Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 9 of 216
Found at i:3014696 original size:24 final size:24
Alignment explanation
Indices: 3014664--3014741 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
3014654 ATGGTACAAT
*
3014664 ATTCGGCCCAGCATTAAACTGAAC
1 ATTCGGCCCAGCATTAAATTGAAC
**
3014688 ATTCGGCCCATG-AGAAGAATGTTGAAC
1 ATTCGGCCCA-GCATTA-AA--TTGAAC
*
3014715 ATTCGGCCCATCATTAAATTGAAC
1 ATTCGGCCCAGCATTAAATTGAAC
3014739 ATT
1 ATT
3014742 TAGTCCATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 21 0.49
25 3 0.07
26 2 0.05
27 17 0.40
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (24 bp):
ATTCGGCCCAGCATTAAATTGAAC
Found at i:3016932 original size:16 final size:13
Alignment explanation
Indices: 3016898--3016944 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
3016888 AGAATAATAA
*
3016898 TGATGATGATGTT
1 TGATGATGATATT
*
3016911 ATGATGCATGAT-TA
1 -TGATG-ATGATATT
3016925 TGATGATGATATT
1 TGATGATGATATT
3016938 TGATGAT
1 TGATGAT
3016945 AAAATAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 6 0.21
15 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (13 bp):
TGATGATGATATT
Found at i:3019055 original size:21 final size:21
Alignment explanation
Indices: 3019030--3019079 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3019020 CTACAACTTA
*
3019030 AAGCAGAGGCTA-CTGCGAGGG
1 AAGCAGAGG-TAGCAGCGAGGG
* *
3019051 AAGCAAAGGTAGCAGTGAGGG
1 AAGCAGAGGTAGCAGCGAGGG
3019072 AAGCAGAG
1 AAGCAGAG
3019080 TAGAGCAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.36, C:0.14, G:0.42, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGTAGCAGCGAGGG
Found at i:3021478 original size:17 final size:19
Alignment explanation
Indices: 3021453--3021487 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3021443 TGAAAATCAA
3021453 ATAATTTTTAAAA-ATTGC
1 ATAATTTTTAAAATATTGC
3021471 ATAA-TTTTAAAATATTG
1 ATAATTTTTAAAATATTG
3021488 GTGTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (19 bp):
ATAATTTTTAAAATATTGC
Found at i:3022778 original size:18 final size:18
Alignment explanation
Indices: 3022752--3022814 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
3022742 ATTAATTACT
*
3022752 TATATTAAAAATATATAA
1 TATAATAAAAATATATAA
3022770 TATAAT-AAAATACTA-AA
1 TATAATAAAAATA-TATAA
* * *
3022787 AATAAAAAAAATTGTATAA
1 TATAATAAAAA-TATATAA
3022806 T-TAATAAAA
1 TATAATAAAA
3022815 TGAATGAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 12 0.34
18 20 0.57
19 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAATAAAAATATATAA
Found at i:3028657 original size:20 final size:20
Alignment explanation
Indices: 3028628--3028668 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3028618 ATATTTTAGA
3028628 TATTTCTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
*
3028648 TATTTGTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
3028668 T
1 T
3028669 TCTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TATTTCTTAAATTCATTAAG
Found at i:3028868 original size:10 final size:10
Alignment explanation
Indices: 3028853--3028877 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3028843 ATGATGGCTT
3028853 TTTTTTTTTC
1 TTTTTTTTTC
3028863 TTTTTTTTTC
1 TTTTTTTTTC
3028873 TTTTT
1 TTTTT
3028878 GCTATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3029329 original size:41 final size:40
Alignment explanation
Indices: 3029249--3029329 Score: 90
Period size: 41 Copynumber: 2.0 Consensus size: 40
3029239 AACTAAATTT
* * *
3029249 TCAAAATCAAAACCTAAAATGTGCAAGAATAAAAGCAAAA
1 TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
* * * *
3029289 TCAAAATCAAAGAAGTAAAATTTCCATGAATGAAACCAAAA
1 TCAAAATCAAA-AACTAAAATGTCCAAGAATAAAACCAAAA
3029330 ATGAAGACCT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (40 bp):
TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
Found at i:3033307 original size:461 final size:460
Alignment explanation
Indices: 3032589--3033506 Score: 1017
Period size: 475 Copynumber: 2.0 Consensus size: 460
3032579 TTTTAATAGT
* *
3032589 ATAAAACATAAAAAAACATATTAGAGTTACATAAATCACATTTTTTTGCCAAAAATAAATAAATA
1 ATAAAACATAAAAAAACACATTAGAGTTACATAAATCACATTTTTTGGCCAAAAATAAATAAATA
* *
3032654 TGAATTTTGAATAATTTAAAAAAATCTTCAATTTTATGAAATTTAAACATACATTTAGAGGTGCT
66 TCAATTTTGAATAATTTAAAAAAAACTTCAATTTTATGAAATTTAAACATACATTTAGAGGTGCT
3032719 TAAACTTCCATCGCAAACTTTTTATAAATTTCAAAATGCACATGTTATTAACATATGTCTACATA
131 TAAACTTCCATCGCAAACTTTTTATAAATTTCAAAATGCACATGTTATTAACATATGTCT--ATA
* * * * * * *
3032784 CTCTTTATAAATTTGTAATTTAATTCTTATACTTTTATTTTTAGGAATTTAGTCCCTCTA-TTT-
194 CTCTTAAAAAATGTGTAATCTAACTCTTATACTTTTATATTT--GAATTTAGTACCTCTATTTTC
3032847 T-AA-A-AAAAAAATTCAAAATCCAAGTTCAATAGTTAAAATTGTTAATTTTTTTTAAAAATAA-
257 TCAATATAAAAAAATTCAAAATCCAAGTTCAATAGTTAAAATTGTT-A--TTTTTTAAAAATAAT
*
3032908 TTAGTTGGTG-TGACATTTTGAAATAAAAAAACTTTGGTAGCAATGTAACTAAAAAATGACATAA
319 TTA-TTGGTGTTGACATTTTGAAATAAAAAAACCTTGGTAGCAATGTAACTAAAAAATGACATAA
* *
3032972 TGAAAATGGATTTAATAAAACAATTTTAACAGTATTAATAATTAGACTTGAATTTTGAAATTGAG
383 TGAAAATGGATTTAATAAAACAATTTCAACAGTATTAATAATTAGACCTGAATTTTGAAATTGAG
3033037 TAAAATAAATGGC
448 TAAAATAAATGGC
* * **
3033050 ATAAAACATAAAAATACACGTTAGAGTTA-ATTAAATGGCATTTTTTGGCCAAAAATAAATAAAT
1 ATAAAACATAAAAAAACACATTAGAGTTACA-TAAATCACATTTTTTGGCCAAAAATAAATAAAT
* *
3033114 GTCAATTTTGAATAATTTAAAAAAAAAACTTCAATTTTATGAAATTTAAACATACATTTTGAGGT
65 ATCAATTTTGAATAATTT--AAAAAAAACTTCAATTTTATGAAATTTAAACATACATTTAGAGGT
* ***
3033179 GCTTAAAAATTTTTTTC-CAAACTTTTTATAAATTTCAAAATGCACATGTTATTAAC-T-T-T-T
128 GCTT--AAACTTCCATCGCAAACTTTTTATAAATTTCAAAATGCACATGTTATTAACATATGTCT
** * *
3033239 -TGGT-TTAAAAAATGTGATAGGTCTACGTACTCTT-TACGAATTTGTA-ATTT-AATTCTTGTA
191 ATACTCTTAAAAAATGTG-TA-ATCTA---ACTCTTATAC---TTT-TATATTTGAATT-TAGTA
** *** * * *
3033299 TTTCTATTTTCGTCAATTTCCCTCTATTTTTTAAAATTTAAAATCCAAGTTCAATTGTTAACATT
246 CCTCTATTTTC-TCAA--------TA--TAAAAAAATTCAAAATCCAAGTTCAATAGTTAAAATT
*
3033364 GTTATTTTTTAAAATTAATTTATTGGTGTTGACATTTTGAAATAAAAAAACCTTGGTAGCAATGT
300 GTTATTTTTTAAAAATAATTTATTGGTGTTGACATTTTGAAATAAAAAAACCTTGGTAGCAATGT
* * * * * *
3033429 AACTAAAAGATGACGTAATGAACATGGATTTAATAAAATAATTTCAATAGTATTAATAGTTAGAC
365 AACTAAAAAATGACATAATGAAAATGGATTTAATAAAACAATTTCAACAGTATTAATAATTAGAC
3033494 CTGAATTTTGAAA
430 CTGAATTTTGAAA
3033507 ATTTATTTTT
Statistics
Matches: 381, Mismatches: 43, Indels: 52
0.80 0.09 0.11
Matches are distributed among these distances:
456 9 0.02
457 4 0.01
458 3 0.01
460 9 0.02
461 85 0.22
462 4 0.01
463 54 0.14
464 42 0.11
465 9 0.02
474 20 0.05
475 108 0.28
476 1 0.00
477 33 0.09
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (460 bp):
ATAAAACATAAAAAAACACATTAGAGTTACATAAATCACATTTTTTGGCCAAAAATAAATAAATA
TCAATTTTGAATAATTTAAAAAAAACTTCAATTTTATGAAATTTAAACATACATTTAGAGGTGCT
TAAACTTCCATCGCAAACTTTTTATAAATTTCAAAATGCACATGTTATTAACATATGTCTATACT
CTTAAAAAATGTGTAATCTAACTCTTATACTTTTATATTTGAATTTAGTACCTCTATTTTCTCAA
TATAAAAAAATTCAAAATCCAAGTTCAATAGTTAAAATTGTTATTTTTTAAAAATAATTTATTGG
TGTTGACATTTTGAAATAAAAAAACCTTGGTAGCAATGTAACTAAAAAATGACATAATGAAAATG
GATTTAATAAAACAATTTCAACAGTATTAATAATTAGACCTGAATTTTGAAATTGAGTAAAATAA
ATGGC
Found at i:3034021 original size:14 final size:14
Alignment explanation
Indices: 3034002--3034043 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
3033992 TGGTATAATA
3034002 AAATATTAAAAAAG
1 AAATATTAAAAAAG
*
3034016 AAATATT-TAAAAG
1 AAATATTAAAAAAG
3034029 AAATAGGTTAAAAAA
1 AAATA--TTAAAAAA
3034044 CTCCATTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.43
14 7 0.30
15 2 0.09
16 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (14 bp):
AAATATTAAAAAAG
Found at i:3038448 original size:12 final size:11
Alignment explanation
Indices: 3038420--3038475 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
3038410 TTAATTTGTT
3038420 TTTTTAGTT-TA
1 TTTTTA-TTATA
3038431 TTTTTATTATA
1 TTTTTATTATA
3038442 TTGTTTATTATTA
1 TT-TTTATTA-TA
**
3038455 TAATTATTATA
1 TTTTTATTATA
*
3038466 TTATTATTAT
1 TTTTTATTAT
3038476 TGTATTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 21 0.54
12 13 0.33
13 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (11 bp):
TTTTTATTATA
Found at i:3038515 original size:16 final size:16
Alignment explanation
Indices: 3038496--3038526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3038486 TGTGTGCGCC
*
3038496 TATATATATATATTAA
1 TATACATATATATTAA
3038512 TATACATATATATTA
1 TATACATATATATTA
3038527 TAAATGTTTT
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATACATATATATTAA
Found at i:3040790 original size:19 final size:19
Alignment explanation
Indices: 3040766--3040808 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3040756 TTTGGGTTAA
3040766 AAGTGTTTTTACACTGCAG
1 AAGTGTTTTTACACTGCAG
*
3040785 AAGTGTTTTTCCACTGCAG
1 AAGTGTTTTTACACTGCAG
3040804 AAGTG
1 AAGTG
3040809 ACGAAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (19 bp):
AAGTGTTTTTACACTGCAG
Found at i:3040925 original size:27 final size:27
Alignment explanation
Indices: 3040894--3040959 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
3040884 ATACTCTTAG
* *
3040894 ATTAATTTATATTTTATATATTATTAT
1 ATTAATTTAAATCTTATATATTATTAT
*
3040921 ATTAATTGTTTAAATCTTATTTATTATTAT
1 ATTAA---TTTAAATCTTATATATTATTAT
3040951 ATTTAATTT
1 A-TTAATTT
3040960 TTTTCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.16
28 3 0.09
30 20 0.62
31 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
ATTAATTTAAATCTTATATATTATTAT
Found at i:3048941 original size:40 final size:40
Alignment explanation
Indices: 3048895--3049207 Score: 256
Period size: 40 Copynumber: 7.7 Consensus size: 40
3048885 GTTTTAGTCT
*
3048895 GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCT
1 GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCC
* * * *
3048935 ACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGT-TCTATCT
1 GCTCCACTACTGCTTAGGGAG-ATAAGA-CTG-GATGT-GATCC
* * * * * * *
3048977 GCTCCACTATTGCTTGGGGAGGTAAGACTTGAAGCGATCT
1 GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCC
* * *
3049017 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCC
1 GCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGATCC
** * *
3049059 GCTCTGCTACTGCTTAGGGAGATAAGACTTGATGCGATCC
1 GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCC
* * *
3049099 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCC
1 GCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGATCC
* * * **
3049141 GCTCCGCTACTACTTAGGGAGATAAGACTTGATACGATCC
1 GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCC
*
3049181 GCTCCACTATTGCTTAGGGAGATAAGA
1 GCTCCACTACTGCTTAGGGAGATAAGA
3049208 TCTGTGGTTT
Statistics
Matches: 215, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
39 9 0.04
40 108 0.50
41 10 0.05
42 80 0.37
43 8 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
GCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCC
Found at i:3049031 original size:82 final size:82
Alignment explanation
Indices: 3048869--3049218 Score: 461
Period size: 82 Copynumber: 4.3 Consensus size: 82
3048859 GCAACTCCAT
* * * * * *
3048869 GGAGATGAGATTTGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATC
1 GGAGATAAGATCTGTGGTTTTA-TCCGCTCCACTACTGCTTAGGGAGATAAGACTTGAAGCGATC
** *
3048934 TACTCCACTACTGCTTAG
65 CGCTCCACTATTGCTTAG
* * * * *
3048952 GG-GAATAAGATCTGTGGTTCTATCTGCTCCACTATTGCTTGGGGAGGTAAGACTTGAAGCGATC
1 GGAG-ATAAGATCTGTGGTTTTATCCGCTCCACTACTGCTTAGGGAGATAAGACTTGAAGCGATC
*
3049016 TGCTCCACTATTGCTTAG
65 CGCTCCACTATTGCTTAG
* ** *
3049034 GGAGATAAGATCTGTGGTTTTGTCCGCTCTGCTACTGCTTAGGGAGATAAGACTTGATGCGATCC
1 GGAGATAAGATCTGTGGTTTTATCCGCTCCACTACTGCTTAGGGAGATAAGACTTGAAGCGATCC
3049099 GCTCCACTATTGCTTAG
66 GCTCCACTATTGCTTAG
* * *
3049116 GGAGATAAGATCTGTGGTTTTGTCCGCTCCGCTACTACTTAGGGAGATAAGACTTGATA-CGATC
1 GGAGATAAGATCTGTGGTTTTATCCGCTCCACTACTGCTTAGGGAGATAAGACTTGA-AGCGATC
3049180 CGCTCCACTATTGCTTAG
65 CGCTCCACTATTGCTTAG
3049198 GGAGATAAGATCTGTGGTTTT
1 GGAGATAAGATCTGTGGTTTT
3049219 CACTCTATTC
Statistics
Matches: 240, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
82 222 0.93
83 18 0.08
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (82 bp):
GGAGATAAGATCTGTGGTTTTATCCGCTCCACTACTGCTTAGGGAGATAAGACTTGAAGCGATCC
GCTCCACTATTGCTTAG
Found at i:3049528 original size:44 final size:45
Alignment explanation
Indices: 3049323--3049888 Score: 501
Period size: 44 Copynumber: 12.8 Consensus size: 45
3049313 GCTTCGCTGC
* * * * * *
3049323 CCAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CACT-A
* * * *
3049369 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * *
3049412 CCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * *
3049457 CCAGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * *
3049500 TCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * *
3049544 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * *
3049589 CCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
** * *
3049632 CCAATATAGGAAGACCGGACCTGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * *
3049676 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* *
3049721 CCAA-ATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * *
3049763 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * * * * * *
3049807 CCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
* * *
3049852 CCAATATGGGAAGACAAGATCTGCAATCTTCAATCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
3049889 TTCCACTGCC
Statistics
Matches: 419, Mismatches: 88, Indels: 27
0.78 0.16 0.05
Matches are distributed among these distances:
42 6 0.01
43 76 0.18
44 213 0.51
45 115 0.27
46 9 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTA
Found at i:3049578 original size:132 final size:132
Alignment explanation
Indices: 3049387--3049882 Score: 805
Period size: 132 Copynumber: 3.8 Consensus size: 132
3049377 GGGACAAGAT
* * * *** *
3049387 CTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 CTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT
* * * * *
3049452 CACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAG
65 CGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
3049517 GAC
130 GAC
3049520 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* **
3049585 GCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
3049650 AC
131 AC
3049652 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
3049717 GCCACCAA-ATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
*
3049781 AT
131 AC
* *
3049783 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
3049848 GCCACCAATATGGGAAGACAAGATCTGCAATCTTC
66 GCCACCAATATGGGAAGACAAGATCTGC-ATCTTC
3049883 AATCTATTCC
Statistics
Matches: 340, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 125 0.37
132 188 0.55
133 27 0.08
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
AC
Found at i:3049930 original size:45 final size:46
Alignment explanation
Indices: 3049877--3050077 Score: 128
Period size: 45 Copynumber: 4.4 Consensus size: 46
3049867 AAGATCTGCA
3049877 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
* * * * * * * *
3049923 A-CTTCAATCTACTCCACTG--TAGTCACAGGGAGGTAAAATCT-GCC
1 ATCTTCAATCTATTCCACTGCCAAAT-ACAGGGAGATAGAGT-TATCG
* * * * ** * * *
3049967 ATCTTCGATCTGCTT-CGCTGCCAAATACAGGAAGGCA-AGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGATAGAGTTAT-CG
*
3050013 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
* * *
3050059 -GCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTG
3050078 TTGTCAGGGA
Statistics
Matches: 112, Mismatches: 33, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
43 2 0.02
44 15 0.13
45 49 0.44
46 40 0.36
47 6 0.05
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
Found at i:3050020 original size:136 final size:134
Alignment explanation
Indices: 3049860--3050154 Score: 484
Period size: 136 Copynumber: 2.2 Consensus size: 134
3049850 CACCAATATG
*
3049860 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGAC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGAC
3049925 TTCAATCTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
66 TTCAATCTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
3049990 AATACA
129 AATACA
* *
3049996 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGAC
* * *
3050061 TTCAATGTACTCCACTGTTGTCAGGGAGGTAAAATTTGCCATCTTCGATCTGCTTCGCTGCCAAA
66 TTCAATCTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
3050126 TACA
131 TACA
* *
3050130 GGAAAGAAAGATCTG-ATATCTTCAA
1 GGAAGGCAAGATCTGCA-ATCTTCAA
3050155 CCAGCTCTGC
Statistics
Matches: 150, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
133 1 0.01
134 68 0.45
136 81 0.54
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (134 bp):
GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGAC
TTCAATCTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
TACA
Found at i:3050034 original size:46 final size:46
Alignment explanation
Indices: 3049319--3050043 Score: 168
Period size: 44 Copynumber: 16.3 Consensus size: 46
3049309 ATCTGCTTCG
* * *
3049319 CTGCCCAATACAGGAAGGCAAGATCTGCAATCCTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* ** *
3049365 CTGTCAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
** * ** ** *
3049409 CCACC-AGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
** * ** * ** *
3049454 CCACC-AGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTCCTA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCC-A
* * * * * *
3049500 -T--C-AATATAGGAAGATAGGACCTGCTATCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
3049542 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* ** * * *
3049587 C-ACC-AATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTT-C-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * ** * * *
3049629 CTACC-AATATAGGAAGACCGGACCTGCTATCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
3049674 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* * * *
3049719 C-ACCAAAT--GGGAAGACAAGATCTGC-ATCTTCGATCCACTT-C-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * * * * * *
3049760 CTACC-AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * ** * *
3049805 C-GCC-AATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* **
3049850 C-ACC-AATATGGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* * * * * *
3049894 CTGCCAAATACAGGGAGATAGAGTTAT-CGA-CTTCAATCTACTCCA
1 CTGCCAAATACAGGAAGACA-AGATCTGCAATCTTCAATCTATTCCA
* * * ** * * * * *
3049939 CTG--TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAAT-ACAGGAAGACAAGATCTGCAATCTTCAATCT-ATTCCA
*
3049984 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
*
3050030 CTGCCAGATACAGG
1 CTGCCAAATACAGG
3050044 GAGATAGAGT
Statistics
Matches: 534, Mismatches: 110, Indels: 70
0.75 0.15 0.10
Matches are distributed among these distances:
41 5 0.01
42 6 0.01
43 76 0.14
44 220 0.41
45 149 0.28
46 72 0.13
47 6 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
Found at i:3050236 original size:86 final size:86
Alignment explanation
Indices: 3050102--3050451 Score: 556
Period size: 86 Copynumber: 4.1 Consensus size: 86
3050092 AAATTTGCCA
* * * * *
3050102 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGAAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
3050167 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
3050189 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
3050254 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
3050275 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
3050340 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
3050361 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
3050426 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
3050447 TCTTC
1 TCTTC
3050452 AATTTTTACT
Statistics
Matches: 247, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
86 227 0.92
87 20 0.08
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:3050311 original size:42 final size:42
Alignment explanation
Indices: 3050177--3050397 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
3050167 CAAACGAGAG
*
3050177 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
3050219 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
3050262 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
3050305 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
3050348 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
3050391 AGGCAAG
1 AGGCAAG
3050398 ATCTGATAAC
Statistics
Matches: 122, Mismatches: 37, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
41 24 0.20
42 33 0.27
43 16 0.13
44 25 0.20
45 24 0.20
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:3054595 original size:19 final size:20
Alignment explanation
Indices: 3054571--3054614 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
3054561 CGTGAAAGTC
* *
3054571 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
3054590 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
3054610 -AATGC
1 TAATGC
3054615 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:3062096 original size:34 final size:34
Alignment explanation
Indices: 3062057--3062127 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3062047 CTAAACTATG
3062057 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
1 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
3062091 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
1 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
3062125 TAA
1 TAA
3062128 GTGTTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (34 bp):
TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
Found at i:3062135 original size:29 final size:29
Alignment explanation
Indices: 3062064--3062138 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 29
3062054 ATGTAATGTG
*
3062064 AGTGCTTAAATTACAAAATTTTTACTTTA
1 AGTGTTTAAATTACAAAATTTTTACTTTA
3062093 ATGTGAGTGCTTAAATTACAAAATTTTTACTTTA
1 A-GT--GT--TTAAATTACAAAATTTTTACTTTA
3062127 AGTGTTTAAATT
1 AGTGTTTAAATT
3062139 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
29 8 0.20
30 2 0.05
31 2 0.05
32 1 0.03
33 2 0.05
34 25 0.62
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (29 bp):
AGTGTTTAAATTACAAAATTTTTACTTTA
Found at i:3062402 original size:18 final size:17
Alignment explanation
Indices: 3062358--3062402 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
3062348 TATAACATTT
3062358 AAAATTATATTTTTAAA
1 AAAATTATATTTTTAAA
*
3062375 ATACATTATATTTTTAAA
1 A-AAATTATATTTTTAAA
*
3062393 GAAAAATATA
1 -AAAATTATA
3062403 AGTTCAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTATATTTTTAAA
Found at i:3068495 original size:35 final size:34
Alignment explanation
Indices: 3068443--3068536 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
3068433 ACTGAAGACT
* *
3068443 TAAAATTTCCATTAATAAAACCAAAATCAAAGAAG
1 TAAATTTTCCATTAATAAAACCAAAAT-AAAGAAC
* * * *
3068478 TAAATTTTCCATGAATAAAACAAAAAATGAAGATC
1 TAAATTTTCCATTAATAAAAC-CAAAATAAAGAAC
*
3068513 TAAATTTTCCATTAATAAAGCCAA
1 TAAATTTTCCATTAATAAAACCAA
3068537 GTCAAGACTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.04
35 42 0.86
36 5 0.10
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (34 bp):
TAAATTTTCCATTAATAAAACCAAAATAAAGAAC
Found at i:3068952 original size:70 final size:68
Alignment explanation
Indices: 3068823--3068955 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 68
3068813 AACTAAATTT
* * * * *
3068823 TCAAAATCAAAACCTAAAATGTGCAAGAATAAAAGCAAACTGAAGACTTAAAATCTCCATTAAAA
1 TCAAAATCAAAAACTAAAATGTCCAAGAATAAAAGAAAAATGAAGACCTAAAATCTCCATTAAAA
3068888 AAA
66 AAA
* * * *
3068891 TCAAAATCAAAGAAGTAAAATTTCCATGAATAAAACGAAAAATGAAGACCTAAAATTTCCATTAA
1 TCAAAATCAAA-AACTAAAATGTCCAAGAATAAAA-GAAAAATGAAGACCTAAAATCTCCATTAA
3068956 TAAATCCAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 11 0.20
69 18 0.33
70 25 0.46
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (68 bp):
TCAAAATCAAAAACTAAAATGTCCAAGAATAAAAGAAAAATGAAGACCTAAAATCTCCATTAAAA
AAA
Found at i:3069712 original size:28 final size:28
Alignment explanation
Indices: 3069672--3069737 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
3069662 CAGCAAGTTG
3069672 GAGTTTTGCAATAAGGAATTTCCACCAA
1 GAGTTTTGCAATAAGGAATTTCCACCAA
* *
3069700 GAGTTTTGGAATAAGGAATTTCCTCCAA
1 GAGTTTTGCAATAAGGAATTTCCACCAA
*
3069728 GAATTTTGCA
1 GAGTTTTGCA
3069738 GGAATCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (28 bp):
GAGTTTTGCAATAAGGAATTTCCACCAA
Found at i:3074097 original size:21 final size:17
Alignment explanation
Indices: 3074065--3074108 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
3074055 TTATGAGATA
3074065 AAAAAATAATTATAACAAT
1 AAAAAATAATTAT-A-AAT
3074084 AAAAAATGATATTATAAAT
1 AAAAAAT-A-ATTATAAAT
3074103 AAAAAA
1 AAAAAA
3074109 CATTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.70
20 2 0.09
21 5 0.22
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAAATAATTATAAAT
Found at i:3074115 original size:19 final size:20
Alignment explanation
Indices: 3074062--3074115 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 20
3074052 TTTTTATGAG
*
3074062 ATAAAAAAATAATTATAACA
1 ATAAAAAAATTATTATAACA
3074082 AT-AAAAAATGATATTAT-A-A
1 ATAAAAAAAT--TATTATAACA
3074101 ATAAAAAACATTATT
1 ATAAAAAA-ATTATT
3074116 TATGAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 14 0.48
20 8 0.28
21 7 0.24
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAAAAAAATTATTATAACA
Found at i:3089541 original size:68 final size:69
Alignment explanation
Indices: 3089418--3089590 Score: 206
Period size: 68 Copynumber: 2.5 Consensus size: 69
3089408 CTTTCCAAGG
* **
3089418 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGCTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGCTATTTTTAATTTAT
3089482 -TTT
66 GTTT
** * * *
3089485 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGCTATTTTTAATTTA
3089550 TGTTT
65 TGTTT
* ** * *
3089555 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
3089591 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
68 55 0.61
69 32 0.36
70 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGCTATTTTTAATTTAT
GTTT
Found at i:3089867 original size:73 final size:72
Alignment explanation
Indices: 3089594--3091019 Score: 2390
Period size: 72 Copynumber: 19.7 Consensus size: 72
3089584 TAAGCCTTTT
3089594 AATTTTTGTTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTT-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3089659 GTAATTTC
65 GTAATTTC
3089667 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3089732 TAATTTC
66 TAATTTC
*
3089739 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3089804 TATTTTC
66 TAATTTC
*
3089811 AATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3089876 GTAATTTC
65 GTAATTTC
3089884 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3089949 TAATTTC
66 TAATTTC
*
3089956 AA-TTTTGTTTTCAAAATTCAACTCATATTCCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090020 TAATTTC
66 TAATTTC
*
3090027 AA-TTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3090091 TATTTTC
66 TAATTTC
*
3090098 AATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3090163 GTAATTTC
65 GTAATTTC
* *
3090171 AATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090236 TAATTTTC
66 TAA-TTTC
* *
3090244 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3090309 GTAATTTC
65 GTAATTTC
3090317 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090382 TAATTTC
66 TAATTTC
3090389 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090454 TAATTTC
66 TAATTTC
*
3090461 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090526 T-ATTTCC
66 TAATTT-C
3090533 AATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3090598 GTAATTTC
65 GTAATTTC
*
3090606 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3090671 TATTTTC
66 TAATTTC
* * * * *
3090678 AATTTCTGCTTCTCAAAATTCAATTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACGCTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
3090743 GTAATTTC
65 GTAATTTC
* * * * * * *
3090751 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATTAGTTGAGCCTCAGGACATGCT
1 AATTTTTGTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
3090816 GAGGTAATTTC
62 GAGGTAATTTC
*
3090827 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3090892 TATTTTC
66 TAATTTC
* *
3090899 AATTTCTGCTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
3090964 GTATTTTC
65 GTAATTTC
* * **
3090972 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAG
3091020 ACTTTTAATT
Statistics
Matches: 1289, Mismatches: 50, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
71 142 0.11
72 610 0.47
73 410 0.32
74 62 0.05
75 2 0.00
76 63 0.05
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:3089870 original size:145 final size:145
Alignment explanation
Indices: 3089594--3091019 Score: 2414
Period size: 145 Copynumber: 9.8 Consensus size: 145
3089584 TAAGCCTTTT
3089594 AATTTTTGTTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTT-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
3089659 GTAATTTCAATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
65 GTATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
3089723 ACGTTGAGGTAATTTC
130 ACGTTGAGGTAATTTC
*
3089739 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3089804 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
3089869 CGTTGAGGTAATTTC
131 CGTTGAGGTAATTTC
3089884 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
3089949 TAATTTCAA-TTTTG-TTTTCAAAATTCAACTCATATTCCGAGAAATGAGTTGAGCCTCAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
3090012 CGTTGAGGTAATTTC
131 CGTTGAGGTAATTTC
*
3090027 AA-TTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
3090091 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
3090156 CGTTAAGGTAATTTC
131 CGTTGAGGTAATTTC
* *
3090171 AATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
3090236 TAATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
66 T-ATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
3090301 ACGTTGAGGTAATTTC
130 ACGTTGAGGTAATTTC
3090317 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3090382 TAATTTCAATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
3090446 CGTTGAGGTAATTTC
131 CGTTGAGGTAATTTC
*
3090461 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
3090526 TATTTCCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
3090591 CGTTGAGGTAATTTC
131 CGTTGAGGTAATTTC
*
3090606 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* * * *
3090671 TATTTTCAATTTCTGCTTCTCAAAATTCAATTCATATTGCGAGAAATGAGTTGAGCTTCAAGACA
66 TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
3090736 CGCTGAGGTAATTTC
131 CGTTGAGGTAATTTC
* * * * * * *
3090751 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATTAGTTGAGCCTCAGGACATGCT
1 AATTTTTGTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
* *
3090816 GAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
62 GAGGTATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
3090880 GACACGTTGAGGTATTTTC
127 GACACGTTGAGGTAATTTC
* *
3090899 AATTTCTGCTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* * * **
3090964 GTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
65 GTATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAG
3091020 ACTTTTAATT
Statistics
Matches: 1213, Mismatches: 56, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
142 69 0.06
143 69 0.06
144 276 0.23
145 489 0.40
146 178 0.15
148 69 0.06
149 63 0.05
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (145 bp):
AATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCAATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
CGTTGAGGTAATTTC
Found at i:3091050 original size:54 final size:54
Alignment explanation
Indices: 3090967--3091394 Score: 633
Period size: 54 Copynumber: 8.0 Consensus size: 54
3090957 CGTTGAGGTA
* *
3090967 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGAC
1 TTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
3091022 TTTTAATTTCTATTTTTCTAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
3091076 --TT--TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
3091126 TTTTAATTTCTGA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
3091180 TTTTAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
3091234 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
3091288 --TT--TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGTGCC
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
3091338 TTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT--AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
3091393 TT
1 TT
3091395 GGCTCACGTG
Statistics
Matches: 340, Mismatches: 21, Indels: 24
0.88 0.05 0.06
Matches are distributed among these distances:
50 90 0.26
52 8 0.02
54 194 0.57
55 44 0.13
56 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:3091216 original size:212 final size:213
Alignment explanation
Indices: 3090967--3091394 Score: 752
Period size: 212 Copynumber: 2.0 Consensus size: 213
3090957 CGTTGAGGTA
3090967 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTTTTAATTTC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTTTTAATTTC
* *
3091032 TATTTTTCTAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTGTTTTTCAAAAATC
66 TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATC
* *
3091097 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTT-AATTTCTGATTTTCAAAAATCAACTCATATT
131 AACTCATATTGCGAGAGGTAAGTTGAGCCTTTTCAAATTCTG-TTTTCAAAAATCAACTCATATT
*
3091161 GCGAGAGGTGAGTTGAGCC
195 GCGAGAAGTGAGTTGAGCC
* *
3091180 TTTT-AATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTTTTAATTTC
3091244 TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATC
66 TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATC
*
3091309 AACTCATATTGCGAGAGGTAAGTTGTGCCTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATT
131 AACTCATATTGCGAGAGGTAAGTTGAGCCTTTT-CAAATTCTGTTTTCAAAAATCAACTCATATT
3091374 GCGAGAAGTGAGTTGAGCC
195 GCGAGAAGTGAGTTGAGCC
3091393 TT
1 TT
3091395 GGCTCACGTG
Statistics
Matches: 205, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
212 152 0.74
213 46 0.22
214 7 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (213 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTTTTAATTTC
TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAATC
AACTCATATTGCGAGAGGTAAGTTGAGCCTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTG
CGAGAAGTGAGTTGAGCC
Found at i:3091294 original size:158 final size:158
Alignment explanation
Indices: 3090973--3091394 Score: 631
Period size: 158 Copynumber: 2.7 Consensus size: 158
3090963 GGTATTTTCA
* * *
3090973 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTTTTAATTTCTATTTT
1 ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
* * * *
3091038 TCTAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TTTTTCTGTTTTTCAAAAATCAACT
66 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTTCTATTTTTCAAAAACCAACT
3091101 CATATTGCGAGAGGTGAGTTGAGCCTTTT
131 CATATTGCGAGAGGTGAGTTGAGCC-TTT
3091130 AATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTT
1 -ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTT
*
3091195 TTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCA
65 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--TTTCTATTTTTCAAAAACCA
3091260 ACTCATATTGCGAGAGGTGAGTTGAGCC-TT
128 ACTCATATTGCGAGAGGTGAGTTGAGCCTTT
* * *
3091290 -TTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGTGCCTTTTGCAAATTCTG-
1 ATTTCTGA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTGT
*
3091352 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
63 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
3091395 GGCTCACGTG
Statistics
Matches: 244, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
157 1 0.00
158 145 0.59
159 41 0.17
160 11 0.05
162 46 0.19
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (158 bp):
ATTTCTGATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTTCTATTTTTCAAAAACCAACT
CATATTGCGAGAGGTGAGTTGAGCCTTT
Found at i:3091728 original size:30 final size:30
Alignment explanation
Indices: 3091672--3091766 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
3091662 TAAAAATTGT
* *
3091672 ATTTTGACCCCTAAATTTTTC-CTAAATTTC
1 ATTTTGACCCCTAAA-ATTTCATTAAATTTC
** * *
3091702 ATTTTGACCTTTAAACTTTCTTTAAATTTC
1 ATTTTGACCCCTAAAATTTCATTAAATTTC
* *
3091732 ACTTAGACCCCTAAAATTTCATTAAATTTC
1 ATTTTGACCCCTAAAATTTCATTAAATTTC
3091762 ATTTT
1 ATTTT
3091767 AATCCTAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 4 0.08
30 48 0.92
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTTGACCCCTAAAATTTCATTAAATTTC
Found at i:3092187 original size:22 final size:22
Alignment explanation
Indices: 3092145--3092187 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3092135 AAAAAAGCAA
* *
3092145 GCAAAAAAGAAAAGGAGAAAGT
1 GCAAAAAAGAAAAAGAAAAAGT
*
3092167 GCAAAGAAGAAAAAGAAAAAG
1 GCAAAAAAGAAAAAGAAAAAG
3092188 GAAAAGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.05, G:0.26, T:0.02
Consensus pattern (22 bp):
GCAAAAAAGAAAAAGAAAAAGT
Found at i:3092326 original size:29 final size:29
Alignment explanation
Indices: 3092290--3092354 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
3092280 GATCGGGGAG
*
3092290 AAAG-AAAGGAAGAAAAAG-AAGAAGGAAA
1 AAAGAAAAGG-AGAAAAAGAAAGAAAGAAA
* * *
3092318 GAAGAAAAGGGGAAGAAGAAAGAAAGAAA
1 AAAGAAAAGGAGAAAAAGAAAGAAAGAAA
3092347 AAAGAAAA
1 AAAGAAAA
3092355 AAAACTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (29 bp):
AAAGAAAAGGAGAAAAAGAAAGAAAGAAA
Found at i:3092344 original size:11 final size:11
Alignment explanation
Indices: 3092288--3092353 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
3092278 CTGATCGGGG
3092288 AGAAAGAAAGGA
1 AGAAAGAAA-GA
3092300 AG-AA-AAAGA
1 AGAAAGAAAGA
*
3092309 AGAAGGAAAGA
1 AGAAAGAAAGA
*
3092320 AGAAAAGGGGAAGA
1 AG-AAA--GAAAGA
3092334 AGAAAGAAAGA
1 AGAAAGAAAGA
*
3092345 AAAAAGAAA
1 AGAAAGAAA
3092354 AAAAACTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 22 0.50
12 4 0.09
13 3 0.07
14 7 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGA
Found at i:3092811 original size:20 final size:20
Alignment explanation
Indices: 3092786--3092823 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3092776 AAAAATATTC
3092786 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
3092806 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
3092824 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:3093039 original size:16 final size:17
Alignment explanation
Indices: 3093018--3093053 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3093008 TTTCAAAAAC
*
3093018 AAATTTTC-TGTTTTAA
1 AAATTTTCGTGTTTCAA
3093034 AAATTTTCGTGTTTCAA
1 AAATTTTCGTGTTTCAA
3093051 AAA
1 AAA
3093054 GAAGAATCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:3093172 original size:16 final size:15
Alignment explanation
Indices: 3093124--3093177 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
3093114 TTTTTAAAAA
3093124 AAAAGTTTTGTGTTTCT
1 AAAA-TTTTGTGTTT-T
*
3093141 AAAATTCTTGTATTTT
1 AAAATT-TTGTGTTTT
3093157 AAAATTTTCGTGTTTT
1 AAAATTTT-GTGTTTT
3093173 CAAAA
1 -AAAA
3093178 AAGAAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 15 0.47
17 15 0.47
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.50
Consensus pattern (15 bp):
AAAATTTTGTGTTTT
Found at i:3094967 original size:25 final size:24
Alignment explanation
Indices: 3094897--3094978 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 24
3094887 TTAAATTATG
*
3094897 TTAAATTA-AAATATAAATACTAAATA
1 TTAAATTATAAATA-AAAT--TAATTA
* *
3094923 TTAAATT-TAAATATAGTTAATGTAA
1 TTAAATTATAAATAAAATTAAT-T-A
3094948 TTAAATTATAAA-AAAATTAATTA
1 TTAAATTATAAATAAAATTAATTA
3094971 TTAAATTA
1 TTAAATTA
3094979 CATTTAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 12 0.26
24 2 0.04
25 17 0.36
26 16 0.34
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAATTATAAATAAAATTAATTA
Found at i:3098850 original size:72 final size:72
Alignment explanation
Indices: 3098733--3098875 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
3098723 TAGATTTTAA
* * *
3098733 AAAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATCATTTAAA
1 AAAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAA
3098798 ACTTGAG
66 ACTTGAG
3098805 AAAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAA
1 AAAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAA
3098870 ACTTGA
66 ACTTGA
3098876 TAATTTTTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (72 bp):
AAAAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAA
ACTTGAG
Found at i:3101074 original size:20 final size:20
Alignment explanation
Indices: 3101045--3101085 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3101035 ATATTTTAGA
3101045 TATTTCTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
*
3101065 TATTTGTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
3101085 T
1 T
3101086 TCTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TATTTCTTAAATTCATTAAG
Found at i:3101746 original size:41 final size:40
Alignment explanation
Indices: 3101666--3101746 Score: 90
Period size: 41 Copynumber: 2.0 Consensus size: 40
3101656 AACTAAATTT
* * *
3101666 TCAAAATCAAAACCTAAAATGTGCAAGAATAAAAGCAAAA
1 TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
* * * *
3101706 TCAAAATCAAAGAAGTAAAATTTCCATGAATGAAACCAAAA
1 TCAAAATCAAA-AACTAAAATGTCCAAGAATAAAACCAAAA
3101747 ATGAAGACCT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (40 bp):
TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
Found at i:3105587 original size:8 final size:9
Alignment explanation
Indices: 3105561--3105590 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3105551 AATCCTAGTT
3105561 AAATTGTTA
1 AAATTGTTA
3105570 AAATTGTTA
1 AAATTGTTA
3105579 AAATT-TTA
1 AAATTGTTA
3105587 AAAT
1 AAAT
3105591 AGCTTGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (9 bp):
AAATTGTTA
Found at i:3111826 original size:24 final size:26
Alignment explanation
Indices: 3111773--3111825 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
3111763 AATAAATCTA
*
3111773 TTTATTTTTTTATTTTTAAAATATTT
1 TTTATTTTTATATTTTTAAAATATTT
3111799 TTTATTTTTAT-TTTTTAAAATATTT
1 TTTATTTTTATATTTTTAAAATATTT
3111824 TT
1 TT
3111826 AAAATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTATTTTTATATTTTTAAAATATTT
Found at i:3111836 original size:25 final size:25
Alignment explanation
Indices: 3111785--3111839 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
3111775 TATTTTTTTA
* ** **
3111785 TTTTTAAAATATTTTTTATTTTTAT
1 TTTTTAAAATATTTTTAAAATAAAT
3111810 TTTTTAAAATATTTTTAAAATAAAT
1 TTTTTAAAATATTTTTAAAATAAAT
3111835 TTTTT
1 TTTTT
3111840 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTTAAAATATTTTTAAAATAAAT
Found at i:3116319 original size:13 final size:12
Alignment explanation
Indices: 3116289--3116315 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3116279 TTTTATTTTT
3116289 AAATTATAAATA
1 AAATTATAAATA
3116301 AAATTATAAATA
1 AAATTATAAATA
3116313 AAA
1 AAA
3116316 ATTAGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTATAAATA
Found at i:3119573 original size:32 final size:32
Alignment explanation
Indices: 3119537--3119597 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
3119527 CTCAAGATTA
* *
3119537 TTTTTTGTTC-AATTAGGTATCTGAATTTGGTT
1 TTTTTTATTCAAATT-GGTACCTGAATTTGGTT
3119569 TTTTTTATTCAAATTGGTACCTGAATTTG
1 TTTTTTATTCAAATTGGTACCTGAATTTG
3119598 ATTTCATAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.54
Consensus pattern (32 bp):
TTTTTTATTCAAATTGGTACCTGAATTTGGTT
Found at i:3122063 original size:33 final size:34
Alignment explanation
Indices: 3122006--3122072 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
3121996 AACTTATGAA
* *
3122006 AAAAATATGGAATTGGAAGGTCTTTTTGGGTCTT
1 AAAAATATGGAATTGGAAGCTCTTTTTGAGTCTT
*
3122040 AAAATTATGGAATTGG-AGCTCTTTTTGAGTCTT
1 AAAAATATGGAATTGGAAGCTCTTTTTGAGTCTT
3122073 TCTCCATCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.40
Consensus pattern (34 bp):
AAAAATATGGAATTGGAAGCTCTTTTTGAGTCTT
Found at i:3127828 original size:34 final size:35
Alignment explanation
Indices: 3127790--3127904 Score: 117
Period size: 35 Copynumber: 3.3 Consensus size: 35
3127780 AACGTGCAAG
* *
3127790 AATAAAAGC-AATCTGAAGACTTAAAATTTCCATT
1 AATAAAACCAAATCTGAAGACCTAAAATTTCCATT
* ** *
3127824 AATAAAACCAAAATC-AAAGAAGTAAAATTTCCATG
1 AATAAAACC-AAATCTGAAGACCTAAAATTTCCATT
** *
3127859 AATAAAACCAAAAATGAAGACCTAAATTTTCCATT
1 AATAAAACCAAATCTGAAGACCTAAAATTTCCATT
*
3127894 AATAAAGCCAA
1 AATAAAACCAA
3127905 GTCAAGACTA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
34 11 0.17
35 50 0.77
36 4 0.06
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (35 bp):
AATAAAACCAAATCTGAAGACCTAAAATTTCCATT
Found at i:3131904 original size:8 final size:9
Alignment explanation
Indices: 3131877--3131905 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3131867 ATCCTAGTTC
3131877 AATTGTTAA
1 AATTGTTAA
3131886 AATTGTTAA
1 AATTGTTAA
3131895 AATT-TTAA
1 AATTGTTAA
3131903 AAT
1 AAT
3131906 AGTTTGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (9 bp):
AATTGTTAA
Found at i:3140274 original size:15 final size:16
Alignment explanation
Indices: 3140236--3140290 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
3140226 AAATTAATAC
* *
3140236 TTTAATATTAAATCATA
1 TTTATTATTATAT-ATA
*
3140253 TTTATTATTATTTATA
1 TTTATTATTATATATA
3140269 -TTATTATTATATATA
1 TTTATTATTATATATA
3140284 TTTATTA
1 TTTATTA
3140291 CTACTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 14 0.42
16 9 0.27
17 10 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATTATTATATATA
Found at i:3141433 original size:19 final size:19
Alignment explanation
Indices: 3141398--3141434 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3141388 ATATATTACC
**
3141398 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
3141417 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
3141435 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:3153014 original size:103 final size:107
Alignment explanation
Indices: 3152834--3153024 Score: 264
Period size: 103 Copynumber: 1.8 Consensus size: 107
3152824 TTTGTATTCT
* * *
3152834 AGCAACATTTGCTATCTTGATTAATTTGTTCATTCAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAACATTTGCTATCTTGATTAATTTGTT-ATTCAGAGCTTTGCTCTCAACAAAATTCCATCTT
*
3152899 ATCCGTTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
65 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
** * *
3152942 AGCAA-ATTTGCTATCTTGATTTGTTTG-T-TT-AGAGCTTTGCTCTCAACAAAATTCCATTTTG
1 AGCAACATTTGCTATCTTGATTAATTTGTTATTCAGAGCTTTGCTCTCAACAAAATTCCATCTTA
*
3153003 TCCATTTTGATAATCTTTTTCA
66 TCCATTGTGATAATCTTTTTCA
3153025 AGCATTTTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
103 46 0.62
104 2 0.03
106 1 0.01
107 20 0.27
108 5 0.07
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (107 bp):
AGCAACATTTGCTATCTTGATTAATTTGTTATTCAGAGCTTTGCTCTCAACAAAATTCCATCTTA
TCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:3153535 original size:44 final size:44
Alignment explanation
Indices: 3153407--3153969 Score: 396
Period size: 44 Copynumber: 12.8 Consensus size: 44
3153397 ATAGGTCCTA
* * * *
3153407 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAACAGATCTTG
* * * * * *
3153450 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAGAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAACAGATCTTG
* * * * * * *
3153495 TCTTCATGTATAGGCGTGAAGTAAATCAAAGATAACAGATCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCTTG
* * *
3153539 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAACAGATCTTG
* * *
3153582 TCTTCCTATATTGGTGGCGAAGTAGATCGCAGA-AAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAA-CAGATCTTG
* * * * * *
3153627 TCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCTTG
*
3153671 TCTTCCTATATT-G-GTAGAAAGTGGATCGAAGAT-ACAGATCTTG
1 TCTTCCTATATTGGCGT-G-AAGTAGATCGAAGATAACAGATCTTG
* * * *
3153714 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGA-AAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAA-CAGATCTTG
* * * * *
3153759 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTG
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCTTG
* * * *
3153803 TCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAACAGATCTTG
* * * *
3153846 TCTTCCCATACTGGTG-GCAAAGTAGATCGAAGA-AAGCAGATCTTA
1 TCTTCCTATATTGGCGTG--AAGTAGATCGAAGATAA-CAGATCTTG
* * **
3153891 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCAGATCTTG
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCTTG
* * * **
3153935 CCTTCCTGTATTTGGCAGCGAAACAGATCGAAGAT
1 TCTTCCTATA-TTGGC-GTGAAGTAGATCGAAGAT
3153970 GGCAGATTTT
Statistics
Matches: 407, Mismatches: 89, Indels: 45
0.75 0.16 0.08
Matches are distributed among these distances:
42 4 0.01
43 78 0.19
44 218 0.54
45 90 0.22
46 17 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCTTG
Found at i:3153941 original size:132 final size:132
Alignment explanation
Indices: 3153402--3153931 Score: 898
Period size: 132 Copynumber: 4.0 Consensus size: 132
3153392 CGTAAATAGG
*
3153402 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * *
3153467 CGAAGTAGATCGCAGAGAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAAATCAAAGATAACA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
3153532 GA
131 GA
*
3153534 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
3153599 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
3153664 GA
131 GA
* *
3153666 TCCTATCTTCCTATATTGGTAGAAAGTGGATCGAAGATACAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
3153731 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
*
3153796 GG
131 GA
* * *
3153798 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * *
3153863 CAAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATTGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
3153928 GA
131 GA
3153930 TC
1 TC
3153932 TTGCCTTCCT
Statistics
Matches: 375, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GA
Found at i:3154044 original size:45 final size:45
Alignment explanation
Indices: 3153992--3154141 Score: 124
Period size: 45 Copynumber: 3.2 Consensus size: 45
3153982 CTCCCTGACT
*
3153992 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
* * * * * * *
3154037 GCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGTGA-CT-
1 ACAGTGGAGTACATTGAAG--C--AGAT---A-ACTCTATCTCCCTGT-ATTTG
*
3154089 ACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTG
1 ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
3154134 ACAGTGGA
1 ACAGTGGA
3154142 ATAGATCGGA
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
43 1 0.01
44 13 0.17
45 25 0.32
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.22
53 13 0.17
54 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
ACAGTGGAGTACATTGAAGCAGATAACTCTATCTCCCTGTATTTG
Found at i:3154123 original size:97 final size:95
Alignment explanation
Indices: 3153959--3154147 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 95
3153949 GCAGCGAAAC
*
3153959 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
3154024 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGACAGTGGAATAGATTGA
*
3154054 AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
3154119 ATCTCCCTGTATTTGACAGTGGAATAGAT
64 ATCTCCCTGTATTTGACAGTGGAATAGAT
3154148 CGGAGATTAC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 27 0.30
97 62 0.70
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGACAGTGGAATAGATTGA
Found at i:3155094 original size:11 final size:11
Alignment explanation
Indices: 3155078--3155105 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3155068 AATAAATAAC
3155078 AAAAAAAATAT
1 AAAAAAAATAT
3155089 AAAAAAAATAT
1 AAAAAAAATAT
3155100 AAAAAA
1 AAAAAA
3155106 TTTTACCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATAT
Found at i:3155716 original size:3 final size:3
Alignment explanation
Indices: 3155692--3155761 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
3155682 AATATCCTTG
* * * **
3155692 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3155739 TGTA TTA GTA TATA TT- TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
3155762 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:3155758 original size:22 final size:22
Alignment explanation
Indices: 3155705--3155764 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
3155695 TTTTTATATT
*
3155705 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
3155726 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
3155748 ATATATT-TTATTATGTA
1 AT-TATTATTATTATGTA
3155765 CGTGTATACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.35
22 18 0.53
23 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:3155771 original size:22 final size:23
Alignment explanation
Indices: 3155728--3155772 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
3155718 GTATTACCAT
*
3155728 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
3155751 TATT-TTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
3155773 CCTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:3155970 original size:21 final size:19
Alignment explanation
Indices: 3155932--3155971 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
3155922 TTATAATACG
*
3155932 TGTATATACTTGATATATT
1 TGTATATACTCGATATATT
3155951 TGTATATACCTCGATAATATT
1 TGTATATA-CTCGAT-ATATT
3155972 ATTACTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
TGTATATACTCGATATATT
Found at i:3156039 original size:19 final size:19
Alignment explanation
Indices: 3156004--3156040 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3155994 ATATATTACC
**
3156004 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
3156023 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
3156041 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:3157818 original size:19 final size:19
Alignment explanation
Indices: 3157794--3157836 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3157784 TGTTCTTCAT
3157794 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3157813 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3157832 CACTT
1 CACTT
3157837 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3162743 original size:9 final size:9
Alignment explanation
Indices: 3162722--3162750 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3162712 CCAACAAACT
3162722 ATTTTAA-A
1 ATTTTAACA
3162730 ATTTTAACA
1 ATTTTAACA
3162739 ATTTTAACA
1 ATTTTAACA
3162748 ATT
1 ATT
3162751 GAACTAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTTTAACA
Found at i:3163147 original size:19 final size:18
Alignment explanation
Indices: 3163123--3163165 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
3163113 TATGTTTTTA
3163123 TTTAT-TTATAATATCATTT
1 TTTATGTTATAAT-T-ATTT
3163142 TTTATTGTTATAATTATTT
1 TTTA-TGTTATAATTATTT
3163161 TTTAT
1 TTTAT
3163166 CTCATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 2 0.09
21 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATGTTATAATTATTT
Found at i:3167279 original size:28 final size:28
Alignment explanation
Indices: 3167241--3167304 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
3167231 ATGATTCCTG
*
3167241 CAAAATTCTTGGAGGAAATTCCTTATTC
1 CAAAACTCTTGGAGGAAATTCCTTATTC
* *
3167269 CAAAACTCTTGGTGGAAATTCCTTATTG
1 CAAAACTCTTGGAGGAAATTCCTTATTC
3167297 CAAAACTC
1 CAAAACTC
3167305 CAACTTGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (28 bp):
CAAAACTCTTGGAGGAAATTCCTTATTC
Found at i:3168054 original size:35 final size:34
Alignment explanation
Indices: 3168015--3168124 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 34
3168005 TTGACTTGGA
*
3168015 TTTATTAATGGAAATTTTAGGTCTTCATTTTTCGT
1 TTTATTAATGGAAATTTTAAGTCTTCA-TTTTCGT
* ** *
3168050 TTTATTCATGGAAATTTTACTTCTTTGATTTT-GAT
1 TTTATTAATGGAAATTTTAAGTC-TTCATTTTCG-T
* * *
3168085 TTTTTTAATGGAGATTTTAAGTCTTCAGTTT-GCT
1 TTTATTAATGGAAATTTTAAGTCTTCATTTTCG-T
3168119 TTTATT
1 TTTATT
3168125 CTTGCACATT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
34 14 0.23
35 43 0.72
36 3 0.05
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (34 bp):
TTTATTAATGGAAATTTTAAGTCTTCATTTTCGT
Found at i:3168095 original size:70 final size:68
Alignment explanation
Indices: 3168019--3168151 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 68
3168009 CTTGGATTTA
* * * * *
3168019 TTAATGGAAATTTTAGGTCTTCATTTTTCGTTTTATTCATGGAAATTTTACTTCTTTGATTTTGA
1 TTAATGGAAATTTTAAGTCTTCAGTTTGC-TTTTATTCATGCAAATTTTACGT-TTTGATTTTGA
3168084 TTTTT
64 TTTTT
* * * *
3168089 TTAATGGAGATTTTAAGTCTTCAGTTTGCTTTTATTCTTGCACATTTTAGGTTTTGATTTTGA
1 TTAATGGAAATTTTAAGTCTTCAGTTTGCTTTTATTCATGCAAATTTTACGTTTTGATTTTGA
3168152 AAATTTAGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 11 0.20
69 18 0.33
70 25 0.46
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (68 bp):
TTAATGGAAATTTTAAGTCTTCAGTTTGCTTTTATTCATGCAAATTTTACGTTTTGATTTTGATT
TTT
Found at i:3168508 original size:15 final size:15
Alignment explanation
Indices: 3168488--3168519 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3168478 TTTATTCATG
3168488 GAAATTTACTTCTTT
1 GAAATTTACTTCTTT
3168503 GAAATTTACTTCTTT
1 GAAATTTACTTCTTT
3168518 GA
1 GA
3168520 TTTTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
GAAATTTACTTCTTT
Found at i:3174693 original size:34 final size:34
Alignment explanation
Indices: 3174655--3174725 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3174645 ATTTAAACAC
3174655 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3174689 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3174723 TTA
1 TTA
3174726 CATAGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (34 bp):
TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
Found at i:3180197 original size:195 final size:195
Alignment explanation
Indices: 3179970--3180513 Score: 1079
Period size: 195 Copynumber: 2.8 Consensus size: 195
3179960 TTTCAATTCA
3179970 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
1 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
*
3180035 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTTACTTTTACTAGATATTGCACGTTGAATTGT
66 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
3180100 TAAAGCCATATGACACTTCAAGGGATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGAT
131 TAAAGCCATATGACACTTCAAGGGATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGAT
3180165 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
1 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
3180230 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
66 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
3180295 TAAAGCCATATGACACTTCAAGGGATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGAT
131 TAAAGCCATATGACACTTCAAGGGATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGAT
3180360 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
1 TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
3180425 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
66 TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
3180490 TAAAGCCATATGACACTTCAAGGG
131 TAAAGCCATATGACACTTCAAGGG
3180514 GACCTGGTGA
Statistics
Matches: 348, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 348 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (195 bp):
TTTTTTTCCACTTTTCTGTTTTATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTT
TAAGAATTGCATTTGCATTCTTCTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGT
TAAAGCCATATGACACTTCAAGGGATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGAT
Found at i:3184005 original size:27 final size:29
Alignment explanation
Indices: 3183938--3184000 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
3183928 ATATTTTGAA
*
3183938 AAAAATTAAATATAATAATAAATAAGATTT
1 AAAAATT-AATATAATAATAAATAAGATAT
* *
3183968 AAACAATTAATATAATAATATATAAAATAT
1 AAA-AATTAATATAATAATAAATAAGATAT
3183998 AAA
1 AAA
3184001 TTAATCTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAATTAATATAATAATAAATAAGATAT
Found at i:3184115 original size:19 final size:19
Alignment explanation
Indices: 3184091--3184133 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3184081 TGTTCTTCGT
3184091 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3184110 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3184129 CACTT
1 CACTT
3184134 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3186493 original size:12 final size:11
Alignment explanation
Indices: 3186455--3186510 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
3186445 TATAAATACA
*
3186455 ATAATAATAAT
1 ATAATAAAAAT
**
3186466 ATAATAATTAT
1 ATAATAAAAAT
3186477 AATAATAAACAAT
1 -ATAATAAA-AAT
3186490 ATAATAAAAAT
1 ATAATAAAAAT
3186501 A-AACTAAAAA
1 ATAA-TAAAAA
3186511 AACAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 20 0.51
12 15 0.38
13 2 0.05
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:3192694 original size:17 final size:18
Alignment explanation
Indices: 3192655--3192694 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
3192645 TAATATTTTT
*
3192655 ACCTTTCATATCTATTGA
1 ACCTTTCATATCCATTGA
*
3192673 TCCTTTCA-ATCCATTGA
1 ACCTTTCATATCCATTGA
3192690 ACCTT
1 ACCTT
3192695 ATGCTCAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (18 bp):
ACCTTTCATATCCATTGA
Found at i:3195565 original size:15 final size:16
Alignment explanation
Indices: 3195530--3195564 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3195520 TCATTTTTTG
3195530 TTTTATTCATGGAAAT
1 TTTTATTCATGGAAAT
3195546 TTTTATTCATGGAAAT
1 TTTTATTCATGGAAAT
3195562 TTT
1 TTT
3195565 ACTTCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (16 bp):
TTTTATTCATGGAAAT
Found at i:3197587 original size:23 final size:23
Alignment explanation
Indices: 3197539--3197591 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
3197529 AACAACTCTA
*
3197539 AATTTTTCAACAGAAATGAATAT
1 AATTTTTCAACAGAAATCAATAT
3197562 AATTTTT-AACAGAATGATCAAT-T
1 AATTTTTCAACAGAA--ATCAATAT
3197585 AATTTTT
1 AATTTTT
3197592 TTTATCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
AATTTTTCAACAGAAATCAATAT
Found at i:3197591 original size:24 final size:23
Alignment explanation
Indices: 3197539--3197592 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
3197529 AACAACTCTA
* *
3197539 AATTTTTCAACAGAAATGAATAT
1 AATTTTTTAACAGAAATCAATAT
3197562 AA-TTTTTAACAGAATGATCAAT-T
1 AATTTTTTAACAGAA--ATCAATAT
3197585 AATTTTTT
1 AATTTTTT
3197593 TTATCAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.42
23 5 0.19
24 10 0.38
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (23 bp):
AATTTTTTAACAGAAATCAATAT
Found at i:3208834 original size:91 final size:91
Alignment explanation
Indices: 3208679--3208846 Score: 300
Period size: 91 Copynumber: 1.8 Consensus size: 91
3208669 ACGAATGTAC
* * * *
3208679 CATCATTATAAGTGAGCTCAACGATAAGCCTCCTATCAATCACCAGTGTGCAGAAAACATTTGAA
1 CATCATCATAAGTGAGCTCAACGATAAGCCTCCAATCAATCACCAGTCTACAGAAAACATTTGAA
3208744 ATCGAAACACCCGTTCATACATCATA
66 ATCGAAACACCCGTTCATACATCATA
3208770 CATCATCATAAGTGAGCTCAACGATAAGCCTCCAATCAATCACCAGTCTACAGAAAACATTTGAA
1 CATCATCATAAGTGAGCTCAACGATAAGCCTCCAATCAATCACCAGTCTACAGAAAACATTTGAA
3208835 ATCGAAACACCC
66 ATCGAAACACCC
3208847 CGGACATCTC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 73 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (91 bp):
CATCATCATAAGTGAGCTCAACGATAAGCCTCCAATCAATCACCAGTCTACAGAAAACATTTGAA
ATCGAAACACCCGTTCATACATCATA
Found at i:3212190 original size:29 final size:29
Alignment explanation
Indices: 3212157--3212214 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3212147 GAAGACCATC
3212157 CTCAAACTCCACTATACAAATAAAAACTA
1 CTCAAACTCCACTATACAAATAAAAACTA
3212186 CTCAAACTCCACTATACAAATAAAAACTA
1 CTCAAACTCCACTATACAAATAAAAACTA
3212215 ACACCGGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (29 bp):
CTCAAACTCCACTATACAAATAAAAACTA
Found at i:3221546 original size:26 final size:25
Alignment explanation
Indices: 3221507--3221587 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
3221497 TAAAAAACTC
* * * *
3221507 TTTTATTATTATTTGTTTTAAGTTT
1 TTTTATTATCATTTATTTTAAATTG
3221532 TTTTATTTATCATTTATTTTAAATTG
1 TTTTA-TTATCATTTATTTTAAATTG
*
3221558 TTTTA-CATACTATTTA-TTTAAATT-
1 TTTTATTAT-C-ATTTATTTTAAATTG
3221582 TTTTAT
1 TTTTAT
3221588 ATATTAGTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 7 0.15
25 14 0.30
26 26 0.55
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTATTATCATTTATTTTAAATTG
Found at i:3221600 original size:24 final size:25
Alignment explanation
Indices: 3221549--3221600 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
3221539 TATCATTTAT
* *
3221549 TTTAAATTGTTTTACATACTATTTA
1 TTTAAATTGTTTTACATACTAGTCA
* *
3221574 TTTAAATT-TTTTATATATTAGTCA
1 TTTAAATTGTTTTACATACTAGTCA
3221598 TTT
1 TTT
3221601 TAAACCATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTAAATTGTTTTACATACTAGTCA
Found at i:3221602 original size:25 final size:26
Alignment explanation
Indices: 3221547--3221604 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
3221537 TTTATCATTT
* *
3221547 ATTTTAAATTGTTTTACATACTATTT
1 ATTTTAAATTGTTTTACATACTAGTC
* *
3221573 A-TTTAAATT-TTTTATATATTAGTC
1 ATTTTAAATTGTTTTACATACTAGTC
3221597 ATTTTAAA
1 ATTTTAAA
3221605 CCATTATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
25 14 0.52
26 1 0.04
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTAAATTGTTTTACATACTAGTC
Found at i:3221798 original size:17 final size:18
Alignment explanation
Indices: 3221776--3221810 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
3221766 GTTCTTATAA
3221776 ATTATTTACTTT-AAATT
1 ATTATTTACTTTGAAATT
3221793 ATTATTTACTTTGAAATT
1 ATTATTTACTTTGAAATT
3221811 TTTTTGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTATTTACTTTGAAATT
Found at i:3222815 original size:12 final size:12
Alignment explanation
Indices: 3222798--3222825 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3222788 TCTAATGCTC
3222798 TTTTTTTAAATT
1 TTTTTTTAAATT
3222810 TTTTTTTAAATT
1 TTTTTTTAAATT
3222822 TTTT
1 TTTT
3222826 ATGTACCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:3224772 original size:3 final size:3
Alignment explanation
Indices: 3224758--3224843 Score: 100
Period size: 3 Copynumber: 28.7 Consensus size: 3
3224748 ATTGATAAAA
* * ** *
3224758 AAT AAT ACT AAT AAT AAT AAT AGT AGC AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
3224806 AAT AAT AAT AAT AAT AGT AAT AAT AGT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3224844 ATTAATATTA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3230582 original size:17 final size:17
Alignment explanation
Indices: 3230560--3230592 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3230550 CCAACAAACT
3230560 ATTTTAA-AATTTGAACA
1 ATTTTAACAA-TTGAACA
3230577 ATTTTAACAATTGAAC
1 ATTTTAACAATTGAAC
3230593 TAGGATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTTTAACAATTGAACA
Found at i:3230987 original size:19 final size:18
Alignment explanation
Indices: 3230963--3231005 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
3230953 TATGTTTTTA
3230963 TTTAT-TTATAATATCATTT
1 TTTATGTTATAAT-T-ATTT
3230982 TTTATTGTTATAATTATTT
1 TTTA-TGTTATAATTATTT
3231001 TTTAT
1 TTTAT
3231006 CTCATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 2 0.09
21 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATGTTATAATTATTT
Found at i:3234908 original size:3 final size:3
Alignment explanation
Indices: 3234900--3234924 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3234890 ATTTCCACTC
3234900 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
3234925 TTTCTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:3235587 original size:28 final size:28
Alignment explanation
Indices: 3235549--3235612 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
3235539 ATGATTCCTG
* *
3235549 CAAAATTCTTGGAGGAAATTCCTTATTC
1 CAAAACTCTTGGAGGAAATTCCTTATTA
*
3235577 CAAAACTCTTGGTGGAAATTCCTTATTA
1 CAAAACTCTTGGAGGAAATTCCTTATTA
3235605 CAAAACTC
1 CAAAACTC
3235613 CAACTTGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (28 bp):
CAAAACTCTTGGAGGAAATTCCTTATTA
Found at i:3236362 original size:35 final size:34
Alignment explanation
Indices: 3236323--3236432 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 34
3236313 TTGACTTGGA
*
3236323 TTTATTAATGGAAATTTTAGGTCTTCATTTTTCGT
1 TTTATTAATGGAAATTTTAAGTCTTCA-TTTTCGT
* ** *
3236358 TTTATTCATGGAAATTTTACTTCTTTGATTTT-GAT
1 TTTATTAATGGAAATTTTAAGTC-TTCATTTTCG-T
* * *
3236393 TTTTTTAATGGAGATTTTAAGTCTTCAGTTT-GCT
1 TTTATTAATGGAAATTTTAAGTCTTCATTTTCG-T
3236427 TTTATT
1 TTTATT
3236433 CTTGCACATT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
34 14 0.23
35 43 0.72
36 3 0.05
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (34 bp):
TTTATTAATGGAAATTTTAAGTCTTCATTTTCGT
Found at i:3236797 original size:35 final size:33
Alignment explanation
Indices: 3236751--3236873 Score: 106
Period size: 35 Copynumber: 3.6 Consensus size: 33
3236741 TTGACTTGGC
3236751 TTTATTAATGGAAAATTTAGATCTTCATTTTTTGT
1 TTTATTAATGGAAAATTTA-ATCTTCA-TTTTTGT
* * * *
3236786 TTTATTCATGGAAAATTTACTTCTTTGATTTTGGT
1 TTTATTAATGGAAAATTTA-ATC-TTCATTTTTGT
* *
3236821 TTTATTAATGGAAATTTTAAGTCTTCA-GTTTGCT
1 TTTATTAATGGAAAATTTAA-TCTTCATTTTTG-T
**
3236855 TTTATTCTTGG-AAATTTAA
1 TTTATTAATGGAAAATTTAA
3236874 ACATGATTAT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
33 10 0.14
34 13 0.18
35 45 0.63
36 3 0.04
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (33 bp):
TTTATTAATGGAAAATTTAATCTTCATTTTTGT
Found at i:3236836 original size:34 final size:35
Alignment explanation
Indices: 3236746--3236860 Score: 110
Period size: 35 Copynumber: 3.3 Consensus size: 35
3236736 TAGTCTTGAC
* *
3236746 TTGGCTTTATTAATGGAAAATTTAGATCTTCATTT
1 TTGGTTTTATTAATGGAAAATTTACATCTTCATTT
* * * *
3236781 TTTGTTTTATTCATGGAAAATTTACTTCTTTGA-TT
1 TTGGTTTTATTAATGGAAAATTTACATC-TTCATTT
* *
3236816 TTGGTTTTATTAATGGAAATTTTA-AGTCTTCA-GT
1 TTGGTTTTATTAATGGAAAATTTACA-TCTTCATTT
*
3236850 TTGCTTTTATT
1 TTGGTTTTATT
3236861 CTTGGAAATT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
34 14 0.22
35 48 0.74
36 3 0.05
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (35 bp):
TTGGTTTTATTAATGGAAAATTTACATCTTCATTT
Found at i:3237756 original size:11 final size:11
Alignment explanation
Indices: 3237726--3237768 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
3237716 TGACCTTTCC
3237726 AAGGTATGGG-
1 AAGGTATGGGA
*
3237736 TAGGTATGGGA
1 AAGGTATGGGA
* *
3237747 AAGGTGTGGGC
1 AAGGTATGGGA
3237758 AAGGTATGGGA
1 AAGGTATGGGA
3237769 TATATTCTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.28, C:0.02, G:0.49, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:3241833 original size:18 final size:18
Alignment explanation
Indices: 3241810--3241866 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
3241800 CCCAACTACT
*
3241810 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
3241828 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
3241846 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3241864 GTA
1 GTA
3241867 AACGGTCGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3242426 original size:11 final size:11
Alignment explanation
Indices: 3242399--3242441 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
3242389 TGACCTTTCC
3242399 AAGGTATGGG-
1 AAGGTATGGGA
*
3242409 TAGGTATGGGA
1 AAGGTATGGGA
*
3242420 AAGGTATGGGC
1 AAGGTATGGGA
3242431 AAGGTATGGGA
1 AAGGTATGGGA
3242442 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:3242438 original size:22 final size:21
Alignment explanation
Indices: 3242399--3242441 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3242389 TGACCTTTCC
*
3242399 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
3242420 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
3242442 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:3248389 original size:34 final size:34
Alignment explanation
Indices: 3248350--3248420 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3248340 ATTTAAACAC
3248350 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3248384 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3248418 TTA
1 TTA
3248421 CATAGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (34 bp):
TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
Found at i:3259442 original size:194 final size:195
Alignment explanation
Indices: 3258869--3259453 Score: 1138
Period size: 195 Copynumber: 3.0 Consensus size: 195
3258859 GTTTGTACCA
3258869 GATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTTA
1 GATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTTA
3258934 TAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTTC
66 TAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTTC
*
3258999 TATGTTTATTTTACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAGG
131 TATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAGG
3259064 GATGGATTTATTGTTTCAATTCATTTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTT
1 GATGGATTTATTGTTTCAATTCA-TTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTT
3259129 ATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTT
65 ATAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTT
3259194 CTATGTTT-TTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAG
130 CTATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAG
3259258 G
195 G
3259259 GATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTTA
1 GATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTTA
3259324 TAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTTC
66 TAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTTC
3259389 TATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAG-CATATGACACTTCAAGG
131 TATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAGG
3259453 G
1 G
3259454 GACCTGGTGA
Statistics
Matches: 387, Mismatches: 1, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
194 132 0.34
195 141 0.36
196 114 0.29
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (195 bp):
GATGGATTTATTGTTTCAATTCATTTTTTTTCCTTTTCAGATTTTTTTTCCACTTTTCTGTTTTA
TAGGGCTCTTAAACTGTTTCATGTTGTCCATTTAAAGGCGTTTAAGAATTGCATTTGCATTCTTC
TATGTTTATTTCACTTTTACTAGATATTGCACGTTGAATTGTTAAAGCCATATGACACTTCAAGG
Found at i:3259662 original size:60 final size:58
Alignment explanation
Indices: 3259548--3259666 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 58
3259538 AGTAAAAAAT
3259548 GAGTCTTTGAATAAACTGAACGAGCTTGGAAATGCGTGAGAGACTAGAGGCAAGGAAA
1 GAGTCTTTGAATAAACTGAACGAGCTTGGAAATGCGTGAGAGACTAGAGGCAAGGAAA
3259606 GAGTCTTTGAATAAACTGAACGAGCTTGAGGAAATGCGTGAGAGACTAGAGGCAAGGAAA
1 GAGTCTTTGAATAAACTGAACGAGCTT--GGAAATGCGTGAGAGACTAGAGGCAAGGAAA
3259666 G
1 G
3259667 TAGTATGGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 27 0.46
60 32 0.54
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (58 bp):
GAGTCTTTGAATAAACTGAACGAGCTTGGAAATGCGTGAGAGACTAGAGGCAAGGAAA
Found at i:3259967 original size:102 final size:103
Alignment explanation
Indices: 3259789--3259993 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 103
3259779 TCTGTAGCAA
3259789 GGAAGCGATTACAGGTGAAGCATTTTTATTCTAGCTTAAATTAGCTTTGGAATTTCATTTTTATA
1 GGAAGCGATTACAGGTGAAGCATTTTTATTCTAGCTTAAATTAGCTTTGGAATTTCATTTTTATA
3259854 TTATCATGAATTCTGAATTTATGATATATTTGAAGGTT
66 TTATCATGAATTCTGAATTTATGATATATTTGAAGGTT
3259892 GGAAGCGATTACAGGTGAAGCATTTTTATTCTAGCTT-AATTAGCTTTGGAATTTCATTTTTATA
1 GGAAGCGATTACAGGTGAAGCATTTTTATTCTAGCTTAAATTAGCTTTGGAATTTCATTTTTATA
3259956 TTATCATGAATTCTGAATTTATGATATATTTGAAGGTT
66 TTATCATGAATTCTGAATTTATGATATATTTGAAGGTT
3259994 CTTTTTATTC
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 65 0.64
103 37 0.36
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (103 bp):
GGAAGCGATTACAGGTGAAGCATTTTTATTCTAGCTTAAATTAGCTTTGGAATTTCATTTTTATA
TTATCATGAATTCTGAATTTATGATATATTTGAAGGTT
Found at i:3263053 original size:27 final size:29
Alignment explanation
Indices: 3262986--3263048 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
3262976 ATATTTTGAA
*
3262986 AAAAATTAAATATAATAATAAATAAGATTT
1 AAAAATT-AATATAATAATAAATAAGATAT
* *
3263016 AAACAATTAATATAATAATATATAAAATAT
1 AAA-AATTAATATAATAATAAATAAGATAT
3263046 AAA
1 AAA
3263049 TTAATCTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAATTAATATAATAATAAATAAGATAT
Found at i:3263161 original size:19 final size:19
Alignment explanation
Indices: 3263137--3263179 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3263127 TGTTCTTCGT
3263137 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3263156 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3263175 CACTT
1 CACTT
3263180 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3265240 original size:162 final size:164
Alignment explanation
Indices: 3264919--3265243 Score: 611
Period size: 162 Copynumber: 2.0 Consensus size: 164
3264909 GTTAGGGCTC
3264919 AATTTTCCTCGAAAATCCCTAACTTTGAATATCGTTTTTATTTTAAAAGCCTTTGGATCATAAAA
1 AATTTTCCTCGAAAATCCCTAACTTTGAATATCGTTTTTATTTTAAAAGCCTTTGGATCATAAAA
3264984 CCAATTTTACTACTATTTTTTACAAAAATCAAAATATTTATTAAAAATATGTTAAAAATGTTAAT
66 CCAATTTTA-TACTATTTTTTACAAAAATCAAAATATTTATTAAAAATATGTTAAAAATGTTAAT
3265049 GCAATATGAAGCAAATATTTAAATTTAAATTATCA
130 GCAATATGAAGCAAATATTTAAATTTAAATTATCA
3265084 AATTTTCCTCGAAAATCCCTAACTTTGAATATCGTTTTTATTTTAAAAGCC-TTGGATCATAAAA
1 AATTTTCCTCGAAAATCCCTAACTTTGAATATCGTTTTTATTTTAAAAGCCTTTGGATCATAAAA
3265148 CCAA-TTT-TACTATTTTTTACAAAAATCAAAATATTTATTAAAAAATATGTTAAAAATGTTAAT
66 CCAATTTTATACTATTTTTTACAAAAATCAAAATATTTATT-AAAAATATGTTAAAAATGTTAAT
3265211 GCAATATGAAGCAAATATTTAAATTTAAATTAT
130 GCAATATGAAGCAAATATTTAAATTTAAATTAT
3265244 GCATATTTAT
Statistics
Matches: 159, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
161 32 0.20
162 56 0.35
163 3 0.02
164 17 0.11
165 51 0.32
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (164 bp):
AATTTTCCTCGAAAATCCCTAACTTTGAATATCGTTTTTATTTTAAAAGCCTTTGGATCATAAAA
CCAATTTTATACTATTTTTTACAAAAATCAAAATATTTATTAAAAATATGTTAAAAATGTTAATG
CAATATGAAGCAAATATTTAAATTTAAATTATCA
Found at i:3265379 original size:16 final size:16
Alignment explanation
Indices: 3265336--3265379 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3265326 TGCGTAAGTC
3265336 ATAAAATATA-ATAAA
1 ATAAAATATACATAAA
*
3265351 ATAAAATACACATAAA
1 ATAAAATATACATAAA
* *
3265367 ATATATTATACAT
1 ATAAAATATACAT
3265380 GTTTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAATATACATAAA
Found at i:3265616 original size:16 final size:16
Alignment explanation
Indices: 3265597--3265627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3265587 TAAAACATTA
*
3265597 TAATATATATGTATAT
1 TAATATATATATATAT
3265613 TAATATATATATATA
1 TAATATATATATATA
3265628 GGCGCACACA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TAATATATATATATAT
Found at i:3271825 original size:805 final size:797
Alignment explanation
Indices: 3270197--3271677 Score: 2292
Period size: 805 Copynumber: 1.8 Consensus size: 797
3270187 ATTTTTTATT
*
3270197 TTGAATTTTAAAATTTATGAATTCCGAAACAGACTTTCAGCATCTCAAATTCTCTATTTAAATTT
1 TTGAATTTTAAAATTTATAAATTCCGAAACAGACTTTCAGCATCTCAAATTCTCTATTTAAATTT
3270262 CACCTACATAGTTTTTTTTTTTTTTGGAAATTCTTCAAAATCTCATTTATTTAAATCATGGTTCT
66 CACCTACATAG-----TTTTTTTTTGGAAATTCTTCAAAATCTCATTTATTTAAATCATGGTTCT
*
3270327 ATTATAAGAAAGAAAATTTTAAACTAAAAAAATATTATTTTTATTTAAATCTAATGTGCATCTTT
126 ATTATAAGAAAGAAAATTTTAAACTAAAAAAATATTATTTTTATTTAAATCTAATGTGCATATTT
*
3270392 TTCTCTTTACAAAAATAAATTTTCAAAATTCAAGTCTAACTATTAATACTGTTGAAATTATTTTA
191 TTCTCTTTACAAAAATAAATTTTCAAAATTCAAGTCTAACTATTAATACTATTGAAATTATTTTA
*
3270457 TTAAATCCATGTTCATTACGTCATCTTTTAGTTGCATTGCTAACAAGTTCTTTTATTTCAAAATG
256 TTAAATCCATGTTCATTACGTCATCTTTTAGTTACATTGCTAACAAGTTCTTTTATTTCAAAATG
* ** *
3270522 TCAACACCAATAAATTATTTTTGAAAAATAACAATGTTAATAATTGAACTTGGATTTTGAAATTT
321 TCAACACCAATAAATTAATTTAAAAAAATAACAATGTTAACAATTGAACTTGGATTTTGAAATTT
*
3270587 AAAAAATAGAGGGATCAAATTCCCAAAAACAAAAATACAAGAATTAAATTACAAAAAAGTTAAAT
386 AAAAAATAGAGGGA--AAATTCACAAAAACAAAAATACAAGAATTAAATTACAAAAAAGTTAAAT
3270652 CACATTTTTTTAAACCAAAAAGTTAATAACATGTGCATTTTGAAATTAATAAAAAAGTTTGAAAA
449 CACATTTTTTTAAACCAAAAAGTTAATAACATGTGCATTTTGAAATTAATAAAAAAGTTTGAAAA
3270717 AAAAGTTTAAGCACCTCAAAATGTAAGTTTAAATTTCATAAAATTGAAGTTTTTTTTAAAATTAT
514 AAAAGTTTAAGCACCTCAAAATGTAAGTTTAAATTTCATAAAATTGAAGTTTTTTTTAAAATTAT
* * *
3270782 TCAAAATTGAAATTTATTTATTTTTGGCCAAAAAATGTCATTTATTTAACTCTAATATGAATTTT
579 TCAAAATTGAAATTTATTTATTTTTGGCCAAAAAATGCCATTTAATTAACTCTAACATGAATTTT
* * *
3270847 TATGTTTTATACTATTAAAAATATATGAAATTAAAATATAGTTATATTACATATTATAATATTTT
644 TATGTTTTATACCATT-AAAATATATCAAATTAAAATATAGTTATATTACATATTATAAAATTTT
*
3270912 GCAATCTAATAAATAAATTTTTAATTAAATTCTCCATATTAAATCAAAATTTTAAAGCACTAAAT
708 ---ATCTAATAAATAAATTTTTAATT-AATTCTCCATATTAAATCAAAATTTCAAAG-ACTAAAT
* *
3270977 CATTGCCCTAAAATTGTCAAAATACATCCTT
768 CATT-CCCTAAAATTGTCAAAATACATACTA
* *
3271008 TTGAATTTTAAAATTTATAAATTCCGAAAGAGACTTTCAGCTTCTCAAATTCTCTATTTAAATTT
1 TTGAATTTTAAAATTTATAAATTCCGAAACAGACTTTCAGCATCTCAAATTCTCTATTTAAATTT
* *
3271073 CACCTACATAG-TTTTTTTTGGCAATTCTTCAAAATTTCATTTATTTAAATCATGGTTCTATTAT
66 CACCTACATAGTTTTTTTTTGGAAATTCTTCAAAATCTCATTTATTTAAATCATGGTTCTATTAT
3271137 AA-AATAGAAAATTTTAAACTAAAAAAATATTATTTTTATTTAAATCTAATGTGCATATTTTTCT
131 AAGAA-AGAAAATTTTAAACTAAAAAAATATTATTTTTATTTAAATCTAATGTGCATATTTTTCT
*
3271201 CTTTACAAAAATAAATTTTCAAAATTCAGGTCTAACTATTAATACTATTGAAATTATTTTATTAA
195 CTTTACAAAAATAAATTTTCAAAATTCAAGTCTAACTATTAATACTATTGAAATTATTTTATTAA
* *
3271266 ATCCATGTTCATTACGTCATCTTTTAGTTACATTGCTACCAAGGTTTTTTTATTTCAAAATGTCA
260 ATCCATGTTCATTACGTCATCTTTTAGTTACATTGCTAACAA-GTTCTTTTATTTCAAAATGTCA
3271331 ACACCAATAAATTAATTTAAAAAAATAACAATGTTAACAATTGAACTTGGATTTT-AAATTTTAA
324 ACACCAATAAATTAATTTAAAAAAATAACAATGTTAACAATTGAACTTGGATTTTGAAA-TTTAA
* * * *
3271395 AAAATAGAGGG-AAATTGACGAAAATAGAAATACAAGAATTAAATTACAAATTCGTAAAGAGTAC
388 AAAATAGAGGGAAAATTCACAAAAACAAAAATACAAGAATTAAATTAC-AA-----AAA-AGT--
*
3271459 GTAGACCTATCACA-TTTTTTAAACCAAAAAGTTAATAACATGTGCATTTTGAAATTTAT-AAAA
444 -TA-A---ATCACATTTTTTTAAACCAAAAAGTTAATAACATGTGCATTTTGAAATTAATAAAAA
** *
3271522 AGTTTGGAAAAAAATTTTTAAGCACCTCAAAATGTATGTTTAAATTTCATAAAATTGAAGTTTTT
504 AGTTT-GAAAAAAAAGTTTAAGCACCTCAAAATGTAAGTTTAAATTTCATAAAATTGAAGTTTTT
*
3271587 TTT-AAATTATTCAAAATTGACATTTATTTATTTTTGGCCAAAAAATGCCATTTAATTAACTCTA
568 TTTAAAATTATTCAAAATTGAAATTTATTTATTTTTGGCCAAAAAATGCCATTTAATTAACTCTA
* * *
3271651 ACGTGTATTTTTATGTTTTATGCCATT
633 ACATGAATTTTTATGTTTTATACCATT
3271678 TATTTTACTC
Statistics
Matches: 620, Mismatches: 32, Indels: 32
0.91 0.05 0.05
Matches are distributed among these distances:
803 31 0.05
804 4 0.01
805 217 0.35
806 88 0.14
809 3 0.00
810 3 0.00
811 73 0.12
813 2 0.00
814 1 0.00
815 89 0.14
816 103 0.17
817 6 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (797 bp):
TTGAATTTTAAAATTTATAAATTCCGAAACAGACTTTCAGCATCTCAAATTCTCTATTTAAATTT
CACCTACATAGTTTTTTTTTGGAAATTCTTCAAAATCTCATTTATTTAAATCATGGTTCTATTAT
AAGAAAGAAAATTTTAAACTAAAAAAATATTATTTTTATTTAAATCTAATGTGCATATTTTTCTC
TTTACAAAAATAAATTTTCAAAATTCAAGTCTAACTATTAATACTATTGAAATTATTTTATTAAA
TCCATGTTCATTACGTCATCTTTTAGTTACATTGCTAACAAGTTCTTTTATTTCAAAATGTCAAC
ACCAATAAATTAATTTAAAAAAATAACAATGTTAACAATTGAACTTGGATTTTGAAATTTAAAAA
ATAGAGGGAAAATTCACAAAAACAAAAATACAAGAATTAAATTACAAAAAAGTTAAATCACATTT
TTTTAAACCAAAAAGTTAATAACATGTGCATTTTGAAATTAATAAAAAAGTTTGAAAAAAAAGTT
TAAGCACCTCAAAATGTAAGTTTAAATTTCATAAAATTGAAGTTTTTTTTAAAATTATTCAAAAT
TGAAATTTATTTATTTTTGGCCAAAAAATGCCATTTAATTAACTCTAACATGAATTTTTATGTTT
TATACCATTAAAATATATCAAATTAAAATATAGTTATATTACATATTATAAAATTTTATCTAATA
AATAAATTTTTAATTAATTCTCCATATTAAATCAAAATTTCAAAGACTAAATCATTCCCTAAAAT
TGTCAAAATACATACTA
Found at i:3275856 original size:11 final size:10
Alignment explanation
Indices: 3275831--3275855 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3275821 AACTAATAGC
3275831 AAAAAGAAAA
1 AAAAAGAAAA
3275841 AAAAAGAAAA
1 AAAAAGAAAA
3275851 AAAAA
1 AAAAA
3275856 AAGCCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:3276065 original size:20 final size:20
Alignment explanation
Indices: 3276040--3276080 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3276030 AAATAGTAGA
3276040 ACTTAATGAATTTAACAAAT
1 ACTTAATGAATTTAACAAAT
*
3276060 ACTTAATGAATTTAAGAAAT
1 ACTTAATGAATTTAACAAAT
3276080 A
1 A
3276081 TCTAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (20 bp):
ACTTAATGAATTTAACAAAT
Found at i:3281910 original size:17 final size:18
Alignment explanation
Indices: 3281855--3281911 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 18
3281845 CTCTTCATTC
*
3281855 ATTTTATTA-ATTATACA
1 ATTTTATTATATTATACT
* * *
3281872 ATTTTTTTAT-TTTTAGT
1 ATTTTATTATATTATACT
3281889 A-TTTATTATATTATA-T
1 ATTTTATTATATTATACT
3281905 ATTTTAT
1 ATTTTAT
3281912 ATAAGTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 9 0.29
17 22 0.71
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTATTATATTATACT
Found at i:3282468 original size:13 final size:13
Alignment explanation
Indices: 3282450--3282480 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
3282440 TCTAATGCTC
3282450 TTTTTTTAAAATT
1 TTTTTTTAAAATT
3282463 TTTTTTTAAAATT
1 TTTTTTTAAAATT
3282476 TTTTT
1 TTTTT
3282481 GTACCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTAAAATT
Found at i:3284724 original size:3 final size:3
Alignment explanation
Indices: 3284718--3284778 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
3284708 TTGATAAAAA
* * *
3284718 AAT AAT ACT AAT -AT AAT AGT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
3284765 AGT AAT AAT GAT AA
1 AAT AAT AAT AAT AA
3284779 ATTAATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Done.