Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008024.1 Hibiscus syriacus cultivar Beakdansim tig00110499_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1023309
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:724756 original size:13 final size:13
Alignment explanation
Indices: 724738--724762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
724728 CTGGAAAACA
724738 GTGAACAGTACCC
1 GTGAACAGTACCC
724751 GTGAACAGTACC
1 GTGAACAGTACC
724763 ACTACTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
GTGAACAGTACCC
Found at i:725383 original size:59 final size:59
Alignment explanation
Indices: 725256--725384 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
725246 CGTAATGCAA
* * * * **
725256 TCCCGAGTATGACACATAAGGTTGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAC
1 TCCCGAATATGACACATAAGGTTATGCCCACCATATACACTAGGTATCCTTAAGTACAC
* * ** *
725315 TCCCAAATATGACACATAAGGTTATGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTTATGCCCACCATATACACTAGGTATCCTTAAGTACAC
725374 TCCCGAATATG
1 TCCCGAATATG
725385 CAACCTGCTA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTTATGCCCACCATATACACTAGGTATCCTTAAGTACAC
Found at i:739709 original size:12 final size:12
Alignment explanation
Indices: 739692--739741 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
739682 GATTTAATGT
739692 CGACCACAGCCA
1 CGACCACAGCCA
739704 CGACCAC-GACCA
1 CGACCACAG-CCA
*
739716 TGACCACAGCCA
1 CGACCACAGCCA
*
739728 CGACCTCAGCCA
1 CGACCACAGCCA
739740 CG
1 CG
739742 GTAGGAGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.94
13 1 0.03
ACGTcount: A:0.30, C:0.48, G:0.18, T:0.04
Consensus pattern (12 bp):
CGACCACAGCCA
Found at i:739715 original size:18 final size:19
Alignment explanation
Indices: 739692--739741 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
739682 GATTTAATGT
739692 CGACCACAGCCACGA-CCA
1 CGACCACAGCCACGAGCCA
*
739710 CGACCA-TGACCAC-AGCCA
1 CGACCACAG-CCACGAGCCA
*
739728 CGACCTCAGCCACG
1 CGACCACAGCCACG
739742 GTAGGAGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
17 2 0.08
18 22 0.88
19 1 0.04
ACGTcount: A:0.30, C:0.48, G:0.18, T:0.04
Consensus pattern (19 bp):
CGACCACAGCCACGAGCCA
Found at i:742684 original size:40 final size:40
Alignment explanation
Indices: 742629--742710 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
742619 TGTAGGTTTA
* * * *
742629 TAATACACTTTGGTGTATATGGTGGGCACGAGCTTATGTG
1 TAATACACTTCGGTGTATATGGCGGGAACGACCTTATGTG
742669 TAATACACTTCGGTGTATATGGCGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGCGGGAACGACCTTATGTG
742709 TA
1 TA
742711 GCACTACGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGCGGGAACGACCTTATGTG
Found at i:743482 original size:40 final size:40
Alignment explanation
Indices: 743427--743504 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
743417 AAGATTTTTT
*
743427 TGAACAGTGTACAGTGTACCAATC-CACTACTACAGTAAAG
1 TGAACAATGTACAGTGTACCAA-CGCACTACTACAGTAAAG
* *
743467 TGAACAATGTACAGTGTACCGACGCACTGCTACAGTAA
1 TGAACAATGTACAGTGTACCAACGCACTACTACAGTAA
743505 CGTCAGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (40 bp):
TGAACAATGTACAGTGTACCAACGCACTACTACAGTAAAG
Found at i:744080 original size:40 final size:40
Alignment explanation
Indices: 744025--744106 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
744015 ACTGTAGTGC
*
744025 TACACATAAGGTCGTGCCCACCATATACACTAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
744065 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
744105 TA
1 TA
744107 TAAACTTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:751605 original size:45 final size:44
Alignment explanation
Indices: 751514--751640 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 44
751504 TGGTAACCAT
* *
751514 GTAAATAAGTTTACGAGCTTATGGAAT-AATGGAAAGTATAATG
1 GTAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAATG
* * **
751557 GTAAGATAAGCTTACGGGCTTATGGGATAAATGGTAAGTATTTTG
1 GTAA-ATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAATG
751602 GTAAAATAAGCTTACGAGCTTATGGTTAATAAATGGTAA
1 GT-AAATAAGCTTACGAGCTTATGG--AATAAATGGTAA
751641 AATATTGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 4 0.06
44 20 0.28
45 34 0.48
46 2 0.03
47 11 0.15
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (44 bp):
GTAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAATG
Found at i:751989 original size:10 final size:10
Alignment explanation
Indices: 751974--752036 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
751964 TTTTCGGAGG
751974 TACTGTAGCT
1 TACTGTAGCT
751984 TACTGTAGCAGT
1 TACTGTAGC--T
* *
751996 TATTATAGCT
1 TACTGTAGCT
*
752006 TACTATAGCAAT
1 TACTGTAGC--T
*
752018 TATTGTAGCT
1 TACTGTAGCT
752028 TACTGTAGC
1 TACTGTAGC
752037 AGTTATTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
10 27 0.63
12 16 0.37
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (10 bp):
TACTGTAGCT
Found at i:752007 original size:22 final size:22
Alignment explanation
Indices: 751977--752063 Score: 129
Period size: 22 Copynumber: 4.0 Consensus size: 22
751967 TCGGAGGTAC
751977 TGTAGCTTACTGTAGCAGTTAT
1 TGTAGCTTACTGTAGCAGTTAT
* * *
751999 TATAGCTTACTATAGCAATTAT
1 TGTAGCTTACTGTAGCAGTTAT
752021 TGTAGCTTACTGTAGCAGTTAT
1 TGTAGCTTACTGTAGCAGTTAT
* *
752043 TGTAGTTTATTGTAGCAGTTA
1 TGTAGCTTACTGTAGCAGTTA
752064 CTGTTCGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (22 bp):
TGTAGCTTACTGTAGCAGTTAT
Found at i:767100 original size:2 final size:2
Alignment explanation
Indices: 767093--767127 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
767083 TCGAGCCAAT
*
767093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
767128 TGACAGGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:767344 original size:25 final size:25
Alignment explanation
Indices: 767292--767344 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
767282 TCTATTTTCG
*
767292 CCCTCTAAAATTTTATAAGTTAATC
1 CCCTCTAAAATTTTATAAGTTAACC
* *
767317 CCCTTTAAAATTTTATAAGTTTACC
1 CCCTCTAAAATTTTATAAGTTAACC
767342 CCC
1 CCC
767345 AACATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (25 bp):
CCCTCTAAAATTTTATAAGTTAACC
Found at i:767526 original size:29 final size:27
Alignment explanation
Indices: 767487--767545 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
767477 TAAAGTAACA
767487 ATTTTGGTCAAAATAGATATTTAAAGT
1 ATTTTGGTCAAAATAGATATTTAAAGT
*
767514 ATTTTCGGATCAAAATATATATTTAAAGT
1 ATTTT-GG-TCAAAATAGATATTTAAAGT
767543 ATT
1 ATT
767546 CAATCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 22 0.76
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (27 bp):
ATTTTGGTCAAAATAGATATTTAAAGT
Found at i:770972 original size:74 final size:74
Alignment explanation
Indices: 770884--771026 Score: 286
Period size: 74 Copynumber: 1.9 Consensus size: 74
770874 TGAGACCATA
770884 AATGATGTGTTGAGCCGAGACAATGAAATAATTTCTCATATCACAAGAAAAATGAAAATCAAGCT
1 AATGATGTGTTGAGCCGAGACAATGAAATAATTTCTCATATCACAAGAAAAATGAAAATCAAGCT
770949 AAGACTATG
66 AAGACTATG
770958 AATGATGTGTTGAGCCGAGACAATGAAATAATTTCTCATATCACAAGAAAAATGAAAATCAAGCT
1 AATGATGTGTTGAGCCGAGACAATGAAATAATTTCTCATATCACAAGAAAAATGAAAATCAAGCT
771023 AAGA
66 AAGA
771027 AACTCTCTCG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.24
Consensus pattern (74 bp):
AATGATGTGTTGAGCCGAGACAATGAAATAATTTCTCATATCACAAGAAAAATGAAAATCAAGCT
AAGACTATG
Found at i:772407 original size:2 final size:2
Alignment explanation
Indices: 772359--772388 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
772349 TAAATAAAAT
772359 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
772389 AATAAGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:774251 original size:81 final size:81
Alignment explanation
Indices: 774032--774973 Score: 1037
Period size: 81 Copynumber: 11.6 Consensus size: 81
774022 AAACTTTATT
* *** * * **
774032 TGTTCCTCTTTTTCGGGTAGTTAGATC--TGAAGGAAGATGGGTTTATTCCACTCTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
** * *
774095 GAGATTGGACTTAATC
66 GAGATCAGACTTGATA
* * * * * *
774111 TATTCCTTTTTTTTCGGGTCGTCAGATCAATTTTGGTAGACGGGTTTGTTCCACTCTTCTTTAGG
1 TGTTCC-TCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGG
*
774176 GGAGATCAGACTTGATT
65 GGAGATCAGACTTGATA
* * * *
774193 TGATCCTCTTTTTCGGGTAGTCGGATCAATTTTGGAAGATGGGTCTTCTCCACTCTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
*
774258 GAGATCAGACTTGATC
66 GAGATCAGACTTGATA
* * * * * *
774274 TGTTCCTCTCTTTT-GGGTAGTCAGATAAATTTTGGAAGATGTGTATGCTCCACTCTTATTTAGA
1 TGTTCCTCT-TTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGG
774338 GGAGATCAGACTTGATA
65 GGAGATCAGACTTGATA
* * * * * * *
774355 TGTTCATCTTTTTCAGGTAGTCATATTAATTTTGGAAGACAGGTCTACTCCACTCTTATTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
* * * *
774420 GATATCATACTTAATT
66 GAGATCAGACTTGATA
* * * *
774436 TGTTCCCCTTTTTCGAGTAGTCAGATCAATTTTGGAAGATGGGTCTGTTCCACTCTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
* * *
774501 GAGACCAGACATGATT
66 GAGATCAGACTTGATA
* * * * * ** * *
774517 TTTTCCTCTTTCTCGAGAAGTCAAATCAATTTTGGAAGACGATTCTGCCCCACTTTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
* *
774582 GACATTAGACTTGATA
66 GAGATCAGACTTGATA
* * * * *
774598 CGTTCCTCTTTTTCAGGTAGTTAGATCAATTTTGGAAGACAGGTCTGCTCTACTCTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
774663 GAGATCAGACTTGATA
66 GAGATCAGACTTGATA
* * * * **
774679 TGTTCCTCTTTTTTGAGTAGTTAGATCAATTTTGGAAGACGGGTATGCTCCACTCTTCTTTTTGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
774744 GAGATCAGACTTGATA
66 GAGATCAGACTTGATA
* * *
774760 TGTTCCTCTTTTTCGGGTAGTTAGATCAATTTTGGAGGACGAGTCTGCTCCACTCTTCTTTAGGG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
*
774825 GAGATCAGTCTTGATA
66 GAGATCAGACTTGATA
* * * * * * *
774841 TGTTTCTCTTTATCGGGTAGTCAGATCAATTTTAGAAGACGAGACTGCTCCAATTTTCTTTA-GG
1 TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
*
774905 GAGATCAGACTTGATC
66 GAGATCAGACTTGATA
* * * * * *
774921 TGTTCCTTTTTTTTTGGGTATTTAGATCAATTTTGGAAGACAGATCTGCTCCA
1 TGTTCC-TCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCA
774974 GAATTCAAGG
Statistics
Matches: 723, Mismatches: 134, Indels: 10
0.83 0.15 0.01
Matches are distributed among these distances:
79 5 0.01
80 43 0.06
81 625 0.86
82 50 0.07
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (81 bp):
TGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTAGGG
GAGATCAGACTTGATA
Found at i:775089 original size:67 final size:67
Alignment explanation
Indices: 774980--775179 Score: 213
Period size: 67 Copynumber: 3.0 Consensus size: 67
774970 TCCAGAATTC
* * * * * *
774980 AAGGAATTAATCCTCTTCGTGAGGGAGTCAGGTATAAAAAAGATTAACTTTTCTTCACGAGGAAG
1 AAGGATTTACTCCTCTTCGTGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTCACGAGAAAG
775045 TA
66 TA
* * * *
775047 AAGGATTTACTCCTCTTTGTGAGGAAGTCATGAATAACAAAGATTGACTTCTCTTCA-GAAGAAA
1 AAGGATTTACTCCTCTTCGTGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTCACG-AGAAA
*
775111 GTC
65 GTA
* * * ** * * *
775114 AATGATTGACTCCTCCTCACGAGGGAGTTAGGAATTACAAAGGTTAACTTCTCTTCACGAGAAAG
1 AAGGATTTACTCCTCTTCGTGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTCACGAGAAAG
775179 T
66 T
775180 CATGTTGAAT
Statistics
Matches: 108, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
66 1 0.01
67 106 0.98
68 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (67 bp):
AAGGATTTACTCCTCTTCGTGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTCACGAGAAAG
TA
Found at i:777680 original size:21 final size:21
Alignment explanation
Indices: 777655--777706 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
777645 GGCTCTGGCA
777655 GTGACTCACCTAGGGGGAGCT
1 GTGACTCACCTAGGGGGAGCT
777676 GTGACTCACCTAGGGGGAGCT
1 GTGACTCACCTAGGGGGAGCT
*
777697 ATGACTCACC
1 GTGACTCACC
777707 AAAGGAGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (21 bp):
GTGACTCACCTAGGGGGAGCT
Found at i:778081 original size:24 final size:24
Alignment explanation
Indices: 778054--778100 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
778044 GGTGACTTGT
* **
778054 TGGGCTTTGGGTCTGCTTTGTAAC
1 TGGGCTTCGGGTCACCTTTGTAAC
778078 TGGGCTTCGGGTCACCTTTGTAA
1 TGGGCTTCGGGTCACCTTTGTAA
778101 TTAGGCTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.19, G:0.32, T:0.38
Consensus pattern (24 bp):
TGGGCTTCGGGTCACCTTTGTAAC
Found at i:779845 original size:2 final size:2
Alignment explanation
Indices: 779840--779870 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
779830 GCAGGTATGA
779840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
779871 AAAGGATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:785352 original size:31 final size:31
Alignment explanation
Indices: 785283--785366 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
785273 CACTAATGTC
* * *
785283 ATCGGTCCATCCGATTTAAGTTCCTAACATT
1 ATCGGTCCATCCGATTTTAGTCCCCAACATT
* *
785314 ATTGGTCCATCCGATTTTAGTCCCCAACGTT
1 ATCGGTCCATCCGATTTTAGTCCCCAACATT
* *
785345 ATCGGTCCCGTTCGATTTTAGT
1 ATCGGT-CCATCCGATTTTAGT
785367 TTCTTAGCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 31 0.70
32 13 0.30
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (31 bp):
ATCGGTCCATCCGATTTTAGTCCCCAACATT
Found at i:800334 original size:23 final size:23
Alignment explanation
Indices: 800308--800356 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
800298 ATGTTGCAGC
* *
800308 AAATGGAGATGTATTGGCAAAAT
1 AAATGGAAATGTAGTGGCAAAAT
* *
800331 AAATGGAAATTTCGTGGCAAAAT
1 AAATGGAAATGTAGTGGCAAAAT
800354 AAA
1 AAA
800357 GTGTGTGTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.24
Consensus pattern (23 bp):
AAATGGAAATGTAGTGGCAAAAT
Found at i:804305 original size:31 final size:31
Alignment explanation
Indices: 804264--804334 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
804254 ATAAGTGGTT
* *
804264 GGGAAACTCGAGATGGTTAGGGTTATCAAAG
1 GGGAACCTCGAGATGGTTAGGGCTATCAAAG
*
804295 GGGAACCTCGAGATGGTTAGGGCTATTAAAG
1 GGGAACCTCGAGATGGTTAGGGCTATCAAAG
804326 GGGAACCTC
1 GGGAACCTC
804335 TCCATTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (31 bp):
GGGAACCTCGAGATGGTTAGGGCTATCAAAG
Found at i:806326 original size:18 final size:19
Alignment explanation
Indices: 806305--806358 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
806295 TTAAAATATA
806305 ATTTAATA-TAATATATTT
1 ATTTAATACTAATATATTT
*
806323 ATTT-ATACT-ATAAATTT
1 ATTTAATACTAATATATTT
806340 ATTTAATACTAAATATATT
1 ATTTAATACT-AATATATT
806359 AAGAAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 14 0.47
18 10 0.33
20 6 0.20
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTAATACTAATATATTT
Found at i:806950 original size:34 final size:34
Alignment explanation
Indices: 806906--806984 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
806896 TGTTTCTTCA
*
806906 CTAGACACTCTGAGGCCTGCACTATGTGCCTTTG
1 CTAGACACTCTGAGGCCTGCACTATATGCCTTTG
*
806940 CTAGATACTCTGAGGCCTGCACTATATGCCTTTG
1 CTAGACACTCTGAGGCCTGCACTATATGCCTTTG
806974 CTAGACACTCT
1 CTAGACACTCT
806985 AGTTCTACCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.30
Consensus pattern (34 bp):
CTAGACACTCTGAGGCCTGCACTATATGCCTTTG
Found at i:807187 original size:21 final size:22
Alignment explanation
Indices: 807143--807187 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
807133 CACGAAATAA
* *
807143 TATTTATGATAAATATCATATG
1 TATTCATGATAAACATCATATG
*
807165 TATTCATGAT-AACATCATGTG
1 TATTCATGATAAACATCATATG
807186 TA
1 TA
807188 ATGAACCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
TATTCATGATAAACATCATATG
Found at i:814650 original size:32 final size:33
Alignment explanation
Indices: 814612--814682 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 33
814602 TTGTTTTTCA
814612 TATTTAAAAC-CAT-ATAAACTCATACTTTA-AT
1 TATTTAAAACTCATAAT-AACTCATACTTTACAT
814643 CTATTT--AACTCATAATAACTCATACTTTACAT
1 -TATTTAAAACTCATAATAACTCATACTTTACAT
814675 TATTTAAA
1 TATTTAAA
814683 TTCTAGCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
30 3 0.09
31 21 0.62
32 9 0.26
33 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (33 bp):
TATTTAAAACTCATAATAACTCATACTTTACAT
Found at i:816091 original size:32 final size:32
Alignment explanation
Indices: 816036--816097 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
816026 TATAAATTTT
* * *
816036 AAAAATTATATTTTATTCCTTAAATTTTTATA
1 AAAAATTATATATTATGCCTTAAACTTTTATA
816068 AAAAATTATATATTA-GCCATTAAACTTTTA
1 AAAAATTATATATTATGCC-TTAAACTTTTA
816098 AAATTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (32 bp):
AAAAATTATATATTATGCCTTAAACTTTTATA
Found at i:817295 original size:20 final size:21
Alignment explanation
Indices: 817253--817295 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
817243 AGTGAGAAGG
817253 ACTAGCCACCTTCTATGAAAA
1 ACTAGCCACCTTCTATGAAAA
*
817274 ACTAGCCACGTTCTAT-AAAA
1 ACTAGCCACCTTCTATGAAAA
817294 AC
1 AC
817296 ATGTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (21 bp):
ACTAGCCACCTTCTATGAAAA
Found at i:819927 original size:17 final size:17
Alignment explanation
Indices: 819861--819929 Score: 77
Period size: 17 Copynumber: 4.0 Consensus size: 17
819851 ATTCATGCAT
819861 CTAGTTCATTGAAT-AAA
1 CTAGTTCATT-AATCAAA
* *
819878 TTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATCAAA
*
819896 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATCAAA
*
819913 CTAGTTCATTTATCAAA
1 CTAGTTCATTAATCAAA
819930 TTAACTCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
17 33 0.73
18 12 0.27
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (17 bp):
CTAGTTCATTAATCAAA
Found at i:819931 original size:52 final size:52
Alignment explanation
Indices: 819809--819931 Score: 133
Period size: 52 Copynumber: 2.3 Consensus size: 52
819799 TCTAGGGAAG
* * * *
819809 TAGTTCATTTATGCATATTTAGATCATTTAGTAAGCTACTTCATTCATGCATC
1 TAGTTCATTTAT-CAAATTTAGATCATTAAGTAAACTACTTCATTCATGCAAC
* * * *
819862 TAGTTCATTGAAT-AAATTTAGTTCATTAATTAAACTAGTTCATTCAT-CAAAC
1 TAGTTCATT-TATCAAATTTAGATCATTAAGTAAACTACTTCATTCATGC-AAC
819914 TAGTTCATTTATCAAATT
1 TAGTTCATTTATCAAATT
819932 AACTCTTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
51 3 0.05
52 44 0.76
53 9 0.16
54 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (52 bp):
TAGTTCATTTATCAAATTTAGATCATTAAGTAAACTACTTCATTCATGCAAC
Found at i:831227 original size:13 final size:13
Alignment explanation
Indices: 831209--831233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
831199 TTGTAGATTG
831209 AAGGTGATCTAAA
1 AAGGTGATCTAAA
831222 AAGGTGATCTAA
1 AAGGTGATCTAA
831234 CCATGCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
AAGGTGATCTAAA
Found at i:841221 original size:24 final size:24
Alignment explanation
Indices: 841176--841229 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
841166 CGTTCGGTAA
* **
841176 TATGTTTGTTTATGTTTTTTCATT
1 TATGTTTGTTTATGATCATTCATT
841200 TATGTTTGTTTATGATCATTCATT
1 TATGTTTGTTTATGATCATTCATT
*
841224 AATGTT
1 TATGTT
841230 CAATTATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.63
Consensus pattern (24 bp):
TATGTTTGTTTATGATCATTCATT
Found at i:841258 original size:14 final size:14
Alignment explanation
Indices: 841239--841278 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
841229 TCAATTATGA
841239 TCGTTTATGTTTGT
1 TCGTTTATGTTTGT
841253 TCGTTTAT-TTGTGT
1 TCGTTTATGTT-TGT
*
841267 TCATTTATGTTT
1 TCGTTTATGTTT
841279 AGCCCAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.65
Consensus pattern (14 bp):
TCGTTTATGTTTGT
Found at i:841502 original size:23 final size:23
Alignment explanation
Indices: 841471--841525 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
841461 CTTCACTTAT
*
841471 GTTCATTTATTGTGTTCGTTTAC
1 GTTCATTTATTATGTTCGTTTAC
* * **
841494 GTTCGTTTATTATGTTTGTTTTT
1 GTTCATTTATTATGTTCGTTTAC
841517 GTTCATTTA
1 GTTCATTTA
841526 CATCCGTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.09, G:0.16, T:0.62
Consensus pattern (23 bp):
GTTCATTTATTATGTTCGTTTAC
Found at i:850135 original size:17 final size:17
Alignment explanation
Indices: 850113--850145 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
850103 ATATTTTATT
850113 TTATTTT-TTAGATTTTG
1 TTATTTTATTAG-TTTTG
850130 TTATTTTATTAGTTTT
1 TTATTTTATTAGTTTT
850146 ATTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTATTTTATTAGTTTTG
Found at i:854786 original size:17 final size:17
Alignment explanation
Indices: 854766--854806 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
854756 GGCTTTTTAT
854766 TCTTTTTTGT-CTTTTTC
1 TCTTTTTT-TCCTTTTTC
854783 TCTTTTCTTTCCTTTTTC
1 TCTTTT-TTTCCTTTTTC
854801 -CTTTTT
1 TCTTTTT
854807 GATGAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (17 bp):
TCTTTTTTTCCTTTTTC
Found at i:861256 original size:14 final size:14
Alignment explanation
Indices: 861223--861299 Score: 86
Period size: 14 Copynumber: 5.4 Consensus size: 14
861213 TTTGACCTGA
861223 CTGAGTCAACTCAGT
1 CTGAGTCAACTCA-T
861238 CTGAGTCAA-TCTAT
1 CTGAGTCAACTC-AT
861252 CTGAGTCAACTCAT
1 CTGAGTCAACTCAT
* *
861266 CCGAGTCAAGC-CGT
1 CTGAGTCAA-CTCAT
861280 CTGAGTCAACTCAT
1 CTGAGTCAACTCAT
*
861294 TTGAGT
1 CTGAGT
861300 TGACCAATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
13 1 0.02
14 39 0.74
15 13 0.25
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (14 bp):
CTGAGTCAACTCAT
Found at i:861299 original size:28 final size:28
Alignment explanation
Indices: 861223--861299 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
861213 TTTGACCTGA
* *
861223 CTGAGTCAACTCAGTCTGAGTCAATCTAT
1 CTGAGTCAACTCA-TCTGAGTCAAGCCAT
* *
861252 CTGAGTCAACTCATCCGAGTCAAGCCGT
1 CTGAGTCAACTCATCTGAGTCAAGCCAT
*
861280 CTGAGTCAACTCATTTGAGT
1 CTGAGTCAACTCATCTGAGT
861300 TGACCAATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 29 0.69
29 13 0.31
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (28 bp):
CTGAGTCAACTCATCTGAGTCAAGCCAT
Found at i:861316 original size:14 final size:14
Alignment explanation
Indices: 861299--861328 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
861289 CTCATTTGAG
861299 TTGACCAATTGACT
1 TTGACCAATTGACT
*
861313 TTGACCCATTGACT
1 TTGACCAATTGACT
861327 TT
1 TT
861329 AAACCGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (14 bp):
TTGACCAATTGACT
Found at i:861346 original size:20 final size:19
Alignment explanation
Indices: 861321--861369 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
861311 CTTTGACCCA
861321 TTGACTTTAAACCGTTGACT
1 TTGACTTTAAACCGTT-ACT
861341 TTGACTGTT-AACCGTTACT
1 TTGACT-TTAAACCGTTACT
861360 TTGACTTTAA
1 TTGACTTTAA
861370 CCAAAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 13 0.48
21 2 0.07
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.43
Consensus pattern (19 bp):
TTGACTTTAAACCGTTACT
Found at i:861523 original size:18 final size:18
Alignment explanation
Indices: 861500--861538 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
861490 ATTCAATATG
* * *
861500 GTTTCTTAATTAAGTTCA
1 GTTTCTGAAATAAATTCA
861518 GTTTCTGAAATAAATTCA
1 GTTTCTGAAATAAATTCA
861536 GTT
1 GTT
861539 GTTATGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (18 bp):
GTTTCTGAAATAAATTCA
Found at i:862261 original size:28 final size:27
Alignment explanation
Indices: 862193--862262 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
862183 CTGAATGAAG
** * *
862193 AAAATAACTGAAATACCCTTAAACCAT
1 AAAATAACAAAAATACCCCTAAACAAT
* *
862220 AAAATGACAAAAATACCCCTAAAGAAT
1 AAAATAACAAAAATACCCCTAAACAAT
*
862247 AAAATAATCCAAAATA
1 AAAATAA-CAAAAATA
862263 TCTCTAAGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.59, C:0.19, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAATAACAAAAATACCCCTAAACAAT
Found at i:863909 original size:16 final size:17
Alignment explanation
Indices: 863874--863909 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
863864 TGGTTTTGAA
863874 ATAT-GTTTTAAACAAT
1 ATATAGTTTTAAACAAT
863890 -TATAGTTTTAAA-AAT
1 ATATAGTTTTAAACAAT
863905 ATATA
1 ATATA
863910 TATATTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATAGTTTTAAACAAT
Found at i:867932 original size:21 final size:19
Alignment explanation
Indices: 867902--867942 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
867892 TTTGAAAACG
*
867902 ATTTTTAAAATTAGAAAATA
1 ATTTTTAAAA-GAGAAAATA
867922 ATTTTTGAAAAGAGAAAATA
1 ATTTTT-AAAAGAGAAAATA
867942 A
1 A
867943 CCTCAGTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (19 bp):
ATTTTTAAAAGAGAAAATA
Found at i:868121 original size:21 final size:21
Alignment explanation
Indices: 868097--868149 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
868087 ATTCTGACTA
868097 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
868118 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
868139 TCGCAATGCGA
1 TCGCATTGCGA
868150 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:868164 original size:20 final size:20
Alignment explanation
Indices: 868139--868191 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
868129 TTTTCCTAAT
868139 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
868159 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
868179 TCGCAACGCGAAT
1 TCGCAATGCGAAT
868192 CTGACTATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:868201 original size:20 final size:20
Alignment explanation
Indices: 868178--868244 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
868168 GAATACGTAA
*
868178 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
868198 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
868218 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
868238 ATCGCAA
1 ATCGCAA
868245 TACTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:869163 original size:24 final size:24
Alignment explanation
Indices: 869086--869151 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
869076 GTATTCGAAA
869086 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
869110 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCGGAC
869134 TTTGATCTTGGTCAATAC
1 TTTGATCTTGGTCAATAC
869152 TTGGATTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:871601 original size:20 final size:20
Alignment explanation
Indices: 871576--871669 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
871566 GACATTCATT
* *
871576 TGACTACCGCAACGCGAATA
1 TGACTATCGCAACGCGAAAA
*
871596 TGACTATCGCAACACGAAAA
1 TGACTATCGCAACGCGAAAA
*
871616 TGACTATCGCAACGCG-GAA
1 TGACTATCGCAACGCGAAAA
*
871635 TCTACTATCGCAACGCGAAAA
1 T-GACTATCGCAACGCGAAAA
*
871656 TGACTATCACAACG
1 TGACTATCGCAACG
871670 AGAGAATCGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.05
20 57 0.90
21 3 0.05
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (20 bp):
TGACTATCGCAACGCGAAAA
Found at i:871631 original size:40 final size:40
Alignment explanation
Indices: 871576--871669 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
871566 GACATTCATT
*
871576 TGACTACCGCAACGC-GAATATGACTATCGCAACACGAAAA
1 TGACTATCGCAACGCGGAATAT-ACTATCGCAACACGAAAA
* *
871616 TGACTATCGCAACGCGGAATCTACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGGAATATACTATCGCAACACGAAAA
*
871656 TGACTATCACAACG
1 TGACTATCGCAACG
871670 AGAGAATCGT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (40 bp):
TGACTATCGCAACGCGGAATATACTATCGCAACACGAAAA
Found at i:871729 original size:34 final size:34
Alignment explanation
Indices: 871641--871736 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
871631 GGAATCTACT
* ** *
871641 ATCGCAACGCGAAAATGACTATCACAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
871675 ATCGTAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
871708 ATTGCAATGTGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
871737 CGAATTTAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.51
34 26 0.49
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:871792 original size:14 final size:14
Alignment explanation
Indices: 871773--871826 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
871763 CATTTTCGCA
871773 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
871787 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
871804 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
871820 TTGCGAT
1 TTGCGAT
871827 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:871796 original size:34 final size:34
Alignment explanation
Indices: 871751--871846 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
871741 TTTAGTTTCG
*
871751 CGTTGCAATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
871785 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
871818 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
871847 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:871971 original size:14 final size:14
Alignment explanation
Indices: 871952--871988 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
871942 CATCAATTAA
871952 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
871966 ACAAATCATCTTTT
1 ACAAATCAACATTT
871980 ACAAATCAA
1 ACAAATCAA
871989 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:873435 original size:42 final size:42
Alignment explanation
Indices: 873371--873481 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
873361 CTAGAATGTT
* * *
873371 GGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTAG
1 GGGA-GGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGATAG
** *
873415 GAGG-GGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAG
1 G-GGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATAG
*
873457 GGGAGGCCTCTTGAACGATGACAGG
1 GGGAGGACTCTTGAACGATGACAGG
873482 TGAGTTCGGG
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
41 2 0.04
42 47 0.85
43 3 0.05
44 1 0.02
45 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (42 bp):
GGGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATAG
Found at i:873984 original size:20 final size:20
Alignment explanation
Indices: 873961--874087 Score: 177
Period size: 20 Copynumber: 6.5 Consensus size: 20
873951 GAAACTTAAA
* **
873961 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAATTTGACT
**
873981 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAATTTGACT
874001 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
874021 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
874041 ATCGCAA--CGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
874059 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
874079 ATCACAACG
1 ATCGCAACG
874088 AGAGAATAGC
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
18 18 0.18
20 82 0.82
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:874061 original size:38 final size:38
Alignment explanation
Indices: 873976--874088 Score: 172
Period size: 38 Copynumber: 2.9 Consensus size: 38
873966 AATGCGAAAA
**
873976 TGACTATCGCAACGCGAAAATGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAA--CGAATT
874016 TGACTATCGCAACGCGAATTTGACTATCGCAACGAATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGAATT
* *
874054 TGACTATCGCAATGCGAATTTGACTATCACAACGA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGA
874089 GAGAATAGCA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 39 0.57
40 30 0.43
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (38 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGAATT
Found at i:874151 original size:34 final size:34
Alignment explanation
Indices: 874110--874265 Score: 125
Period size: 34 Copynumber: 4.4 Consensus size: 34
874100 TGCGATTTTC
874110 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
* *
874144 AATTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TCTCG--TTGCGATAGTCA
* * * * * * * **
874184 TTTTTGCGTTGCGATTTTGTTGTTGTGATTTTC-
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
*
874217 ATTTCGCATTGCGATTCTCTCGTTGTGATAGTCA
1 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
* *
874251 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
874266 AGTCATTTTC
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
33 25 0.27
34 35 0.38
36 5 0.05
38 5 0.05
40 23 0.25
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
Found at i:874184 original size:20 final size:20
Alignment explanation
Indices: 874132--874328 Score: 170
Period size: 20 Copynumber: 10.5 Consensus size: 20
874122 GATTCTCTCG
**
874132 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
874152 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
874172 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTCGCA
874192 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
* **
874206 TTGTGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
874225 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* *
874239 TTGTGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
* *
874259 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
*
874279 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
874299 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
874319 TTGCGATAGT
1 TTGCGATAGT
874329 AAACTATTCT
Statistics
Matches: 150, Mismatches: 13, Indels: 28
0.79 0.07 0.15
Matches are distributed among these distances:
14 12 0.08
16 12 0.08
17 6 0.04
18 5 0.03
19 6 0.04
20 109 0.73
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:874247 original size:107 final size:107
Alignment explanation
Indices: 874103--874305 Score: 343
Period size: 107 Copynumber: 1.9 Consensus size: 107
874093 ATAGCAATGC
874103 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
* *
874168 CGCATTGCGATAGTCATTTTTGCGTTGCGATTTTGTTGTTGT
66 CACATTGCGATAGTCATTTTCGCGTTGCGATTTTGTTGTTGT
* ** *
874210 GATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATAGTCATTTTCGCGTTGCGATAGTCATTTT
1 GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
*
874275 CACGTTGCGATAGTCATTTTCGCGTTGCGAT
66 CACATTGCGATAGTCATTTTCGCGTTGCGAT
874306 AGTCATTTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 89 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (107 bp):
GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTT
CACATTGCGATAGTCATTTTCGCGTTGCGATTTTGTTGTTGT
Found at i:876236 original size:20 final size:20
Alignment explanation
Indices: 876213--876268 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
876203 TCTGAAACTT
*
876213 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
876233 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
876253 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
876269 TTTGACTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:876274 original size:20 final size:20
Alignment explanation
Indices: 876219--876281 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
876209 ACTTAAAATT
**
876219 GCAACACGAAAATGAAAATC
1 GCAACACGAAAATGACTATC
876239 GCAACACGAAAATGACTATC
1 GCAACACGAAAATGACTATC
* **
876259 GCAACGCGAATTTGACTATC
1 GCAACACGAAAATGACTATC
876279 GCA
1 GCA
876282 GCGTGAAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (20 bp):
GCAACACGAAAATGACTATC
Found at i:876690 original size:22 final size:22
Alignment explanation
Indices: 876630--876695 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
876620 TGACCGTGAA
* *
876630 TGATTTCGTCGGAGATAGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
876652 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
876674 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
876696 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:876915 original size:20 final size:20
Alignment explanation
Indices: 876892--877000 Score: 182
Period size: 20 Copynumber: 5.5 Consensus size: 20
876882 CGATAGTCAG
*
876892 ATTCGCTTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
876912 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
876932 ATTCGCATTACGATTTATGT
1 ATTCGCATTGCGATTTACGT
*
876952 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
876972 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
876992 ATTCGCATT
1 ATTCGCATT
877001 ACGAATTAGG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:876969 original size:60 final size:60
Alignment explanation
Indices: 876892--877004 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
876882 CGATAGTCAG
* *
876892 ATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGATTTATGT
1 ATTCGCATTACGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGATTTATGT
876952 ATTCGCATTACGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGA
1 ATTCGCATTACGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGA
877005 ATTAGGAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (60 bp):
ATTCGCATTACGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTACGATTTATGT
Found at i:877026 original size:21 final size:21
Alignment explanation
Indices: 877002--877067 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
876992 ATTCGCATTA
*
877002 CGAATTAGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAACG
877023 CGAATTTGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAACG
*
877044 CGAATTTGGAAAATCGCAATG
1 CGAATTTGGAAAATCGCAACG
877065 CGA
1 CGA
877068 TAGTCAGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
CGAATTTGGAAAATCGCAACG
Found at i:878329 original size:9 final size:8
Alignment explanation
Indices: 878315--878391 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
878305 ACAAATTATT
878315 ATATATGAA
1 ATATAT-AA
878324 ATATATAA
1 ATATATAA
878332 AT-T-TAA
1 ATATATAA
878338 ACTATAATAA
1 A-TAT-ATAA
878348 A-ATATAA
1 ATATATAA
878355 ATATATAA
1 ATATATAA
878363 ATA-A-AA
1 ATATATAA
878369 A-ATATAA
1 ATATATAA
*
878376 CTATCATAA
1 ATAT-ATAA
*
878385 AAATATA
1 ATATATA
878392 TTTTATAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
5 1 0.02
6 8 0.14
7 10 0.18
8 21 0.38
9 12 0.21
10 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (8 bp):
ATATATAA
Found at i:878355 original size:17 final size:17
Alignment explanation
Indices: 878330--878391 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 17
878320 TGAAATATAT
*
878330 AAATTTAAACTATAATA
1 AAATATAAACTATAATA
*
878347 AAATATAAATATATAAATA
1 AAATATAAA-CTAT-AATA
* *
878366 AAAAATATAACTATCATAA
1 AAATATA-AACTATAAT-A
878385 AAATATA
1 AAATATA
878392 TTTTATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
19 20 0.57
20 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATATAAACTATAATA
Found at i:878372 original size:21 final size:23
Alignment explanation
Indices: 878341--878389 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
878331 AATTTAAACT
878341 ATAATAAAATATAAATAT-ATAA
1 ATAATAAAATATAAATATCATAA
*
878363 ATAA-AAAATATAACTATCATAA
1 ATAATAAAATATAAATATCATAA
878385 A-AATA
1 ATAATA
878390 TATTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
ATAATAAAATATAAATATCATAA
Found at i:879076 original size:37 final size:37
Alignment explanation
Indices: 879035--879281 Score: 146
Period size: 37 Copynumber: 6.6 Consensus size: 37
879025 ATATATATAG
*
879035 TATATAATATATAGTTTTTTATAAA-AAATTGAAAACA
1 TATATAATATATAGTTTTTTA-AAACAATTTGAAAACA
* * * * *
879072 TATATGTAGTATATAGTTTTCTAAAAGATGTTTTAAAACATA
1 TATA--TAATATATAGTTTTTTAAAACA-ATTTGAAAAC--A
* *
879114 TATATAATATATAG-TTTTTAAAA-TATTTGAAAATA
1 TATATAATATATAGTTTTTTAAAACAATTTGAAAACA
* * *
879149 TATATAATATATAATTTTTTGAAAACATTTTAAAAACA
1 TATATAATATATAGTTTTTT-AAAACAATTTGAAAACA
* ** * *** *
879187 TATAT-ATATATA-TATAAT-ATAGTTTTTGAAAATA
1 TATATAATATATAGTTTTTTAAAACAATTTGAAAACA
* * * *
879221 TATATAATATATAGTTTTTGAAAATATTTTGAAAATA
1 TATATAATATATAGTTTTTTAAAACAATTTGAAAACA
* * * *
879258 TATACAACAAATAGTTTTTGAAAA
1 TATATAATATATAGTTTTTTAAAA
879282 TATATATAAT
Statistics
Matches: 164, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
34 16 0.10
35 21 0.13
36 10 0.06
37 56 0.34
38 16 0.10
39 24 0.15
40 16 0.10
42 5 0.03
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (37 bp):
TATATAATATATAGTTTTTTAAAACAATTTGAAAACA
Found at i:879091 original size:39 final size:38
Alignment explanation
Indices: 879035--879202 Score: 171
Period size: 40 Copynumber: 4.3 Consensus size: 38
879025 ATATATATAG
*
879035 TATATAATATATAGTTTTTTATAAAAAATTGAAAACATA
1 TATATAATATATAGTTTTTTA-AAAAATTTGAAAACATA
* * * * *
879074 TATGTAGTATATAGTTTTCTAAAAGATGTTTTAAAACATA
1 TATATAATATATAGTTTTTTAAAA-A-ATTTGAAAACATA
*
879114 TATATAATATATAG-TTTTTAAAATATTTG-AAA-ATA
1 TATATAATATATAGTTTTTTAAAAAATTTGAAAACATA
* * *
879149 TATATAATATATAATTTTTTGAAAACATTTTAAAAACATA
1 TATATAATATATAGTTTTTT-AAAA-AATTTGAAAACATA
879189 TATATATATATATA
1 TATATA-ATATATA
879203 ATATAGTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
35 16 0.15
36 8 0.08
37 7 0.07
38 6 0.06
39 30 0.29
40 31 0.30
41 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (38 bp):
TATATAATATATAGTTTTTTAAAAAATTTGAAAACATA
Found at i:879232 original size:26 final size:28
Alignment explanation
Indices: 879190--879247 Score: 102
Period size: 26 Copynumber: 2.1 Consensus size: 28
879180 AAAAACATAT
879190 ATATATATATATAATATAGTTTTTGAAA
1 ATATATATATATAATATAGTTTTTGAAA
879218 ATATATATA-AT-ATATAGTTTTTGAAA
1 ATATATATATATAATATAGTTTTTGAAA
879244 ATAT
1 ATAT
879248 TTTGAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 19 0.63
27 2 0.07
28 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (28 bp):
ATATATATATATAATATAGTTTTTGAAA
Found at i:879276 original size:26 final size:25
Alignment explanation
Indices: 879242--879309 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
879232 TAGTTTTTGA
879242 AAAT-ATTTTGAAAATATATACAAC
1 AAATAATTTTGAAAATATATACAAC
* * *
879266 AAATAGTTTTTGAAAATATATATAAT
1 AAATA-ATTTTGAAAATATATACAAC
*
879292 ATATAATTTTGAAAATAT
1 AAATAATTTTGAAAATAT
879310 TTTTAACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.11
25 12 0.32
26 21 0.57
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATAATTTTGAAAATATATACAAC
Found at i:879380 original size:15 final size:16
Alignment explanation
Indices: 879346--879386 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
879336 TATAAAATAT
*
879346 TTATGTATTATATTTTA
1 TTATTTATTATA-TTTA
879363 TTATTTATTATA-TTA
1 TTATTTATTATATTTA
879378 TTATTTATT
1 TTATTTATT
879387 TTCTCTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
17 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTATTTATTATATTTA
Found at i:880747 original size:22 final size:22
Alignment explanation
Indices: 880719--880760 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
880709 CATTTTACTT
880719 TCTTTGTGTT-AATTTAATTTCA
1 TCTTTGT-TTGAATTTAATTTCA
*
880741 TCTTTGTTTGTATTTAATTT
1 TCTTTGTTTGAATTTAATTT
880761 TGCAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.19, C:0.07, G:0.10, T:0.64
Consensus pattern (22 bp):
TCTTTGTTTGAATTTAATTTCA
Found at i:892748 original size:39 final size:39
Alignment explanation
Indices: 892628--892819 Score: 185
Period size: 39 Copynumber: 4.8 Consensus size: 39
892618 ATATATATAT
*
892628 ATATATATAATATATAGCTTTTTATAAAA-AATTT-AAAAC
1 ATATATATAATATATAG-TTTTTA-AAAATATTTTGAAAAC
* * * *
892667 ACATATGTAGTATATAGTTTTCTAAAAAAAAATGTTTTGAAAAC
1 ATATATATAATATATAGTTTT-T----AAAAATATTTTGAAAAC
*
892711 ATATATATAATATATAGCTTTTAAAAATATTTTG-AAA-
1 ATATATATAATATATAGTTTTTAAAAATATTTTGAAAAC
* * * *
892748 ATTTATATAATATATAGTTTTTGAAAACATTTTGAAAAT
1 ATATATATAATATATAGTTTTTAAAAATATTTTGAAAAC
* *
892787 ATATATATAATATATAATTTTTGAAAATATTTT
1 ATATATATAATATATAGTTTTTAAAAATATTTT
892820 TAAGATTTTG
Statistics
Matches: 127, Mismatches: 17, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
37 30 0.24
38 10 0.08
39 56 0.44
42 4 0.03
43 5 0.04
44 22 0.17
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTTAAAAATATTTTGAAAAC
Found at i:892878 original size:17 final size:19
Alignment explanation
Indices: 892853--892894 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
892843 TATAAAATAT
*
892853 TTATGTATTATATT-TTA-
1 TTATTTATTATATTATTAG
892870 TTATTTATTATATTATTAG
1 TTATTTATTATATTATTAG
892889 TTATTT
1 TTATTT
892895 TCTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTATTATATTATTAG
Found at i:892907 original size:13 final size:13
Alignment explanation
Indices: 892897--892925 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
892887 AGTTATTTTC
892897 TTTT-TTTATTTA
1 TTTTCTTTATTTA
892909 TTTTCTTTATTTA
1 TTTTCTTTATTTA
892922 TTTT
1 TTTT
892926 TTTGGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTATTTA
Found at i:892911 original size:17 final size:17
Alignment explanation
Indices: 892889--892928 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
892879 ATATTATTAG
*
892889 TTATTTTCTTTTTTTAT
1 TTATTTTCTTTATTTAT
892906 TTATTTTCTTTATTTAT
1 TTATTTTCTTTATTTAT
892923 TT-TTTT
1 TTATTTT
892929 GGTCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTCTTTATTTAT
Found at i:894184 original size:12 final size:12
Alignment explanation
Indices: 894153--894192 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
894143 TTGATTCAAC
894153 ATTTTATTTATTT
1 ATTTTATTT-TTT
894166 ATTTTA-TTTTT
1 ATTTTATTTTTT
894177 ATTTTTATTTTTT
1 A-TTTTATTTTTT
894190 ATT
1 ATT
894193 CATTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 9 0.36
13 12 0.48
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:894614 original size:25 final size:24
Alignment explanation
Indices: 894570--894617 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
894560 AAAAATTTTA
894570 TTAAATTTATCAAACTATTATAAG
1 TTAAATTTATCAAACTATTATAAG
*
894594 TTAAATCTTATTCAATC-ATTATAA
1 TTAAAT-TTA-TCAAACTATTATAA
894618 AATGATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (24 bp):
TTAAATTTATCAAACTATTATAAG
Found at i:899359 original size:24 final size:24
Alignment explanation
Indices: 899305--899368 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
899295 ATTTCCGATT
* * *
899305 TGAATTCTGTTCTGATACCTTATC
1 TGAATTATGTTCTGATACCTAACC
*
899329 T-AGATTATGTTCTGATATCTAACC
1 TGA-ATTATGTTCTGATACCTAACC
*
899353 TGAATTATGTTTTGAT
1 TGAATTATGTTCTGAT
899369 TTCTGATATC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (24 bp):
TGAATTATGTTCTGATACCTAACC
Found at i:900191 original size:19 final size:19
Alignment explanation
Indices: 900159--900202 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
900149 CCCCCTCAAA
*
900159 CCGATGCGGATGACCCGAT
1 CCGATCCGGATGACCCGAT
*
900178 CCGATCCGGGTGACCCGAT
1 CCGATCCGGATGACCCGAT
900197 CCGATC
1 CCGATC
900203 AGGGGTGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (19 bp):
CCGATCCGGATGACCCGAT
Found at i:900962 original size:24 final size:23
Alignment explanation
Indices: 900931--901048 Score: 112
Period size: 24 Copynumber: 5.0 Consensus size: 23
900921 TGAAGATATT
*
900931 AGAAATCAAAATAGAAATCAGATC
1 AGAAATCAAAACA-AAATCAGATC
*
900955 AGATATC-AAACAAAATCCAGATC
1 AGAAATCAAAACAAAAT-CAGATC
900978 AGAAATCAAAACAAAATTCAGATC
1 AGAAATCAAAACAAAA-TCAGATC
* * * *
901002 AGAAATCATAACAGAATTCATATA
1 AGAAATCAAAACA-AAATCAGATC
* *
901026 AAAAATCAGAACATAAATCAGAT
1 AGAAATCAAAACA-AAATCAGAT
901049 AAAACATTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
22 4 0.05
23 16 0.21
24 55 0.71
25 3 0.04
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (23 bp):
AGAAATCAAAACAAAATCAGATC
Found at i:902872 original size:24 final size:24
Alignment explanation
Indices: 902845--902925 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
902835 CTCTTTTATT
*
902845 ATTTCTGATCTTAATTTTGTTCTG
1 ATTTCTGATCTTAATTCTGTTCTG
*
902869 ATTTCTAATC-TAGATTCTGTTCTG
1 ATTTCTGATCTTA-ATTCTGTTCTG
* * *
902893 ATATCTGATCTGAATTCTGTTTTG
1 ATTTCTGATCTTAATTCTGTTCTG
*
902917 ATTTATGAT
1 ATTTCTGAT
902926 ATCTCCGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.94
25 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (24 bp):
ATTTCTGATCTTAATTCTGTTCTG
Found at i:905493 original size:129 final size:125
Alignment explanation
Indices: 905259--905507 Score: 311
Period size: 125 Copynumber: 2.0 Consensus size: 125
905249 ATTTTCCGGG
* * *
905259 TTGACTGACAATTTGGAGGCTTTCGACTTCGAATTTGGCAATTGACTGCGGAATCGAACTCAGGA
1 TTGACTGACAATTTCGAGGCTTTCGACTTCGAATTTGGAAAATGACTGCGGAATCGAACTCAGGA
*
905324 CGTCCAAAAACATAAAATGTCTTTTAAAAAAGTTTGACTTTTTGGCCAAAGTCAATGGGT
66 CGTCCAAAAACATAAAATGACTTTTAAAAAAGTTTGACTTTTTGGCCAAAGTCAATGGGT
* * ** * * *
905384 TTGATTGACGATTTCGAGGCTTTCGGGTTCGAATTTGGAAAAAATGACTTCGGATTCGGACTCAG
1 TTGACTGACAATTTCGAGGCTTTCGACTTCGAATTTGG--AAAATGACTGCGGAATCGAACTCAG
** * *
905449 GACGTCGGAAAACATTTAATATGACTTTTCAAAAAA-TTTGACTTTTTGGTCAAAGTCAA
64 GACGTCCAAAAACA--TAAAATGACTTTT-AAAAAAGTTTGACTTTTTGGCCAAAGTCAA
905508 CGGTCAATGG
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
125 33 0.32
127 32 0.31
129 33 0.32
130 6 0.06
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACTGACAATTTCGAGGCTTTCGACTTCGAATTTGGAAAATGACTGCGGAATCGAACTCAGGA
CGTCCAAAAACATAAAATGACTTTTAAAAAAGTTTGACTTTTTGGCCAAAGTCAATGGGT
Found at i:906789 original size:14 final size:14
Alignment explanation
Indices: 906770--906799 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
906760 AAAATATTTA
906770 TTAAAATGATCATT
1 TTAAAATGATCATT
*
906784 TTAAAATGCTCATT
1 TTAAAATGATCATT
906798 TT
1 TT
906800 TTTGGAGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (14 bp):
TTAAAATGATCATT
Found at i:909752 original size:48 final size:46
Alignment explanation
Indices: 909641--909762 Score: 138
Period size: 48 Copynumber: 2.6 Consensus size: 46
909631 GTAACCATAC
* *
909641 AAATAAGCTTATGAGCTTATAGAATAATGGCAAGTATATTGAAAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGAAAGTATATTG-AAAAA
* * **
909688 AAATAAGCTTACGAGCTTATGGAATTTAAATGGAAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGGAAAGTATATTGAAAAA
*
909736 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
909763 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.03
46 1 0.02
47 22 0.34
48 24 0.38
49 1 0.02
50 14 0.22
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGAAAGTATATTGAAAAA
Found at i:911747 original size:6 final size:6
Alignment explanation
Indices: 911736--911772 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
911726 AAGACCCATA
911736 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT G
1 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT G
911773 ATACAAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (6 bp):
GGTCAT
Found at i:912889 original size:21 final size:22
Alignment explanation
Indices: 912864--912933 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 22
912854 TTATAAGAAG
912864 AAGAA-AAAAAAAGAAGAAAAA
1 AAGAAGAAAAAAAGAAGAAAAA
*
912885 AAGAAGAAAAAAATATAGAAAAA
1 AAGAAGAAAAAAAGA-AGAAAAA
*
912908 GAA-AATGAAAACGAAGAAGAAAAA
1 -AAGAA-GAAAA-AAAGAAGAAAAA
912932 AA
1 AA
912934 TGAGAGATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.12
22 8 0.20
23 11 0.27
24 14 0.34
25 3 0.07
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (22 bp):
AAGAAGAAAAAAAGAAGAAAAA
Found at i:912906 original size:36 final size:36
Alignment explanation
Indices: 912865--912934 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
912855 TATAAGAAGA
912865 AGAAAAAAAAAGAAGAAAA-AAAGAAGAAAAAAATAT
1 AGAAAAAAAAA-AAGAAAACAAAGAAGAAAAAAATAT
* * *
912901 AGAAAAAGAAAATGAAAACGAAGAAGAAAAAAAT
1 AGAAAAAAAAAAAGAAAACAAAGAAGAAAAAAAT
912935 GAGAGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (36 bp):
AGAAAAAAAAAAAGAAAACAAAGAAGAAAAAAATAT
Found at i:914348 original size:36 final size:36
Alignment explanation
Indices: 914301--914369 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
914291 GGGATAGAGA
914301 GGATGATATGAAAATGTGTAGATATTTTTAAATTCT
1 GGATGATATGAAAATGTGTAGATATTTTTAAATTCT
914337 GGATGATATGAAAATGTGTAGATATTTTTAAAT
1 GGATGATATGAAAATGTGTAGATATTTTTAAAT
914370 CAGATTGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (36 bp):
GGATGATATGAAAATGTGTAGATATTTTTAAATTCT
Found at i:914369 original size:18 final size:18
Alignment explanation
Indices: 914312--914369 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
914302 GATGATATGA
914312 AAATGTGTAGATATTTTT
1 AAATGTGTAGATATTTTT
* * * **
914330 AAAT-TCTGGATGATATGA
1 AAATGTGTAGAT-ATTTTT
914348 AAATGTGTAGATATTTTT
1 AAATGTGTAGATATTTTT
914366 AAAT
1 AAAT
914370 CAGATTGAAG
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
17 5 0.18
18 18 0.64
19 5 0.18
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (18 bp):
AAATGTGTAGATATTTTT
Found at i:917131 original size:48 final size:46
Alignment explanation
Indices: 917021--917141 Score: 136
Period size: 48 Copynumber: 2.6 Consensus size: 46
917011 GTAACCATAC
*
917021 AAATAAGCTTATGAGCTTATAGAATAATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
* * * * **
917067 AAATTAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAAA
*
917115 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
917142 AAGGTAAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.03
46 22 0.35
48 24 0.39
49 14 0.23
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
Found at i:919493 original size:78 final size:77
Alignment explanation
Indices: 919288--919481 Score: 196
Period size: 80 Copynumber: 2.4 Consensus size: 77
919278 ATAAAATTTG
* * * * *
919288 GGTTTA-TTTTTAATTATAATAA-AT-TTGAAATCATTATAATATTTGTCTCTCCACTTGTTTCC
1 GGTTTAGTTTTTAATTATAA-AATATATAG-AATCA-TATAACACTTGT-TTTCCA-TTTTTTCC
919350 TTAATTTAAGCTATAGT
61 TTAATTTAAGCTATAGT
* * *
919367 GGTTTAGTTTTTAATTATAATATATATAGAATCATTATAATATTTGTTTTCCATTTTTTCCTTAA
1 GGTTTAGTTTTTAATTATAAAATATATAGAATCA-TATAACACTTGTTTTCCATTTTTTCCTTAA
919432 TTTAAGCTATAGT
65 TTTAAGCTATAGT
* *
919445 GGTTTAGTTATTATTGATTATAAAATATATGGAATCA
1 GGTTTAG-T-TT-TTAATTATAAAATATATAGAATCA
919482 CTCCACTTGT
Statistics
Matches: 102, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
78 31 0.30
79 13 0.13
80 35 0.34
81 23 0.23
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.49
Consensus pattern (77 bp):
GGTTTAGTTTTTAATTATAAAATATATAGAATCATATAACACTTGTTTTCCATTTTTTCCTTAAT
TTAAGCTATAGT
Found at i:927361 original size:149 final size:149
Alignment explanation
Indices: 927094--927372 Score: 411
Period size: 149 Copynumber: 1.9 Consensus size: 149
927084 TCCATAAGAC
* * *
927094 CTTTGGGCAGGATGTTTTCACATATCAATCAAAACATGAGAAAGTTTTCTCATGTAAATCTTAAA
1 CTTTGGGAAGGATGTTTTCAAATATCAATCAAAACATGAGAAAGTTTTCTCATGTAAATCTGAAA
*
927159 TTTGAGATTTTTGAAAAGTAAGAAAGTTTCTTACCTAGTAAACTATTTCCC-AAATTTAGAAGTC
66 TTTGAAATTTTTGAAAAGTAAGAAAGTTTCTTACCTAGTAAACTATTTCCCAAAATTTAGAAGTC
927223 ATTCAGATCATTTGTAAGT
131 ATTCAGATCATTTGTAAGT
* * * * *
927242 CTTTCGGGAAGGATGTTTTCAAATGTCTATTAAAATATGAGAAAAG-TTTCTCATTTAAATCTGA
1 CTTT-GGGAAGGATGTTTTCAAATATCAATCAAAACATGAG-AAAGTTTTCTCATGTAAATCTGA
* *
927306 GATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATTT-CCAAAATTTATAA
64 AATTTGAAATTTTTGAAAAGTAAGAAA-GTTTCTTACCTAGTAAACTATTTCCCAAAATTTAGAA
927370 GTC
128 GTC
927373 CTTCGGGCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
148 4 0.03
149 73 0.63
150 39 0.34
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (149 bp):
CTTTGGGAAGGATGTTTTCAAATATCAATCAAAACATGAGAAAGTTTTCTCATGTAAATCTGAAA
TTTGAAATTTTTGAAAAGTAAGAAAGTTTCTTACCTAGTAAACTATTTCCCAAAATTTAGAAGTC
ATTCAGATCATTTGTAAGT
Found at i:927463 original size:37 final size:37
Alignment explanation
Indices: 927421--927606 Score: 273
Period size: 37 Copynumber: 5.0 Consensus size: 37
927411 GTCCTCCAGG
* *
927421 CCATCTTAATCCTTCACCAAAGAGTAGTCAAGCAAAT
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
*
927458 CCATCTTAAGCCTTCAACAAAGAGTAGTGAAGCAAAT
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
* *
927495 CAATTTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
* *
927532 CCATTTTAAGCCTTCACCAAAGAGTAATGAAGCAAAT
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
** * *
927569 AAATCTTAAGCCTTCACGAAAGAGTAGTGAAGGAAAT
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
927606 C
1 C
927607 TAAGATTTGA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (37 bp):
CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
Found at i:927666 original size:48 final size:47
Alignment explanation
Indices: 927611--927789 Score: 234
Period size: 48 Copynumber: 3.8 Consensus size: 47
927601 GAAATCTAAG
* *
927611 ATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTTTTTTCTCCAAA
1 ATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTCT-CAAA
* *
927659 ATTTGATATTCCCTTCCGAGTAAGCGGAACATA-TCTCTCTTCTCAAG
1 ATTTGATATTCCCTTCAGAGTAAGCGGAACA-AGTCTCTCTTCTCAAA
* * * *
927706 ATTTGATATTTCCTTCAGAATAAGCGAAACAGGTCTCTCTTCTCAAA
1 ATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTCTCAAA
**
927753 TATTTGATATTCCCTTCAGAGTAAGTAGAACAAGTCT
1 -ATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
927790 GCCCCGATTG
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
47 43 0.38
48 68 0.61
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (47 bp):
ATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTCTCAAA
Found at i:927784 original size:95 final size:95
Alignment explanation
Indices: 927608--927784 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
927598 AAGGAAATCT
* * * *
927608 AAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTTTTTTCTCCAAAATTTGATATTCCCT
1 AAGATTTGATATTCCCTTCAGAATAAGCGAAACAAGTCTCTCTTCTCCAAAATTTGATATTCCCT
* *
927673 TCCGAGTAAGCGGAACATATCTCTCTTCTC
66 TCAGAGTAAGCAGAACATATCTCTCTTCTC
* *
927703 AAGATTTGATATTTCCTTCAGAATAAGCGAAACAGGTCTCTCTTCT-CAAATATTTGATATTCCC
1 AAGATTTGATATTCCCTTCAGAATAAGCGAAACAAGTCTCTCTTCTCCAAA-ATTTGATATTCCC
*
927767 TTCAGAGTAAGTAGAACA
65 TTCAGAGTAAGCAGAACA
927785 AGTCTGCCCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 4 0.06
95 68 0.94
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (95 bp):
AAGATTTGATATTCCCTTCAGAATAAGCGAAACAAGTCTCTCTTCTCCAAAATTTGATATTCCCT
TCAGAGTAAGCAGAACATATCTCTCTTCTC
Found at i:928167 original size:23 final size:23
Alignment explanation
Indices: 928120--928171 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
928110 CGACCCGTCT
928120 TTTAATATATCATTATAATTATA
1 TTTAATATATCATTATAATTATA
*
928143 TTTAATA-AT-ATTATTATTAACTA
1 TTTAATATATCATTATAATT-A-TA
928166 TTTAAT
1 TTTAAT
928172 TTATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
22 3 0.12
23 15 0.58
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATATATCATTATAATTATA
Found at i:933526 original size:78 final size:78
Alignment explanation
Indices: 933358--933551 Score: 266
Period size: 80 Copynumber: 2.4 Consensus size: 78
933348 ATAATATTTG
* * *
933358 GGTTTATTTTTAATTATATTAAATATGAAATCATTATAATATTTGTTTCTCCACTTGTTTCCTTA
1 GGTTTATTTTTAATTATAATATATATG-AATCATTACAATATTTGTTTCTCCACTTGTTTCCTTA
933423 ATTTAAGCTATAGT
65 ATTTAAGCTATAGT
933437 GGTTTAATTTTTAATTATAATATATATAGAATCATTACAATATTTGTTT-TCCACTT-TTTCCTT
1 GGTTT-ATTTTTAATTATAATATATAT-GAATCATTACAATATTTGTTTCTCCACTTGTTTCCTT
933500 AATTTAAGCTATAGT
64 AATTTAAGCTATAGT
*
933515 GGTTTAGTTTTTATTGATTATAAAATATATGGAATCA
1 GGTTTA-TTTTTA---ATTATAATATATAT-GAATCA
933552 CTCCACTTGT
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
77 1 0.01
78 33 0.32
79 12 0.12
80 38 0.37
81 20 0.19
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (78 bp):
GGTTTATTTTTAATTATAATATATATGAATCATTACAATATTTGTTTCTCCACTTGTTTCCTTAA
TTTAAGCTATAGT
Found at i:933562 original size:78 final size:79
Alignment explanation
Indices: 933400--933564 Score: 212
Period size: 78 Copynumber: 2.1 Consensus size: 79
933390 ATTATAATAT
*
933400 TTGTTTCTCCACTTGTTTCCTTAATTTAAGCTATAGTGGTTTAATTTTTAATTATAATATATATA
1 TTGTTTCTCCACTTGTTTCCTTAATTTAAGCTATAGTGGTTTAATTTTTAATTATAAAATATATA
* * *
933465 GAATCATTACAATAT
66 GAATCACTAC-ACAC
*
933480 TTGTTT-TCCACTT-TTTCCTTAATTTAAGCTATAGTGGTTTAGTTTTTATTGATTATAAAATAT
1 TTGTTTCTCCACTTGTTTCCTTAATTTAAGCTATAGTGGTTTAATTTTTA---ATTATAAAATAT
*
933543 ATGGAATCACT-C-CAC
63 ATAGAATCACTACACAC
933558 TTGTTTC
1 TTGTTTC
933565 CCTAATTCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
78 41 0.55
79 7 0.09
80 7 0.09
81 20 0.27
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (79 bp):
TTGTTTCTCCACTTGTTTCCTTAATTTAAGCTATAGTGGTTTAATTTTTAATTATAAAATATATA
GAATCACTACACAC
Found at i:941232 original size:21 final size:21
Alignment explanation
Indices: 941206--941247 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
941196 AAGTCAACCG
*
941206 TTGACTGCTGACCATAGTTGA
1 TTGACTGCTGACCAAAGTTGA
*
941227 TTGACTGTTGACCAAAGTTGA
1 TTGACTGCTGACCAAAGTTGA
941248 CTTTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGACTGCTGACCAAAGTTGA
Found at i:943702 original size:32 final size:33
Alignment explanation
Indices: 943660--943725 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
943650 GTTGTTAGTG
*
943660 TTTGGATTT-AATATCATTTTTAATGCTATTGAA
1 TTTGGATTTAAATAACA-TTTTAATGCTATTGAA
* *
943693 TTTGG-TTTAAATAACATTTTAATGTTGTTGAA
1 TTTGGATTTAAATAACATTTTAATGCTATTGAA
943725 T
1 T
943726 GAAATGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (33 bp):
TTTGGATTTAAATAACATTTTAATGCTATTGAA
Found at i:947156 original size:39 final size:39
Alignment explanation
Indices: 947102--947235 Score: 107
Period size: 39 Copynumber: 3.5 Consensus size: 39
947092 CAATGACGAC
947102 TCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATT
1 TCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATT
* ** **** * *
947141 TCAGTTGTTGTTCTCATTTAGTAAC--ACCCA--CAGACGA-C
1 TCAGTTGTTGCTCTCA-TT-GTTTCTTTTTTATTCATA--ATT
947179 TCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATT
1 TCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATT
*
947218 TCAGTTGTTGTTCTCATT
1 TCAGTTGTTGCTCTCATT
947236 TAGTAACACC
Statistics
Matches: 67, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
36 3 0.04
37 5 0.07
38 17 0.25
39 34 0.51
40 5 0.07
41 3 0.04
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.51
Consensus pattern (39 bp):
TCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATT
Found at i:947223 original size:77 final size:77
Alignment explanation
Indices: 947096--947252 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
947086 ACTTATCAAT
947096 GACGACTCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATTTCAGTTGTTGTTCTCATTTA
1 GACGACTCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATTTCAGTTGTTGTTCTCATTTA
947161 GTAACACCCACA
66 GTAACACCCACA
947173 GACGACTCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATTTCAGTTGTTGTTCTCATTTA
1 GACGACTCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATTTCAGTTGTTGTTCTCATTTA
947238 GTAACACCCACA
66 GTAACACCCACA
947250 GAC
1 GAC
947253 TGATGCGAGT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (77 bp):
GACGACTCAGTTGTTGCTCTCATTGTTTCTTTTTTATTCATAATTTCAGTTGTTGTTCTCATTTA
GTAACACCCACA
Found at i:962116 original size:15 final size:16
Alignment explanation
Indices: 962086--962249 Score: 66
Period size: 15 Copynumber: 10.6 Consensus size: 16
962076 AAGATCAAAT
* *
962086 CAAAGCAAAGAAAAAG
1 CAAAGAAAAAAAAAAG
962102 CAAA-AAAAAAAAAAG
1 CAAAGAAAAAAAAAAG
962117 CAAAG----AAAAAAG
1 CAAAGAAAAAAAAAAG
*
962129 CAAAG----AAAAAAT
1 CAAAGAAAAAAAAAAG
* *
962141 CCAAG-AGAAAAAAAG
1 CAAAGAAAAAAAAAAG
*
962156 TCAAAG-AAAGAAAAAG
1 -CAAAGAAAAAAAAAAG
962172 CAAAGAAAAAAAAAAAG
1 CAAAG-AAAAAAAAAAG
* * *
962189 AAAAATAAAAAATAAAAAAA
1 --CAA-AGAAAA-AAAAAAG
* *
962209 CAAATAAAGAAAAAAG
1 CAAAGAAAAAAAAAAG
*
962225 CAAAGAGAAAAAAGAA-
1 CAAAGA-AAAAAAAAAG
962241 -AAAGAAAAA
1 CAAAGAAAAA
962250 GCAAAGAAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
12 22 0.19
14 4 0.03
15 29 0.25
16 27 0.23
17 20 0.17
18 2 0.02
19 6 0.05
20 7 0.06
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (16 bp):
CAAAGAAAAAAAAAAG
Found at i:962152 original size:43 final size:41
Alignment explanation
Indices: 962105--962261 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 41
962095 GAAAAAGCAA
*
962105 AAAAAAAAAAAGCAAAGAAAAAAGCAAAGAAAAAATCCAAGAG
1 AAAAAAAAAAAG-AAAGAAAAAAGCAAAGAAAAAA-CAAAGAG
* *
962148 AAAAAAAGTCAAAGAAAG-AAAAAGCAAAGAAAAAA-AAAAAG
1 AAAAAAA--AAAAGAAAGAAAAAAGCAAAGAAAAAACAAAGAG
* **
962189 AAAAATAAAAAATAAA-AAAACAAATAAAGAAAAAAGCAAAGAG
1 AAAAA-AAAAAAGAAAGAAAA-AAGCAAAGAAAAAA-CAAAGAG
*
962232 --AAAAAAGAA-AAAG-AAAAAGCAAAGAAAAAA
1 AAAAAAAAAAAGAAAGAAAAAAGCAAAGAAAAAA
962262 GATAAGAAGC
Statistics
Matches: 95, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
38 12 0.13
39 6 0.06
40 14 0.15
41 24 0.25
42 2 0.02
43 29 0.31
44 4 0.04
45 4 0.04
ACGTcount: A:0.78, C:0.06, G:0.13, T:0.03
Consensus pattern (41 bp):
AAAAAAAAAAAGAAAGAAAAAAGCAAAGAAAAAACAAAGAG
Found at i:962170 original size:55 final size:53
Alignment explanation
Indices: 962096--962249 Score: 166
Period size: 55 Copynumber: 2.8 Consensus size: 53
962086 CAAAGCAAAG
* ** ** *
962096 AAAAAGCAAAAAAAAAAAAAGCAAAGAAAAAAGCAAAGAAAAAATCCAAGAGAA
1 AAAAAGCAAAAAAAGAAAAAGCAAAGAAAAAAAAAAAG-AAAAATAAAAAAGAA
* *
962150 AAAAAGTCAAAGAAAGAAAAAGCAAAGAAAAAAAAAAAGAAAAATAAAAAATAA
1 AAAAAG-CAAAAAAAGAAAAAGCAAAGAAAAAAAAAAAGAAAAATAAAAAAGAA
*
962204 AAAAA-CAAATAAAGAAAAAAGCAAAGAGAAAAAAGAAAAAGAAAAA
1 AAAAAGCAAAAAAAG-AAAAAGC-AA-AGAAAAAA-AAAAAGAAAAA
962250 GCAAAGAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 8 0.09
53 7 0.08
54 24 0.28
55 36 0.42
56 11 0.13
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (53 bp):
AAAAAGCAAAAAAAGAAAAAGCAAAGAAAAAAAAAAAGAAAAATAAAAAAGAA
Found at i:962205 original size:23 final size:23
Alignment explanation
Indices: 962162--962272 Score: 66
Period size: 23 Copynumber: 4.5 Consensus size: 23
962152 AAAGTCAAAG
*
962162 AAAGAAAAAGCAAAGAAAAAAAA
1 AAAGAAAAAGCAAAAAAAAAAAA
*
962185 AAAGAAAAA-TAAAAAATAAAAAA
1 AAAGAAAAAGCAAAAAA-AAAAAA
* *
962208 ACAA-ATAAAGAAAAAAGCAAAGAGAAA
1 A-AAGAAAAAGCAAAAA--AAA-A-AAA
*
962235 AAAGAAAAAG-AAAAAGCAAAGAAA
1 AAAGAAAAAGCAAAAA--AAAAAAA
962259 AAAGATAAGAAGCA
1 AAAGA-AA-AAGCA
962273 CATGCAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.07
23 20 0.28
24 15 0.21
25 4 0.06
26 17 0.24
27 10 0.14
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.04
Consensus pattern (23 bp):
AAAGAAAAAGCAAAAAAAAAAAA
Found at i:962263 original size:7 final size:7
Alignment explanation
Indices: 962173--962249 Score: 65
Period size: 7 Copynumber: 11.3 Consensus size: 7
962163 AAGAAAAAGC
962173 AAAG-AA
1 AAAGAAA
962179 AAA-AAA
1 AAAGAAA
962185 AAAGAAA
1 AAAGAAA
962192 AATA-AAA
1 AA-AGAAA
962199 AATA-AAA
1 AA-AGAAA
*
962206 AAACAAA
1 AAAGAAA
962213 TAAAGAAA
1 -AAAGAAA
*
962221 AAAGCAA
1 AAAGAAA
*
962228 AGAGAAA
1 AAAGAAA
962235 AAAG-AA
1 AAAGAAA
962241 AAAGAAA
1 AAAGAAA
962248 AA
1 AA
962250 GCAAAGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
6 15 0.25
7 38 0.63
8 7 0.12
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:962269 original size:12 final size:12
Alignment explanation
Indices: 962087--962262 Score: 95
Period size: 12 Copynumber: 13.3 Consensus size: 12
962077 AGATCAAATC
962087 AAAGCAAAG-AA
1 AAAGCAAAGAAA
*
962098 AAAGCAAAAAAAAAA
1 AAAGC---AAAGAAA
962113 AAAGCAAAGAAA
1 AAAGCAAAGAAA
962125 AAAGCAAAGAAA
1 AAAGCAAAGAAA
*
962137 AAATCCAAGAGAAAA
1 AAA-GCAA-AG-AAA
962152 AAAGTCAAAGAAAGAA
1 AAAG-CAAAG--A-AA
962168 AAAGCAAAGAAA
1 AAAGCAAAGAAA
**
962180 AAAAAAAAGAAA
1 AAAGCAAAGAAA
** *
962192 AATAAAAAATAAA
1 AA-AGCAAAGAAA
*
962205 AAAACAAATAAAGAAA
1 AAAGC----AAAGAAA
962221 AAAGCAAAGAGAAA
1 AAAGC-AA-AGAAA
*
962235 AAAG-AAAAAGAA
1 AAAGCAAAGA-AA
962247 AAAGCAAAGAAA
1 AAAGCAAAGAAA
962259 AAAG
1 AAAG
962263 ATAAGAAGCA
Statistics
Matches: 134, Mismatches: 13, Indels: 35
0.74 0.07 0.19
Matches are distributed among these distances:
11 7 0.05
12 51 0.38
13 21 0.16
14 16 0.12
15 23 0.17
16 16 0.12
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (12 bp):
AAAGCAAAGAAA
Found at i:964127 original size:36 final size:36
Alignment explanation
Indices: 964080--964175 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 36
964070 ATTTGAGATC
* *
964080 GTTTCCCTTGAAACGAATTTTGTCACTGTTGACACT
1 GTTTCCCTTGAAACGAATTTTGTCACTCTTGACACA
* * * *
964116 GTTTCCCTTGAAAC-AAGTTTTATCTCTCTTTAGACA
1 GTTTCCCTTGAAACGAA-TTTTGTCACTCTTGACACA
964152 GTTTCCCTTGAAACAGAATCTTTG
1 GTTTCCCTTGAAAC-GAAT-TTTG
964176 AATATGTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
35 2 0.04
36 41 0.84
37 1 0.02
38 5 0.10
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACGAATTTTGTCACTCTTGACACA
Found at i:964186 original size:101 final size:103
Alignment explanation
Indices: 964023--964267 Score: 255
Period size: 101 Copynumber: 2.4 Consensus size: 103
964013 ACTTTTAATC
* * * *
964023 AAACAAATTTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAATATTTGAGATCGTTTCCCT
1 AAACAAAGTTTTATCTCCCTTGAGACAGTTTCCCTTGAAACACAAATATTTGAGATCGTTTCCCT
* * ** *
964088 TGAAACGAATTTTGTCACTGTTGACACTGTTTCCCTTG
66 TAAAACAAATTTTGTCACCCTTGACACAGTTTCCCTTG
* * * * *
964126 AAAC-AAGTTTTATCTCTCTTTAGACAGTTTCCCTTGAAACA-GAATCTTTGA-ATATGTTTCCC
1 AAACAAAGTTTTATCTCCCTTGAGACAGTTTCCCTTGAAACACAAATATTTGAGAT-CGTTTCCC
* * *
964188 TTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
65 TTAAAACAAATTTTGTCACCCTTGACACAGTTTCCCTTG
** * * *
964227 AAACAAAGTTTCGTCTCACTGGAAACAGTTT-CCTTGAAACA
1 AAACAAAGTTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
964268 AGAAATTTTA
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 2 0.02
101 60 0.51
102 51 0.44
103 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (103 bp):
AAACAAAGTTTTATCTCCCTTGAGACAGTTTCCCTTGAAACACAAATATTTGAGATCGTTTCCCT
TAAAACAAATTTTGTCACCCTTGACACAGTTTCCCTTG
Found at i:964231 original size:36 final size:36
Alignment explanation
Indices: 964181--964268 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
964171 CTTTGAATAT
* * * * *
964181 GTTTCCCTTAAAACAAA-TTTTGTCTCCCTTGAGACA
1 GTTT-CCTTGAAACAAAGTTTCGTCTCACTGGAAACA
964217 GTTTCTCTTGAAACAAAGTTTCGTCTCACTGGAAACA
1 GTTTC-CTTGAAACAAAGTTTCGTCTCACTGGAAACA
964254 GTTTCCTTGAAACAA
1 GTTTCCTTGAAACAA
964269 GAAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
35 1 0.02
36 24 0.53
37 20 0.44
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (36 bp):
GTTTCCTTGAAACAAAGTTTCGTCTCACTGGAAACA
Found at i:964651 original size:132 final size:130
Alignment explanation
Indices: 964383--964711 Score: 425
Period size: 132 Copynumber: 2.5 Consensus size: 130
964373 CAACTTTATG
* * * * *
964383 CTCGATTCTATCACAG-AAGAAGGTAGTTCAGCACCGACATATCGTTCGATTCCATCACAGAAGG
1 CTCGATTCTATCATAGAAAG-AGGTAGATCAACACCGACATATCATTCGATTCTATCACAGAAGG
964447 AGGAGGATCAACATTTTATTTCACTCAAATCCATCGCATAAGGAGTTGGATCATCATCAACTTGT
65 A-GAGGATCAACATTTTATTTCACTCAAATCCATCGCATAAGGAGTTGGATCATCATCAACTTGT
964512 TT
129 TT
* *
964514 CTCGATTTTATTGCA-A-AATGAGGTAGATCAACACCGACATATCATTCGATTCTATCACAGAAG
1 CTCGATTCTA-T-CATAGAAAGAGGTAGATCAACACCGACATATCATTCGATTCTATCACAGAAG
* * * *
964577 GAGATTGATCGACATTTTTATTTCACTCAAATCCATCGCATAAGGAGTTGGATCATCATTAAGTT
64 GAGA-GGATCAACA-TTTTATTTCACTCAAATCCATCGCATAAGGAGTTGGATCATCATCAACTT
964642 -TTT
127 GTTT
* * *
964645 GCTCGATTCTATCATAGAAAGAGGTAAATCAACACCAACATCT-AGTTCGATTCTATCACAGAAG
1 -CTCGATTCTATCATAGAAAGAGGTAGATCAACACCGACATATCA-TTCGATTCTATCACAGAAG
964709 GAG
64 GAG
964712 GTGGATTGAA
Statistics
Matches: 174, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
130 4 0.02
131 63 0.36
132 105 0.60
133 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (130 bp):
CTCGATTCTATCATAGAAAGAGGTAGATCAACACCGACATATCATTCGATTCTATCACAGAAGGA
GAGGATCAACATTTTATTTCACTCAAATCCATCGCATAAGGAGTTGGATCATCATCAACTTGTTT
Found at i:964955 original size:20 final size:19
Alignment explanation
Indices: 964893--964956 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 19
964883 CCAATTGAGA
964893 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* *
964912 CGTCTGATGAAGGAGAAGAA--
1 -GT-TCAT-AATGAGAAGAACT
964932 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
964952 GTTCA
1 GTTCA
964957 ACCTTTGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 10 0.29
18 3 0.09
19 2 0.06
20 7 0.20
21 3 0.09
22 10 0.29
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:965143 original size:114 final size:117
Alignment explanation
Indices: 964890--965150 Score: 298
Period size: 114 Copynumber: 2.3 Consensus size: 117
964880 TTTCCAATTG
* **
964890 AGAGTTCATAATGAGAAGAACTCGTCTGATGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * ** ** * ** *
964955 CAACCTTTGTTCAATTCCATCACAAAAGGAGGTGGATCAACATTTCGAGTGG
66 CAACCATTGGTCAATTCCATCACAAAAGGAAATGGATCAACATCCCCAAAGA
* *
965007 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAG-AGAAAGTTCAT-ATTAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCAATGAAGGAGAAG-AAGTTCATAATGAGAAGAACTTGT
* * *
965070 TTAA-CATTGGT-GATTCCATCACAAAAGGAAATGGAGT-GACATCCCCAAAGA
65 TCAACCATTGGTCAATTCCATCACAAAAGGAAATGGA-TCAACATCCCCAAAGA
*
965121 AGAGTTCATAATGAGAAAAACTCATCCAAT
1 AGAGTTCATAATGAGAAGAACTCATCCAAT
965151 CAAAAAAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
114 57 0.46
115 6 0.05
116 19 0.15
117 41 0.33
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (117 bp):
AGAGTTCATAATGAGAAGAACTCATCCAATGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCATTGGTCAATTCCATCACAAAAGGAAATGGATCAACATCCCCAAAGA
Found at i:969641 original size:25 final size:25
Alignment explanation
Indices: 969607--969658 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
969597 TTTAAAGAAG
969607 TATGGGTCCTTTACTAATCTTTAAC
1 TATGGGTCCTTTACTAATCTTTAAC
969632 TATGGGTCCTTTACTAATCTTTAAC
1 TATGGGTCCTTTACTAATCTTTAAC
969657 TA
1 TA
969659 GTTAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (25 bp):
TATGGGTCCTTTACTAATCTTTAAC
Done.