Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 37
Found at i:2692862 original size:31 final size:31
Alignment explanation
Indices: 2692827--2692918 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 31
2692817 TTCTAAAGAT
2692827 AGTTAAATTAATATTTTATTTAAAATTTAAG
1 AGTTAAATTAATATTTTATTTAAAATTTAAG
* * *
2692858 AGTTAAAATTGATATTTTATCTAAAATTTATG
1 AGTT-AAATTAATATTTTATTTAAAATTTAAG
**** *
2692890 AGTCGGTTTAATATTTTATTTAAAGTTTA
1 AGTTAAATTAATATTTTATTTAAAATTTA
2692919 GAGACCAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 23 0.46
32 27 0.54
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (31 bp):
AGTTAAATTAATATTTTATTTAAAATTTAAG
Found at i:2702194 original size:27 final size:26
Alignment explanation
Indices: 2702164--2702214 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
2702154 GTTTATCCTG
* *
2702164 TGATTGATTTCTATTATAATTTTTGCA
1 TGATTGATTTCCATTA-AAGTTTTGCA
2702191 TGATTGATTTCCATTAAAGTTTTG
1 TGATTGATTTCCATTAAAGTTTTG
2702215 GCTATGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (26 bp):
TGATTGATTTCCATTAAAGTTTTGCA
Found at i:2710320 original size:15 final size:15
Alignment explanation
Indices: 2710297--2710334 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2710287 GGTGGTCTTT
* *
2710297 TTCTCCTCCGCTGGC
1 TTCTTCTCCGCCGGC
2710312 TTCTTCTCCGCCGGC
1 TTCTTCTCCGCCGGC
2710327 TTCTTCTC
1 TTCTTCTC
2710335 TGCTTTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.45, G:0.16, T:0.39
Consensus pattern (15 bp):
TTCTTCTCCGCCGGC
Found at i:2715714 original size:23 final size:24
Alignment explanation
Indices: 2715688--2715732 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2715678 TAGGTTTTTG
2715688 TCATTCGAAGGTCT-TCG-GGTTAT
1 TCATTCG-AGGTCTCTCGAGGTTAT
*
2715711 TCATTTGAGGTCTCTCGAGGTT
1 TCATTCGAGGTCTCTCGAGGTT
2715733 TGATTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.40
Consensus pattern (24 bp):
TCATTCGAGGTCTCTCGAGGTTAT
Found at i:2731739 original size:2 final size:2
Alignment explanation
Indices: 2731732--2731776 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2731722 CATTTGTGTT
2731732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2731774 TA T
1 TA T
2731777 GATGTTTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2733679 original size:14 final size:15
Alignment explanation
Indices: 2733646--2733681 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2733636 GGAGAAGATT
2733646 TTTTTTAAATATACA
1 TTTTTTAAATATACA
2733661 -TTTTTAAATATA-A
1 TTTTTTAAATATACA
2733674 TTTTTTAA
1 TTTTTTAA
2733682 GTTTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTTAAATATACA
Found at i:2733976 original size:21 final size:20
Alignment explanation
Indices: 2733937--2733978 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2733927 CTACCTATTC
*
2733937 TAAATTTAATTTTTAAAATT
1 TAAATTTAATGTTTAAAATT
*
2733957 TAAATCTTAATGTTTTAAATT
1 TAAAT-TTAATGTTTAAAATT
2733978 T
1 T
2733979 TCGTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TAAATTTAATGTTTAAAATT
Found at i:2737417 original size:14 final size:15
Alignment explanation
Indices: 2737387--2737420 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2737377 AAACCCGCCT
*
2737387 ACCCGATCCGATCTG
1 ACCCGACCCGATCTG
2737402 ACCCGACCCG-TCTG
1 ACCCGACCCGATCTG
2737416 ACCCG
1 ACCCG
2737421 CTCAGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.15
Consensus pattern (15 bp):
ACCCGACCCGATCTG
Found at i:2739191 original size:19 final size:19
Alignment explanation
Indices: 2739163--2739202 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2739153 TGTATTGGAT
* *
2739163 CCCGTCCCCGTTTAAAAAA
1 CCCGTACCCGCTTAAAAAA
2739182 CCCGTACCCGCTTAAAAAA
1 CCCGTACCCGCTTAAAAAA
2739201 CC
1 CC
2739203 GCAGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.40, G:0.10, T:0.17
Consensus pattern (19 bp):
CCCGTACCCGCTTAAAAAA
Found at i:2739496 original size:32 final size:34
Alignment explanation
Indices: 2739460--2739529 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
2739450 CCTTACAAAC
* *
2739460 TCCCTAG-TTTTTCA-GGG-TTAAACTAGAACTTT
1 TCCCTAGCTTTTACACGGGATT-AACTAGAACATT
*
2739492 TCCCTAGCTTTTACACGGGATTAGCTAGAACATT
1 TCCCTAGCTTTTACACGGGATTAACTAGAACATT
2739526 TCCC
1 TCCC
2739530 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.22
33 6 0.19
34 17 0.53
35 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATTAACTAGAACATT
Found at i:2739840 original size:21 final size:21
Alignment explanation
Indices: 2739814--2739855 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2739804 CCAGAATGGG
*
2739814 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2739835 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2739856 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:2739998 original size:16 final size:16
Alignment explanation
Indices: 2739974--2740005 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2739964 CTGTTCAAAC
2739974 ATAAACGGGTAATCGG
1 ATAAACGGGTAATCGG
*
2739990 ATAATCGGGTAATCGG
1 ATAAACGGGTAATCGG
2740006 GGCGGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (16 bp):
ATAAACGGGTAATCGG
Found at i:2740091 original size:30 final size:29
Alignment explanation
Indices: 2740022--2740095 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
2740012 GATTACTAAA
2740022 CCCGTCCCCGTTTAACATAAACGGTTTTC
1 CCCGTCCCCGTTTAACATAAACGGTTTTC
* * *
2740051 CCCATCCCCGTTTAACATAAATGGTTTTTT
1 CCCGTCCCCGTTTAACATAAACGG-TTTTC
2740081 CCCGTCCCCGTTTAA
1 CCCGTCCCCGTTTAA
2740096 TTCGATTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 22 0.55
30 18 0.45
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (29 bp):
CCCGTCCCCGTTTAACATAAACGGTTTTC
Found at i:2740829 original size:190 final size:187
Alignment explanation
Indices: 2740522--2740865 Score: 562
Period size: 190 Copynumber: 1.8 Consensus size: 187
2740512 ATTTGGACTA
* *
2740522 TCAAGTTAGTTCTCCTATATTAACAGGTGATCGCAAACATATTAAATAGATCACAATTAAGTTAC
1 TCAAGTTAATTCTCCTATATTAACAGGTGATAGCAAACATATTAAATAGATCACAATTAAGTTAC
*
2740587 AATAAAACAAGTTATTAACGCGTCATTATCTTTATATTAATTTTTATGTTAGTGTTGATGATTAT
66 AATAAAACAAGTTATTAACGCGTCATTATCTTTATATTAATTTTTATGTTAGTGTTGATAATTAT
*
2740652 CATTCATCATCGACAATGATGTTTATTCACATCTTATAGAATTCTCGATTTCAACTC
131 CATTCATCACCGACAATGATGTTTATTCACATCTTATAGAATTCTCGATTTCAACTC
* * *
2740709 TCAAGTTAATTCTCCTATATTGATAGGTGATAGCGAACATATTAAATAATAGATCACAATTAAGT
1 TCAAGTTAATTCTCCTATATTAACAGGTGATAGCAAACATATT--A-AATAGATCACAATTAAGT
* * *
2740774 TACAATAAAATAAGTTGTTATCGCGTCATTATCTTTATATTAATTTTTATGTTAGTGTTGATAAT
63 TACAATAAAACAAGTTATTAACGCGTCATTATCTTTATATTAATTTTTATGTTAGTGTTGATAAT
*
2740839 TGTCATTCATCACCGACAATGATGTTT
128 TATCATTCATCACCGACAATGATGTTT
2740866 GTTCTCATAT
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
187 38 0.27
189 1 0.01
190 104 0.73
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (187 bp):
TCAAGTTAATTCTCCTATATTAACAGGTGATAGCAAACATATTAAATAGATCACAATTAAGTTAC
AATAAAACAAGTTATTAACGCGTCATTATCTTTATATTAATTTTTATGTTAGTGTTGATAATTAT
CATTCATCACCGACAATGATGTTTATTCACATCTTATAGAATTCTCGATTTCAACTC
Found at i:2742341 original size:20 final size:20
Alignment explanation
Indices: 2742247--2742615 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2742237 GATTTTCCAT
* ** *
2742247 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2742267 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2742287 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2742307 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2742327 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2742347 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2742367 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2742387 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2742407 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2742427 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2742447 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2742467 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2742487 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2742507 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2742527 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2742547 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2742567 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2742587 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2742607 AATCACAAC
1 AATCGCAAC
2742616 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2743328 original size:24 final size:24
Alignment explanation
Indices: 2743289--2743335 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2743279 AAATTTGGTC
2743289 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2743313 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2743336 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2743527 original size:12 final size:12
Alignment explanation
Indices: 2743510--2743534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2743500 ATATAATCCT
2743510 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2743522 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2743534 G
1 G
2743535 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2745857 original size:19 final size:19
Alignment explanation
Indices: 2745835--2746140 Score: 356
Period size: 19 Copynumber: 17.4 Consensus size: 19
2745825 CGGAAAATAC
*
2745835 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2745854 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
2745868 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2745887 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2745901 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2745920 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2745939 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2745953 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2745972 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
2745991 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
2746005 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2746024 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
2746043 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2746062 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2746081 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2746095 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2746114 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2746133 AATCGCAA
1 AATCGCAA
2746141 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 50
0.80 0.04 0.16
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 16 0.06
18 4 0.02
19 164 0.66
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2745877 original size:33 final size:34
Alignment explanation
Indices: 2745835--2746162 Score: 198
Period size: 33 Copynumber: 9.5 Consensus size: 34
2745825 CGGAAAATAC
*
2745835 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
* * * *
2745868 AATCGCAACGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
*
2745901 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * * * *
2745939 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAA
* *
2745972 AATCGCAATGCGAAATGAAAAT-CGAAC--CGACA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGA-A
* *
2746004 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 -AATCGCAATGCGAAATGAAAATC-CCA-AC--AATGAA
*
2746043 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
*
2746081 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * *
2746114 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
2746147 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2746163 TATAAACGCA
Statistics
Matches: 245, Mismatches: 24, Indels: 52
0.76 0.07 0.16
Matches are distributed among these distances:
31 3 0.01
32 8 0.03
33 138 0.56
34 2 0.01
35 9 0.04
36 10 0.04
37 2 0.01
38 63 0.26
39 7 0.03
40 3 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAA
Found at i:2745895 original size:52 final size:52
Alignment explanation
Indices: 2745835--2746088 Score: 255
Period size: 52 Copynumber: 4.8 Consensus size: 52
2745825 CGGAAAATAC
* *
2745835 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATCCGAA-ATGAAAATCGCAATGCGAAATGAA
* * *
2745887 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * *
2745939 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * * * *
2745991 AATCG-AAC-CGACATAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAACGCG--AGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * *
2746043 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAACGCG--A-G--AATCGAAATCCGAAATGAAAATCGCAA
2746089 CGAAAGAATC
Statistics
Matches: 180, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
50 1 0.01
51 3 0.02
52 134 0.74
53 11 0.06
54 5 0.03
57 26 0.14
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (52 bp):
AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:2745978 original size:71 final size:71
Alignment explanation
Indices: 2745901--2746140 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
2745891 GCAACGAGAG
*
2745901 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2745966 AATGAA
66 AATGAA
* * *
2745972 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
2746032 TACGAAATGAA
61 TGCGAAATGAA
2746043 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2746108 AATGAA
66 AATGAA
2746114 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
2746141 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:2746120 original size:52 final size:53
Alignment explanation
Indices: 2745901--2746162 Score: 287
Period size: 52 Copynumber: 4.9 Consensus size: 53
2745891 GCAACGAGAG
*
2745901 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATG--AATCGCAATGCGAAATGAA
**
2745953 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA----AAT-CGAACCGACA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATGAATCGCAATGCGAAATGA-A
*
2746004 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGC-A-ACGAAATG--AATCGCAATGCGAAATGAA
2746062 AATCGCAATGCGAAATGAAAATCGCAACGAAA-GAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAATGAA
*
2746114 AATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAAT
2746163 TATAAACGCA
Statistics
Matches: 187, Mismatches: 7, Indels: 32
0.83 0.03 0.14
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
50 4 0.02
52 133 0.71
53 1 0.01
54 4 0.02
55 6 0.03
56 1 0.01
57 24 0.13
58 4 0.02
59 6 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAATGAA
Found at i:2746278 original size:19 final size:19
Alignment explanation
Indices: 2746169--2746270 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2746159 AAATTATAAA
2746169 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2746188 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2746208 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2746224 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2746241 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2746260 CGCATTGCGAT
1 CGCATTGCGAT
2746271 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2746396 original size:14 final size:14
Alignment explanation
Indices: 2746377--2746413 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2746367 CATCAATTAC
2746377 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2746391 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2746405 ACAAATCAA
1 ACAAATCAA
2746414 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2748386 original size:14 final size:14
Alignment explanation
Indices: 2748367--2748423 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2748357 GCGAAATGAA
*
2748367 AATCGCAACGACAG
1 AATCGCAACGAAAG
2748381 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2748398 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2748414 AATCGCAACG
1 AATCGCAACG
2748424 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2748394 original size:33 final size:33
Alignment explanation
Indices: 2748348--2748439 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
2748338 GCGAAACCAA
*
2748348 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2748381 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2748414 AATCGCAACGCGAAATGAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
2748440 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2748445 original size:19 final size:19
Alignment explanation
Indices: 2748311--2748439 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2748301 TAGTTTACTT
* *
2748311 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2748331 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2748350 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2748369 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2748383 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2748402 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2748416 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2748435 TCGCA
1 TCGCA
2748440 TTGCGATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 42 0.46
20 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2748482 original size:33 final size:33
Alignment explanation
Indices: 2748440--2748532 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
2748430 GAAAATCGCA
2748440 TTGCGATTTTCATTTCGCGTTGCGA-TCTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTC-TGTCG
**
2748473 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2748506 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2748533 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2748561 original size:20 final size:19
Alignment explanation
Indices: 2748435--2748569 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
2748425 GAAATGAAAA
*
2748435 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
2748454 TCGCGTTGCGATCTT-G--
1 TCGCGTTGCGATTTTAGTT
*
2748470 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
2748487 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
2748503 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
2748520 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
2748539 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
2748559 TCGTGTTGCGA
1 TCGCGTTGCGA
2748570 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
14 22 0.23
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 53 0.56
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.27, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:2748772 original size:93 final size:93
Alignment explanation
Indices: 2748613--2748992 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
2748603 TTGAATGGAT
2748613 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748678 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2748706 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748771 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2748799 AAATTTACTTTCAACCAAAAGACAAAACAACGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748863 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2748891 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748956 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2748984 AAATTTACT
1 AAATTTACT
2748993 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 91 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2748926 original size:185 final size:186
Alignment explanation
Indices: 2748613--2748992 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
2748603 TTGAATGGAT
2748613 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748678 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2748743 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
2748799 AAATTTACTTTCAACCAAAAGACAAAACAACGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2748863 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2748928 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2748984 AAATTTACT
1 AAATTTACT
2748993 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 155 0.80
186 38 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2750717 original size:14 final size:14
Alignment explanation
Indices: 2750698--2750786 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
2750688 TTGAAATGAA
2750698 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2750712 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2750729 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2750745 AATCGCAACGCGAATGAA
1 AATCGCAA--CG-A-GAG
2750763 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2750777 AATCGCAACG
1 AATCGCAACG
2750787 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 10 0.16
17 7 0.11
18 10 0.16
19 8 0.12
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2750735 original size:33 final size:32
Alignment explanation
Indices: 2750692--2750803 Score: 197
Period size: 33 Copynumber: 3.4 Consensus size: 32
2750682 TTTTGGTTGA
2750692 AATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCG
*
2750724 AGATGACAATCGCAACGAGAGAATCGCAACGCG
1 A-ATGAAAATCGCAACGAGAGAATCGCAACGCG
2750757 AATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCG
2750789 AAATGAAAATCGCAA
1 -AATGAAAATCGCAA
2750804 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (32 bp):
AATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:2750839 original size:14 final size:14
Alignment explanation
Indices: 2750820--2750874 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2750810 TTTGGTTTCG
2750820 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2750834 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2750853 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2750867 CGTTGCGA
1 CGTTGCGA
2750875 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2751037 original size:33 final size:33
Alignment explanation
Indices: 2750995--2751065 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2750985 AATACTAACT
*
2750995 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2751028 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2751061 TGAAA
1 TGAAA
2751066 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2751299 original size:22 final size:22
Alignment explanation
Indices: 2751247--2751301 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2751237 TGGTTGTGAG
**
2751247 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2751269 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2751291 GGATTTCTTCG
1 GGATTTCTTCG
2751302 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2751472 original size:20 final size:20
Alignment explanation
Indices: 2751447--2751640 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2751437 CTTTAAATAT
2751447 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2751467 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2751489 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2751508 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2751528 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2751548 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2751568 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2751588 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2751608 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2751628 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2751641 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2751634 original size:60 final size:60
Alignment explanation
Indices: 2751447--2751640 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2751437 CTTTAAATAT
**
2751447 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2751508 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2751568 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2751628 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2751641 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2751657 original size:21 final size:20
Alignment explanation
Indices: 2751633--2751709 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2751623 ATATTCGCGT
2751633 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2751654 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2751674 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2751696 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2751710 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2751720 original size:20 final size:20
Alignment explanation
Indices: 2751695--2751746 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2751685 AAGAATCGCG
*
2751695 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2751715 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2751735 TTGCGATTCTGG
1 TTGCGATTCTGG
2751747 GGATCACGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2752228 original size:20 final size:20
Alignment explanation
Indices: 2752191--2752229 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2752181 TTAGTTAACG
*
2752191 AAAATAATCATTTGGGTAAA
1 AAAATAATCATTTAGGTAAA
2752211 AAAATAAT-ATTTTAGGTAA
1 AAAATAATCA-TTTAGGTAA
2752230 CACTTTACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (20 bp):
AAAATAATCATTTAGGTAAA
Found at i:2757432 original size:15 final size:15
Alignment explanation
Indices: 2757414--2757444 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2757404 AAATTCTAAA
2757414 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
2757429 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
2757444 T
1 T
2757445 CTATCTGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:2758959 original size:118 final size:119
Alignment explanation
Indices: 2758734--2758962 Score: 257
Period size: 118 Copynumber: 1.9 Consensus size: 119
2758724 TTCACGGATG
* * * * * *
2758734 AAGTAAAATGTAAAAGAAACACCAAAGTAGAAAGGGAGATTCAACTTTATTAATGGATAAGAGTC
1 AAGTAAAATGTAAAAGAAACACCAAAGAAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTC
* * * *
2758799 TAAAAGAGGATGTTTAATATAAAACAAATACAAGTGCGGCACTTGGGTTTGCAC
66 TAAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGGGTTTGCAC
* * *
2758853 AAGTAAAATGTAAACA-AAATACCGAAGAAG-AAGAGAGATGCAACCTTAGTAATTGATAACAGT
1 AAGTAAAATGTAAA-AGAAACACCAAAGAAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGT
* * * **
2758916 CTGAAAA-AGAAAGTTCAGTATAAAATATATACCGGTGCAGCACTTGG
65 CT-AAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGG
2758963 ATGAGTACAT
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
118 60 0.67
119 29 0.32
120 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (119 bp):
AAGTAAAATGTAAAAGAAACACCAAAGAAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTC
TAAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAGCACTTGGGTTTGCAC
Found at i:2761072 original size:31 final size:31
Alignment explanation
Indices: 2761034--2761092 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2761024 CGATGAATTT
*
2761034 TCGCAGAGACAAGCTCACGGGAGAAGAAATA
1 TCGCAGAGACAAGCTCACGGGAAAAGAAATA
*
2761065 TCGCAGAGGCAAGCTCACGGGAAAAGAA
1 TCGCAGAGACAAGCTCACGGGAAAAGAA
2761093 GGGTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.31, T:0.08
Consensus pattern (31 bp):
TCGCAGAGACAAGCTCACGGGAAAAGAAATA
Found at i:2762604 original size:13 final size:13
Alignment explanation
Indices: 2762586--2762615 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2762576 GTCACAACCC
2762586 GACCCGACCCGTT
1 GACCCGACCCGTT
2762599 GACCCGACCCGTT
1 GACCCGACCCGTT
2762612 GACC
1 GACC
2762616 GTTGACCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2765290 original size:24 final size:24
Alignment explanation
Indices: 2765162--2765276 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
2765152 ATTTGAATTT
2765162 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
2765186 TGATCTGATA-TCTGACATGGAATT-
1 TGATCTGATACT-TGACATGG-ATTC
* *
2765210 TAATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
* *
2765234 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTC
*
2765258 TGATATGATACTTGACATG
1 TGATCTGATACTTGACATG
2765277 AATTATGTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
23 4 0.05
24 72 0.90
25 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:2765453 original size:43 final size:43
Alignment explanation
Indices: 2765392--2765486 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
2765382 GGGCCTTACT
* * **
2765392 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGATTCTAGAAAACCTACACATTA
2765435 TGGTGTGTTGGTGGGTGTATGATTCTAGAAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGATTCTAGAAAACCTACACATTA
2765478 TGGTGTGTT
1 TGGTGTGTT
2765487 AGGTTGGAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.19, C:0.11, G:0.34, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGATTCTAGAAAACCTACACATTA
Found at i:2777255 original size:19 final size:20
Alignment explanation
Indices: 2777231--2777274 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2777221 ACTCGATTAA
2777231 ATTTTAA-A-GTAAACTATAT
1 ATTTTAATATGTAAACTAT-T
*
2777250 ATTTTAATATGTAAATTATT
1 ATTTTAATATGTAAACTATT
2777270 ATTTT
1 ATTTT
2777275 TAATTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTTAATATGTAAACTATT
Found at i:2779579 original size:74 final size:73
Alignment explanation
Indices: 2779303--2779569 Score: 331
Period size: 74 Copynumber: 3.6 Consensus size: 73
2779293 TTTAAGGTTG
* * * * * *
2779303 TGTAATCGGTATAAAAAAATAGACGTTACTTATTATATTAAAATATCTACTGATTTTTTTAAGGT
1 TGTAAACGGTA-AAAAAAATAGACGCTACCTATTATATTAAAATATCTACCGATTTTTTGAATGT
2779368 TGCTAATAA
65 TGCTAATAA
* *
2779377 TGTAAACGGTAAAAAAAAATAGACGTTACCTATTATATTAAATTA-CTTACCGATTTTTTTGAAT
1 TGTAAACGGT-AAAAAAAATAGACGCTACCTATTATATTAAAATATC-TACCGA-TTTTTTGAAT
*
2779441 GTTACTAATAA
63 GTTGCTAATAA
* * * * *
2779452 AGTAAACGGT-AAAAAAATAGACGCTAACTATTACATTAAATTATCTACCGATTTTTTAGAATGA
1 TGTAAACGGTAAAAAAAATAGACGCTACCTATTATATTAAAATATCTACCGATTTTTT-GAATGT
2779516 TGCTAATAA
65 TGCTAATAA
**
2779525 TGTAAACGGTAAAAAAAATAGGTGCTACCTATTATATTAAAATAT
1 TGTAAACGGTAAAAAAAATAGACGCTACCTATTATATTAAAATAT
2779570 ATATTGATTT
Statistics
Matches: 168, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
72 6 0.04
73 59 0.35
74 75 0.45
75 28 0.17
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (73 bp):
TGTAAACGGTAAAAAAAATAGACGCTACCTATTATATTAAAATATCTACCGATTTTTTGAATGTT
GCTAATAA
Found at i:2779899 original size:183 final size:183
Alignment explanation
Indices: 2779586--2780016 Score: 592
Period size: 183 Copynumber: 2.4 Consensus size: 183
2779576 ATTTCATTAT
* *
2779586 AACATTAATAGCACCTATAAAATATCAATACTTTATAAAAATATATCGATACATAAAAATATAAC
1 AACAATAATAGCGCCTATAAAATATCAATACTTTATAAAAATATATCGATACATAAAAATATAAC
* * * * * * *
2779651 AGGTAAAGATATGAGAAAACTAGTTTCATTATGACAAAACTGTTAAAACGCTACTAGATATGTTG
66 AGGTAAAAATATGAAAAAACCAGTTTCATTATAACAAAACCGGTAAAACGCTACCAGATATGTTG
* *
2779716 AAAGTATCGATTCTATTTAAATAAGTATCGACATTTTTAGAATTTAAAAGAAA
131 AAAGTATCGATTCTATTCAAATAAGTATCGACACTTTTAGAATTTAAAAGAAA
* * * * * *
2779769 AGCAGTAATAGCGCCTATAAAGTATCAATACTTTATAAAAATGTATCGACACATAATAATATAAC
1 AACAATAATAGCGCCTATAAAATATCAATACTTTATAAAAATATATCGATACATAAAAATATAAC
* * * * *
2779834 ATGTAAAAATATGAAAAAACCGGTTTCATTCTAACAAATCCGGTAAAACGTTACCAGATATGTTG
66 AGGTAAAAATATGAAAAAACCAGTTTCATTATAACAAAACCGGTAAAACGCTACCAGATATGTTG
* * **
2779899 AAAGTATCGATTTTATTCAAATAAGTATTGGTACTTTTAGAATTTAAAAGAAA
131 AAAGTATCGATTCTATTCAAATAAGTATCGACACTTTTAGAATTTAAAAGAAA
* ** *
2779952 AACAATAATAGCGCCTATAAAATATCGATACTTTATAAAAATATATTAATACATAACAATATAAC
1 AACAATAATAGCGCCTATAAAATATCAATACTTTATAAAAATATATCGATACATAAAAATATAAC
2780017 TGGACAATAT
Statistics
Matches: 214, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
183 214 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (183 bp):
AACAATAATAGCGCCTATAAAATATCAATACTTTATAAAAATATATCGATACATAAAAATATAAC
AGGTAAAAATATGAAAAAACCAGTTTCATTATAACAAAACCGGTAAAACGCTACCAGATATGTTG
AAAGTATCGATTCTATTCAAATAAGTATCGACACTTTTAGAATTTAAAAGAAA
Found at i:2780605 original size:2 final size:2
Alignment explanation
Indices: 2780600--2780637 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2780590 AGATAATCTC
2780600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2780638 ATCAACTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2791898 original size:20 final size:20
Alignment explanation
Indices: 2791875--2791918 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
2791865 TAAGAAGTTA
2791875 AAAACAGATACAAGAAAGTC
1 AAAACAGATACAAGAAAGTC
2791895 AAAACAGATACAAGAAAGTC
1 AAAACAGATACAAGAAAGTC
2791915 AAAA
1 AAAA
2791919 ATATTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAACAGATACAAGAAAGTC
Found at i:2791898 original size:21 final size:21
Alignment explanation
Indices: 2791869--2791919 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
2791859 CCGCAATAAG
*
2791869 AAGTTAAAAACAGATACAAGA
1 AAGTCAAAAACAGATACAAGA
2791890 AAGTC-AAAACAGATACAAGA
1 AAGTCAAAAACAGATACAAGA
2791910 AAGTCAAAAA
1 AAGTCAAAAA
2791920 TATTCATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (21 bp):
AAGTCAAAAACAGATACAAGA
Found at i:2795270 original size:22 final size:21
Alignment explanation
Indices: 2795245--2795286 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2795235 AGATTCTACC
2795245 TAAAAATCAC-AAAATATATATA
1 TAAAAAT-ACTAAAATA-ATATA
2795267 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
2795287 CATTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:2795733 original size:16 final size:16
Alignment explanation
Indices: 2795714--2795764 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
2795704 ACTTTTACTT
2795714 TTTAATTATGTTTTAC
1 TTTAATTATGTTTTAC
*
2795730 TTTAA-TACT-TTTTTC
1 TTTAATTA-TGTTTTAC
2795745 TTTTTAATTATGTTTTAC
1 --TTTAATTATGTTTTAC
2795763 TT
1 TT
2795765 ACTATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 6 0.21
18 7 0.25
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTAATTATGTTTTAC
Found at i:2795741 original size:32 final size:33
Alignment explanation
Indices: 2795700--2795764 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2795690 AATAATTAAA
2795700 TAATAC-TTTTACTTTTTAATTATGTTTTACTT
1 TAATACTTTTTACTTTTTAATTATGTTTTACTT
*
2795732 TAATACTTTTTTCTTTTTAATTATGTTTTACTT
1 TAATACTTTTTACTTTTTAATTATGTTTTACTT
2795765 ACTATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.65
Consensus pattern (33 bp):
TAATACTTTTTACTTTTTAATTATGTTTTACTT
Found at i:2795760 original size:17 final size:18
Alignment explanation
Indices: 2795706--2795764 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
2795696 TAAATAATAC
2795706 TTTTACTTTTTAATTATG
1 TTTTACTTTTTAATTATG
2795724 TTTTAC--TTTAA-TACT-
1 TTTTACTTTTTAATTA-TG
*
2795739 TTTTTCTTTTTAATTATG
1 TTTTACTTTTTAATTATG
2795757 TTTTACTT
1 TTTTACTT
2795765 ACTATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 7 0.21
16 6 0.18
17 6 0.18
18 15 0.44
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTACTTTTTAATTATG
Found at i:2796781 original size:20 final size:20
Alignment explanation
Indices: 2796687--2797055 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2796677 GATTTTCCAT
* ** *
2796687 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2796707 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2796727 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2796747 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2796767 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2796787 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2796807 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2796827 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2796847 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2796867 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2796887 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2796907 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2796927 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2796947 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2796967 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2796987 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2797007 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2797027 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2797047 AATCACAAC
1 AATCGCAAC
2797056 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2798557 original size:19 final size:19
Alignment explanation
Indices: 2798535--2798860 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
2798525 CGGAAAATAC
*
2798535 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2798554 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2798568 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2798588 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2798602 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798621 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2798640 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2798654 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798673 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2798692 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2798706 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2798725 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
2798744 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
2798763 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798782 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798801 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2798815 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798834 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2798853 AATCGCAA
1 AATCGCAA
2798861 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2798622 original size:33 final size:34
Alignment explanation
Indices: 2798535--2798860 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
2798525 CGGAAAATAC
* *
2798535 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
2798568 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
2798602 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
2798640 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
2798673 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
2798706 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
2798744 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
2798782 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
2798814 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
2798853 AATCGCAA
1 AATCGCAA
2798861 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:2798796 original size:161 final size:157
Alignment explanation
Indices: 2798563--2798882 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
2798553 AAATCCCAAC
*
2798563 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
2798628 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
2798693 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
2798720 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
2798784 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
2798849 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
2798881 AT
1 AT
2798883 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2798898 original size:52 final size:52
Alignment explanation
Indices: 2798563--2798882 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
2798553 AAATCCCAAC
2798563 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2798616 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2798668 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
2798720 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
2798777 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
2798829 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2798881 AT
1 AT
2798883 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2798997 original size:19 final size:19
Alignment explanation
Indices: 2798889--2798989 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
2798879 AAATTATAAA
2798889 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2798908 CCGCATTGCGA-TTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2798927 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2798943 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2798960 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2798979 CGCATTGCGAT
1 CGCATTGCGAT
2798990 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
18 10 0.14
19 34 0.46
20 10 0.14
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2798997 original size:38 final size:37
Alignment explanation
Indices: 2798889--2798989 Score: 140
Period size: 33 Copynumber: 2.8 Consensus size: 37
2798879 AAATTATAAA
2798889 CGCATTGCGATTTTCATTTCCGCATTGCGATTTCATTT
1 CGCATTGCGATTTTCATTT-CGCATTGCGATTTCATTT
*
2798927 CGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATTT
2798960 CGCATTGCGATTTTCATTTCGCATTGCGAT
1 CGCATTGCGATTTTCATTTCGCATTGCGAT
2798990 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
32 6 0.11
33 18 0.33
34 2 0.04
35 5 0.09
36 7 0.13
37 1 0.02
38 16 0.29
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (37 bp):
CGCATTGCGATTTTCATTTCGCATTGCGATTTCATTT
Found at i:2799115 original size:14 final size:14
Alignment explanation
Indices: 2799096--2799132 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2799086 CATCAATTAC
2799096 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2799110 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2799124 ACAAATCAA
1 ACAAATCAA
2799133 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2799144 original size:12 final size:12
Alignment explanation
Indices: 2799127--2799199 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
2799117 ATCTTTTACA
2799127 AATCAATTAAAC
1 AATCAATTAAAC
*
2799139 AATCAA--AAATTG
1 AATCAATTAAA--C
**
2799151 AATCAACTTTTAC
1 AATCAA-TTAAAC
2799164 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
2799177 AATCAA-AAAAC
1 AATCAATTAAAC
2799188 AATCAATTAAAC
1 AATCAATTAAAC
2799200 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:2799161 original size:38 final size:38
Alignment explanation
Indices: 2799113--2799185 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
2799103 AACTTTTACA
*
2799113 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
2799151 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
2799186 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:2799728 original size:20 final size:20
Alignment explanation
Indices: 2799703--2799896 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2799693 TCTTAAATAT
2799703 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2799723 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2799745 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2799764 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2799784 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2799804 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2799824 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2799844 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2799864 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2799884 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2799897 TGTAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2799890 original size:60 final size:60
Alignment explanation
Indices: 2799703--2799896 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2799693 TCTTAAATAT
**
2799703 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2799764 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2799824 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2799884 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2799897 TGTAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2799913 original size:21 final size:20
Alignment explanation
Indices: 2799889--2799961 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
2799879 ATATTCGCGT
2799889 TGCGATTTTGTAAAATCGCAA
1 TGCGATTTTGTAAAATCGC-A
* **
2799910 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGTAAAATCGCA
* *
2799930 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGTAA-AATCGC-A
2799952 TGCGATTTTG
1 TGCGATTTTG
2799962 GAAACTGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
20 3 0.08
21 36 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
TGCGATTTTGTAAAATCGCA
Found at i:2799976 original size:20 final size:20
Alignment explanation
Indices: 2799951--2800002 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2799941 AAGAATCGCG
*
2799951 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2799971 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2799991 TTGCGATTCTGG
1 TTGCGATTCTGG
2800003 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2803827 original size:790 final size:790
Alignment explanation
Indices: 2802306--2803883 Score: 3129
Period size: 790 Copynumber: 2.0 Consensus size: 790
2802296 TCGTGTCAAC
2802306 TGGTTCATTTGCCTGCACTCCATTACTTCACTTTCAAAAAGGTTCATTTTCGATCCGAGTTTTTG
1 TGGTTCATTTGCCTGCACTCCATTACTTCACTTTCAAAAAGGTTCATTTTCGATCCGAGTTTTTG
2802371 CATATAAATTATGATTTTGTTTTCTAATTCTTTTGTTCATATGGATATGATATTTGAAGATATCA
66 CATATAAATTATGATTTTGTTTTCTAATTCTTTTGTTCATATGGATATGATATTTGAAGATATCA
2802436 GGTAAAATGCCGAAGAGTTATCCTACTGTAAGCGATGATTACAAGAAGGCCATTGAAAAGGCTAG
131 GGTAAAATGCCGAAGAGTTATCCTACTGTAAGCGATGATTACAAGAAGGCCATTGAAAAGGCTAG
2802501 GAGGAAGCTCAGAGGTCTCATCGCTGAGAAGAACTGTGATCCGATCATACTCCGTTTAGCTTAAC
196 GAGGAAGCTCAGAGGTCTCATCGCTGAGAAGAACTGTGATCCGATCATACTCCGTTTAGCTTAAC
2802566 CTCTCTCTCCGTCCTTTTGATCTGTCGTCTGGTTTAAATGTTTCGGTTGTGTTGATTGATCGGAC
261 CTCTCTCTCCGTCCTTTTGATCTGTCGTCTGGTTTAAATGTTTCGGTTGTGTTGATTGATCGGAC
2802631 GGTAATGGTGGTGGACAGGTGGCATTCGGCTGGAACTTTTGATTGTCAGACCAAGACTGGAGGTC
326 GGTAATGGTGGTGGACAGGTGGCATTCGGCTGGAACTTTTGATTGTCAGACCAAGACTGGAGGTC
*
2802696 CATTCGATACCTTGAAGCATGCTGCTGAGCTCGGACATAGCGCTAACAATGGTCTCGATATTGCA
391 CATTCGATACCTTGAAGCATGCTGCTGAGCTCGGACATAGCGCTAACAACGGTCTCGATATTGCA
2802761 GTCAGGCTTCTCGAGCCGATCAAGGACCAGAGTTTCCTACAATCTCTTAAGCTGACTTTTATCAG
456 GTCAGGCTTCTCGAGCCGATCAAGGACCAGAGTTTCCTACAATCTCTTAAGCTGACTTTTATCAG
2802826 GTATTTCACTTTTAAATCTAACTTTGCTTTCAGATTTTACTATTTCATGTTTCATTTTGAGCGGT
521 GTATTTCACTTTTAAATCTAACTTTGCTTTCAGATTTTACTATTTCATGTTTCATTTTGAGCGGT
2802891 CTTGGCCCATTTTTTTCCTGTTTATTTCTTTATTCATTTGCAGCTTGCCGGCGTCGTCGCTGTTG
586 CTTGGCCCATTTTTTTCCTGTTTATTTCTTTATTCATTTGCAGCTTGCCGGCGTCGTCGCTGTTG
2802956 AGGTCACCGGTGGACCTGAAATTCCCTTCCATCCCGGAAGAGTGGTCAGTCATAATTTCGGCTTA
651 AGGTCACCGGTGGACCTGAAATTCCCTTCCATCCCGGAAGAGTGGTCAGTCATAATTTCGGCTTA
2803021 TTTTAACATACATTATTTGATGTTAATATAAATTAGTGTCTTATATTTTGCTTTAATTGAGAACA
716 TTTTAACATACATTATTTGATGTTAATATAAATTAGTGTCTTATATTTTGCTTTAATTGAGAACA
2803086 ACTAATAATT
781 ACTAATAATT
2803096 TGGTTCATTTGCCTGCACTCCATTACTTCACTTTCAAAAAGGTTCATTTTCGATCCGAGTTTTTG
1 TGGTTCATTTGCCTGCACTCCATTACTTCACTTTCAAAAAGGTTCATTTTCGATCCGAGTTTTTG
2803161 CATATAAATTATGATTTTGTTTTCTAATTCTTTTGTTCATATGGATATGATATTTGAAGATATCA
66 CATATAAATTATGATTTTGTTTTCTAATTCTTTTGTTCATATGGATATGATATTTGAAGATATCA
2803226 GGTAAAATGCCGAAGAGTTATCCTACTGTAAGCGATGATTACAAGAAGGCCATTGAAAAGGCTAG
131 GGTAAAATGCCGAAGAGTTATCCTACTGTAAGCGATGATTACAAGAAGGCCATTGAAAAGGCTAG
2803291 GAGGAAGCTCAGAGGTCTCATCGCTGAGAAGAACTGTGATCCGATCATACTCCGTTTAGCTTAAC
196 GAGGAAGCTCAGAGGTCTCATCGCTGAGAAGAACTGTGATCCGATCATACTCCGTTTAGCTTAAC
2803356 CTCTCTCTCCGTCCTTTTGATCTGTCGTCTGGTTTAAATGTTTCGGTTGTGTTGATTGATCGGAC
261 CTCTCTCTCCGTCCTTTTGATCTGTCGTCTGGTTTAAATGTTTCGGTTGTGTTGATTGATCGGAC
2803421 GGTAATGGTGGTGGACAGGTGGCATTCGGCTGGAACTTTTGATTGTCAGACCAAGACTGGAGGTC
326 GGTAATGGTGGTGGACAGGTGGCATTCGGCTGGAACTTTTGATTGTCAGACCAAGACTGGAGGTC
*
2803486 CATTCGGTACCTTGAAGCATGCTGCTGAGCTCGGACATAGCGCTAACAACGGTCTCGATATTGCA
391 CATTCGATACCTTGAAGCATGCTGCTGAGCTCGGACATAGCGCTAACAACGGTCTCGATATTGCA
2803551 GTCAGGCTTCTCGAGCCGATCAAGGACCAGAGTTTCCTACAATCTCTTAAGCTGACTTTTATCAG
456 GTCAGGCTTCTCGAGCCGATCAAGGACCAGAGTTTCCTACAATCTCTTAAGCTGACTTTTATCAG
2803616 GTATTTCACTTTTAAATCTAACTTTGCTTTCAGATTTTACTATTTCATGTTTCATTTTGAGCGGT
521 GTATTTCACTTTTAAATCTAACTTTGCTTTCAGATTTTACTATTTCATGTTTCATTTTGAGCGGT
2803681 CTTGGCCCATTTTTTTCCTGTTTATTTCTTTATTCATTTGCAGCTTGCCGGCGTCGTCGCTGTTG
586 CTTGGCCCATTTTTTTCCTGTTTATTTCTTTATTCATTTGCAGCTTGCCGGCGTCGTCGCTGTTG
2803746 AGGTCACCGGTGGACCTGAAATTCCCTTCCATCCCGGAAGAGTGGTCAGTCATAATTTCGGCTTA
651 AGGTCACCGGTGGACCTGAAATTCCCTTCCATCCCGGAAGAGTGGTCAGTCATAATTTCGGCTTA
2803811 TTTTAACATACATTATTTGATGTTAATATAAATTAGTGTCTTATATTTTGCTTTAATTGAGAACA
716 TTTTAACATACATTATTTGATGTTAATATAAATTAGTGTCTTATATTTTGCTTTAATTGAGAACA
*
2803876 ACTGATAA
781 ACTAATAA
2803884 ATGTATTTAG
Statistics
Matches: 785, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
790 785 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (790 bp):
TGGTTCATTTGCCTGCACTCCATTACTTCACTTTCAAAAAGGTTCATTTTCGATCCGAGTTTTTG
CATATAAATTATGATTTTGTTTTCTAATTCTTTTGTTCATATGGATATGATATTTGAAGATATCA
GGTAAAATGCCGAAGAGTTATCCTACTGTAAGCGATGATTACAAGAAGGCCATTGAAAAGGCTAG
GAGGAAGCTCAGAGGTCTCATCGCTGAGAAGAACTGTGATCCGATCATACTCCGTTTAGCTTAAC
CTCTCTCTCCGTCCTTTTGATCTGTCGTCTGGTTTAAATGTTTCGGTTGTGTTGATTGATCGGAC
GGTAATGGTGGTGGACAGGTGGCATTCGGCTGGAACTTTTGATTGTCAGACCAAGACTGGAGGTC
CATTCGATACCTTGAAGCATGCTGCTGAGCTCGGACATAGCGCTAACAACGGTCTCGATATTGCA
GTCAGGCTTCTCGAGCCGATCAAGGACCAGAGTTTCCTACAATCTCTTAAGCTGACTTTTATCAG
GTATTTCACTTTTAAATCTAACTTTGCTTTCAGATTTTACTATTTCATGTTTCATTTTGAGCGGT
CTTGGCCCATTTTTTTCCTGTTTATTTCTTTATTCATTTGCAGCTTGCCGGCGTCGTCGCTGTTG
AGGTCACCGGTGGACCTGAAATTCCCTTCCATCCCGGAAGAGTGGTCAGTCATAATTTCGGCTTA
TTTTAACATACATTATTTGATGTTAATATAAATTAGTGTCTTATATTTTGCTTTAATTGAGAACA
ACTAATAATT
Found at i:2809587 original size:2 final size:2
Alignment explanation
Indices: 2809580--2809611 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2809570 GAAGACTTTT
2809580 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2809612 GAATAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2811411 original size:23 final size:23
Alignment explanation
Indices: 2811381--2811435 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
2811371 CAGACGAATT
*
2811381 GAAGAAGAAGAAATGTGTTTATG
1 GAAGAAGAAGAAATGAGTTTATG
2811404 GAAGAAGAAGAAATGAGTTTATG
1 GAAGAAGAAGAAATGAGTTTATG
2811427 GAAGAAGAA
1 GAAGAAGAA
2811436 TAATAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (23 bp):
GAAGAAGAAGAAATGAGTTTATG
Found at i:2813532 original size:29 final size:29
Alignment explanation
Indices: 2813489--2813567 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
2813479 CTCACCTAAC
*
2813489 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
2813519 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
2813548 TAAATGATATAAGCAATGAC
1 TAAATGATGTAAGCAATGAC
2813568 TTCAATTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:2818140 original size:29 final size:29
Alignment explanation
Indices: 2818097--2818179 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
2818087 CTCACCTAAC
*
2818097 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
2818127 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
2818156 TAAATGATGTAAGCAATGTCATCA
1 TAAATGATGTAAGCAATGACATCA
2818180 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:2824000 original size:26 final size:26
Alignment explanation
Indices: 2823971--2824033 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
2823961 CTGATTTGTA
2823971 GAACATTAAGAAATTAAGCTTAAAAC
1 GAACATTAAGAAATTAAGCTTAAAAC
2823997 GAACATTAAGAAATTAAGCTTAAAAC
1 GAACATTAAGAAATTAAGCTTAAAAC
*
2824023 AAACATTAAGA
1 GAACATTAAGA
2824034 TGAATCTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (26 bp):
GAACATTAAGAAATTAAGCTTAAAAC
Found at i:2824383 original size:15 final size:15
Alignment explanation
Indices: 2824363--2824401 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2824353 GTTGGATGGT
*
2824363 CGGATGTGGGGCGGG
1 CGGATGCGGGGCGGG
2824378 CGGATGCGGGGCGGG
1 CGGATGCGGGGCGGG
*
2824393 TGGATGCGG
1 CGGATGCGG
2824402 TACGGATGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.08, C:0.15, G:0.64, T:0.13
Consensus pattern (15 bp):
CGGATGCGGGGCGGG
Found at i:2825249 original size:7 final size:7
Alignment explanation
Indices: 2825226--2825264 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
2825216 TTTAATTTTT
2825226 TATTATA
1 TATTATA
*
2825233 TACATATA
1 TA-TTATA
2825241 TATTATA
1 TATTATA
2825248 TATTATA
1 TATTATA
2825255 TATTATA
1 TATTATA
2825262 TAT
1 TAT
2825265 ATAGTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (7 bp):
TATTATA
Found at i:2832067 original size:14 final size:14
Alignment explanation
Indices: 2832048--2832094 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2832038 TGCAAAGAAA
2832048 AATTAATATAGTTT
1 AATTAATATAGTTT
2832062 AATTAATATA----
1 AATTAATATAGTTT
2832072 AATT-ATATAGTTT
1 AATTAATATAGTTT
*
2832085 AATTTATATA
1 AATTAATATA
2832095 AAGAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
13 4 0.14
14 15 0.54
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (14 bp):
AATTAATATAGTTT
Found at i:2832081 original size:23 final size:24
Alignment explanation
Indices: 2832047--2832096 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
2832037 ATGCAAAGAA
2832047 AAATTAATATAGTTTAATTAATAT
1 AAATTAATATAGTTTAATTAATAT
*
2832071 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTAATAT
2832094 AAA
1 AAA
2832097 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTAATAT
Found at i:2832284 original size:21 final size:21
Alignment explanation
Indices: 2832260--2832304 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2832250 TACATTTACA
**
2832260 TTATAGTTTATGGTTTAATGT
1 TTATAGTTTAAAGTTTAATGT
* *
2832281 TTATGGTTTAAAGTTTAGTGT
1 TTATAGTTTAAAGTTTAATGT
2832302 TTA
1 TTA
2832305 GGGTTTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATAGTTTAAAGTTTAATGT
Found at i:2832304 original size:14 final size:14
Alignment explanation
Indices: 2832264--2832297 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2832254 TTTACATTAT
2832264 AGTTTATGGTTTAA
1 AGTTTATGGTTTAA
*
2832278 TGTTTATGGTTTAA
1 AGTTTATGGTTTAA
2832292 AGTTTA
1 AGTTTA
2832298 GTGTTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (14 bp):
AGTTTATGGTTTAA
Found at i:2832309 original size:21 final size:21
Alignment explanation
Indices: 2832272--2832331 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
2832262 ATAGTTTATG
*
2832272 GTTTAATGTTTATGGTTTA-AA
1 GTTT-ATGTTTAGGGTTTATAA
2832293 GTTTAGTGTTTAGGGTTTATAA
1 GTTTA-TGTTTAGGGTTTATAA
2832315 -TTTATGGTTTAGGGTTT
1 GTTTAT-GTTTAGGGTTT
2832332 CTATAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (21 bp):
GTTTATGTTTAGGGTTTATAA
Found at i:2832427 original size:15 final size:15
Alignment explanation
Indices: 2832407--2832454 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2832397 TAATTTGTTT
*
2832407 TATATAGTTTATATA
1 TATATAGTTTACATA
* *
2832422 TATATAATATACATA
1 TATATAGTTTACATA
*
2832437 TATATAGTTGACATA
1 TATATAGTTTACATA
2832452 TAT
1 TAT
2832455 TATACATGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (15 bp):
TATATAGTTTACATA
Found at i:2832518 original size:15 final size:14
Alignment explanation
Indices: 2832482--2832524 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2832472 TACATATTAT
*
2832482 ATAAAAATATTT-A
1 ATAAAATTATTTAA
2832495 ATAAAATTATTTAA
1 ATAAAATTATTTAA
*
2832509 ATATAAATTATCTAA
1 ATA-AAATTATTTAA
2832524 A
1 A
2832525 ATATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 11 0.42
14 4 0.15
15 11 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:2832854 original size:7 final size:7
Alignment explanation
Indices: 2832844--2832869 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2832834 ATAATTTTAA
2832844 ATTTATG
1 ATTTATG
2832851 ATTTATG
1 ATTTATG
2832858 ATTTATG
1 ATTTATG
2832865 ATTTA
1 ATTTA
2832870 GAGTTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
ATTTATG
Found at i:2832876 original size:14 final size:14
Alignment explanation
Indices: 2832817--2832876 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
2832807 TTCATTAGGA
* *
2832817 TTTATGGTTTAGTG
1 TTTATGATTTAGAG
* *
2832831 TTTATAATTTTA-AA
1 TTTATGA-TTTAGAG
2832845 TTTATGATTTATGA-
1 TTTATGATTTA-GAG
2832859 TTTATGATTTAGAG
1 TTTATGATTTAGAG
2832873 TTTA
1 TTTA
2832877 AGGTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 6 0.16
14 26 0.70
15 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
TTTATGATTTAGAG
Found at i:2833331 original size:22 final size:24
Alignment explanation
Indices: 2833290--2833353 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 24
2833280 TTTAAATAAT
2833290 ATAAATATTATATAAAATTATTTA
1 ATAAATATTATATAAAATTATTTA
*
2833314 ATAAA-ATTA-ATAAGATTATTTAA
1 ATAAATATTATATAAAATTATTT-A
*
2833337 ATGTAA-ATTATATAAAA
1 AT-AAATATTATATAAAA
2833354 CATTATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 11 0.32
23 7 0.21
24 11 0.32
25 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
ATAAATATTATATAAAATTATTTA
Found at i:2833831 original size:15 final size:14
Alignment explanation
Indices: 2833811--2833943 Score: 71
Period size: 13 Copynumber: 9.1 Consensus size: 14
2833801 TATATTTTTT
2833811 TATAGTTTATACATA
1 TATAGTTTATA-ATA
2833826 TATAGTTTA-AATA
1 TATAGTTTATAATA
*
2833839 TATAATTTAT-ATA
1 TATAGTTTATAATA
*
2833852 TATAGTCCATATAA-A
1 TATAGT--TTATAATA
* * *
2833867 CATAATTT-TTATA
1 TATAGTTTATAATA
*
2833880 TATAACTTATAATAATTA
1 TAT-AGTT-T-ATAA-TA
2833898 TATAGTTTATAATATAAA
1 TATAGTTTAT-A-AT--A
2833916 TATAGTTTAT-ATA
1 TATAGTTTATAATA
2833929 TATAGTTTAT-ATA
1 TATAGTTTATAATA
2833942 TA
1 TA
2833944 AACTTAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
12 2 0.02
13 39 0.42
14 4 0.04
15 22 0.24
16 4 0.04
17 6 0.06
18 16 0.17
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:2833918 original size:18 final size:19
Alignment explanation
Indices: 2833897--2833932 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2833887 TATAATAATT
2833897 ATATAGTTTATA-ATATAA
1 ATATAGTTTATATATATAA
2833915 ATATAGTTTATATATATA
1 ATATAGTTTATATATATA
2833933 GTTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
ATATAGTTTATATATATAA
Found at i:2836657 original size:47 final size:47
Alignment explanation
Indices: 2836588--2836679 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
2836578 CAAAAAAAGA
*
2836588 AGATTTATTTATGTACATGAGATGAATCCAAGAGAAATTAAACAATC
1 AGATTTATGTATGTACATGAGATGAATCCAAGAGAAATTAAACAATC
* * *
2836635 AGATTTGTGTATGTACGTGAGATGAATCCAATAGAAATTAAACAA
1 AGATTTATGTATGTACATGAGATGAATCCAAGAGAAATTAAACAA
2836680 ATCATTTGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.29
Consensus pattern (47 bp):
AGATTTATGTATGTACATGAGATGAATCCAAGAGAAATTAAACAATC
Found at i:2845614 original size:22 final size:23
Alignment explanation
Indices: 2845589--2845631 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2845579 AGCCAAACGA
*
2845589 TCGAGAAAGA-ATGTCACAAATG
1 TCGAGAAAAACATGTCACAAATG
2845611 TCGAGAAAAACATGTCACAAA
1 TCGAGAAAAACATGTCACAAA
2845632 GGTATACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (23 bp):
TCGAGAAAAACATGTCACAAATG
Found at i:2858274 original size:17 final size:17
Alignment explanation
Indices: 2858252--2858290 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2858242 TGAATCAAAT
2858252 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2858269 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2858286 -AATTA
1 TAATTA
2858291 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:2872925 original size:13 final size:13
Alignment explanation
Indices: 2872907--2872932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2872897 AAAAGACTGT
2872907 GTGATCCTCATCG
1 GTGATCCTCATCG
2872920 GTGATCCTCATCG
1 GTGATCCTCATCG
2872933 ATAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGATCCTCATCG
Found at i:2875066 original size:2 final size:2
Alignment explanation
Indices: 2875059--2875087 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2875049 TCATTCTTAT
2875059 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
2875088 TAAAAAGTCA
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:2875639 original size:20 final size:21
Alignment explanation
Indices: 2875606--2875644 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2875596 TAGTTTCTAA
*
2875606 TTTATATTATTATTTTGAATC
1 TTTATATTACTATTTTGAATC
2875627 TTTA-ATTACTATTTTGAA
1 TTTATATTACTATTTTGAA
2875645 GAAATGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTATATTACTATTTTGAATC
Found at i:2876984 original size:17 final size:16
Alignment explanation
Indices: 2876964--2877015 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
2876954 GATGATCAAT
2876964 ATAAATATTCAATATTA
1 ATAAATATTCAATA-TA
* *
2876981 ATAACATAATC-ATATG
1 ATAA-ATATTCAATATA
*
2876997 ATAAATATTCAAAATA
1 ATAAATATTCAATATA
2877013 ATA
1 ATA
2877016 TAAGTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.18
16 11 0.39
17 7 0.25
18 5 0.18
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAAATATTCAATATA
Found at i:2882938 original size:31 final size:31
Alignment explanation
Indices: 2882903--2882965 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2882893 TTATTTTTTT
2882903 ATAAGATAGATTTAAGCAAAATAGCTATATA
1 ATAAGATAGATTTAAGCAAAATAGCTATATA
2882934 ATAAGATAGATTTAAGCAAAATAGCTATATA
1 ATAAGATAGATTTAAGCAAAATAGCTATATA
2882965 A
1 A
2882966 CATTAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (31 bp):
ATAAGATAGATTTAAGCAAAATAGCTATATA
Found at i:2896765 original size:38 final size:38
Alignment explanation
Indices: 2896717--2896800 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
2896707 TTTGTTAGAT
*
2896717 TAAACTTTCTGATTATATTTTTAAATATACCTTAAAGCA
1 TAAA-TTTCTGATTATATTTTTAAAAATACCTTAAAGCA
2896756 TAAATTTCTGATTATATTTTTAAAAATACCTTAAAGCA
1 TAAATTTCTGATTATATTTTTAAAAATACCTTAAAGCA
2896794 TAAATTT
1 TAAATTT
2896801 GTTAGATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 40 0.91
39 4 0.09
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (38 bp):
TAAATTTCTGATTATATTTTTAAAAATACCTTAAAGCA
Found at i:2897579 original size:55 final size:54
Alignment explanation
Indices: 2897476--2897579 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 54
2897466 CACTTGGCTA
* * * * *
2897476 ACTTCAACTATTCAACTAAGACTTGCTTTCATTTAATATCGCAGGATAATAGAG
1 ACTTCAACTATTCAACAAAGACCTGCTTTCATTTAACACCACAGGATAATAGAG
* * *
2897530 ACTTCGACTGTTCAACAAAAGACCTGCTTTCATTTAACACCACATGATAA
1 ACTTCAACTATTCAAC-AAAGACCTGCTTTCATTTAACACCACAGGATAA
2897580 CATAGAAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 14 0.34
55 27 0.66
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.31
Consensus pattern (54 bp):
ACTTCAACTATTCAACAAAGACCTGCTTTCATTTAACACCACAGGATAATAGAG
Found at i:2907108 original size:2 final size:2
Alignment explanation
Indices: 2907096--2907134 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2907086 TTACGTTAAT
*
2907096 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2907135 TTTACTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2910115 original size:22 final size:22
Alignment explanation
Indices: 2910089--2910148 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
2910079 TGGGGACTTC
2910089 TGGTGAGTCACCATAGCTATGG
1 TGGTGAGTCACCATAGCTATGG
2910111 TGGTGAGTCACCATAGCTATGG
1 TGGTGAGTCACCATAGCTATGG
*
2910133 TGGTGACTCACCATAG
1 TGGTGAGTCACCATAG
2910149 AGTTCAACGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (22 bp):
TGGTGAGTCACCATAGCTATGG
Found at i:2910398 original size:2 final size:2
Alignment explanation
Indices: 2910391--2910496 Score: 152
Period size: 2 Copynumber: 56.0 Consensus size: 2
2910381 TTGGCCTTTG
2910391 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2910432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2910474 -A TA TA -A TA -A TA TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2910497 ATAATAATAG
Statistics
Matches: 94, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
1 6 0.06
2 88 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2910757 original size:75 final size:76
Alignment explanation
Indices: 2910657--2911475 Score: 1322
Period size: 75 Copynumber: 11.0 Consensus size: 76
2910647 GGTCTTATGA
*
2910657 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT-CACTG
1 ATGACCC-GAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
2910720 TAGGGCTTACAG
65 AAGGACTTACAG
*
2910732 ATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGC-TTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2910795 AGGGCTTACAG
66 AGGACTTACAG
*
2910806 ATGACCCGAAGGCTTTG-AAACATC--AAAGCTCCC----GC-TTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2910863 AGGGCTTACAG
66 AGGACTTACAG
*
2910874 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2910938 AGGACTTACAG
66 AGGACTTACAG
2910949 ATGACCCGAAGGATTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911013 AGGACTTACAG
66 AGGACTTACAG
2911024 ATGA-CCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911087 AGGACTTACAG
66 AGGACTTACAG
2911098 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911163 AGGACTTACAG
66 AGGACTTACAG
*
2911174 ATGACCCGAAGGTTTTG-AAA-ATCCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGATTTGAAAACAT-CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
2911237 AAGGACTTACAG
65 AAGGACTTACAG
* * *
2911249 ATGACTCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911313 AGGACTTACAG
66 AGGACTTACAG
*
2911324 ATGACCCG-AGGATTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911388 AGGACTTACAG
66 AGGACTTACAG
* * *
2911399 ATGACCCGAAGGTTTTG-AAATATC-AAAAGCTCCCGACGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2911462 AGGACTTACAG
66 AGGACTTACAG
2911473 ATG
1 ATG
2911476 TGAGAAAGTT
Statistics
Matches: 709, Mismatches: 17, Indels: 37
0.93 0.02 0.05
Matches are distributed among these distances:
68 51 0.07
69 7 0.01
71 9 0.01
72 9 0.01
73 22 0.03
74 190 0.27
75 359 0.51
76 60 0.08
77 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:2912602 original size:54 final size:54
Alignment explanation
Indices: 2912514--2912722 Score: 321
Period size: 54 Copynumber: 3.9 Consensus size: 54
2912504 ATAATCACTG
* * *
2912514 GTTCGT-AAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
* * * * *
2912567 GTTCATAAAACATTTGACCACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
* *
2912621 GTTCGTAAAACATTTGATAACACATTCATCCTTTACTGTGGCTTCTACTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
2912675 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
2912723 CAAGATTTCT
Statistics
Matches: 140, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
53 5 0.04
54 135 0.96
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
Found at i:2914234 original size:114 final size:115
Alignment explanation
Indices: 2913922--2914222 Score: 509
Period size: 114 Copynumber: 2.6 Consensus size: 115
2913912 ACCTTTCCAT
*
2913922 TCCAATGATTGGTTCTG-GGATTCATACCAAACCAGATCAGATAACTTAAAGAACACTTCCAGAA
1 TCCAATGATTGGTTCTGTGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
* *
2913986 GATGCTATTGGGTCTCCTTATTTCTACCATGAGCAAATTCATCTTTCAAA
66 GATGCTATTGAGTCTCTTTATTTCTACCATGAGCAAATTCATCTTTCAAA
*
2914036 TCCAATGATTGATT-T-TGGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 TCCAATGATTGGTTCTGTGGA-TTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
*
2914099 AGATGCTATTGAGTCTCTTTATTTCTACTATGAGCAAATTCATCTTTCAAA
65 AGATGCTATTGAGTCTCTTTATTTCTACCATGAGCAAATTCATCTTTCAAA
* *
2914150 TCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAA
1 TCCAATGATTGGTTCTGTGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
2914215 GATGCTAT
66 GATGCTAT
2914223 GAGCACATTT
Statistics
Matches: 175, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
113 4 0.02
114 116 0.66
115 52 0.30
116 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (115 bp):
TCCAATGATTGGTTCTGTGGATTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
GATGCTATTGAGTCTCTTTATTTCTACCATGAGCAAATTCATCTTTCAAA
Found at i:2914285 original size:93 final size:93
Alignment explanation
Indices: 2914124--2914315 Score: 321
Period size: 93 Copynumber: 2.1 Consensus size: 93
2914114 TCTTTATTTC
* *
2914124 TACTATGAGCAAATTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATC
1 TACTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGTTTCATACCAAACCAGATC
2914189 AGATAACTCAAAGAACACTTCCAAAAGA
66 AGATAACTCAAAGAACACTTCCAAAAGA
* * * *
2914217 TGCTATGAGCACATTTATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATC
1 TACTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGTTTCATACCAAACCAGATC
*
2914282 AGATAACTCAAAGAACACTTCCAGAAGA
66 AGATAACTCAAAGAACACTTCCAAAAGA
2914310 TACTAT
1 TACTAT
2914316 TGGGTCTTCT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (93 bp):
TACTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGTTTCATACCAAACCAGATC
AGATAACTCAAAGAACACTTCCAAAAGA
Found at i:2923080 original size:3 final size:3
Alignment explanation
Indices: 2923072--2923113 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
2923062 TATATTTATT
*
2923072 TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
2923114 GTAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2927157 original size:21 final size:22
Alignment explanation
Indices: 2927131--2927212 Score: 116
Period size: 21 Copynumber: 3.9 Consensus size: 22
2927121 CCCTTATTCT
*
2927131 TATTTTG-TTTGTTAAATTTCC
1 TATTTTGTTTTGTCAAATTTCC
*
2927152 TATTTTGTTTTGTCAAA-TTCT
1 TATTTTGTTTTGTCAAATTTCC
*
2927173 TATTTTG-TTTGTTAAATTTCC
1 TATTTTGTTTTGTCAAATTTCC
2927194 TATTTTGTTTTGTCAAATT
1 TATTTTGTTTTGTCAAATT
2927213 CTTGATTAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.15
21 27 0.51
22 18 0.34
ACGTcount: A:0.20, C:0.09, G:0.10, T:0.62
Consensus pattern (22 bp):
TATTTTGTTTTGTCAAATTTCC
Found at i:2927174 original size:42 final size:42
Alignment explanation
Indices: 2927126--2927215 Score: 180
Period size: 42 Copynumber: 2.1 Consensus size: 42
2927116 GATTACCCTT
2927126 ATTCTTATTTTGTTTGTTAAATTTCCTATTTTGTTTTGTCAA
1 ATTCTTATTTTGTTTGTTAAATTTCCTATTTTGTTTTGTCAA
2927168 ATTCTTATTTTGTTTGTTAAATTTCCTATTTTGTTTTGTCAA
1 ATTCTTATTTTGTTTGTTAAATTTCCTATTTTGTTTTGTCAA
2927210 ATTCTT
1 ATTCTT
2927216 GATTAGATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.19, C:0.10, G:0.09, T:0.62
Consensus pattern (42 bp):
ATTCTTATTTTGTTTGTTAAATTTCCTATTTTGTTTTGTCAA
Found at i:2939165 original size:2 final size:2
Alignment explanation
Indices: 2939160--2939195 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2939150 ATTATATACA
2939160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2939196 TTCTATTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2939567 original size:60 final size:61
Alignment explanation
Indices: 2939489--2939609 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 61
2939479 TAGGGTAAGG
2939489 TATACAAATGCCCCCGATTATAAGGTATTATTTTGTTGAGTTTCT-TGACTATTAAAATATA
1 TATACAAATGCCCCCGATTATAAGGTATTATTTTGTTGAGTTTCTCT-ACTATTAAAATATA
* *
2939550 TATA-AAATGCCCCCGATTATAGGGTATTGTTTTGTTGAGTTTCTCTACTATTAAAATATA
1 TATACAAATGCCCCCGATTATAAGGTATTATTTTGTTGAGTTTCTCTACTATTAAAATATA
2939610 AAATGACCCC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
60 52 0.91
61 5 0.09
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (61 bp):
TATACAAATGCCCCCGATTATAAGGTATTATTTTGTTGAGTTTCTCTACTATTAAAATATA
Found at i:2941401 original size:20 final size:20
Alignment explanation
Indices: 2941376--2941414 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2941366 AGAAAGTAAG
2941376 GAAATATTGCATAATACAAA
1 GAAATATTGCATAATACAAA
2941396 GAAATATTGCATAATACAA
1 GAAATATTGCATAATACAA
2941415 TGTTGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
GAAATATTGCATAATACAAA
Found at i:2948545 original size:24 final size:26
Alignment explanation
Indices: 2948511--2948558 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
2948501 GCCTCTCGAA
2948511 ATTTTTAAATTAAT-ATATATTTTAT
1 ATTTTTAAATTAATAATATATTTTAT
2948536 ATTTTT-AATTAATAATATATTTT
1 ATTTTTAAATTAATAATATATTTT
2948559 TCGTTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTAAATTAATAATATATTTTAT
Found at i:2950287 original size:22 final size:21
Alignment explanation
Indices: 2950236--2950294 Score: 93
Period size: 20 Copynumber: 2.8 Consensus size: 21
2950226 ATTTCTGGGT
2950236 AAGGGGAATCGGTACCCATTC
1 AAGGGGAATCGGTACCCATTC
2950257 AA-GGGAATCGGTACCCATTC
1 AAGGGGAATCGGTACCCATTC
*
2950277 AATGGGGAATCGATACCC
1 AA-GGGGAATCGGTACCC
2950295 CTCAAGTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 20 0.57
21 2 0.06
22 13 0.37
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (21 bp):
AAGGGGAATCGGTACCCATTC
Found at i:2950372 original size:23 final size:22
Alignment explanation
Indices: 2950328--2950372 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2950318 AATCTCATAG
*
2950328 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
2950350 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
2950373 AAAATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:2951318 original size:31 final size:31
Alignment explanation
Indices: 2951280--2951434 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
2951270 AGGGTCGAGG
*
2951280 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2951311 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2951342 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2951373 GTTTACCTATGTTCTTC-GGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
2951403 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
2951434 G
1 G
2951435 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.24
31 87 0.75
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2954139 original size:16 final size:16
Alignment explanation
Indices: 2954118--2954160 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2954108 GGTAATTAAA
2954118 GATTGATAAGGAGTTT
1 GATTGATAAGGAGTTT
* *
2954134 GATTGATTAATGATTTT
1 GATTGA-TAAGGAGTTT
*
2954151 GAGTGATAAG
1 GATTGATAAG
2954161 AACTGATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAGTTT
Found at i:2961562 original size:65 final size:65
Alignment explanation
Indices: 2961402--2961562 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
2961392 TTGTTTAAGG
* * * **
2961402 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
2961465 A
65 A
*
2961466 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
2961530 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
2961563 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Done.