Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_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: 2846896
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:641489 original size:154 final size:153
Alignment explanation
Indices: 641209--641515 Score: 605
Period size: 154 Copynumber: 2.0 Consensus size: 153
641199 ACTAATTTGG
641209 GATATACCATTTTCTGCTATGTATTACCCAAATTTAATATTTTGTATCATTATTAAATAATGTTA
1 GATATACCATTTTCTGCTATGTATTACCCAAATTTAATATTTTGTATCATTATTAAATAATGTTA
641274 GCAGTTTAACATAAGTGATAAGTATGAGTGTGTAGCTGATTATAACAGGTTTGTAAATGTGCCAT
66 GCAGTTTAACATAAGTGATAAGTATGAGTGTGTAGCTGATTATAACAGGTTTGTAAATGTGCCAT
641339 ACACGTTGGCATTAGCTGTGTGGA
131 ACACG-TGGCATTAGCTGTGTGGA
641363 GATATACCATTTTCTGCTATGTATTACCCAAATTTAATATTTTGTATCATTATTAAATAATGTTA
1 GATATACCATTTTCTGCTATGTATTACCCAAATTTAATATTTTGTATCATTATTAAATAATGTTA
641428 GCAGTTTAACATAAGTGATAAGTATGAGTGTGTAGCTGATTATAACAGGTTTGTAAATGTGCCAT
66 GCAGTTTAACATAAGTGATAAGTATGAGTGTGTAGCTGATTATAACAGGTTTGTAAATGTGCCAT
641493 ACACGTGGCATTAGCTGTGTGGA
131 ACACGTGGCATTAGCTGTGTGGA
641516 TTAGTTGTTA
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 18 0.12
154 135 0.88
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (153 bp):
GATATACCATTTTCTGCTATGTATTACCCAAATTTAATATTTTGTATCATTATTAAATAATGTTA
GCAGTTTAACATAAGTGATAAGTATGAGTGTGTAGCTGATTATAACAGGTTTGTAAATGTGCCAT
ACACGTGGCATTAGCTGTGTGGA
Found at i:646511 original size:13 final size:13
Alignment explanation
Indices: 646457--646504 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
646447 TGCGTCATGA
*
646457 ATTTATGACGCGC
1 ATTTATGACACGC
646470 ATTTATGACACGC
1 ATTTATGACACGC
*
646483 ATTAATGACACGC
1 ATTTATGACACGC
646496 ATTTATGAC
1 ATTTATGAC
646505 GCTCATTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:646588 original size:85 final size:85
Alignment explanation
Indices: 646487--646650 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
646477 ACACGCATTA
* *** *
646487 ATGACACGCATTTATGACGCT-CATTGCGCGTCATTGAAGCCCCCGTCA-TAAATTAAGATGACA
1 ATGACACGCATGTATGAC-CTACATTGCGCGTCATTGAAGCAAACGTCATTAAA-AAAGATGACA
*
646550 CACATTTGTGTGTCATAAATTT
64 CACATTCGTGTGTCATAAATTT
* * *
646572 ATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCAAACGTCATTAAAAAAGATGATACA
1 ATGACACGCATGTATGACCTACATTGCGCGTCATTGAAGCAAACGTCATTAAAAAAGATGACACA
646637 CATTCGTGTGTCAT
66 CATTCGTGTGTCAT
646651 GATTGTATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.93
86 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (85 bp):
ATGACACGCATGTATGACCTACATTGCGCGTCATTGAAGCAAACGTCATTAAAAAAGATGACACA
CATTCGTGTGTCATAAATTT
Found at i:652526 original size:23 final size:20
Alignment explanation
Indices: 652479--652526 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
652469 TTGATTTATT
652479 CAAAGGGAATAAAAATTAAA
1 CAAAGGGAATAAAAATTAAA
* *
652499 GAAAGGAGAATCAAGAAATTCAA
1 CAAAGG-GAAT-AA-AAATTAAA
652522 CAAAG
1 CAAAG
652527 CTTTATTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 2 0.09
23 11 0.50
ACGTcount: A:0.60, C:0.08, G:0.19, T:0.12
Consensus pattern (20 bp):
CAAAGGGAATAAAAATTAAA
Found at i:652559 original size:11 final size:11
Alignment explanation
Indices: 652543--652576 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
652533 TCACCCATTT
652543 TTTTTCTTTTC
1 TTTTTCTTTTC
652554 TTTTTCTTCTTC
1 TTTTTCTT-TTC
652566 TTTTCTCTTTT
1 TTTT-TCTTTT
652577 TCGAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 9 0.43
13 4 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:653776 original size:40 final size:40
Alignment explanation
Indices: 653715--653790 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
653705 CCCTTACCTT
* * *
653715 TGGTATCGGTACCATATGAACAATATCGGTACTTTTCATG
1 TGGTATCGATACCATAAGAACAATATCAGTACTTTTCATG
*
653755 TGGTATCGATACTATAAGAACAATATCAGTACTTTT
1 TGGTATCGATACCATAAGAACAATATCAGTACTTTT
653791 AGTCCCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (40 bp):
TGGTATCGATACCATAAGAACAATATCAGTACTTTTCATG
Found at i:657169 original size:18 final size:18
Alignment explanation
Indices: 657146--657192 Score: 78
Period size: 17 Copynumber: 2.7 Consensus size: 18
657136 ATGTGAAGTA
*
657146 GTATCGGTACCCCTTTGG
1 GTATCGGTACCCATTTGG
657164 GTATCGGTA-CCATTTGG
1 GTATCGGTACCCATTTGG
657181 GTATCGGTACCC
1 GTATCGGTACCC
657193 TTTTTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.32
Consensus pattern (18 bp):
GTATCGGTACCCATTTGG
Found at i:659042 original size:12 final size:12
Alignment explanation
Indices: 659025--659053 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
659015 TGCGCCCTAT
659025 GTGATAATGGTC
1 GTGATAATGGTC
659037 GTGATAATGGTC
1 GTGATAATGGTC
659049 GTGAT
1 GTGAT
659054 CGAGTGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.34, T:0.34
Consensus pattern (12 bp):
GTGATAATGGTC
Found at i:665143 original size:43 final size:44
Alignment explanation
Indices: 665082--665200 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 44
665072 CGTTTGTTAC
* *
665082 GCCGCAAAAGGTTTTGATATTTAGCGGCGTTTTA-CAGAAAAAT
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTAGCAGAAAAAT
* * * *
665125 GCCGCAATAGGTGTTGATATTTAACGGC-ATTTAGTAGACAAAT
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTAGCAGAAAAAT
* *
665168 GCCGCAATAGGCGTTGATGTTTAGCGGCGTTTT
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTT
665201 CTTCACAAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 4 0.06
43 57 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (44 bp):
GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTAGCAGAAAAAT
Found at i:665209 original size:43 final size:43
Alignment explanation
Indices: 665095--665218 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
665085 GCAAAAGGTT
* *
665095 TTGATATTTAGCGGCGTTTTAC-AGAAAAATGCCGCAATAGGTG
1 TTGATATTTAGCGGCGTTTT-CTAGACAAATGCCGCAATAGGCG
* * **
665138 TTGATATTTAACGGCATTTAGTAGACAAATGCCGCAATAGGCG
1 TTGATATTTAGCGGCGTTTTCTAGACAAATGCCGCAATAGGCG
* ** *
665181 TTGATGTTTAGCGGCGTTTTCTTCACAAACGCCGCAAT
1 TTGATATTTAGCGGCGTTTTCTAGACAAATGCCGCAAT
665219 GGATGTTTAT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TTGATATTTAGCGGCGTTTTCTAGACAAATGCCGCAATAGGCG
Found at i:665732 original size:23 final size:21
Alignment explanation
Indices: 665686--665739 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
665676 ATATATTACT
* *
665686 TCTCTCTGTTCTGTCACTGCC
1 TCTCTCTGTGCTGCCACTGCC
*
665707 TCTCTCTGTGCTGCCACTGCT
1 TCTCTCTGTGCTGCCACTGCC
*
665728 TCTCTCTCTGCT
1 TCTCTCTGTGCT
665740 TCCGCTGCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.04, C:0.39, G:0.15, T:0.43
Consensus pattern (21 bp):
TCTCTCTGTGCTGCCACTGCC
Found at i:665747 original size:21 final size:21
Alignment explanation
Indices: 665708--665803 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 21
665698 GTCACTGCCT
* * * *
665708 CTCTCTGTGCTGCCACTGCTT
1 CTCTCTCTGCTTCCGCTGCTG
665729 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
** *
665750 CTCTAGCTGCTTCTGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
** **
665771 --CTCTAGGCTTCTACTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
665790 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
665804 CTTTCTTCAT
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
19 14 0.24
21 44 0.76
ACGTcount: A:0.04, C:0.39, G:0.19, T:0.39
Consensus pattern (21 bp):
CTCTCTCTGCTTCCGCTGCTG
Found at i:673982 original size:41 final size:41
Alignment explanation
Indices: 673937--674086 Score: 137
Period size: 41 Copynumber: 3.7 Consensus size: 41
673927 TTAAAATCAA
* *
673937 TTGCGGCGTTTACAGAAAAATGCCACTAATGTATGACCCAT
1 TTGCGGCGTTTACAGAAAAACGCCACTAATGTACGACCCAT
* * ** * *
673978 TTGCGGCGTTT-CTTGTAAAACGCCACT-ATAAACAACTC-T
1 TTGCGGCGTTTAC-AGAAAAACGCCACTAATGTACGACCCAT
* *
674017 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCAT
1 -TTGCGGCGTTTACAGAAAAACGCCACTAATGTACGACCCAT
* *
674059 TTGCGGCGTTT-CTTGTAAAACGCCACTA
1 TTGCGGCGTTTAC-AGAAAAACGCCACTA
674087 TAAACAACTC
Statistics
Matches: 83, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
39 1 0.01
40 29 0.35
41 52 0.63
42 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (41 bp):
TTGCGGCGTTTACAGAAAAACGCCACTAATGTACGACCCAT
Found at i:674028 original size:81 final size:81
Alignment explanation
Indices: 673936--674209 Score: 374
Period size: 81 Copynumber: 3.4 Consensus size: 81
673926 GTTAAAATCA
* * *
673936 ATTGCGGCGTTTACAGAAAAATGCCACTAATGTATGACCCATTTGCGGCGTTTCTTGTAAAACGC
1 ATTGCGGCGTTTATATAAAAACGCCACTAATGTATGACCCATTTGCGGCGTTTCTTGTAAAACGC
674001 CACTATAAACAACTCT
66 CACTATAAACAACTCT
*
674017 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGC
1 ATTGCGGCGTTTATATAAAAACGCCACTAATGTATGACCCATTTGCGGCGTTTCTTGTAAAACGC
674082 CACTATAAACAACTCT
66 CACTATAAACAACTCT
* * ** * **
674098 ATTGCGGCGTTTATATAAAAACGCCGCTAAAT-TACT-ACTC-TATTGCGATGTTTTATTAAAAA
1 ATTGCGGCGTTTATATAAAAACGCCACT-AATGTA-TGACCCAT-TTGCGGCG-TTTCTTGTAAA
674160 ACGCCACTATAAACAACTCT
62 ACGCCACTATAAACAACTCT
* *
674180 ATTGCGGTGTTTATATAAAAACGCCGCTAA
1 ATTGCGGCGTTTATATAAAAACGCCACTAA
674210 ATTACCACCC
Statistics
Matches: 176, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 117 0.66
82 58 0.33
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (81 bp):
ATTGCGGCGTTTATATAAAAACGCCACTAATGTATGACCCATTTGCGGCGTTTCTTGTAAAACGC
CACTATAAACAACTCT
Found at i:674158 original size:41 final size:41
Alignment explanation
Indices: 674009--674252 Score: 218
Period size: 41 Copynumber: 6.0 Consensus size: 41
673999 GCCACTATAA
*
674009 ACAACTCTATTGCGGCGTTTATATAAAAACGCCACT-AATGT
1 ACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAAT-T
* * * * *
674050 ACGAC-CCATTTGCGGCGTTTCT-TGTAAAACGCCACTATAA--
1 ACAACTCTA-TTGCGGCGTTTATAT-AAAAACGCCGCTA-AATT
674090 ACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATT
1 ACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATT
* ** *
674131 ACTACTCTATTGCGATGTTT-TATTAAAAAACGCCACTATAA--
1 ACAACTCTATTGCGGCGTTTATA-T-AAAAACGCCGCTA-AATT
*
674172 ACAACTCTATTGCGGTGTTTATATAAAAACGCCGCTAAATT
1 ACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATT
* * *
674213 ACCACCCTATTGCGGCGTTTGT-TGAAAAAACGCCGCTAAA
1 ACAACTCTATTGCGGCGTTTATAT--AAAAACGCCGCTAAA
674253 GTTTCATTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
39 4 0.02
40 45 0.27
41 85 0.51
42 29 0.17
43 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (41 bp):
ACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATT
Found at i:674212 original size:82 final size:80
Alignment explanation
Indices: 673994--674246 Score: 337
Period size: 82 Copynumber: 3.1 Consensus size: 80
673984 CGTTTCTTGT
* * *
673994 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCACT-AATGTACGACCCA
1 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAAT-TACCACCTA
* * **
674058 TTTGCGGCGTTTCTTGT
65 -TTGCGACGTTTATTAA
*
674075 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATTACTACTCTA
1 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATTACCAC-CTA
*
674140 TTGCGATGTTTTATTAA
65 TTGCGACG-TTTATTAA
*
674157 AAAACGCCACTATAAACAACTCTATTGCGGTGTTTATATAAAAACGCCGCTAAATTACCACCCTA
1 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATTACCA-CCTA
* *
674222 TTGCGGCGTTTGTTGAA
65 TTGCGACGTTTATT-AA
674239 AAAACGCC
1 AAAACGCC
674247 GCTAAAGTTT
Statistics
Matches: 154, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
81 66 0.43
82 87 0.56
83 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (80 bp):
AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCGCTAAATTACCACCTAT
TGCGACGTTTATTAA
Found at i:677949 original size:3 final size:3
Alignment explanation
Indices: 677936--677966 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
677926 TCTACAAAAA
677936 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
677967 AACATCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:678740 original size:21 final size:21
Alignment explanation
Indices: 678714--678756 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
678704 TCGAACCAAA
678714 AAAGAAA-AAAGAAAAATAGAG
1 AAAGAAAGAAAG-AAAATAGAG
678735 AAAGAAAGAAAGAAAATAGAG
1 AAAGAAAGAAAGAAAATAGAG
678756 A
1 A
678757 GGAATGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (21 bp):
AAAGAAAGAAAGAAAATAGAG
Found at i:683314 original size:13 final size:12
Alignment explanation
Indices: 683296--683365 Score: 74
Period size: 12 Copynumber: 6.0 Consensus size: 12
683286 CAAATCAAAG
683296 CAAAGAAAAAAA
1 CAAAGAAAAAAA
*
683308 CCAAAGAAAAAAG
1 -CAAAGAAAAAAA
*
683321 CAAA-AGAAAAA
1 CAAAGAAAAAAA
*
683332 GAAAGAAAAAAA
1 CAAAGAAAAAAA
*
683344 -TAAG-AAAAAA
1 CAAAGAAAAAAA
683354 CAAAGAAAAAAA
1 CAAAGAAAAAAA
683366 TAAGACAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.13
11 14 0.30
12 16 0.34
13 11 0.23
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.01
Consensus pattern (12 bp):
CAAAGAAAAAAA
Found at i:683334 original size:32 final size:32
Alignment explanation
Indices: 683302--683370 Score: 52
Period size: 32 Copynumber: 2.0 Consensus size: 32
683292 AAAGCAAAGA
*
683302 AAAAAACCAAAGAAAAAAGCAAAAGAAAAAGA-AAG
1 AAAAAA-CAAAG-AAAAAG--AAAGAAAAAAATAAG
*
683337 AAAAAA-ATAAGAAAAAACAAAGAAAAAAATAAG
1 AAAAAACA-AAG-AAAAAGAAAGAAAAAAATAAG
683370 A
1 A
683371 CAAGAAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
32 10 0.33
33 5 0.17
34 9 0.30
35 6 0.20
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.03
Consensus pattern (32 bp):
AAAAAACAAAGAAAAAGAAAGAAAAAAATAAG
Found at i:683341 original size:11 final size:11
Alignment explanation
Indices: 683310--683364 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
683300 GAAAAAAACC
683310 AAAGAAAAAAG
1 AAAGAAAAAAG
683321 CAAA-AGAAAAAG
1 -AAAGA-AAAAAG
683333 AAAGAAAAAA-
1 AAAGAAAAAAG
*
683343 ATAAGAAAAAAC
1 A-AAGAAAAAAG
683355 AAAGAAAAAA
1 AAAGAAAAAA
683365 ATAAGACAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 27 0.69
12 11 0.28
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:683352 original size:22 final size:22
Alignment explanation
Indices: 683302--683370 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 22
683292 AAAGCAAAGA
*
683302 AAAAAACCAAAGAAAAAAGCAAAAG
1 AAAAAA-CAAAGAAAAAA--ATAAG
*
683327 -AAAAAGAAAGAAAAAAATAAG
1 AAAAAACAAAGAAAAAAATAAG
683348 AAAAAACAAAGAAAAAAATAAG
1 AAAAAACAAAGAAAAAAATAAG
683370 A
1 A
683371 CAAGAAGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 4 0.10
22 21 0.52
23 10 0.25
24 5 0.12
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.03
Consensus pattern (22 bp):
AAAAAACAAAGAAAAAAATAAG
Found at i:683370 original size:11 final size:10
Alignment explanation
Indices: 683322--683370 Score: 62
Period size: 11 Copynumber: 4.6 Consensus size: 10
683312 AGAAAAAAGC
683322 AAAAGAAAAA
1 AAAAGAAAAA
*
683332 GAAAGAAAAA
1 AAAAGAAAAA
683342 AATAAGAAAAA
1 AA-AAGAAAAA
683353 ACAAAGAAAAA
1 A-AAAGAAAAA
683364 AATAAGA
1 AA-AAGA
683371 CAAGAAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 11 0.32
11 22 0.65
12 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:684595 original size:37 final size:37
Alignment explanation
Indices: 684554--684674 Score: 129
Period size: 37 Copynumber: 3.3 Consensus size: 37
684544 ACAAAGTGTC
* * *
684554 GTCTCACTAGAGACAATTTTTCTTTAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTTTCTTAAAAACAAATTTT
* *
684591 GTCTCGCTTGAGAC-AGTTTTCTCTAAAAACTAATTTT
1 GTCTCGCTTGAGACAATTTTTCT-TAAAAACAAATTTT
* * * *
684628 GTCTCGCTTGAGAGAATTTCTC-TCAAAACATATTTT
1 GTCTCGCTTGAGACAATTTTTCTTAAAAACAAATTTT
*
684664 GTCTCTCTTGA
1 GTCTCGCTTGA
684675 AATAGTTTCG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
36 28 0.40
37 37 0.53
38 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (37 bp):
GTCTCGCTTGAGACAATTTTTCTTAAAAACAAATTTT
Found at i:684618 original size:36 final size:36
Alignment explanation
Indices: 684571--684674 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
684561 TAGAGACAAT
*
684571 TTTTCT-TTAAAACAAATTTTGTCTCGCTTGAGACA
1 TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
* *
684606 GTTTTCTCTAAAAACTAATTTTGTCTCGCTTGAGAGA
1 -TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
* * * *
684643 ATTTCTCTCAAAACATATTTTGTCTCTCTTGA
1 TTTTCTCTAAAAACAAATTTTGTCTCGCTTGA
684675 AATAGTTTCG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 33 0.56
37 26 0.44
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (36 bp):
TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
Found at i:684987 original size:64 final size:66
Alignment explanation
Indices: 684660--685106 Score: 559
Period size: 63 Copynumber: 7.0 Consensus size: 66
684650 TCAAAACATA
* * * * *
684660 TTTTGTCTCTCTTGAAATAGTTTCGCTTGAAACAAAAGAACTTTGAGTCTGTTTCCTTTGAAACA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAA-ATCTTTGAGTCTGTTTCCCTTGAAACA
*
684725 AAA
64 AAG
* *
684728 TTTTGTCTCTCATGAGACAGTTTCTCTTGAAACAAAAGTCTTTGAGTTTGTTTCCCTTGAAA-AA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAA-TCTTTGAGTCTGTTTCCCTTGAAACAA
684792 ATG
65 A-G
* * *
684795 TTTTGTCTCTTTTGAGAAAATTTCTCTTG--A-AAAATCTTTGAGTCTGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACAAA
684857 G
66 G
* * *
684858 TTTTATCTCTCTTGAGATAGTTTCTCTTG--A-AAAATCTTTGAGTTTGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACAAA
684920 G
66 G
* *
684921 TTTTGTCTCTCTTGAGACAGTTTCTCTT-AAA-AAAATATTTGAGTATGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACAAA
684984 G
66 G
*
684985 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTTGA----G--T-CCTTGAAACGA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAA-TCTTTGAGTCTGTTTCCCTTGAAACAA
685043 A-
65 AG
**
685044 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGTCTGTTTCCCTTGAAACA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACA
685107 TTATCTCTAA
Statistics
Matches: 337, Mismatches: 27, Indels: 33
0.85 0.07 0.08
Matches are distributed among these distances:
58 7 0.02
59 35 0.10
60 11 0.03
61 1 0.00
62 1 0.00
63 109 0.32
64 68 0.20
65 13 0.04
66 8 0.02
67 55 0.16
68 29 0.09
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (66 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGTCTGTTTCCCTTGAAACAAA
G
Found at i:685076 original size:59 final size:59
Alignment explanation
Indices: 684845--685090 Score: 261
Period size: 64 Copynumber: 4.0 Consensus size: 59
684835 AGTCTGTTTC
* *
684845 CCTTGAAACAAAGTTTTATCTCTCTTGAGATAGTTTCTCTTG--A-AAAATCTTTGAGTTTGTTT
1 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGA----G--T
*
684907 CCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT-AAA-AAAATATTTGAGTATGTT
1 -CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTT--G-A-G--
684970 T
59 T
684971 CCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTTGAGT
1 -CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAA-TCTTTGAGT
* **
685032 CCTTGAAACGAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGT
1 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGT
685090 C
1 C
685091 TGTTTCCCTT
Statistics
Matches: 168, Mismatches: 7, Indels: 21
0.86 0.04 0.11
Matches are distributed among these distances:
58 10 0.06
59 35 0.21
60 11 0.07
61 1 0.01
63 40 0.24
64 57 0.34
65 4 0.02
66 5 0.03
67 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (59 bp):
CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAGT
Found at i:685087 original size:29 final size:29
Alignment explanation
Indices: 685055--685112 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
685045 TTTGTCTCTC
*
685055 TTGAGACAGTTTCTCTTGAAACATCATCT
1 TTGAGACAGTTTCCCTTGAAACATCATCT
* * *
685084 TTGAGTCTGTTTCCCTTGAAACATTATCT
1 TTGAGACAGTTTCCCTTGAAACATCATCT
685113 CTAAAGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (29 bp):
TTGAGACAGTTTCCCTTGAAACATCATCT
Found at i:685348 original size:131 final size:133
Alignment explanation
Indices: 685113--685463 Score: 440
Period size: 131 Copynumber: 2.6 Consensus size: 133
685103 AACATTATCT
* * * * *
685113 CTAAAGATGGCCAGTCGTCCTCATCACGTAGGAATTATTTCATCCACTGACCAGACCTCCTCGTC
1 CTAAAGATGGCCAGTCATCCTCATCACGTAGGAATTGTGTCATCCACCGACCAGACCTCCTCATC
* * * * ****
685178 ACGTAGGAGCCGTGTTACCTTTAGATTACCAGTTGTCCTCATCACGTAGGAACCGTGTTATCAT-
66 ACGTAGGAGTCGTGTCACCCTTAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCATC
685242 A-C
131 ACC
* * * *
685244 CTAAAGATGACCAGTCATCCTCATCGCGTAGGAATCGTGTCATCCCCCGACCAGACCTCCTCATC
1 CTAAAGATGGCCAGTCATCCTCATCACGTAGGAATTGTGTCATCCACCGACCAGACCTCCTCATC
* *
685309 ACGTAGGAGTCGAGTCACCCTTAGATAACCAACCATCCTCATCGCGTAGGAACCGTGTTATCATC
66 ACGTAGGAGTCGTGTCACCCTTAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCATC
685374 ATCC
131 A-CC
* * *
685378 CTAAAGATGGCCA-TCTATCCTCACCAAGTAGGAGTTGTGTCATCCACCGACCAGATCC-CCTCA
1 CTAAAGATGGCCAGTC-ATCCTCATCACGTAGGAATTGTGTCATCCACCGACCAGA-CCTCCTCA
*
685441 TCACGTAGAAGTCGTGTCACCCT
64 TCACGTAGGAGTCGTGTCACCCT
685464 AAAAATGACT
Statistics
Matches: 187, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
131 110 0.59
132 1 0.01
133 2 0.01
134 72 0.39
135 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (133 bp):
CTAAAGATGGCCAGTCATCCTCATCACGTAGGAATTGTGTCATCCACCGACCAGACCTCCTCATC
ACGTAGGAGTCGTGTCACCCTTAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCATC
ACC
Found at i:685664 original size:3 final size:3
Alignment explanation
Indices: 685658--685767 Score: 220
Period size: 3 Copynumber: 36.7 Consensus size: 3
685648 AATATTTTTA
685658 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
685706 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
685754 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
685768 AACATCACTT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 107 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:689712 original size:16 final size:16
Alignment explanation
Indices: 689691--689741 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
689681 GTCTCCAACG
689691 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
689707 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
689723 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
689737 TTTAT
1 TTTAT
689742 TAAATGAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.15
15 2 0.06
16 26 0.79
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:692404 original size:2 final size:2
Alignment explanation
Indices: 692397--692426 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
692387 TTTTAACTAT
692397 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
692427 ACACATTGTA
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:693693 original size:57 final size:56
Alignment explanation
Indices: 693597--693754 Score: 165
Period size: 57 Copynumber: 2.8 Consensus size: 56
693587 GTGGTAACTA
** * * * *
693597 CACAGAGGTGCCGGTTTAAAGATTGATGCACAGATGTGCTCAATCGTTTCTTTAATG
1 CACAGAGGTGCCAATTCAAAGATTGATGAAAAGAGGTGCTCAATCGTTT-TTTAATG
* *
693654 CATAGAGGTGCCAATTCAAATATTGATGAAAAGAGGTGCTCAATCGTTTTTTAATG
1 CACAGAGGTGCCAATTCAAAGATTGATGAAAAGAGGTGCTCAATCGTTTTTTAATG
* ** * * *
693710 CACAAAGGTGCCAGATT-TTAGATTGAAGCACAGAGGTGCTCAATC
1 CACAGAGGTGCCA-ATTCAAAGATTGATGAAAAGAGGTGCTCAATC
693755 ATCCGAAAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
56 40 0.48
57 44 0.52
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (56 bp):
CACAGAGGTGCCAATTCAAAGATTGATGAAAAGAGGTGCTCAATCGTTTTTTAATG
Found at i:693735 original size:56 final size:57
Alignment explanation
Indices: 693614--693754 Score: 178
Period size: 56 Copynumber: 2.5 Consensus size: 57
693604 GTGCCGGTTT
* * *
693614 AAAGATTGATGCACAGATGTGCTCAATCGTTTCTTTAATGCATAGAGGTGCCAATTC
1 AAAGATTGATGCACAGAGGTGCTCAATCGTTTCTTTAATGCACAAAGGTGCCAATTC
* * *
693671 AAATATTGATGAAAAGAGGTGCTCAATCGTTT-TTTAATGCACAAAGGTGCCAGATT-
1 AAAGATTGATGCACAGAGGTGCTCAATCGTTTCTTTAATGCACAAAGGTGCCA-ATTC
** *
693727 TTAGATTGAAGCACAGAGGTGCTCAATC
1 AAAGATTGATGCACAGAGGTGCTCAATC
693755 ATCCGAAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
56 40 0.56
57 31 0.44
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (57 bp):
AAAGATTGATGCACAGAGGTGCTCAATCGTTTCTTTAATGCACAAAGGTGCCAATTC
Found at i:693856 original size:54 final size:55
Alignment explanation
Indices: 693709--693865 Score: 192
Period size: 55 Copynumber: 2.9 Consensus size: 55
693699 GTTTTTTAAT
*
693709 GCACAAAGGTGCCAGATTTTAGATTGAAGCACAGAGGTGCTCAATCATCCGAAAA
1 GCACAAAGGTGCCAGATTCTAGATTGAAGCACAGAGGTGCTCAATCATCCGAAAA
* * * * * *
693764 G-AGCAAAGGTTCCTGATCCTAGATTGAAGTACAAAGGTGCTCAATCATCC-CAAA
1 GCA-CAAAGGTGCCAGATTCTAGATTGAAGCACAGAGGTGCTCAATCATCCGAAAA
* * * *
693818 GCACAAAGGTGGCAGATTCTACACTGAAGCATAGAGGTGCTCAATCAT
1 GCACAAAGGTGCCAGATTCTAGATTGAAGCACAGAGGTGCTCAATCAT
693866 TTTTAATTGT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
54 41 0.49
55 43 0.51
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (55 bp):
GCACAAAGGTGCCAGATTCTAGATTGAAGCACAGAGGTGCTCAATCATCCGAAAA
Found at i:695671 original size:18 final size:19
Alignment explanation
Indices: 695636--695680 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
695626 GTGATTTCAA
*
695636 AAAATAAAAATTAGACTTT
1 AAAATAAAAATTAAACTTT
695655 AAAATAAAAA-TAAACTTT
1 AAAATAAAAATTAAACTTT
*
695673 ATAATAAA
1 AAAATAAA
695681 TATCAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATAAAAATTAAACTTT
Found at i:697328 original size:13 final size:13
Alignment explanation
Indices: 697310--697334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
697300 TGATTAGTGG
697310 ATTGGACAAAAGC
1 ATTGGACAAAAGC
697323 ATTGGACAAAAG
1 ATTGGACAAAAG
697335 GGCACAAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (13 bp):
ATTGGACAAAAGC
Found at i:701243 original size:2 final size:2
Alignment explanation
Indices: 701236--701265 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
701226 ATTTTTAAGA
701236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
701266 GTAAGTTTTT
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):
AT
Found at i:701725 original size:42 final size:41
Alignment explanation
Indices: 701661--701780 Score: 168
Period size: 42 Copynumber: 2.9 Consensus size: 41
701651 TTTCTTTGAA
* *
701661 TTTCCGTGTTTGTTTTACGTAATCCGTTTTCCGGAAAATGTT
1 TTTCCGTGTTTGTTTCACGTAAT-CGTTTTCCGGAAAATATT
*
701703 TTTCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATATT
1 TTTCCGTGTTTGTTTCACGTAA-TCGTTTTCCGGAAAATATT
* *
701745 TTCCCGTGTTTGTTTCACGTAATTGATTTTCCGGAA
1 TTTCCGTGTTTGTTTCACGTAATCG-TTTTCCGGAA
701781 TGTAATTCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
41 2 0.03
42 67 0.96
43 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.47
Consensus pattern (41 bp):
TTTCCGTGTTTGTTTCACGTAATCGTTTTCCGGAAAATATT
Found at i:702001 original size:22 final size:23
Alignment explanation
Indices: 701971--702060 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 23
701961 TTTATTTATT
701971 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
*
701994 TATT-ATATTTTTAATATTATATAAAA
1 TATTAATATTTATAATA--ATAT--AA
*
702020 TAATCAATTATATTATAATAATATAAGA
1 T-ATTAA-TAT-TTATAATAATAT-A-A
702048 TATT-ATATTTATA
1 TATTAATATTTATA
702061 TTTTAATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
22 11 0.20
23 4 0.07
24 9 0.17
25 3 0.06
26 4 0.07
27 6 0.11
28 7 0.13
29 3 0.06
30 7 0.13
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:702008 original size:31 final size:29
Alignment explanation
Indices: 701963--702144 Score: 110
Period size: 29 Copynumber: 6.2 Consensus size: 29
701953 AAATATTATT
*
701963 TATTTATTTATTAATATTTATAATAATATAA
1 TATTTATTT-TTAATA-ATATAATAATATAA
* *
701994 TATTATATTTTTAATATTAT-ATAAAATAA
1 TATT-TATTTTTAATAATATAATAATATAA
* * * *
702023 TCAATTATATTATAATAATATAA-GATATTA
1 T-ATTTAT-TTTTAATAATATAATAATATAA
*
702053 TATTTATATTTTAATAATAT-ATAATAAAAA
1 TATTTAT-TTTTAATAATATAATAAT-ATAA
* *
702083 TCTTTATATATTTAATAAT-GAATAATAT--
1 TATTTAT-T-TTTAATAATATAATAATATAA
*
702111 TATTTATATATTTAA-AATATACTAAT-TAA
1 TATTTAT-T-TTTAATAATATAATAATATAA
702140 TATTT
1 TATTT
702145 TTAAAATATA
Statistics
Matches: 122, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
27 4 0.03
28 20 0.16
29 36 0.30
30 32 0.26
31 25 0.20
32 5 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (29 bp):
TATTTATTTTTAATAATATAATAATATAA
Found at i:702106 original size:28 final size:28
Alignment explanation
Indices: 702052--702131 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
702042 ATAAGATATT
*
702052 ATATTTATATTTTAATAATATATAATAAAA
1 ATATTTATATATT--TAATATATAATAAAA
* *
702082 ATCTTTATATATTTAATA-ATGAATAATA
1 ATATTTATATATTTAATATAT-AATAAAA
* *
702110 TTATTTATATATTTAAAATATA
1 ATATTTATATATTTAATATATA
702132 CTAATTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 27 0.64
29 2 0.05
30 11 0.26
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTTATATATTTAATATATAATAAAA
Found at i:702125 original size:59 final size:59
Alignment explanation
Indices: 701982--702136 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 59
701972 ATTAATATTT
* * * *
701982 ATAATAATATAATATTATATTTTTAATATTATATAA-AATAATCAATTATATTATAATA
1 ATAATAATATTATATTATATATTTAATAATATATAATAAAAATCAATTATATTATAATA
* *
702040 AT-ATAAGATATTATATT-TATATTTTAATAATATATAATAAAAATC-TTTATATATTTAATA
1 ATAAT-A-ATATTATATTATATA-TTTAATAATATATAATAAAAATCAATTATAT-TATAATA
702100 ATGAATAATATTAT-TTATATATTTAA-AATATACTAAT
1 AT-AATAATATTATATTATATATTTAATAATATA-TAAT
702137 TAATATTTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
57 2 0.02
58 12 0.15
59 40 0.49
60 25 0.30
61 1 0.01
62 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (59 bp):
ATAATAATATTATATTATATATTTAATAATATATAATAAAAATCAATTATATTATAATA
Found at i:702157 original size:58 final size:56
Alignment explanation
Indices: 701981--702173 Score: 133
Period size: 59 Copynumber: 3.3 Consensus size: 56
701971 TATTAATATT
* * * * * *
701981 TATAATAATATAATATTATATTTTTAATATTATATAA-AATAATCAATTATATTATAATAA
1 TATAACAATATTAT-TTATA-TTTTAATAATATATAATAAAAATC-TTTATA-AAT-ATAA
* * *
702041 TATAA-GATATTATATTTATATTTTAATAATATATAATAAAAATCTTTATATATTTAA
1 TATAACAATA-T-TATTTATATTTTAATAATATATAATAAAAATCTTTATAAATATAA
* * * *
702098 TAATGAATAATATTATTTATATATTTAA-AATATACTAATTAATATTTTTA-AAATATAA
1 T-AT-AACAATATTATTTATAT-TTTAATAATATA-TAATAAAAATCTTTATAAATATAA
702156 TATAACAATATTACTTTA
1 TATAACAATATTA-TTTA
702174 ATAAATAATT
Statistics
Matches: 111, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
56 9 0.08
57 10 0.09
58 27 0.24
59 43 0.39
60 20 0.18
61 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (56 bp):
TATAACAATATTATTTATATTTTAATAATATATAATAAAAATCTTTATAAATATAA
Found at i:702276 original size:18 final size:20
Alignment explanation
Indices: 702249--702286 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
702239 TAATAAAATT
702249 ATAAAAAAA-TA-TTTAATA
1 ATAAAAAAATTATTTTAATA
*
702267 ATAAATAAATTATTTTAATA
1 ATAAAAAAATTATTTTAATA
702287 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAAATTATTTTAATA
Found at i:702557 original size:36 final size:35
Alignment explanation
Indices: 702508--702576 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
702498 GTAATTCATT
*
702508 TTCCAGATTTCAAATTCCAATAATTCATTTTCCAG
1 TTCCAGAATTCAAATTCCAATAATTCATTTTCCAG
* *
702543 TTCCAGTAATTCAAATTTCAGTAATTCATTTTCC
1 TTCCAG-AATTCAAATTCCAATAATTCATTTTCC
702577 GAAAAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (35 bp):
TTCCAGAATTCAAATTCCAATAATTCATTTTCCAG
Found at i:702791 original size:27 final size:27
Alignment explanation
Indices: 702761--702818 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
702751 ATCGGTCGGA
*
702761 TAATTTTGGGTTTGGGTAGTTAACGAT
1 TAATTTTGGGTTTGGGTAGTTAACAAT
702788 TAATTTTGGGTTTGGGTAGTTAACAAT
1 TAATTTTGGGTTTGGGTAGTTAACAAT
702815 TAAT
1 TAAT
702819 AATTGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (27 bp):
TAATTTTGGGTTTGGGTAGTTAACAAT
Found at i:705886 original size:17 final size:17
Alignment explanation
Indices: 705864--705896 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
705854 AAGGAGGATG
705864 CCAATTCTGGTAAGATT
1 CCAATTCTGGTAAGATT
705881 CCAATTCTGGTAAGAT
1 CCAATTCTGGTAAGAT
705897 GCCTAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (17 bp):
CCAATTCTGGTAAGATT
Found at i:711287 original size:7 final size:7
Alignment explanation
Indices: 711275--711325 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
711265 CTTAGTAAGT
711275 AATGGGA
1 AATGGGA
711282 AATGGGA
1 AATGGGA
711289 AATGGGA
1 AATGGGA
711296 AATGGGA
1 AATGGGA
711303 AATGGGA
1 AATGGGA
711310 AATGGGA
1 AATGGGA
711317 AATGGGA
1 AATGGGA
711324 AA
1 AA
711326 AGGCTTGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.45, C:0.00, G:0.41, T:0.14
Consensus pattern (7 bp):
AATGGGA
Found at i:712168 original size:31 final size:30
Alignment explanation
Indices: 712116--712218 Score: 108
Period size: 30 Copynumber: 3.5 Consensus size: 30
712106 TTAAATTATT
*
712116 AAATAT-TATTTATATTTTATTTTAATTTA
1 AAATATATATTTTTATTTTATTTTAATTTA
712145 AAATATATATTTTTATTCTTATTTTAATTTA
1 AAATATATATTTTTATT-TTATTTTAATTTA
* *
712176 AGAA-ATATA-TTTTATATTTATCTTAACTATA
1 A-AATATATATTTTTAT-TTTATTTTAA-TTTA
712207 AAA-A-ATATTTTT
1 AAATATATATTTTT
712219 GAGCTTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
29 9 0.14
30 30 0.46
31 24 0.37
32 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (30 bp):
AAATATATATTTTTATTTTATTTTAATTTA
Found at i:712748 original size:30 final size:31
Alignment explanation
Indices: 712713--712772 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
712703 ATTGACCAAA
*
712713 TGTGTAATTCTTAC-AATTTT-TTAATTGTCG
1 TGTGTAATT-GTACTAATTTTATTAATTGTCG
712743 TGTGTAATTGTACTAATTTTATTAATTGTC
1 TGTGTAATTGTACTAATTTTATTAATTGTC
712773 ACATTAGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.11
30 15 0.56
31 9 0.33
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.53
Consensus pattern (31 bp):
TGTGTAATTGTACTAATTTTATTAATTGTCG
Found at i:720311 original size:55 final size:54
Alignment explanation
Indices: 720118--720298 Score: 258
Period size: 54 Copynumber: 3.3 Consensus size: 54
720108 TATGTAAAGG
*
720118 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAT
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAA
* * *
720172 CACTAAGTGCT-CAACCCACAAAAGTCATAATAAGTTTATGAACGACCGTATCGA
1 CACTAAGTG-TGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAA
* *
720226 CACTAAGTGTGCAACCCACAGAATTCATAATAAGGTTTATGAATGATCGTATCAA
1 CACTAAGTGTGCAACCCACAGAATTCATAATAA-GTTTATGAACGACCGTATCAA
*
720281 CACTACA-TGTGCACCCCA
1 CACTA-AGTGTGCAACCCA
720299 TGAAACTTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 77 0.68
55 34 0.30
56 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCAA
Found at i:720328 original size:14 final size:14
Alignment explanation
Indices: 720309--720337 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
720299 TGAAACTTAT
720309 AATGAGTTGCAATA
1 AATGAGTTGCAATA
720323 AATGAGTTGCAATA
1 AATGAGTTGCAATA
720337 A
1 A
720338 TTAATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AATGAGTTGCAATA
Found at i:726645 original size:17 final size:20
Alignment explanation
Indices: 726606--726648 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 20
726596 AAAGTTTGAG
726606 CTAACTAGCTCAACAACACA
1 CTAACTAGCTCAACAACACA
*
726626 CTAA-TAGCT-AA-AACATA
1 CTAACTAGCTCAACAACACA
726643 CTAACT
1 CTAACT
726649 GGATATCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 3 0.14
19 5 0.24
20 4 0.19
ACGTcount: A:0.47, C:0.28, G:0.05, T:0.21
Consensus pattern (20 bp):
CTAACTAGCTCAACAACACA
Found at i:741176 original size:23 final size:24
Alignment explanation
Indices: 741134--741180 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
741124 ATTTATCTTT
741134 TAAATTTTATAAAAAAAGTATATA
1 TAAATTTTATAAAAAAAGTATATA
*
741158 TAAATTTTAT-TAAAAAGTATATA
1 TAAATTTTATAAAAAAAGTATATA
741181 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAATTTTATAAAAAAAGTATATA
Found at i:748371 original size:41 final size:40
Alignment explanation
Indices: 748297--748690 Score: 207
Period size: 41 Copynumber: 9.6 Consensus size: 40
748287 TAGCGGCACT
* * * * *
748297 TTTAGCGGCGTTTTTTGAACAAACACCGGTAAATAATTGTGA-
1 TTTAGTGGCG-TTTTTGTATAAACGCCGATAAATAA-TGT-AC
* *
748339 TTTAGTGGTGTTTTTGTATAAACGCCGATAAATACTGTAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATAATGTAC
* *
748379 TTTATTGGCGTTTTTGTATAAACGCCGCTAAATAATGTAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATAATGTAC
* * * ** * *
748419 TTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGAGTCGTAC
1 TTTAGTGGCGTTTT-TGTATAAACGCCGATAAATAAT-GTAC
* * * * ** *
748461 TTTAGTGGCGTTTCTATACAAACACCGCCAAATACCTGTAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATA-ATGTAC
* * ** * *
748502 TTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACCTGTAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATA-ATGTAC
* * ** **
748543 TTTAGTGGCATTTTT-TATACAAACGCTGCCAAATACCCGTAC
1 TTTAGTGGCGTTTTTGTAT--AAACGCCGATAAATA-ATGTAC
* * * * * * ***
748585 TTTAGTGACTTTTTTTTACAAACGCCGCTAAAGACCCTAAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATAATGT-AC
* * * ** *
748626 TTTAGTGGCATTTTTTTACAAACGCCGCCAAATACTTGTAC
1 TTTAGTGGCGTTTTTGTATAAACGCCGATAAATA-ATGTAC
*
748667 TTTAGTGGCATTTTTGTATAAACG
1 TTTAGTGGCGTTTTTGTATAAACG
748691 TTGCCAAAGA
Statistics
Matches: 294, Mismatches: 49, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.00
40 57 0.19
41 175 0.60
42 59 0.20
43 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTGTATAAACGCCGATAAATAATGTAC
Found at i:748584 original size:124 final size:124
Alignment explanation
Indices: 748368--748716 Score: 395
Period size: 124 Copynumber: 2.8 Consensus size: 124
748358 AAACGCCGAT
* * * * *
748368 AAATA-CTGTACTTTATTGGCGTTTTTGTATAAACGCCGCTAAATA-ATGTACTTTAGTGGC-GT
1 AAATACCTGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAATACATGTACTTTAGTGGCATT
* * * *
748430 TTTAAGCACAAACGCCGCCAAAGAGTCGTACTTTAGTGGCGTTTCTATACAAACACCGCC
66 TTTTA-TACAAACGCTGCCAAAGACTCGTACTTTAGTGGCGTTTCTATACAAACACCGCC
* *
748490 AAATACCTGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACCTGTACTTTAGTGGCATT
1 AAATACCTGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAATACATGTACTTTAGTGGCATT
* * * * * * * *
748555 TTTTATACAAACGCTGCCAAATACCCGTACTTTAGTGACTTTTTTTTACAAACGCCGCT
66 TTTTATACAAACGCTGCCAAAGACTCGTACTTTAGTGGCGTTTCTATACAAACACCGCC
* * * * *
748614 AAAGACCCT-AACTTTAGTGGCATTTTTTTACAAACGCCGCCAAATACTTGTACTTTAGTGGCAT
1 AAATA-CCTGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAATACATGTACTTTAGTGGCAT
* *
748678 TTTTGTAT--AAACGTTGCCAAAGACTCTTACTTTAGTGGC
65 TTTT-TATACAAACGCTGCCAAAGACTCGTACTTTAGTGGC
748717 ATTTTTTGAA
Statistics
Matches: 192, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
122 5 0.03
123 61 0.32
124 115 0.60
125 11 0.06
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (124 bp):
AAATACCTGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAATACATGTACTTTAGTGGCATT
TTTTATACAAACGCTGCCAAAGACTCGTACTTTAGTGGCGTTTCTATACAAACACCGCC
Found at i:748697 original size:41 final size:41
Alignment explanation
Indices: 748339--748736 Score: 365
Period size: 41 Copynumber: 9.7 Consensus size: 41
748329 ATAATTGTGA
* * **
748339 TTTAGTGGTGTTTTTGTATAAACGCCGATAAATA-CTGTAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
* * * *
748379 TTTATTGGCGTTTTTGTATAAACGCCGCTAAATA-ATGTAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
* * * *
748419 TTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGA-GTCGTAC
1 TTTAGTGGCGTTTT-TGTACAAACGCCGCCAAATACCT-GTAC
* * *
748461 TTTAGTGGCGTTTCTATACAAACACCGCCAAATACCTGTAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
* *
748502 TTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACCTGTAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
* * * *
748543 TTTAGTGGCATTTTTTATACAAACGCTGCCAAATACCCGTAC
1 TTTAGTGGC-GTTTTTGTACAAACGCCGCCAAATACCTGTAC
* * * * * *
748585 TTTAGTGACTTTTTTTTACAAACGCCGCTAAAGACCCT-AAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATA-CCTGTAC
* * *
748626 TTTAGTGGCATTTTTTTACAAACGCCGCCAAATACTTGTAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
* * ** *
748667 TTTAGTGGCATTTTTGTATAAACGTTGCCAAAGACTCT-TAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATAC-CTGTAC
* * *
748708 TTTAGTGGCATTTTTTGAATAAACGCCGC
1 TTTAGTGGC-GTTTTTGTACAAACGCCGC
748737 AATTTTTCAG
Statistics
Matches: 302, Mismatches: 48, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
40 51 0.17
41 179 0.59
42 72 0.24
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTGTACAAACGCCGCCAAATACCTGTAC
Found at i:748732 original size:124 final size:122
Alignment explanation
Indices: 748339--748736 Score: 390
Period size: 124 Copynumber: 3.2 Consensus size: 122
748329 ATAATTGTGA
* * * ** * * *
748339 TTTAGTGG-TGTTTTTGTATAAACGCCGATAAATACTGTACTTTATTGGCGTTTTTGTATAAACG
1 TTTAGTGGCT-TTTTTGAACAAACGCCGCTAAATACCCTACTTTAGTGGCGTTTTTATACAAACG
* * * * * * *
748403 CCGCTAAATA-ATGTACTTTAGTGGCGTTTTAAGCACAAACGCCGCCAAAGAGTCGTAC
65 CCGCCAAATACATGTACTTTAGTGGCATTTT-TGTATAAACGCTGCCAAAGACTCGTAC
* * * * *
748461 TTTAGTGGCGTTTCT-ATACAAACACCGCCAAATACCTGTACTTTAGTGGCGTTTTTATACAAAC
1 TTTAGTGGCTTTTTTGA-ACAAACGCCGCTAAATACC-CTACTTTAGTGGCGTTTTTATACAAAC
* * * *
748525 GCCGCCAAAGACCTGTACTTTAGTGGCATTTTT-TATACAAACGCTGCCAAATACCCGTAC
64 GCCGCCAAATACATGTACTTTAGTGGCATTTTTGTAT--AAACGCTGCCAAAGACTCGTAC
* ** * * *
748585 TTTAGTGACTTTTTTTTACAAACGCCGCTAAAGACCCTAACTTTAGTGGCATTTTTTTACAAACG
1 TTTAGTGGCTTTTTTGAACAAACGCCGCTAAATACCCT-ACTTTAGTGGCGTTTTTATACAAACG
* * *
748650 CCGCCAAATACTTGTACTTTAGTGGCATTTTTGTATAAACGTTGCCAAAGACTCTTAC
65 CCGCCAAATACATGTACTTTAGTGGCATTTTTGTATAAACGCTGCCAAAGACTCGTAC
*
748708 TTTAGTGGCATTTTTTGAATAAACGCCGC
1 TTTAGTGGC-TTTTTTGAACAAACGCCGC
748737 AATTTTTCAG
Statistics
Matches: 224, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
122 27 0.12
123 60 0.27
124 134 0.60
125 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (122 bp):
TTTAGTGGCTTTTTTGAACAAACGCCGCTAAATACCCTACTTTAGTGGCGTTTTTATACAAACGC
CGCCAAATACATGTACTTTAGTGGCATTTTTGTATAAACGCTGCCAAAGACTCGTAC
Found at i:751827 original size:43 final size:43
Alignment explanation
Indices: 751744--751827 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 43
751734 GCACTTTTAA
* * * ***
751744 GAAAAACGCCGCTATAGATCTTGACCTTATGCGGTGTTTTTCT
1 GAAAAACGCCACTATAGAGCTTGACCTTATACGACATTTTTCT
* *
751787 GAAAAATGCCACTATAGAGCTTGACCTTTTACGACATTTTT
1 GAAAAACGCCACTATAGAGCTTGACCTTATACGACATTTTT
751828 GCTATAGATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (43 bp):
GAAAAACGCCACTATAGAGCTTGACCTTATACGACATTTTTCT
Found at i:751857 original size:30 final size:31
Alignment explanation
Indices: 751798--751857 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
751788 AAAAATGCCA
751798 CTATAGAGCTTGACCTTTTACGACATTTTTG
1 CTATAGAGCTTGACCTTTTACGACATTTTTG
* * *
751829 CTATAGATCTTG-CCTTTTGCGACGTTTTT
1 CTATAGAGCTTGACCTTTTACGACATTTTT
751858 CAGAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (31 bp):
CTATAGAGCTTGACCTTTTACGACATTTTTG
Found at i:767914 original size:24 final size:24
Alignment explanation
Indices: 767886--767991 Score: 113
Period size: 24 Copynumber: 4.4 Consensus size: 24
767876 AATATTTTAT
767886 TGATTTTTGATTTGAATTCTGTTA
1 TGATTTTTGATTTGAATTCTGTTA
* * * *
767910 CGATTTTTTATCTAAATTCTGTTA
1 TGATTTTTGATTTGAATTCTGTTA
* *
767934 TGATTTCTGATTTGGATTCTGTTA
1 TGATTTTTGATTTGAATTCTGTTA
* * * * *
767958 TGATATCTGATATGGATTCTGTTT
1 TGATTTTTGATTTGAATTCTGTTA
767982 TGATTTTTGA
1 TGATTTTTGA
767992 CATCTCCGTT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.21, C:0.08, G:0.17, T:0.55
Consensus pattern (24 bp):
TGATTTTTGATTTGAATTCTGTTA
Found at i:772684 original size:24 final size:24
Alignment explanation
Indices: 772650--772744 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
772640 TTTCAGATTT
772650 TGAATTATGTTCTGATTTCTGATC
1 TGAATTATGTTCTGATTTCTGATC
* * *
772674 TAAATTCTGTTCTAATTTCTGATC
1 TGAATTATGTTCTGATTTCTGATC
* * * *
772698 TGGATTCTGTTCTGATATCTTATC
1 TGAATTATGTTCTGATTTCTGATC
* *
772722 TGAATTATGTTTTTATTTCTGAT
1 TGAATTATGTTCTGATTTCTGAT
772745 ATCTCTGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.53
Consensus pattern (24 bp):
TGAATTATGTTCTGATTTCTGATC
Found at i:772711 original size:12 final size:12
Alignment explanation
Indices: 772650--772712 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
772640 TTTCAGATTT
*
772650 TGAATTATGTTC
1 TGAATTCTGTTC
* *
772662 TGATTTCTGATC
1 TGAATTCTGTTC
*
772674 TAAATTCTGTTC
1 TGAATTCTGTTC
*
772686 T-AATTTCTGATC
1 TGAA-TTCTGTTC
*
772698 TGGATTCTGTTC
1 TGAATTCTGTTC
772710 TGA
1 TGA
772713 TATCTTATCT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
11 2 0.05
12 36 0.92
13 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:785217 original size:20 final size:20
Alignment explanation
Indices: 785192--785249 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
785182 TCTGCCTTGC
**
785192 AAAGGATCGATCTCTTTTCA
1 AAAGGATCGATCTCTTTGAA
* *
785212 AAAGGATAGATCCTCTGTGAA
1 AAAGGATCGAT-CTCTTTGAA
*
785233 AAAGGATCGATCCCTTT
1 AAAGGATCGATCTCTTT
785250 CAAGAAACGG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (20 bp):
AAAGGATCGATCTCTTTGAA
Found at i:797098 original size:63 final size:63
Alignment explanation
Indices: 796999--797136 Score: 215
Period size: 63 Copynumber: 2.2 Consensus size: 63
796989 TTAAACCATT
*
796999 TTAGTATCAATACTCCTTCAAGTATCAATACTACTTATAAATATAGTATTGATACTCCCTTGA
1 TTAGTATCAATACTCCTTCAAGTATCAATACTACTTATAAATATAGTATCGATACTCCCTTGA
* *
797062 TTAGTATCGATACTCCTTCAAGTAT-ATATACTACTTATAACTATAGTATCGATACTCCCTTGA
1 TTAGTATCAATACTCCTTCAAGTATCA-ATACTACTTATAAATATAGTATCGATACTCCCTTGA
* *
797125 TCAGTACCAATA
1 TTAGTATCAATA
797137 TTCCATTTCT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 1 0.01
63 67 0.99
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (63 bp):
TTAGTATCAATACTCCTTCAAGTATCAATACTACTTATAAATATAGTATCGATACTCCCTTGA
Found at i:799115 original size:19 final size:19
Alignment explanation
Indices: 799093--799151 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
799083 TATATATATA
799093 TATATTAATAAATTTAATT
1 TATATTAATAAATTTAATT
* *
799112 TATATTAAAAAATAT-ATAT
1 TATATTAATAAATTTAAT-T
* * *
799131 AATATTTATATATTTAATT
1 TATATTAATAAATTTAATT
799150 TA
1 TA
799152 AATATATATA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTAATAAATTTAATT
Found at i:800437 original size:20 final size:19
Alignment explanation
Indices: 800414--800460 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
800404 CGATATACCA
*
800414 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
800434 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
800454 GGTAAAA
1 GGTAAAA
800461 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:800537 original size:181 final size:182
Alignment explanation
Indices: 800202--800674 Score: 741
Period size: 181 Copynumber: 2.6 Consensus size: 182
800192 GATCCAAATT
* * * **
800202 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
800267 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
800332 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
800384 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
800449 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
800513 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
800565 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
800630 AAACCGGTAAAACGATACCGAATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
800675 TGTAAGTACG
Statistics
Matches: 267, Mismatches: 24, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
181 169 0.63
182 98 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:800618 original size:20 final size:19
Alignment explanation
Indices: 800595--800641 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
800585 CGATATAACA
800595 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
800615 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
800635 GGTAAAA
1 GGTAAAA
800642 CGATACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:800646 original size:17 final size:19
Alignment explanation
Indices: 800606--800646 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
800596 GTAAAAATAT
*
800606 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
800626 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
800643 GATA
1 GATA
800647 CCGAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:802867 original size:19 final size:19
Alignment explanation
Indices: 802843--802890 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
802833 AATGTAGGGT
802843 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
802862 TAATTTTGTATACGCTTTA
1 TAATTTTGTATAAGATTTA
802881 TAATTTTGTA
1 TAATTTTGTA
802891 AGTGAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:803906 original size:200 final size:200
Alignment explanation
Indices: 803125--804520 Score: 2363
Period size: 200 Copynumber: 7.0 Consensus size: 200
803115 AATTTACAAT
*
803125 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
803190 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
803255 ATGAGAGAATAGGTCTAAGTAATGTATCGACACTTTTGTAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
803320 AATGA
196 AATGA
* *
803325 ATGGCAAATA-GG-GCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
803388 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
803453 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
803518 AATGA
196 AATGA
803523 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
803588 CGAAA-CCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
803652 ATGAGAGAATAGGTCTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
803717 AATGA
196 AATGA
*
803722 ATGTCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
803787 CGAAACCCATAAGTATAATATAATAGGTAATTTTTCAATATAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
803852 ATGAGAGAATAGGTCTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
803917 AATGA
196 AATGA
* *
803922 ATGGCAAACAGGGTGTAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
803987 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
804052 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
804117 AATGA
196 AATGA
*
804122 ATGGCAAACAGGGTGCAACAATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
804187 CGAAACCCATAAGTATAATGTAATAGGCAAATTTTCAATCTAACCGATACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
804252 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATGTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
804317 AATGA
196 AATGA
* * * *
804322 ATGGCAAACAGGGTGCAACCATAAAGTATCGATCTATATATAAAAAGTGTTGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * * *
804387 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATTTAACTGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * * * * * *
804452 ATGGGAGAATTGGTATATAAT-ATGTATCGACACTGTT-TAATGTTGTGTCGGTACTTTAT-GTC
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACTTTTGTAGT-TTGTGTCGATA-TTTTTGGTC
804514 CAGAATG
193 CAGAATG
804521 GAAGAAAAAT
Statistics
Matches: 1138, Mismatches: 52, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
198 188 0.17
199 203 0.18
200 741 0.65
201 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:804820 original size:183 final size:182
Alignment explanation
Indices: 804383--805027 Score: 898
Period size: 183 Copynumber: 3.5 Consensus size: 182
804373 GATCCCATAA
* * * * * * * *
804383 ACATCGAAACCCAAAAGTATAATGTATTAGGTAATTTT-TCAATTTAACTGGTATAAGTATACCG
1 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT-AATATAACCGGTATAAATATACCG
* * * * ** * * *
804447 GTTTTATGGGAGAATTGGTATATAATATGTATCGACACTGTTTAATGTTGTGTCGGTACTTTATG
65 GTTTTATGAGAGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
* * * * * *
804512 TCCAGAATGGAAGAAAAATATGTCGAAACCTTTTCAAAAAGTGTC-GATTGAAAAA
130 TCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCACATT---TAC
* * **
804567 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAATCAGTATAAATATACATG
1 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
*
804632 TTTTATGAGAGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGACGGTACTTTATGT
66 TTTTATGAGAGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
804697 CCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTAC
131 CCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC-ACATTTAC
* *
804750 ACATCGGAACCCAGAATTATAATGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGG
1 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
* * *
804815 TTTTATGAGCGAATAGGTCTAAAACCTATATCGACACTTTGTAATATTGTGTCGGTACTTTATGT
66 TTTTATGAGAGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
*
804880 CCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTTGACATTTAC
131 CCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTG-TCACATTTAC
*
804933 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGG
1 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
*
804998 TTTTATGAGCGAATAGGTCTACAACCTATA
66 TTTTATGAGAGAATAGGTCTACAACCTATA
805028 ACCGGTACTT
Statistics
Matches: 414, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
183 262 0.63
184 148 0.36
185 1 0.00
186 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (182 bp):
ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
TTTTATGAGAGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
CCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCACATTTAC
Found at i:807538 original size:87 final size:87
Alignment explanation
Indices: 807434--807596 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
807424 AAATCTGTCA
807434 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
807499 CCCATTAAATACCTATTTTATT
66 CCCATTAAATACCTATTTTATT
* *
807521 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
**
807586 CCGGTTAAATA
66 CCCATTAAATA
807597 ATATAACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCCATTAAATACCTATTTTATT
Found at i:807568 original size:23 final size:23
Alignment explanation
Indices: 807518--807562 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
807508 TACCTATTTT
* *
807518 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
807541 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
807563 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:813998 original size:23 final size:21
Alignment explanation
Indices: 813946--814005 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
813936 ACCTCATGTG
*
813946 GGGGTATCGGTACCCATTCAA
1 GGGGTATCGGTACCCATGCAA
813967 GGAGAGTATCGGTACCCATGCAAA
1 GG-G-GTATCGGTACCCATGC-AA
*
813991 TGGGGTATCGATACC
1 -GGGGTATCGGTACC
814006 TCCTGTACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 1 0.03
23 25 0.76
24 3 0.09
25 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (21 bp):
GGGGTATCGGTACCCATGCAA
Found at i:816476 original size:29 final size:29
Alignment explanation
Indices: 816410--816477 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
816400 GAAGGACCTA
* * *
816410 TCCAGAGGTCACAAAG-ACCCCGATAAATA
1 TCCAGAGGTCACAAAGAACCTCGA-AACTG
816439 TCCAGAGGTCACAAAGAACCTCGAAACTG
1 TCCAGAGGTCACAAAGAACCTCGAAACTG
*
816468 TCCATAGGTC
1 TCCAGAGGTC
816478 TTGAAGAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (29 bp):
TCCAGAGGTCACAAAGAACCTCGAAACTG
Found at i:816484 original size:29 final size:31
Alignment explanation
Indices: 816452--816509 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
816442 AGAGGTCACA
816452 AAGAACCT-CG-AAACTGTCCATAGGTCTTG
1 AAGAACCTACGTAAACTGTCCATAGGTCTTG
* *
816481 AAGAACCTAGGTAAACTGTCCATATGTCT
1 AAGAACCTACGTAAACTGTCCATAGGTCT
816510 CGAAAGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 1 0.04
31 16 0.64
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (31 bp):
AAGAACCTACGTAAACTGTCCATAGGTCTTG
Found at i:816500 original size:31 final size:31
Alignment explanation
Indices: 816462--816527 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
816452 AAGAACCTCG
* *
816462 AAACTGTCCATAGGTCTTG-AAGAACCTAGGT
1 AAACTGTCCATAGGTCTCGAAAG-ACATAGGT
*
816493 AAACTGTCCATATGTCTCGAAAGACATAGGT
1 AAACTGTCCATAGGTCTCGAAAGACATAGGT
816524 AAAC
1 AAAC
816528 CCTCAACTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (31 bp):
AAACTGTCCATAGGTCTCGAAAGACATAGGT
Found at i:817443 original size:20 final size:20
Alignment explanation
Indices: 817418--817455 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
817408 TTCCCCTTGA
*
817418 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATACATTCTAC
817438 AGTGCATCGATACATTCT
1 AGTGCATCGATACATTCT
817456 TTAACATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:817540 original size:64 final size:64
Alignment explanation
Indices: 817463--817603 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
817453 TCTTTAACAT
* *
817463 ATGCATCGATGCACTACC-CATGCATCGATACA-CAAATTACCTTCGATGTTTTCAT-TTTAAGG
1 ATGCATCGATGCACT-CCTCATGCATCGATACATC-AATTACATTCGATG-TTTCATCTTTAAAG
*
817525 GG
63 AG
* * * *
817527 ATGCATCGATGCACTCCTTATGCATCGATGCATCAATTGCATTCGATGTTTCTTCTTTAAAGAG
1 ATGCATCGATGCACTCCTCATGCATCGATACATCAATTACATTCGATGTTTCATCTTTAAAGAG
817591 -TGCATCGATGCAC
1 ATGCATCGATGCAC
817604 ATTAAATATG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 20 0.30
64 46 0.69
65 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTCATGCATCGATACATCAATTACATTCGATGTTTCATCTTTAAAGAG
Found at i:819655 original size:26 final size:26
Alignment explanation
Indices: 819626--819679 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
819616 CTAAATACAA
*
819626 CATGTATATGTTTCTTATTCTATGAC
1 CATGTATATGTTTCCTATTCTATGAC
819652 CATGTATATGTTTCCTATTCTATGAC
1 CATGTATATGTTTCCTATTCTATGAC
819678 CA
1 CA
819680 ACAAGCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (26 bp):
CATGTATATGTTTCCTATTCTATGAC
Found at i:820500 original size:22 final size:21
Alignment explanation
Indices: 820458--820497 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
820448 AAGACTATTT
820458 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
820479 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
820498 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:823699 original size:30 final size:31
Alignment explanation
Indices: 823635--823697 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
823625 CATTCAAACC
* * *
823635 TTTCCAAAATTGTCAAATTGGTCCCCCAAAT
1 TTTCAAAAATTATCAAAATGGTCCCCCAAAT
823666 TTTCAAAAATTAT-AAAATGGT-CCCCAAAT
1 TTTCAAAAATTATCAAAATGGTCCCCCAAAT
823695 TTT
1 TTT
823698 TCTGAGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.38
30 7 0.24
31 11 0.38
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTCAAAAATTATCAAAATGGTCCCCCAAAT
Found at i:829037 original size:53 final size:53
Alignment explanation
Indices: 828923--829083 Score: 263
Period size: 53 Copynumber: 3.1 Consensus size: 53
828913 CTAAGGTAAT
*
828923 GAAATGGTAATTCACAAACTCATTATG-A-ACCATAGATGCACACATAGTGCC
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCC
* * *
828974 GAAATGGTAATTCACAAACTCATTATGAATACCACGGATGCACACACAGTGTC
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCC
*
829027 GAAATGGTAATTCACAAACTCATTATGAATACCATGGGTGCACACATAGTGCC
1 GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCC
829080 GAAA
1 GAAA
829084 GTACACAAAG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 27 0.27
52 1 0.01
53 72 0.72
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (53 bp):
GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCC
Found at i:831122 original size:29 final size:28
Alignment explanation
Indices: 831090--831176 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 28
831080 AAATGTAACT
831090 TTTTAAAATTACTATTTTGGTCCTTAAAC
1 TTTTAAAATTA-TATTTTGGTCCTTAAAC
*
831119 TTTTCAAAAGTTTATACTTTGGTCAC-TAAAC
1 TTTT-AAAA--TTATATTTTGGTC-CTTAAAC
* * *
831150 TTTCAAAATTTGTATTTTGGTCATTAA
1 TTTTAAAA-TTATATTTTGGTCCTTAA
831177 CCAAATCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
29 19 0.40
30 8 0.17
31 17 0.35
32 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (28 bp):
TTTTAAAATTATATTTTGGTCCTTAAAC
Found at i:831142 original size:31 final size:29
Alignment explanation
Indices: 831105--831176 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
831095 AAATTACTAT
831105 TTTGGTCCTTAAACTTTTCAAAAGTTTATAC
1 TTTGGTCCTTAAAC-TTTCAAAA-TTTATAC
* *
831136 TTTGGTCAC-TAAACTTTCAAAATTTGTAT
1 TTTGGTC-CTTAAACTTTCAAAATTTATAC
*
831165 TTTGGTCATTAA
1 TTTGGTCCTTAA
831177 CCAAATCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 15 0.42
30 8 0.22
31 12 0.33
32 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (29 bp):
TTTGGTCCTTAAACTTTCAAAATTTATAC
Found at i:849102 original size:48 final size:48
Alignment explanation
Indices: 849039--849157 Score: 220
Period size: 48 Copynumber: 2.5 Consensus size: 48
849029 TCAGTGGATG
849039 ACACGGTTCCTACGTGATGAGGATGGTAAACCATCTTTAGGGATGATA
1 ACACGGTTCCTACGTGATGAGGATGGTAAACCATCTTTAGGGATGATA
*
849087 ACACGGTTCCTACGTGATGAGGATGGTAGACCATCTTTAGGGATGATA
1 ACACGGTTCCTACGTGATGAGGATGGTAAACCATCTTTAGGGATGATA
*
849135 ACACAGTTCCTACGTGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
849158 GGTCTGGTCG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
ACACGGTTCCTACGTGATGAGGATGGTAAACCATCTTTAGGGATGATA
Found at i:849326 original size:65 final size:66
Alignment explanation
Indices: 849222--849431 Score: 327
Period size: 65 Copynumber: 3.2 Consensus size: 66
849212 TAGGGATAAT
* *
849222 GTTTCAAGGGAAACATACTCAAAGATGATT-TTTCAAGAGAAACTGTCTCAAAAGAGACAAAATT
1 GTTTCAAGGGAAACAGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
849286 C
66 C
* * *
849287 GTTTCAATGGAAACA-ACTCAAAGATGATTGTTTCAAGAGAAAATGTCTCAAGAGAGATAAAATT
1 GTTTCAAGGGAAACAGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
849351 C
66 C
* *
849352 GTTCCAAGGGAAA-AGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 GTTTCAAGGGAAACAGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
849416 T
66 C
849417 GTTTCAAGGGAAACA
1 GTTTCAAGGGAAACA
849432 ATTTCAAAGT
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
64 15 0.11
65 115 0.88
66 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (66 bp):
GTTTCAAGGGAAACAGACTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
C
Found at i:849328 original size:29 final size:29
Alignment explanation
Indices: 849302--849393 Score: 85
Period size: 36 Copynumber: 2.9 Consensus size: 29
849292 AATGGAAACA
849302 ACTCAAAGATGATTGTTTCAAGAGAAAATG
1 ACTCAAAGATGATTGTTTCAAGAGAAAA-G
* * * *
849332 TCTCAAGAGAGATAAAATTCGTTCCAAGGGAAAAG
1 ACTC-A-A-AGAT--GATT-GTTTCAAGAGAAAAG
849367 ACTCAAAGATGATTGTTTCAAGAGAAA
1 ACTCAAAGATGATTGTTTCAAGAGAAA
849394 CTGTCTCAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
29 11 0.23
30 6 0.12
31 1 0.02
32 5 0.10
33 5 0.10
34 1 0.02
35 7 0.15
36 12 0.25
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (29 bp):
ACTCAAAGATGATTGTTTCAAGAGAAAAG
Found at i:860952 original size:2 final size:2
Alignment explanation
Indices: 860945--860973 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
860935 TTTATACCCG
860945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
860974 CAAGAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:861293 original size:6 final size:6
Alignment explanation
Indices: 861287--861353 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
861277 ATTTGGATTC
* * * *
861287 GGGTTC GGGTTT GGGGTTT AGGTTT GGGTTT GGGTTT GGGATC GGGTTT
1 GGGTTT GGGTTT -GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
* *
861336 GGGTTC GGGATT GGGTTT
1 GGGTTT GGGTTT GGGTTT
861354 TACTTAGGGT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.04, C:0.04, G:0.49, T:0.42
Consensus pattern (6 bp):
GGGTTT
Found at i:861317 original size:12 final size:12
Alignment explanation
Indices: 861294--861382 Score: 54
Period size: 12 Copynumber: 7.3 Consensus size: 12
861284 TTCGGGTTCG
861294 GGTTTGGGGTTTA
1 GGTTT-GGGTTTA
*
861307 GGTTTGGGTTTG
1 GGTTTGGGTTTA
* **
861319 GGTTTGGGATCG
1 GGTTTGGGTTTA
**
861331 GGTTTGGGTTCG
1 GGTTTGGGTTTA
*
861343 GGATTGGGTTTTA
1 GGTTTGGG-TTTA
* *
861356 -CTTAGGGTTTA
1 GGTTTGGGTTTA
* *
861367 GGTTAGGGTTAA
1 GGTTTGGGTTTA
861379 GGTT
1 GGTT
861383 AGAAGAAGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
11 4 0.06
12 51 0.82
13 7 0.11
ACGTcount: A:0.10, C:0.03, G:0.44, T:0.43
Consensus pattern (12 bp):
GGTTTGGGTTTA
Found at i:861345 original size:18 final size:18
Alignment explanation
Indices: 861278--861353 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
861268 TTCGGGTTCA
* *
861278 TTTGGATTCGGGTTCGGG
1 TTTGGGTTCGGGATCGGG
** * *
861296 TTTGGGGTTTAGGTTTGGG
1 TTT-GGGTTCGGGATCGGG
*
861315 TTTGGGTTTGGGATCGGG
1 TTTGGGTTCGGGATCGGG
*
861333 TTTGGGTTCGGGATTGGG
1 TTTGGGTTCGGGATCGGG
861351 TTT
1 TTT
861354 TACTTAGGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
18 34 0.71
19 14 0.29
ACGTcount: A:0.05, C:0.05, G:0.46, T:0.43
Consensus pattern (18 bp):
TTTGGGTTCGGGATCGGG
Found at i:861736 original size:99 final size:99
Alignment explanation
Indices: 861524--861839 Score: 407
Period size: 99 Copynumber: 3.2 Consensus size: 99
861514 GGTGTTTATA
* * * **
861524 AGGG-TTTGGGGAAGAAAC-GGATGAATAATGGATGAATTTGTGAGTGTTTGAT-CGAAAA-ATG
1 AGGGTTTTGGGGAAG-AACTGGATGAA-CACGGATGAATTTTTG-GTGTTTGATAAAAAAACATG
861585 -AATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
63 AAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
861621 AGGGTTTTGGGGAAGAACTGGGATGAACACGGATGAATTTTTGGTGTTTGATAAAAAAACATGAA
1 AGGGTTTTGGGGAAGAACT-GGATGAACACGGATGAATTTTTGGTGTTTGATAAAAAAACATGAA
861686 ATGGTTTGGGTTTTGGTGTTTTTGAAGATC-AATG
65 ATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
** *
861720 AGGGTTTTGGGGAAGAACTGGATGAACACGGATGAATGTTTTGGCATTTGATAGGAAAAAACACG
1 AGGGTTTTGGGGAAGAACTGGATGAACACGGATGAAT-TTTTGGTGTTTGATA--AAAAAACATG
* *
861785 AAATGG-TT-GG-TTTGGTATTTTTGAAGATCAAAAG
63 AAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
*
861819 AGAGTTTTGGGGAAGAACTGG
1 AGGGTTTTGGGGAAGAACTGG
861840 GAACAAGTGA
Statistics
Matches: 198, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
97 16 0.08
98 63 0.32
99 71 0.36
100 33 0.17
101 15 0.08
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.32
Consensus pattern (99 bp):
AGGGTTTTGGGGAAGAACTGGATGAACACGGATGAATTTTTGGTGTTTGATAAAAAAACATGAAA
TGGTTTGGGTTTTGGTGTTTTTGAAGATCAAATG
Found at i:862319 original size:49 final size:48
Alignment explanation
Indices: 862251--862518 Score: 283
Period size: 49 Copynumber: 5.4 Consensus size: 48
862241 ATATTAAAAA
* * *
862251 ATATATAGGTTATATATACTAATGAACT-TTTCAATATATAATTTATAT
1 ATATATAGTTTATATATACTAATGAACTATAT-AATATATAGTTTATAT
862299 ACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
1 A-TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
** * *
862348 ATACTA-A-TGAACTATATA-TAATGTATAGTTTAGATATATCATATAGTTTATATAT
1 ATA-TATAGTTTA-TATATACTAATG-A-A--CTATATA-AT-ATATAG-TT-TATAT
* *
862403 ATTATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTATAT
1 A-TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
* *
862452 ACCATATAGTTTATATATTCTAATGAACTATATAATATATAGTTTATAT
1 A-TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
862501 ATATATAGTTTATATATA
1 ATATATAGTTTATATATA
862519 TAGTATAGTA
Statistics
Matches: 184, Mismatches: 20, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
47 7 0.04
48 26 0.14
49 95 0.52
50 4 0.02
51 10 0.05
52 4 0.02
53 11 0.06
54 2 0.01
55 9 0.05
56 10 0.05
57 6 0.03
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (48 bp):
ATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATAT
Found at i:862331 original size:33 final size:33
Alignment explanation
Indices: 862294--862452 Score: 185
Period size: 33 Copynumber: 4.7 Consensus size: 33
862284 ATATATAATT
*
862294 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
862327 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * **
862360 TATATATAATGTATAGTTTAGATATATCATATAGTTTA-
1 --TATATAATATATAGTTTATATATA-C-TA-A-TGAAC
* *
862398 TATATATTATATAGTTTATATATACTAATAAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
862431 TATATAATGTATAGTTTATATA
1 TATATAATATATAGTTTATATA
862453 CCATATAGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.02
33 53 0.50
34 2 0.02
35 23 0.21
36 22 0.21
37 2 0.02
38 1 0.01
39 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:862332 original size:17 final size:17
Alignment explanation
Indices: 862310--862367 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
862300 CTATATAGTT
862310 TATATATACTAATGAAC
1 TATATATACTAATGAAC
**
862327 TATATA-A-TATAT-AGTT
1 TATATATACTA-ATGA-AC
862343 TATATATACTAATGAAC
1 TATATATACTAATGAAC
862360 TATATATA
1 TATATATA
862368 ATGTATAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:862418 original size:71 final size:67
Alignment explanation
Indices: 862327--862469 Score: 223
Period size: 71 Copynumber: 2.1 Consensus size: 67
862317 ACTAATGAAC
* *
862327 TATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTTTAGATATATCATAT
1 TATATAATATATAGTTTATATATACTAATAAAC--TATATAATGTATAGTTT--ATATACCATAT
862392 AGTTTA
62 AGTTTA
*
862398 TATATATTATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTATATACCATATAGTT
1 TATATAATATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTATATACCATATAGTT
862463 TA
66 TA
862465 TATAT
1 TATAT
862470 TCTAATGAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
67 21 0.30
69 17 0.25
71 31 0.45
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (67 bp):
TATATAATATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTATATACCATATAGTT
TA
Found at i:862485 original size:2 final size:2
Alignment explanation
Indices: 862480--862553 Score: 53
Period size: 2 Copynumber: 35.0 Consensus size: 2
862470 TCTAATGAAC
* *
862480 TA TA TA -A TA TA TA GTT TA TA TA TA TA TA GTT TA TA TA TA TA GTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
*
862524 TA GTA TA GTA TA AA T- TA TA TA TA TA GTA TA
1 TA -TA TA -TA TA TA TA TA TA TA TA TA -TA TA
862554 AAATATCAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
1 2 0.03
2 46 0.79
3 10 0.17
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (2 bp):
TA
Found at i:862517 original size:33 final size:33
Alignment explanation
Indices: 862283--862527 Score: 130
Period size: 33 Copynumber: 7.3 Consensus size: 33
862273 TGAACTTTTC
*
862283 AATATATAATTTATATACTATATAGTTTATATAT
1 AATATATAGTTTATATA-TATATAGTTTATATAT
* **
862317 ACTA-AT-GAACTATATAATATATAGTTTATATAT
1 AATATATAG-TTTATAT-ATATATAGTTTATATAT
* * * * *
862350 ACTA-ATGAACTATATATAATGTATAGTTTAGATAT
1 AATATAT--AGTTTATAT-ATATATAGTTTATATAT
862385 -ATCATATAGTTTATATATATTATATAGTTTATATAT
1 AAT-ATATAG-TT-TATATA-TATATAGTTTATATAT
* *** *
862421 ACTA-ATAAACTATATAATGTATAG-TT-TATAT
1 AATATATAGTTTATAT-ATATATAGTTTATATAT
** * * **
862452 ACCATATAGTTTATATAT-TCTAATGAACTATAT
1 AATATATAGTTTATATATATATAGTTTA-TATAT
862485 AATATATAGTTTATATATATATAGTTTATATAT
1 AATATATAGTTTATATATATATAGTTTATATAT
862518 -ATAGTATAGT
1 AATA-TATAGT
862528 ATAGTATAAA
Statistics
Matches: 160, Mismatches: 33, Indels: 37
0.70 0.14 0.16
Matches are distributed among these distances:
30 3 0.02
31 10 0.06
32 13 0.08
33 72 0.45
34 12 0.08
35 27 0.17
36 22 0.14
37 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (33 bp):
AATATATAGTTTATATATATATAGTTTATATAT
Found at i:862517 original size:153 final size:150
Alignment explanation
Indices: 862252--862535 Score: 403
Period size: 153 Copynumber: 1.9 Consensus size: 150
862242 TATTAAAAAA
* * *
862252 TATATAGGTTATATATACTAATGAACTTTTCAATATATAATTTATATACTATATAGTTTATATAT
1 TATATAGGTTATATATACTAATAAACTTATCAATATATAATTTATATACCATATAGTTTATATAT
*
862317 ACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTTTAGA
66 ACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATAT-A-GTATAGTATAG-
862382 TATATCATATAGTTTATATATAT
128 TATATCATATAGTTTATATATAT
* * *
862405 TATATAGTTTATATATACTAATAAACTATAT-AATGTATAGTTTATATACCATATAGTTTATATA
1 TATATAGGTTATATATACTAATAAACT-TATCAATATATAATTTATATACCATATAGTTTATATA
* **
862469 TTCTAATGAACTATATAATATATAGTTTATATATA-TATAGTTTA-TATATATAGTATAGTATAG
65 TACTAATGAACTATATAATATATAGTTTATATATACTA-A-TGAACTATATATAGTATAGTATAG
862532 TATA
128 TATA
862536 AATTATATAT
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
150 4 0.03
151 10 0.08
152 3 0.03
153 97 0.82
154 4 0.03
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (150 bp):
TATATAGGTTATATATACTAATAAACTTATCAATATATAATTTATATACCATATAGTTTATATAT
ACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATAGTATAGTATAGTAT
ATCATATAGTTTATATATAT
Found at i:862535 original size:15 final size:13
Alignment explanation
Indices: 862480--862553 Score: 69
Period size: 13 Copynumber: 5.3 Consensus size: 13
862470 TCTAATGAAC
862480 TATATAATATATAG
1 TATAT-ATATATAG
862494 TTTATATATATATAG
1 --TATATATATATAG
*
862509 TTTATATATATAG
1 TATATATATATAG
862522 TATAGTATAGTATA-
1 TATA-TATA-TATAG
*
862536 AATTATATATATAG
1 TA-TATATATATAG
862550 TATA
1 TATA
862554 AAATATCAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
13 21 0.42
14 10 0.20
15 14 0.28
16 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (13 bp):
TATATATATATAG
Found at i:862535 original size:28 final size:26
Alignment explanation
Indices: 862486--862662 Score: 88
Period size: 28 Copynumber: 6.8 Consensus size: 26
862476 GAACTATATA
**
862486 ATATATAGTTTATATATATATAGTTTAT
1 ATATATAG--TATATATATATAAATTAT
862514 ATATATAGTATAGTATAGTATAAATTAT
1 ATATATAGTATA-TATA-TATAAATTAT
* * *
862542 ATATATAGTATA-AAATATCAACTAT
1 ATATATAGTATATATATATAAATTAT
*
862567 AGTATATAGT-T-TATATGGT---TT-T
1 A-TATATAGTATATATAT-ATAAATTAT
* *
862589 -TATATA-T-TTTCATATGTAAATTAT
1 ATATATAGTATAT-ATATATAAATTAT
* *
862613 ACTATATAGTATATATAGTTTATA-TAT
1 A-TATATAGTATATATA-TATAAATTAT
*
862640 AATATATAGTATATAAATATAAA
1 -ATATATAGTATATATATATAAA
862663 ACTATAGAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 36
0.70 0.08 0.21
Matches are distributed among these distances:
19 2 0.02
20 9 0.08
21 4 0.03
22 1 0.01
23 3 0.03
24 1 0.01
25 13 0.11
26 25 0.21
27 25 0.21
28 35 0.30
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (26 bp):
ATATATAGTATATATATATAAATTAT
Found at i:862573 original size:153 final size:153
Alignment explanation
Indices: 862248--862574 Score: 373
Period size: 153 Copynumber: 2.1 Consensus size: 153
862238 TTTATATTAA
* * * *
862248 AAAATATATAGGT-TATATATACTAATGAACTTTTCAATATATAATTTATATACTATATAGTTTA
1 AAAATATATA-CTATATATATACTAATAAACTTATCAATATATAATTTATATACCATATAGTTTA
862312 TATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGT
65 TATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGT
* * *
862377 TTAGATATATCATATAGTTTATAT
130 ATAGATAAATCATATAGTATATAT
* * * * * *
862401 ATATTATATAGTTTATATATACTAATAAACTATAT-AATGTATAGTTTATATACCATATAGTTTA
1 AAAATATATACTATATATATACTAATAAACT-TATCAATATATAATTTATATACCATATAGTTTA
* * *
862465 TATATTCTAATGAACTATATAATATATAGTTTATATATA-T-AT--AGTTTATATATATAGTATA
65 TATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATA-AT-GTATA
*
862526 GTATAGTATAAATTATATA-TATAGTAT
128 GTATAG-ATAAATCATATAGTATA-TAT
862553 AAAATATCA-ACTATAGTATATA
1 AAAATAT-ATACTATA-TATATA
862575 GTTTATATGG
Statistics
Matches: 148, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
149 8 0.05
150 2 0.01
151 15 0.10
152 25 0.17
153 96 0.65
154 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (153 bp):
AAAATATATACTATATATATACTAATAAACTTATCAATATATAATTTATATACCATATAGTTTAT
ATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTA
TAGATAAATCATATAGTATATAT
Found at i:862629 original size:9 final size:9
Alignment explanation
Indices: 862615--862654 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
862605 TAAATTATAC
862615 TATATAGTA
1 TATATAGTA
*
862624 TATATAGTT
1 TATATAGTA
862633 TATATA-TAA
1 TATATAGT-A
862642 TATATAGTA
1 TATATAGTA
862651 TATA
1 TATA
862655 AATATAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (9 bp):
TATATAGTA
Found at i:862789 original size:41 final size:41
Alignment explanation
Indices: 862743--862830 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 41
862733 TAAATATATA
862743 TATAGTTCATATGTAAACTATAG-TTCATATGTAAATATCAAC
1 TATAGTTCATATGTAAACTATAGTTTCATA--TAAATATCAAC
*
862785 -ATAGTTTATATGTAAACTATAGTTTCATATAAATATCAAC
1 TATAGTTCATATGTAAACTATAGTTTCATATAAATATCAAC
862825 TATAGT
1 TATAGT
862831 GTATATATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
40 11 0.26
41 26 0.60
42 6 0.14
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (41 bp):
TATAGTTCATATGTAAACTATAGTTTCATATAAATATCAAC
Found at i:862825 original size:23 final size:23
Alignment explanation
Indices: 862758--862830 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
862748 TTCATATGTA
862758 AACTATAG-TTCATATGTAAATATC
1 AACTATAGTTTCATA--TAAATATC
*
862782 AAC-ATAGTTT-ATAT--GTA--
1 AACTATAGTTTCATATAAATATC
862799 AACTATAGTTTCATATAAATATC
1 AACTATAGTTTCATATAAATATC
862822 AACTATAGT
1 AACTATAGT
862831 GTATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
17 3 0.08
18 7 0.17
19 6 0.15
21 3 0.08
23 16 0.40
24 5 0.12
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (23 bp):
AACTATAGTTTCATATAAATATC
Found at i:862879 original size:34 final size:33
Alignment explanation
Indices: 862832--862906 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 33
862822 AACTATAGTG
*
862832 TATATATATAGTTCATATGTAAACTATATAGTT-A
1 TATATATACAGTTCATATGTAAAC--TATAGTTCA
862866 TATATATACAGTTCATATGTAAACTATAGTTCA
1 TATATATACAGTTCATATGTAAACTATAGTTCA
862899 TATATATA
1 TATATATA
862907 GTATATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 7 0.18
33 9 0.23
34 23 0.59
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (33 bp):
TATATATACAGTTCATATGTAAACTATAGTTCA
Found at i:862911 original size:18 final size:17
Alignment explanation
Indices: 862832--862911 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 17
862822 AACTATAGTG
862832 TATATATATAGTTCATA
1 TATATATATAGTTCATA
*
862849 TGTAAACTATATAG-T--TA
1 --TATA-TATATAGTTCATA
*
862866 TATATATACAGTTCATA
1 TATATATATAGTTCATA
* *
862883 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
862901 TATATAGTATA
1 TATATA-TATA
862912 TAAATATAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
17 8 0.17
18 18 0.38
19 4 0.09
20 7 0.15
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:862912 original size:11 final size:11
Alignment explanation
Indices: 862898--862967 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
862888 ACTATAGTTC
862898 ATATATATAGT
1 ATATATATAGT
*
862909 ATATAAATA-T
1 ATATATATAGT
*
862919 AAAT-TATAGT
1 ATATATATAGT
* *
862929 TTATAAATAGT
1 ATATATATAGT
*
862940 ATAAATATAGT
1 ATATATATAGT
*
862951 GTATATATTAGT
1 ATATATA-TAGT
862963 ATATA
1 ATATA
862968 AATAAACTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
9 3 0.07
10 7 0.16
11 26 0.59
12 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (11 bp):
ATATATATAGT
Found at i:862962 original size:23 final size:23
Alignment explanation
Indices: 862916--862965 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
862906 AGTATATAAA
*
862916 TATAAATTATAGTTTATAAATAG
1 TATAAATTATAGTGTATAAATAG
*
862939 TATAAA-TATAGTGTATATATTAG
1 TATAAATTATAGTGTATA-AATAG
862962 TATA
1 TATA
862966 TAAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (23 bp):
TATAAATTATAGTGTATAAATAG
Found at i:863004 original size:26 final size:23
Alignment explanation
Indices: 862952--863004 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 23
862942 AAATATAGTG
862952 TATATATTAGTATATAAATAAAC
1 TATATATTAGTATATAAATAAAC
862975 TATAGTATGTAGTATATAATATAAAC
1 TATA-TAT-TAGTATATAA-ATAAAC
863001 TATA
1 TATA
863005 ATTTATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 4 0.15
24 3 0.11
25 10 0.37
26 10 0.37
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (23 bp):
TATATATTAGTATATAAATAAAC
Found at i:863061 original size:24 final size:24
Alignment explanation
Indices: 863033--863080 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
863023 TAAATAGTTT
863033 AATAGGTCACTA-ATAAACTATATA
1 AATAGGTCA-TATATAAACTATATA
*
863057 AATAGGTCATATGTAAACTATATA
1 AATAGGTCATATATAAACTATATA
863081 GTAATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (24 bp):
AATAGGTCATATATAAACTATATA
Found at i:863098 original size:9 final size:9
Alignment explanation
Indices: 863075--863130 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
863065 ATATGTAAAC
863075 TATATAG-T
1 TATATAGTT
*
863083 AATATAGTT
1 TATATAGTT
*
863092 TATATAGTA
1 TATATAGTT
863101 TA-AGTTAGTT
1 TATA--TAGTT
*
863111 TATATTGTT
1 TATATAGTT
863120 TATATAGTT
1 TATATAGTT
863129 TA
1 TA
863131 AATACTACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
8 7 0.18
9 24 0.63
10 6 0.16
11 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (9 bp):
TATATAGTT
Found at i:863415 original size:18 final size:17
Alignment explanation
Indices: 863380--863415 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
863370 ATATATAAAC
*
863380 TAGTTTATACTGATATA
1 TAGTTTATACTAATATA
863397 TAGTTTATACATAATATA
1 TAGTTTATAC-TAATATA
863415 T
1 T
863416 TTATAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTTATACTAATATA
Found at i:863427 original size:15 final size:16
Alignment explanation
Indices: 863380--863420 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
863370 ATATATAAAC
863380 TAGTTTATAC-TGATATA
1 TAGTTTATACAT-A-ATA
863397 TAGTTTATACATAATA
1 TAGTTTATACATAATA
863413 TA-TTTATA
1 TAGTTTATA
863421 GTTAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 5 0.22
17 11 0.48
18 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (16 bp):
TAGTTTATACATAATA
Found at i:863439 original size:19 final size:18
Alignment explanation
Indices: 863407--863462 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
863397 TAGTTTATAC
863407 ATAATATATTTATAGTTA
1 ATAATATATTTATAGTTA
863425 ATAATATACTTTATAGTTTA
1 ATAATATA-TTTATAG-TTA
* *
863445 TATTATATATATATAGTT
1 -ATAATATATTTATAGTT
863463 TTCAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 9 0.27
21 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
ATAATATATTTATAGTTA
Found at i:863623 original size:77 final size:77
Alignment explanation
Indices: 863514--863667 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
863504 CCATTTTACA
863514 GTTTTTTTTCACATTTTGCGATCATTTCGATTTGATCCCTGTGTTGTTTAATTTATTTAAATTTT
1 GTTTTTTTTCACATTTTGCGATCATTTCGATTTGATCCCTGTGTTGTTTAATTTATTTAAATTTT
863579 AATTTGTAATTT
66 AATTTGTAATTT
*
863591 GTTTTTTTTCACATTTTGCGATCATTTCGATTTGATCCCTTTGTTGTTTAATTTATTTAAATTTT
1 GTTTTTTTTCACATTTTGCGATCATTTCGATTTGATCCCTGTGTTGTTTAATTTATTTAAATTTT
863656 AATTTGTAATTT
66 AATTTGTAATTT
863668 TATATTTGTT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (77 bp):
GTTTTTTTTCACATTTTGCGATCATTTCGATTTGATCCCTGTGTTGTTTAATTTATTTAAATTTT
AATTTGTAATTT
Done.