
1 ATTTTATTA
950348 TAACATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 8 0.25
30 16 0.50
31 8 0.25
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTTATTAAATAATTATATATAATAAAT
Found at i:950484 original size:16 final size:16
Alignment explanation
Indices: 950463--950498 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
950453 AGGTATCAGA
950463 TCAGATCATTAACAAG
1 TCAGATCATTAACAAG
*
950479 TCAGATCATTTACAAG
1 TCAGATCATTAACAAG
950495 TCAG
1 TCAG
950499 GTTAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (16 bp):
TCAGATCATTAACAAG
Found at i:950513 original size:16 final size:16
Alignment explanation
Indices: 950494--950607 Score: 158
Period size: 16 Copynumber: 7.2 Consensus size: 16
950484 TCATTTACAA
950494 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
*
950510 GTCAGGTTAAAAACAA
1 GTCAGGTTAAAAACAG
* *
950526 ATCAGGTTAAAAATAG
1 GTCAGGTTAAAAACAG
*
950542 GTCAGGTTAAAAACAT
1 GTCAGGTTAAAAACAG
950558 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
* *
950574 GTCAGGTTCATAACAG
1 GTCAGGTTAAAAACAG
*
950590 GTCAGGTT-GAAACAG
1 GTCAGGTTAAAAACAG
950605 GTC
1 GTC
950608 GGGTAATACC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
15 8 0.09
16 78 0.91
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (16 bp):
GTCAGGTTAAAAACAG
Found at i:952344 original size:23 final size:24
Alignment explanation
Indices: 952316--952365 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
952306 ATTATTTTTT
952316 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
*
952339 TTTATATAAATTAGACTATATTAA
1 TTTATATAAATTAAACTATATTAA
952363 TTT
1 TTT
952366 TCCTTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:952400 original size:28 final size:24
Alignment explanation
Indices: 952369--952444 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 24
952359 TTAATTTTCC
*
952369 TTTACATTATTAATAATGTTTTATCTAA
1 TTTACATT-TAAATAA--TTTTAT-TAA
952397 TTTACATTTAAATAATTTTATTAA
1 TTTACATTTAAATAATTTTATTAA
*
952421 TTT-TA-TTAAATAATTTTATATAA
1 TTTACATTTAAATAATTTTAT-TAA
952444 T
1 T
952445 AGGTCTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.31
23 5 0.11
24 6 0.13
25 6 0.13
27 6 0.13
28 8 0.18
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTACATTTAAATAATTTTATTAA
Found at i:952484 original size:29 final size:29
Alignment explanation
Indices: 952420--952487 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
952410 AATTTTATTA
* **
952420 ATTTTATTAAATAATTTTATATAATAGGT
1 ATTTTATTAAATAATTATATATAATAAAT
*
952449 CTATTTATTAATATAATTATA-ATAATAAAT
1 AT-TTTATTAA-ATAATTATATATAATAAAT
952479 ATTTTATTA
1 ATTTTATTA
952488 TAACATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 8 0.25
30 16 0.50
31 8 0.25
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTTATTAAATAATTATATATAATAAAT
Found at i:952624 original size:16 final size:16
Alignment explanation
Indices: 952603--952638 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
952593 AGGTATCAGA
952603 TCAGATCATTAACAAG
1 TCAGATCATTAACAAG
*
952619 TCAGATCATTTACAAG
1 TCAGATCATTAACAAG
952635 TCAG
1 TCAG
952639 GTTAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (16 bp):
TCAGATCATTAACAAG
Found at i:952653 original size:16 final size:16
Alignment explanation
Indices: 952634--952746 Score: 158
Period size: 16 Copynumber: 7.2 Consensus size: 16
952624 TCATTTACAA
952634 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
*
952650 GTCAGGTTAAAAACAA
1 GTCAGGTTAAAAACAG
*
952666 ATCAGGTT-AAAACAG
1 GTCAGGTTAAAAACAG
952681 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
952697 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
* * *
952713 GTCAGTTTCATAACAG
1 GTCAGGTTAAAAACAG
*
952729 GTCAGGTT-GAAACAG
1 GTCAGGTTAAAAACAG
952744 GTC
1 GTC
952747 GGGTAATACC
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
15 21 0.24
16 65 0.76
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (16 bp):
GTCAGGTTAAAAACAG
Found at i:952688 original size:47 final size:48
Alignment explanation
Indices: 952634--952746 Score: 167
Period size: 47 Copynumber: 2.4 Consensus size: 48
952624 TCATTTACAA
952634 GTCAGGTTAAAAACAGGTCAGGTTAAAAACAAATCAGGTT-AAAACAG
1 GTCAGGTTAAAAACAGGTCAGGTTAAAAACAAATCAGGTTCAAAACAG
** * *
952681 GTCAGGTTAAAAACAGGTCAGGTTAAAAACAGGTCAGTTTCATAACAG
1 GTCAGGTTAAAAACAGGTCAGGTTAAAAACAAATCAGGTTCAAAACAG
*
952729 GTCAGGTT-GAAACAGGTC
1 GTCAGGTTAAAAACAGGTC
952747 GGGTAATACC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 46 0.77
48 14 0.23
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (48 bp):
GTCAGGTTAAAAACAGGTCAGGTTAAAAACAAATCAGGTTCAAAACAG
Found at i:955254 original size:45 final size:45
Alignment explanation
Indices: 954904--955243 Score: 527
Period size: 45 Copynumber: 7.6 Consensus size: 45
954894 ACCATTATGA
* * * *
954904 ATTTCAATCATGGCATCATTTCATGCCGATAATACAATATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
*
954949 ATTTCATTTATGGCATCCTTTCATGCCGATATTACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
954994 ATTTCATTTATGACATCCTTTCATGTCGATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * *
955039 ATTTCATTTATGGCATCCATTCATGTCGATATTACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
955084 ATTTGATTTATGGCATCCTTTCATGCCGATATTACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * *
955129 ATTTCATTTATGGAATCCTTTCATGCCGATAATATACTATCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
*
955174 ATTTCATTTATGACATCCTTTCATGCCGATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
*
955219 ATTTCATTTATGTCATCCTTTCATG
1 ATTTCATTTATGGCATCCTTTCATG
955244 TCGTTTATAC
Statistics
Matches: 271, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 271 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
Found at i:955395 original size:81 final size:80
Alignment explanation
Indices: 955280--955515 Score: 382
Period size: 81 Copynumber: 2.9 Consensus size: 80
955270 ATACATCTAG
* * * *
955280 TCTTTTACTCAAAGGTATTTAATCTTTCATCTAACTAGCATGATTGACACCTTTTTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTCTGTCAAATGC
*
955345 ACAGTTAGGCCATTAA
65 ACAGCTAGGCCATTAA
955361 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-CATAATTGACACCTTTCTGTCAAATGC
955426 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* *
955442 TATTTTACTTAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTCTGTCAAATGC
955507 ACAGCTAGG
65 ACAGCTAGG
955516 TCTCAAAGTC
Statistics
Matches: 146, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
80 1 0.01
81 144 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCA
CAGCTAGGCCATTAA
Found at i:955607 original size:26 final size:26
Alignment explanation
Indices: 955571--955622 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
955561 TTTCTATCAA
955571 TGCACAGTTAGGCTTCAAAGGCACTT
1 TGCACAGTTAGGCTTCAAAGGCACTT
955597 TGCACAGTTAGGCTTCAAAGGCACTT
1 TGCACAGTTAGGCTTCAAAGGCACTT
955623 AGCCTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
TGCACAGTTAGGCTTCAAAGGCACTT
Found at i:955664 original size:93 final size:92
Alignment explanation
Indices: 955504--955688 Score: 282
Period size: 93 Copynumber: 2.0 Consensus size: 92
955494 TTCTGTCAAA
* * *
955504 TGCACAGCTAGGTCTCAAAGTCACTTAGCCTTTCATCTAACTGGCATGATTGACACATTTCTATC
1 TGCACAGCTAGGTCTCAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACACATTTCTATC
*
955569 AATGCACAGTTAGGCTTCAAAGGCACTT
66 AATGCA-AGTTAGGCCTCAAAGGCACTT
* * *
955597 TGCACAGTTAGG-CTTCAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACACCTTTCTGT
1 TGCACAGCTAGGTC-TCAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACACATTTCTAT
955661 CAATGCAAGTTAGGCCTCAAAGGCACTT
65 CAATGCAAGTTAGGCCTCAAAGGCACTT
955689 AGCCTTTCAT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
92 21 0.25
93 63 0.75
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (92 bp):
TGCACAGCTAGGTCTCAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACACATTTCTATC
AATGCAAGTTAGGCCTCAAAGGCACTT
Found at i:955708 original size:66 final size:67
Alignment explanation
Indices: 955597--955811 Score: 369
Period size: 67 Copynumber: 3.2 Consensus size: 67
955587 AAAGGCACTT
* *
955597 TGCACAGTTAGGCTTCAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACACCTTTCTGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
955662 AA
66 AA
*
955664 TGCA-AGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
955728 AA
66 AA
* *
955730 TGCAAAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
955795 AT
66 AA
955797 TGCACAGTTAGGCCT
1 TGCACAGTTAGGCCT
955812 TTAATCTTTT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
66 63 0.45
67 77 0.55
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (67 bp):
TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
AA
Found at i:956057 original size:56 final size:56
Alignment explanation
Indices: 955985--956174 Score: 224
Period size: 57 Copynumber: 3.4 Consensus size: 56
955975 AAATTCATAT
* * *
955985 AATTTCTTAA-TTTTTGCACATAAAGTTCTTATACGGAAATTCATAAAC-AATTATG
1 AATTTCTTAACTTTTTGCACATAAAGTAC-CATAAGGAAATTCATAAACAAATTATG
* * *
956040 AATTCCTTAACTTTTTGCACACT-CAGTGCCCATAAGGAAATTCATAAACAAATTATG
1 AATTTCTTAACTTTTTGCACA-TAAAGT-ACCATAAGGAAATTCATAAACAAATTATG
* * * *
956097 AATTTATTATCTTTTTGCACATAAAGTGACCATATGGAAATTCATAAACAAATTATT
1 AATTTCTTAACTTTTTGCACATAAAGT-ACCATAAGGAAATTCATAAACAAATTATG
*
956154 AATTTCTTATCTTTTTGCACA
1 AATTTCTTAACTTTTTGCACA
956175 CTCAATGCCA
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
55 9 0.08
56 31 0.26
57 77 0.66
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (56 bp):
AATTTCTTAACTTTTTGCACATAAAGTACCATAAGGAAATTCATAAACAAATTATG
Found at i:956116 original size:57 final size:57
Alignment explanation
Indices: 956019--956183 Score: 235
Period size: 57 Copynumber: 2.9 Consensus size: 57
956009 GTTCTTATAC
* *
956019 GGAAATTCATAAAC-AATTATGAATTCCTTAACTTTTTGCACACTCAGTGCCCATAA
1 GGAAATTCATAAACAAATTATGAATTTCTTATCTTTTTGCACACTCAGTGCCCATAA
* * * *
956075 GGAAATTCATAAACAAATTATGAATTTATTATCTTTTTGCACA-TAAAGTGACCATAT
1 GGAAATTCATAAACAAATTATGAATTTCTTATCTTTTTGCACACT-CAGTGCCCATAA
* *
956132 GGAAATTCATAAACAAATTATTAATTTCTTATCTTTTTGCACACTCAATGCC
1 GGAAATTCATAAACAAATTATGAATTTCTTATCTTTTTGCACACTCAGTGCC
956184 ATTATGTAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 15 0.16
57 79 0.83
58 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (57 bp):
GGAAATTCATAAACAAATTATGAATTTCTTATCTTTTTGCACACTCAGTGCCCATAA
Found at i:959697 original size:45 final size:45
Alignment explanation
Indices: 959655--960092 Score: 606
Period size: 45 Copynumber: 9.7 Consensus size: 45
959645 ACCATTATGT
* * *
959655 ATTTCAATCATGGCATCCTTTCATGTCGATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
959700 ATTTCATTTATGTCATCCTTTCATGCCAATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * * * *
959745 ATTTCATTTATCGCATCCTATCATGTCGATATTACACTATTATAT
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
959790 ATTTCATTTATGACATCCTTTCATGCCGATAATGCACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * *
959835 ATTTCATTTATGGCATCATTTCATGTCGATAATAAACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
959880 ATTTCATTTATGGCATCATTTCATGCCGATATTACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * *
959925 ATTTCATTTATGGCGTCCTTTCAGGCCGATATTACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * *
959970 ATTTCATTTATGACATCCTTTTATGCCAATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* *
960015 ATTTCATTTATTGCATTCTTTCATGCCGATAATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
* * * * *
960060 ATATAATTTATGGCATCTTTTCAGGCCAATAAT
1 ATTTCATTTATGGCATCCTTTCATGCCGATAAT
960093 GTTAGAGTAT
Statistics
Matches: 345, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 345 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCGATAATACACTATTATAC
Found at i:961279 original size:90 final size:90
Alignment explanation
Indices: 961095--961271 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
961085 TAATCTCGAA
* * *
961095 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATAGGAT
*
961160 TAGGGTAACTTGGATATAAAATGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
961185 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CTCTAATAGGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATAGGAT
*
961249 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
961272 GTGTATTAGG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 31 0.38
90 50 0.62
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATAGGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:962021 original size:2 final size:2
Alignment explanation
Indices: 962014--962053 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
962004 TAAGAACGTG
962014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
962054 GTTTGTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:968597 original size:81 final size:80
Alignment explanation
Indices: 968499--968733 Score: 359
Period size: 81 Copynumber: 3.0 Consensus size: 80
968489 TGTTATACAC
* * *
968499 TAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACCGGCATGATTGACACCTTTTTGTCAAA
1 TAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA-CGGCATAATTGACACCTTTATGTCAAA
968564 TGCACAGCTAGGCCAT
65 TGCACAGCTAGGCCAT
* * *
968580 TAATCTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAATTAACACATTTATGTCAAA
1 TAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-GGCATAATTGACACCTTTATGTCAAA
968645 TGCACAGCTAGGCCAT
65 TGCACAGCTAGGCCAT
*
968661 TAATCTTTTACTCAAAGGTATTTAACCTTTCATCT---GGCATAATTGACACCTTTCTGTCAAAT
1 TAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACGGCATAATTGACACCTTTATGTCAAAT
*
968723 GCACAACTAGG
66 GCACAGCTAGG
968734 TCTCAAAGGC
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
77 34 0.24
80 1 0.01
81 107 0.75
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (80 bp):
TAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACGGCATAATTGACACCTTTATGTCAAAT
GCACAGCTAGGCCAT
Found at i:968822 original size:67 final size:67
Alignment explanation
Indices: 968694--969070 Score: 567
Period size: 67 Copynumber: 5.6 Consensus size: 67
968684 AACCTTTCAT
** * *
968694 CTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGTCTCAAAGGCACTTAGCCTTTCATA
1 CTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATC
968759 TAA
65 TAA
* * * *
968762 CTGGCATAATTGACACCTTTCTGTAAATGGACAGTTAGGCCTCAAAGTCACTTAACCTTTCATCT
1 CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
968827 AA
66 AA
* * * * *
968829 CTGGCATAATTGTCACCTTTGTGTCAATGCACAGTTAGTCCTCAAAGTCGCTTAGCCTTTCATCT
1 CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
968894 AA
66 AA
* *
968896 -TTGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCT
1 CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
968960 AA
66 AA
* *
968962 CTGGCATAATTGATACCTTTCTTTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
1 CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
969027 AA
66 AA
* *
969029 CTAGCATAATTGACATCTTTCTGTCAATGCACAGTTAGGCCT
1 CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCT
969071 TTAATCTTTT
Statistics
Matches: 279, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
66 60 0.22
67 195 0.70
68 24 0.09
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (67 bp):
CTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
AA
Found at i:968931 original size:133 final size:134
Alignment explanation
Indices: 968694--969070 Score: 562
Period size: 133 Copynumber: 2.8 Consensus size: 134
968684 AACCTTTCAT
* **
968694 CTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGT-CTCAAAGGCACTTAGCCTTTCAT
1 CTGGCATAATTGTCACCTTTCTGTC-AATGCACAGTTA-GTCCTCAAAGGCACTTAGCCTTTCAT
* * * * *
968758 ATAACTGGCATAATTGACACCTTTCTGTAAATGGACAGTTAGGCCTCAAAGTCACTTAACCTTTC
64 CTAACTAGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGACACTTAACCTTTC
968823 ATCTAA
129 ATCTAA
* * *
968829 CTGGCATAATTGTCACCTTTGTGTCAATGCACAGTTAGTCCTCAAAGTCGCTTAGCCTTTCATCT
1 CTGGCATAATTGTCACCTTTCTGTCAATGCACAGTTAGTCCTCAAAGGCACTTAGCCTTTCATCT
* *
968894 AA-TTGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCAT
66 AACTAGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGACACTTAACCTTTCAT
968958 CTAA
131 CTAA
* *
968962 CTGGCATAATTGAT-ACCTTTCTTTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATC
1 CTGGCATAATTG-TCACCTTTCTGTCAATGCACAGTTAGTCCTCAAAGGCACTTAGCCTTTCATC
*
969026 TAACTAGCATAATTGACATCTTTCTGTCAATGCACAGTTAGGCCT
65 TAACTAGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCT
969071 TTAATCTTTT
Statistics
Matches: 220, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
133 123 0.56
134 74 0.34
135 23 0.10
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (134 bp):
CTGGCATAATTGTCACCTTTCTGTCAATGCACAGTTAGTCCTCAAAGGCACTTAGCCTTTCATCT
AACTAGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGACACTTAACCTTTCAT
CTAA
Done.